Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1697051
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:895510 original size:32 final size:33
Alignment explanation
Indices: 895447--895510 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
895437 CCTTTTATTA
*
895447 ATTATTATTATTATCATTATATTTGATTATTTG
1 ATTATTATTATTATCATTATATATGATTATTTG
895480 ATTATTA-TATTAT-ATATATATAT-ATATATTT
1 ATTATTATTATTATCAT-TATATATGAT-TATTT
895511 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 4 0.14
32 17 0.61
33 7 0.25
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (33 bp):
ATTATTATTATTATCATTATATATGATTATTTG
Found at i:895913 original size:19 final size:19
Alignment explanation
Indices: 895878--895914 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
895868 TTTTTATTAC
* *
895878 TATTATTTTTTTCTTTTTT
1 TATTATTTTATTATTTTTT
895897 TATTATTTTATTATTTTT
1 TATTATTTTATTATTTTT
895915 ACTTAATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (19 bp):
TATTATTTTATTATTTTTT
Found at i:896021 original size:12 final size:12
Alignment explanation
Indices: 896006--896031 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
895996 TTTATTCAAT
896006 TTTTTATTTTCA
1 TTTTTATTTTCA
896018 TTTTTATTTTCA
1 TTTTTATTTTCA
896030 TT
1 TT
896032 CTATTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATTTTCA
Found at i:896062 original size:18 final size:17
Alignment explanation
Indices: 896018--896093 Score: 61
Period size: 18 Copynumber: 4.5 Consensus size: 17
896008 TTTATTTTCA
896018 TTTTTATTTTCA-TTC-T
1 TTTTTATTTT-ATTTCTT
* *
896034 ATTTTACTTTATTTCTT
1 TTTTTATTTTATTTCTT
896051 TTGTTTATTTTATTAT-TT
1 TT-TTTATTTTATT-TCTT
*
896069 TTTTTACTTTTA-TCCTT
1 TTTTTA-TTTTATTTCTT
896086 TTTTTATT
1 TTTTTATT
896094 ATTTAGCTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 1 0.02
16 13 0.27
17 15 0.31
18 19 0.39
19 1 0.02
ACGTcount: A:0.14, C:0.09, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTATTTCTT
Found at i:896129 original size:25 final size:26
Alignment explanation
Indices: 896058--896130 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 26
896048 CTTTTGTTTA
896058 TTTTATTATTTTTTTTACTTTTATCCT
1 TTTTATTA-TTTTTTTACTTTTATCCT
* **
896085 TTTT-TTATTATTTAGCTACTTTTA-GGT
1 TTTTATTATT-TTT--TTACTTTTATCCT
896112 TTTTATTATTTTTTTACTT
1 TTTTATTATTTTTTTACTT
896131 CTTTTCTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
25 7 0.18
26 6 0.16
27 12 0.32
28 13 0.34
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTATTATTTTTTTACTTTTATCCT
Found at i:899638 original size:95 final size:96
Alignment explanation
Indices: 899518--899781 Score: 318
Period size: 95 Copynumber: 2.7 Consensus size: 96
899508 CCCAAATTAT
* * *
899518 AATTATATATATACAATATATCTTGAGCTGTCTCTCTAGAGCAATTGGTTAAACGCCCCAGCTTT
1 AATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTT
899583 ATGGATAAGATTCAGCTATCCTGATAAAGAC
66 ATGGATAAGATTCAGCTATCCTGATAAAGAC
*
899614 AATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTT
1 AATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTT
* * * *
899678 ATGGATAATATTCAGCTAGCCTAATGAAGGTTAC
66 ATGGATAAGATTCAGCTATCCTGAT-AAAG--AC
* * * * * * * **
899712 TATAATATTTATACAATGATA--TTAAGTTGTCCCTCTAGAACAATTGGTTAAACGCCCTGGCTT
1 AATTATATATATACAAT-AAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTT
899775 TATGGAT
65 TATGGAT
899782 TCAACTAGCT
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
95 75 0.51
96 10 0.07
98 52 0.35
99 8 0.05
100 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (96 bp):
AATTATATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTT
ATGGATAAGATTCAGCTATCCTGATAAAGAC
Found at i:901008 original size:84 final size:83
Alignment explanation
Indices: 900892--901409 Score: 520
Period size: 84 Copynumber: 6.2 Consensus size: 83
900882 TTCTTTATTT
* * * *
900892 ATTTACAGCATAACTCGAGGCCAAAAGAGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACG
* *
900957 CTCAGCTCCAATGCACATT
65 CTCAGCTCCAAGGCACATC
* * * * * *
900976 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCCGTCAACAAAGACCTTTGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
*
901041 TCAGCTCAAAGGCACATC
66 TCAGCTCCAAGGCACATC
* * * * * * * * *
901059 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCTACCAAAAGACCTTCGAGCTCGACTATG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACG
* * * *
901124 TTTAGCTACAAGGCCCATC
65 CTCAGCTCCAAGGCACATC
* *
901143 ATTTTACAGCATAACTCAAAGCTATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 A-TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAC
*
901208 GCTCAGCTCCAAGGCATATC
64 GCTCAGCTCCAAGGCACATC
* * * * * * * * *
901228 ATTTGCGGTATAACTCAAGGCTAAAAGGGCTATCTG-C--CAAAGACCCTCAAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
* * * * *
901290 TCAACTTCGAGGGCATATT
66 TCAGC-TCCAAGGCACATC
* * * *
901309 ATTTGCAGAATAACTCAAGGCTAGAAAGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACG
*
901374 CTCAGCTCAAAGGCACATC
65 CTCAGCTCCAAGGCACATC
*
901393 ATTTACATCATAACTCA
1 ATTTACAGCATAACTCA
901410 CAAGAATGGT
Statistics
Matches: 345, Mismatches: 81, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
80 25 0.07
81 41 0.12
82 1 0.00
83 68 0.20
84 119 0.34
85 90 0.26
86 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (83 bp):
ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATC
Found at i:901328 original size:81 final size:80
Alignment explanation
Indices: 900934--901348 Score: 211
Period size: 83 Copynumber: 5.0 Consensus size: 80
900924 TCTGCCAACA
* * * * * * * * *
900934 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAATGCACATTATTTACAGTATAACTCAAGGCTA
1 AAAGACCCTCAAGTTCGACTACACTCAACTCCAAGGCATATCATTTGCAGAATAACTCAAGGCTA
* * *
900999 GAAGGGTTATCCGTCAAC
66 GAAAGGCTATCTG-C--C
* ** * * * * * * * * *
901017 AAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAA
1 AAAGACCCTCAAGTTCGACTACACTCAACTCCAAGGCATATCATTTGCAGAATAACTCAAGGCTA
* *
901082 GAAGGGTTATCTGCTACC
66 GAAAGGCTATCTG---CC
* * * *** * * * ** * * *
901100 AAAAGACCTTCGAGCTCGACTATGTTTAGCTACAAGGCCCATCATTTTACAGCATAACTCAAAGC
1 -AAAGACCCTCAAGTTCGACTACACTCAACTCCAAGGCATATCA-TTTGCAGAATAACTCAAGGC
* * *
901165 TATAAGGGTTATCTGCCAACC
64 TAGAAAGGCTATCTG----CC
* * * * * *
901186 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCGGTATAACTCAAGGCTA
1 AAAGACCCTCAAGTTCGACTACACTCAACTCCAAGGCATATCATTTGCAGAATAACTCAAGGCTA
901251 -AAAGGGCTATCTGCC
66 GAAA-GGCTATCTGCC
* * * *
901266 AAAGACCCTCAAGTTCGATTACACTCAACTTCGAGGGCATATTATTTGCAGAATAACTCAAGGCT
1 AAAGACCCTCAAGTTCGACTACACTCAAC-TCCAAGGCATATCATTTGCAGAATAACTCAAGGCT
*
901331 AGAAAGGTTATCTGCC
65 AGAAAGGCTATCTGCC
901347 AA
1 AA
901349 CCAAAGACCT
Statistics
Matches: 268, Mismatches: 56, Indels: 18
0.78 0.16 0.05
Matches are distributed among these distances:
80 26 0.10
81 43 0.16
82 3 0.01
83 68 0.25
84 59 0.22
85 65 0.24
86 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (80 bp):
AAAGACCCTCAAGTTCGACTACACTCAACTCCAAGGCATATCATTTGCAGAATAACTCAAGGCTA
GAAAGGCTATCTGCC
Found at i:901408 original size:165 final size:169
Alignment explanation
Indices: 900972--901409 Score: 480
Period size: 165 Copynumber: 2.6 Consensus size: 169
900962 CTCCAATGCA
* * * * *
900972 CATTATTTACAGTATAACTCAAGGCTAGAAGGGTTATCCGTCAA-CAAAGACCTTTGAGTTCGAT
1 CATTATTTACAGAATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGAC
* * * * * *
901036 TACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCTACCA
66 TACGCTCAGCTCAAAGGCACATCATTTGCATCATAACTCAAGGCAAGAAGGGCTATCTG--ACCA
* * *** * *
901101 AAAGACCTTCGAGCTCGACTATGTTTAGCTACAAGGCCCAT
129 AAAGACCCTCAAGCTCGACTACACTCAACTACAAGGCCCAT
* * *
901142 CA-T-TTTACAGCATAACTCAAAGCTATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGAC
1 CATTATTTACAGAATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGAC
* * *
901205 TACGCTCAGCTCCAAGGCATATCATTTGCGGT-ATAACTCAAGGCTAA-AAGGGCTATCTG-CC-
66 TACGCTCAGCTCAAAGGCACATCATTTGC-ATCATAACTCAAGGC-AAGAAGGGCTATCTGACCA
* * * * *
901266 AAAGACCCTCAAGTTCGATTACACTCAACTTCGAGG-GCAT
129 AAAGACCCTCAAGCTCGACTACACTCAACTACAAGGCCCAT
* * *
901306 -ATTATTTGCAGAATAACTCAAGGCTAGAAAGGTTATCTGCCAACCAAAGACCTTCGAGTTTGAC
1 CATTATTTACAGAATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGAC
*
901370 TACGCTCAGCTCAAAGGCACATCATTTACATCATAACTCA
66 TACGCTCAGCTCAAAGGCACATCATTTGCATCATAACTCA
901410 CAAGAATGGT
Statistics
Matches: 224, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
163 1 0.00
164 5 0.02
165 113 0.50
166 2 0.01
168 34 0.15
169 65 0.29
170 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (169 bp):
CATTATTTACAGAATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGAC
TACGCTCAGCTCAAAGGCACATCATTTGCATCATAACTCAAGGCAAGAAGGGCTATCTGACCAAA
AGACCCTCAAGCTCGACTACACTCAACTACAAGGCCCAT
Found at i:902014 original size:22 final size:23
Alignment explanation
Indices: 901989--902038 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
901979 TTGTCCGTTT
* *
901989 TAATTAATAT-TATTATGTTATA
1 TAATTAATATAAATTATATTATA
*
902011 TAA-TATTATAAATTATATTATA
1 TAATTAATATAAATTATATTATA
902033 TAATTA
1 TAATTA
902039 TTTTTACACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 5 0.22
22 16 0.70
23 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATTAATATAAATTATATTATA
Found at i:903341 original size:3 final size:3
Alignment explanation
Indices: 903328--903432 Score: 59
Period size: 3 Copynumber: 36.7 Consensus size: 3
903318 TTAACCCCTT
* *
903328 TTA TTA TTTA TTA TTA GTA TTA -TA TTT TTCA -TA TT- TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
*
903372 TTA TTA -TA TTT TTCA -TA TT- TTA TTA TTA -TA TTA -TA TATA TATA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA
*
903415 TTA TT- TTT TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TT
903433 TTAGTATCCT
Statistics
Matches: 81, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
2 18 0.22
3 53 0.65
4 10 0.12
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:903370 original size:28 final size:27
Alignment explanation
Indices: 903334--903407 Score: 130
Period size: 28 Copynumber: 2.7 Consensus size: 27
903324 CCTTTTATTA
903334 TTTATTATTAGTATTATATTTTTCATAT
1 TTTATTATTA-TATTATATTTTTCATAT
903362 TTTATTATTATTATTATATTTTTCATAT
1 TTTATTATTA-TATTATATTTTTCATAT
903390 TTTATTATTATATTATAT
1 TTTATTATTATATTATAT
903408 ATATATATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 8 0.18
28 37 0.82
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATTATTATATTATATTTTTCATAT
Found at i:903974 original size:18 final size:17
Alignment explanation
Indices: 903953--903989 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
903943 ACGTTATTTC
903953 TTTTGTTTATTTTTTATT
1 TTTTGTTTATTTTTT-TT
*
903971 TTTTTTTTATTTTTTTT
1 TTTTGTTTATTTTTTTT
903988 TT
1 TT
903990 ACTTTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.08, C:0.00, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTGTTTATTTTTTTT
Found at i:903985 original size:10 final size:11
Alignment explanation
Indices: 903962--904005 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
903952 CTTTTGTTTA
903962 TTTTTTATTTT
1 TTTTTTATTTT
903973 TTTTTTATTTT
1 TTTTTTATTTT
*
903984 TTTTTTACTTT
1 TTTTTTATTTT
* *
903995 TATCTTATTTT
1 TTTTTTATTTT
904006 GTTATTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATTTT
Found at i:903995 original size:18 final size:18
Alignment explanation
Indices: 903958--903995 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
903948 ATTTCTTTTG
*
903958 TTTATTTTTTATTTTTTT
1 TTTATTTTTTATTTTCTT
903976 TTTATTTTTT-TTTTACTT
1 TTTATTTTTTATTTT-CTT
903994 TT
1 TT
903996 ATCTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTATTTTTTATTTTCTT
Found at i:904055 original size:28 final size:27
Alignment explanation
Indices: 903974--904056 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 27
903964 TTTTATTTTT
* * *
903974 TTTTTATTTTTTTTTTACTTTTATCTTAT
1 TTTTTATTATTTTTTTACTTCT-T-TTAG
* *
904003 TTTGTTATTA-TTATTTAGCTACTTTTAGG
1 TTT-TTATTATTTTTTTA-CTTCTTTTA-G
904032 TTTTTATTATTTTTTTACTTCTTTT
1 TTTTTATTATTTTTTTACTTCTTTT
904057 CTTTATTGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
28 16 0.37
29 19 0.44
30 8 0.19
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (27 bp):
TTTTTATTATTTTTTTACTTCTTTTAG
Found at i:904664 original size:31 final size:31
Alignment explanation
Indices: 904624--904709 Score: 145
Period size: 31 Copynumber: 2.8 Consensus size: 31
904614 AAATTATGTG
*
904624 TTTAGTACCTAAACTATCAATTTTGGTCTAT
1 TTTAGTACCTAAACTATCAATTTTGGTATAT
*
904655 TTTAATACCTAAACTATCAATTTTGGTATAT
1 TTTAGTACCTAAACTATCAATTTTGGTATAT
*
904686 TTTAGTACCTAAACTATTAATTTT
1 TTTAGTACCTAAACTATCAATTTT
904710 TTTCTTCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTAGTACCTAAACTATCAATTTTGGTATAT
Found at i:905941 original size:17 final size:17
Alignment explanation
Indices: 905915--905948 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
905905 ATGGAAGGAA
905915 GCATCACACTTTCGATT
1 GCATCACACTTTCGATT
*
905932 GCATCGCACTTTCGATT
1 GCATCACACTTTCGATT
905949 CTCTCGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (17 bp):
GCATCACACTTTCGATT
Found at i:905984 original size:59 final size:58
Alignment explanation
Indices: 905874--905990 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 58
905864 ACATAAGGAA
* * *
905874 GCATCGCACTTTCGATTCTCGTTTAAGTAGAATGGAAGGAAGCATCACACTTTCGATT
1 GCATCGCACTTTCGATTCTCGTCTAAGTAGAATAGAACGAAGCATCACACTTTCGATT
905932 GCATCGCACTTTCGATTCTCTCGTCTAA-TAGAATAGAACGAAGCATCACACTTTCGATT
1 GCATCGCACTTTCGA-T-TCTCGTCTAAGTAGAATAGAACGAAGCATCACACTTTCGATT
905991 CTCGTCTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
58 15 0.28
59 30 0.56
60 9 0.17
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (58 bp):
GCATCGCACTTTCGATTCTCGTCTAAGTAGAATAGAACGAAGCATCACACTTTCGATT
Found at i:905991 original size:42 final size:41
Alignment explanation
Indices: 905932--906019 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 41
905922 ACTTTCGATT
* *
905932 GCATCGCACTTTCGATTCTCTCGTCT-AA-TAGAATAGAACGAA
1 GCATCACACTTTCGA-T-TCTCGTCTAAAGTAGAATA-AAAGAA
905974 GCATCACACTTTCGATTCTCGTCTAAAGTAGAATAAAAGAA
1 GCATCACACTTTCGATTCTCGTCTAAAGTAGAATAAAAGAA
906015 GCATC
1 GCATC
906020 GTACTTTTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
40 8 0.19
41 13 0.31
42 21 0.50
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (41 bp):
GCATCACACTTTCGATTCTCGTCTAAAGTAGAATAAAAGAA
Found at i:906501 original size:24 final size:24
Alignment explanation
Indices: 906474--906547 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
906464 AGTTAGTAAA
906474 AAAAATAAGATACTAACAAATATT
1 AAAAATAAGATACTAACAAATATT
* *
906498 AAAAAT-A-A-A--AA-GAATTTT
1 AAAAATAAGATACTAACAAATATT
*
906516 AAGAATAAGATACTAACAAATATT
1 AAAAATAAGATACTAACAAATATT
906540 AAAAATAA
1 AAAAATAA
906548 AAAGAATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 10 0.26
19 3 0.08
20 1 0.03
21 2 0.05
22 1 0.03
23 3 0.08
24 18 0.47
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (24 bp):
AAAAATAAGATACTAACAAATATT
Found at i:906525 original size:42 final size:42
Alignment explanation
Indices: 906477--906561 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
906467 TAGTAAAAAA
906477 AATAAGATACTAACAAATATTAAAAATAAAAAGAATTTTAAG
1 AATAAGATACTAACAAATATTAAAAATAAAAAGAATTTTAAG
906519 AATAAGATACTAACAAATATTAAAAATAAAAAGAATTTTAAG
1 AATAAGATACTAACAAATATTAAAAATAAAAAGAATTTTAAG
906561 A
1 A
906562 TTACAAAGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (42 bp):
AATAAGATACTAACAAATATTAAAAATAAAAAGAATTTTAAG
Found at i:907872 original size:21 final size:21
Alignment explanation
Indices: 907848--907915 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
907838 AGCTCCATCA
907848 TCTGAGCCCTCAAGACCGTGT
1 TCTGAGCCCTCAAGACCGTGT
** * * *
907869 TCTG-GGTCTCCACGTTCACGTAT
1 TCTGAGCCCT-CAAG-AC-CGTGT
907892 -CTGAGCCCTCAAGACCGTGT
1 TCTGAGCCCTCAAGACCGTGT
907912 TCTG
1 TCTG
907916 GGTCTCCACG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 7 0.22
21 11 0.34
22 7 0.22
23 7 0.22
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.28
Consensus pattern (21 bp):
TCTGAGCCCTCAAGACCGTGT
Found at i:907908 original size:43 final size:43
Alignment explanation
Indices: 907847--907933 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
907837 CAGCTCCATC
907847 ATCTGAGCCCTCAAGACCGTGTTCTGGGTCTCCACGTTCACGT
1 ATCTGAGCCCTCAAGACCGTGTTCTGGGTCTCCACGTTCACGT
907890 ATCTGAGCCCTCAAGACCGTGTTCTGGGTCTCCACGTTCACGT
1 ATCTGAGCCCTCAAGACCGTGTTCTGGGTCTCCACGTTCACGT
907933 A
1 A
907934 GCGCTGAGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.17, C:0.32, G:0.23, T:0.28
Consensus pattern (43 bp):
ATCTGAGCCCTCAAGACCGTGTTCTGGGTCTCCACGTTCACGT
Found at i:909280 original size:20 final size:19
Alignment explanation
Indices: 909249--909288 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
909239 TTATCACACC
*
909249 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
909268 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
909288 A
1 A
909289 TCTTATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:909547 original size:111 final size:111
Alignment explanation
Indices: 909414--909746 Score: 587
Period size: 111 Copynumber: 3.0 Consensus size: 111
909404 CGGAAATCAT
* *
909414 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
909479 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
909525 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
909590 TAATTT-GTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 T-ATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
909636 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * *
909701 TAATTAGTTGATTTATTTAATGTATGATTATTAGAGTAAGAATTAA
66 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
909747 TTTTTGTAAT
Statistics
Matches: 212, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
110 3 0.01
111 205 0.97
112 4 0.02
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:911265 original size:18 final size:18
Alignment explanation
Indices: 911242--911278 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
911232 TCCCAGTAAC
*
911242 TACCGCATCCATATATGA
1 TACCGCAGCCATATATGA
911260 TACCGCAGCCATATATGA
1 TACCGCAGCCATATATGA
911278 T
1 T
911279 GTCGTCATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (18 bp):
TACCGCAGCCATATATGA
Found at i:911637 original size:18 final size:18
Alignment explanation
Indices: 911614--911657 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
911604 ACCTGCTCAG
*
911614 GACGATGACGACGACGAT
1 GACGATGACGACGACGAC
**
911632 GACGATGGTGACGACGAC
1 GACGATGACGACGACGAC
911650 GACGATGA
1 GACGATGA
911658 TGATGATGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.36, T:0.11
Consensus pattern (18 bp):
GACGATGACGACGACGAC
Found at i:911652 original size:24 final size:24
Alignment explanation
Indices: 911620--911672 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
911610 TCAGGACGAT
*
911620 GACGACGACGATGACGATGGTGAC
1 GACGACGACGATGACGATGATGAC
*
911644 GACGACGACGATGATGATGATGAC
1 GACGACGACGATGACGATGATGAC
*
911668 AACGA
1 GACGA
911673 GGAGTCAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.13
Consensus pattern (24 bp):
GACGACGACGATGACGATGATGAC
Found at i:911659 original size:21 final size:21
Alignment explanation
Indices: 911619--911659 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
911609 CTCAGGACGA
*
911619 TGACGACGACGATGACGATGG
1 TGACGACGACGACGACGATGG
*
911640 TGACGACGACGACGATGATG
1 TGACGACGACGACGACGATG
911660 ATGATGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.37, T:0.15
Consensus pattern (21 bp):
TGACGACGACGACGACGATGG
Found at i:911920 original size:35 final size:33
Alignment explanation
Indices: 911881--911965 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
911871 ATATTTCAGT
911881 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
911916 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
911951 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
911966 TAAATACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:927013 original size:13 final size:13
Alignment explanation
Indices: 926995--927020 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
926985 CATGGCGTGA
926995 CAAAAGTATCATC
1 CAAAAGTATCATC
927008 CAAAAGTATCATC
1 CAAAAGTATCATC
927021 TTTAAGTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CAAAAGTATCATC
Found at i:930754 original size:81 final size:81
Alignment explanation
Indices: 930654--931333 Score: 1054
Period size: 81 Copynumber: 8.4 Consensus size: 81
930644 TAACCTTTCG
* * ** *
930654 TCTTTTACTCAACGATATTTAACCGTTTATCTAACTGGCATAATTATTACCTTTCTACCAGTTGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
930719 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
* * * *
930735 TCTTTTACTAAACGGTATTTAACCATTCATCTAACTGGCATAATTGGTACCTTTTTACAAATTGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
930800 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
* * *
930816 TCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGAATAATTGGTACCTTTTTACCAATTGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
930881 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
* *
930897 TCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGAATAATTGGTACCTTTCTACCAATTGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
930962 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
* * * *
930978 TCTTTTACTCAATGGTATTTAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCATTTGA
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
*
931043 ATAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
* * * *
931059 TCTTTTACTCAGCGGTATTTAACAGTTCATCTAACTGGCATAATTGGTACTTTTTTTACCAATTG
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTAC-CTTTCTACCAATTG
* *
931124 CATAGTTATGCCATTAT
65 CACAGTTAGGCCATTAT
* **
931141 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACAGATATAATTGGTACCTTTCTACCAATTGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
931206 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
* *
931222 TCTTTTACTCAACGGTATTTAAACGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTTC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
**
931287 ACAGTTAAACCATTAT
66 ACAGTTAGGCCATTAT
*
931303 TATTTTACTCAACGGTATTTAACCGTTCATC
1 TCTTTTACTCAACGGTATTTAACCGTTCATC
931334 AGATAGGCCT
Statistics
Matches: 549, Mismatches: 49, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
81 478 0.87
82 71 0.13
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (81 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
ACAGTTAGGCCATTAT
Found at i:931229 original size:244 final size:242
Alignment explanation
Indices: 930654--931333 Score: 1056
Period size: 244 Copynumber: 2.8 Consensus size: 242
930644 TAACCTTTCG
* * * ** *
930654 TCTTTTACTCAACGATATTTAACCGTTTATCTAACTGGCATAATTATTACCTTTCTACCAGTTGC
1 TCTTTTACTCAACGATATTTAACCGTTCATCTAAC-AGAATAATTGGTACCTTTCTACCAATTGC
* * *
930719 ACAGTTAGGCCATTATTCTTTTACTAAACGGTATTTAACCATTCATCTAACTGGCATAATTGGTA
65 ACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTGGCATAATTGGTA
* * * *
930784 CCTTTTTACAAATTGCACAGTTAGGCCATTATTCTTTTACTCAACGATATTTAACCGTTCATCTA
130 CCTTTCTACCATTTGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTA
930849 ACTGGAATAATTGGTACCTTTTTACCAATTGCACAGTTAGGCCATTAT
195 ACTGGAATAATTGGTACCTTTTTACCAATTGCACAGTTAGGCCATTAT
*
930897 TCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGAATAATTGGTACCTTTCTACCAATTGC
1 TCTTTTACTCAACGATATTTAACCGTTCATCTAAC-AGAATAATTGGTACCTTTCTACCAATTGC
* *
930962 ACAGTTAGGCCATTATTCTTTTACTCAATGGTATTTAATCGTTCATCTAACTGGCATAATTGGTA
65 ACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTGGCATAATTGGTA
* * * *
931027 CCTTTCTACCATTTGAATAGTTAGGCCATTATTCTTTTACTCAGCGGTATTTAACAGTTCATCTA
130 CCTTTCTACCATTTGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTA
* * * *
931092 ACTGGCATAATTGGTACTTTTTTTACCAATTGCATAGTTATGCCATTAT
195 ACTGGAATAATTGGTAC-CTTTTTACCAATTGCACAGTTAGGCCATTAT
*
931141 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACAGATATAATTGGTACCTTTCTACCAATTGC
1 TCTTTTACTCAACGATATTTAACCGTTCATCTAACAGA-ATAATTGGTACCTTTCTACCAATTGC
931206 ACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTGGCATAATTGGTA
65 ACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTGGCATAATTGGTA
** *
931271 CCTTTCTACCAATTT-CACAGTTAAACCATTATTATTTTACTCAACGGTATTTAACCGTTCATC
130 CCTTTCTACC-ATTTGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATC
931334 AGATAGGCCT
Statistics
Matches: 402, Mismatches: 32, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
243 196 0.49
244 202 0.50
245 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (242 bp):
TCTTTTACTCAACGATATTTAACCGTTCATCTAACAGAATAATTGGTACCTTTCTACCAATTGCA
CAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTGGCATAATTGGTAC
CTTTCTACCATTTGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAA
CTGGAATAATTGGTACCTTTTTACCAATTGCACAGTTAGGCCATTAT
Found at i:931683 original size:54 final size:55
Alignment explanation
Indices: 931622--931770 Score: 160
Period size: 54 Copynumber: 2.7 Consensus size: 55
931612 ATATATTTCT
* * * *
931622 CATACGAAAATTCCTACAATTGATATTAATTTCTTA-TTTCGCACACATAGTGCC
1 CATACGAAAATTCATACAATTGATATGAATTTCTTATTTTAGCACACAAAGTGCC
*
931676 CATACGAAAATTCATAC-ATTGAGTATGAATTTATTAATATTTTAGCACACAAAGTGCC
1 CATACGAAAATTCATACAATTGA-TATGAATTT-CT--TATTTTAGCACACAAAGTGCC
* *
931734 CAATAC-AGAAATTCATACACTTAATATGAATTTCTTA
1 C-ATACGA-AAATTCATACAATTGATATGAATTTCTTA
931771 ACATTTTGCA
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
53 5 0.06
54 24 0.30
55 1 0.01
56 2 0.03
57 2 0.03
58 19 0.24
59 23 0.29
60 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.34
Consensus pattern (55 bp):
CATACGAAAATTCATACAATTGATATGAATTTCTTATTTTAGCACACAAAGTGCC
Found at i:931790 original size:58 final size:57
Alignment explanation
Indices: 931622--931791 Score: 172
Period size: 59 Copynumber: 3.0 Consensus size: 57
931612 ATATATTTCT
* * * *
931622 CATACGAAAATTCCTACAATTG-ATATTAATTTCTT---ATTTCGCACACATAGTGCC
1 CATACGAAAATTCATAC-ATTGAATATGAATTTATTAACATTTTGCACACATAGTGCC
* * *
931676 CATACGAAAATTCATACATTGAGTATGAATTTATTAATATTTTAGCACACAAAGTGCC
1 CATACGAAAATTCATACATTGAATATGAATTTATTAACATTTT-GCACACATAGTGCC
* *
931734 CAATAC-AGAAATTCATACACTT-AATATGAATTTCTTAACATTTTGCACACTTAGTGCC
1 C-ATACGA-AAATTCATACA-TTGAATATGAATTTATTAACATTTTGCACACATAGTGCC
931792 ATTTGGTAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
53 4 0.04
54 26 0.27
57 4 0.04
58 27 0.28
59 34 0.35
60 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (57 bp):
CATACGAAAATTCATACATTGAATATGAATTTATTAACATTTTGCACACATAGTGCC
Found at i:932276 original size:95 final size:95
Alignment explanation
Indices: 932149--932354 Score: 249
Period size: 95 Copynumber: 2.2 Consensus size: 95
932139 TGATATTTCT
* * * *
932149 ATACTATGGTATCGATACCCCCTTGTAGTATCGATACTGATTTTAGGTTCGATG-TTACCTAGTA
1 ATACTATGGTATCGATACCCCCTTCTAGTATCGATAC-CAATTTAGATTCGATGTTTACCTAGTA
*
932213 TCGATACTCTTACCATGGTATCGATACTACC
65 TCGATACCCTTACCATGGTATCGATACTACC
* * * * *
932244 ATACTATGGTA-CTGATACCCCTTTCTGGTATCGATACCAATTTAGATTCGATGTTTTCTTGGTA
1 ATACTATGGTATC-GATACCCCCTTCTAGTATCGATACCAATTTAGATTCGATGTTTACCTAGTA
*
932308 TTGATACCCTTACCATGGTATCGATACTACC
65 TCGATACCCTTACCATGGTATCGATACTACC
* *
932339 -TAGT-CGGTATCGATAC
1 ATACTATGGTATCGATAC
932355 TGATTGAATC
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
93 9 0.09
94 18 0.19
95 68 0.72
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (95 bp):
ATACTATGGTATCGATACCCCCTTCTAGTATCGATACCAATTTAGATTCGATGTTTACCTAGTAT
CGATACCCTTACCATGGTATCGATACTACC
Found at i:947773 original size:13 final size:13
Alignment explanation
Indices: 947755--947780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
947745 CAGATGAAGT
947755 TCCCATAAATACA
1 TCCCATAAATACA
947768 TCCCATAAATACA
1 TCCCATAAATACA
947781 ACAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
TCCCATAAATACA
Found at i:952833 original size:20 final size:22
Alignment explanation
Indices: 952789--952834 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
952779 CTTAGGAAAT
*
952789 TATCGATACTACAGACTAGGAG
1 TATCGATACTACAAACTAGGAG
952811 TATCGATACT-CAAACTA-GAG
1 TATCGATACTACAAACTAGGAG
952831 TATC
1 TATC
952835 CTTACCAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
22 10 0.43
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (22 bp):
TATCGATACTACAAACTAGGAG
Found at i:954195 original size:2 final size:2
Alignment explanation
Indices: 954188--954227 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
954178 ATTCTATCGT
954188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
954228 CTTTTAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:954284 original size:31 final size:32
Alignment explanation
Indices: 954247--954307 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
954237 CTTTTTCATA
*
954247 TATAATTATTAT-TTATATAT-ATTTTTATTAC
1 TATAATTA-TATGTTATATATAATTATTATTAC
954278 TATAATTATATGTTATATATAATTATTATT
1 TATAATTATATGTTATATATAATTATTATT
954308 TTATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 3 0.11
31 16 0.59
32 8 0.30
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (32 bp):
TATAATTATATGTTATATATAATTATTATTAC
Found at i:954340 original size:15 final size:14
Alignment explanation
Indices: 954320--954349 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
954310 ATATATTTCA
954320 TTTTATCTTTTATTT
1 TTTTATCTTTT-TTT
954335 TTTTATCTTTTTTT
1 TTTTATCTTTTTTT
954349 T
1 T
954350 ATTGTTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATCTTTTTTT
Found at i:954349 original size:26 final size:26
Alignment explanation
Indices: 954320--954369 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
954310 ATATATTTCA
* *
954320 TTTTATCTTTTATT-TTTTTATCTTTT
1 TTTTAT-TGTTATTGTTATTATCTTTT
954346 TTTTATTGTTATTGTTATTATCTT
1 TTTTATTGTTATTGTTATTATCTT
954370 CTTTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTTATTGTTATTGTTATTATCTTTT
Found at i:956797 original size:14 final size:16
Alignment explanation
Indices: 956765--956797 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
956755 ATGCCTCTAA
956765 ATTGCAAACATTGTGC
1 ATTGCAAACATTGTGC
956781 ATTGCAAAC-TT-TGC
1 ATTGCAAACATTGTGC
956795 ATT
1 ATT
956798 TTATATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 2 0.12
16 9 0.53
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (16 bp):
ATTGCAAACATTGTGC
Found at i:965209 original size:110 final size:110
Alignment explanation
Indices: 965011--965215 Score: 304
Period size: 110 Copynumber: 1.9 Consensus size: 110
965001 TTCCCAGTTT
* * *
965011 CAGAGCCAATTTCAACTTCACAGCGAGGGATATTAGACTCAAGATAACACAAGCTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGATAACACAAGCTCAACATCACA
* * *
965076 ACAAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTTATC
66 ACAAAGGGACGACTGACTATCAACAAACAACTTTTCAGTTTTATC
* *
965121 CAGAGTCAATTTCAACTTCACAACGAAGGATATT-GAACTCGAGATAACACAAGCTCAACATCAC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAG-ACTCAAGATAACACAAGCTCAACATCAC
* *
965185 AGCGAAGGGACGACTGACTATCAACAAACAA
65 AACAAAGGGACGACTGACTATCAACAAACAA
965216 TTTCCAGAGC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 1 0.01
110 83 0.99
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (110 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGATAACACAAGCTCAACATCACA
ACAAAGGGACGACTGACTATCAACAAACAACTTTTCAGTTTTATC
Found at i:966708 original size:2 final size:2
Alignment explanation
Indices: 966701--966728 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
966691 TATCGTTATT
966701 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
966729 CTTTTAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:966766 original size:16 final size:16
Alignment explanation
Indices: 966745--966812 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
966735 ATTCTTTTTC
*
966745 ATATATCATTATTATT
1 ATATATTATTATTATT
966761 ATATA-TA-TATTATT
1 ATATATTATTATTATT
*
966775 ATA-ATTATATGTTA-T
1 ATATATTAT-TATTATT
966790 ATATATTTATTATT-TT
1 ATATA-TTATTATTATT
966806 ATATATT
1 ATATATT
966813 TCATTTTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.02
14 12 0.28
15 7 0.16
16 19 0.44
17 4 0.09
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
ATATATTATTATTATT
Found at i:966770 original size:20 final size:20
Alignment explanation
Indices: 966745--966821 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
966735 ATTCTTTTTC
966745 ATATATCATTATTATTATAT
1 ATATATCATTATTATTATAT
* *
966765 ATATATTATTATAATTATATGTT
1 ATATATCATTATTATTATA---T
*
966788 ATATAT-ATTTATTATTTTAT
1 ATATATCA-TTATTATTATAT
*
966808 ATATTTCATT-TTAT
1 ATATATCATTATTAT
966822 CTTTTATCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.09
20 25 0.53
21 1 0.02
22 1 0.02
23 16 0.34
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (20 bp):
ATATATCATTATTATTATAT
Found at i:966780 original size:43 final size:45
Alignment explanation
Indices: 966700--966811 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 45
966690 CTATCGTTAT
* * * *
966700 TTATATATATATA-TA-TATATATATATATACTTTTAATTCT-TT
1 TTATATATATTTATTATTATATATATATATACTTATAATTATATG
966742 TTCATATATCA-TTATTATTATATATATAT-TA-TTATAATTATATG
1 TT-ATATAT-ATTTATTATTATATATATATATACTTATAATTATATG
*
966786 TTATATATATTTATTATTTTATATAT
1 TTATATATATTTATTATTATATATAT
966812 TTCATTTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
42 3 0.05
43 37 0.63
44 8 0.14
45 11 0.19
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.58
Consensus pattern (45 bp):
TTATATATATTTATTATTATATATATATATACTTATAATTATATG
Found at i:966833 original size:14 final size:14
Alignment explanation
Indices: 966816--966881 Score: 89
Period size: 14 Copynumber: 4.6 Consensus size: 14
966806 ATATATTTCA
*
966816 TTTTATCTTTTATC
1 TTTTATCTTTTATT
966830 TTTTATCTTTTATT
1 TTTTATCTTTTATT
966844 TTTTATCTTTTATT
1 TTTTATCTTTTATT
*
966858 TTTTAT-TGTTATT
1 TTTTATCTTTTATT
966871 GTTATTATCTT
1 -TT-TTATCTT
966882 CTTTATTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
13 6 0.13
14 35 0.76
15 4 0.09
16 1 0.02
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTATCTTTTATT
Found at i:966864 original size:7 final size:7
Alignment explanation
Indices: 966816--966863 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
966806 ATATATTTCA
966816 TTTTATC
1 TTTTATC
966823 TTTTATC
1 TTTTATC
966830 TTTTATC
1 TTTTATC
*
966837 TTTTATT
1 TTTTATC
966844 TTTTATC
1 TTTTATC
*
966851 TTTTATT
1 TTTTATC
966858 TTTTAT
1 TTTTAT
966864 TGTTATTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTATC
Found at i:969543 original size:7 final size:7
Alignment explanation
Indices: 969533--969564 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
969523 ATTATTATTG
969533 TTTTGAA
1 TTTTGAA
969540 TTTTGAA
1 TTTTGAA
969547 TTTTGAA
1 TTTTGAA
969554 TTTTGAA
1 TTTTGAA
969561 TTTT
1 TTTT
969565 TGTTGCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TTTTGAA
Found at i:978029 original size:176 final size:177
Alignment explanation
Indices: 977742--978074 Score: 431
Period size: 176 Copynumber: 1.9 Consensus size: 177
977732 GTAAAAACAA
* * * * *
977742 CATTGAAAACGGTTCCAAAGCTTGGTTTTGTGCATGAAAAATAAGCTGAAATGGCTTGATAGGCA
1 CATTGAAAACGGTTCCAAAGATTGGTTTTGTGCATGAAAAAGAAACTAAAATGGCTTGATAAGCA
* * **
977807 TGTTCGAGGGGTATTTCTGGAAAGTTAATAAAAAATTTCATAATTTATAAGATTATAGGTGTAGT
66 TGTTCAAGGGGTATTTCTGGAAACTTAATAAAAAATTT-ATAATTTATAAGATTATAGGCATAGT
*
977872 ATAAGAACTTATCTTTCAGT-AAGGCTTTGTAAGCGGGGTAAAAATTG
130 ATAAGAACCTATCTTTCAGTCAAGGCTTTGTAAGCGGGGTAAAAATTG
* * *
977919 CATTG-AAATGGTTCCAAAGATTGGTTTTGTGCATGAAGAAGAAACTAAAATGGCTTGATAAGCT
1 CATTGAAAACGGTTCCAAAGATTGGTTTTGTGCATGAAAAAGAAACTAAAATGGCTTGATAAGCA
* * *
977983 TGTAT-AAGGGGTATTTTTGGGGAACTTAATCAGAAAATTT-TAATTTATAAGATTATAGGCATA
66 TGT-TCAAGGGGTATTTCT-GGAAACTTAAT-AAAAAATTTATAATTTATAAGATTATAGGCATA
** *
978046 GTATTGGAACCTATCTTTTAGTCAAGGCT
128 GTATAAGAACCTATCTTTCAGTCAAGGCT
978075 AATATCGGGA
Statistics
Matches: 133, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
176 104 0.78
177 21 0.16
178 8 0.06
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.34
Consensus pattern (177 bp):
CATTGAAAACGGTTCCAAAGATTGGTTTTGTGCATGAAAAAGAAACTAAAATGGCTTGATAAGCA
TGTTCAAGGGGTATTTCTGGAAACTTAATAAAAAATTTATAATTTATAAGATTATAGGCATAGTA
TAAGAACCTATCTTTCAGTCAAGGCTTTGTAAGCGGGGTAAAAATTG
Found at i:979186 original size:119 final size:119
Alignment explanation
Indices: 978975--979210 Score: 454
Period size: 119 Copynumber: 2.0 Consensus size: 119
978965 TTTAACAAGT
978975 TAGTTATAGCCTTGTAAATTCTTGCTCTCAAATCTTGAAGTAGATCCTTAACCTCATGTATGGAA
1 TAGTTATAGCCTTGTAAATTCTTGCTCTCAAATCTTGAAGTAGATCCTTAACCTCATGTATGGAA
979040 TATGTGTGGCTTATTCATTGAAAATGATTTAATTAGAAATAATAAATGAAAAGG
66 TATGTGTGGCTTATTCATTGAAAATGATTTAATTAGAAATAATAAATGAAAAGG
*
979094 TAGTTATAGCCTTGTAAATTTTTGCTCTCAAATCTTGAAGTAGATCCTTAACCTCATGTATGGAA
1 TAGTTATAGCCTTGTAAATTCTTGCTCTCAAATCTTGAAGTAGATCCTTAACCTCATGTATGGAA
*
979159 TGTGTGTGGCTTATTCATTGAAAATGATTTAATTAGAAATAATAAATGAAAA
66 TATGTGTGGCTTATTCATTGAAAATGATTTAATTAGAAATAATAAATGAAAA
979211 TATATCTTAA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 115 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (119 bp):
TAGTTATAGCCTTGTAAATTCTTGCTCTCAAATCTTGAAGTAGATCCTTAACCTCATGTATGGAA
TATGTGTGGCTTATTCATTGAAAATGATTTAATTAGAAATAATAAATGAAAAGG
Found at i:982100 original size:20 final size:20
Alignment explanation
Indices: 982063--982117 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
982053 TACTCTGGAT
982063 AGTATCGATAACCTAGCTGAAG
1 AGTATCGAT-A-CTAGCTGAAG
*
982085 AGTATCGATACTAGCTTAAG
1 AGTATCGATACTAGCTGAAG
982105 AGTATCGATACTA
1 AGTATCGATACTA
982118 CCCTTCTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 22 0.69
21 1 0.03
22 9 0.28
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTAGCTGAAG
Found at i:983878 original size:13 final size:12
Alignment explanation
Indices: 983860--983896 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
983850 TTAATAATAG
983860 TAATATAACATTA
1 TAATATAA-ATTA
983873 TAATAT-AATTA
1 TAATATAAATTA
983884 TAATAT-AATTA
1 TAATATAAATTA
983895 TA
1 TA
983897 TGAAATTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.71
12 1 0.04
13 6 0.25
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATATAAATTA
Found at i:983883 original size:11 final size:11
Alignment explanation
Indices: 983869--983896 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
983859 GTAATATAAC
983869 ATTATAATATA
1 ATTATAATATA
983880 ATTATAATATA
1 ATTATAATATA
983891 ATTATA
1 ATTATA
983897 TGAAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTATAATATA
Found at i:984295 original size:35 final size:35
Alignment explanation
Indices: 984054--984278 Score: 378
Period size: 35 Copynumber: 6.4 Consensus size: 35
984044 GATCTATTCC
984054 TGCTTCACTACTCTTTTGTGAAGGCTGAATTGCAT
1 TGCTTCACTACTCTTTTGTGAAGGCTGAATTGCAT
* *
984089 TGCTCCACTACTCTTTTGTGAAGGTTGAATTGCAT
1 TGCTTCACTACTCTTTTGTGAAGGCTGAATTGCAT
* *
984124 TGCTTCACTACTCTTTTGTGAAGGTTGAATTGCAA
1 TGCTTCACTACTCTTTTGTGAAGGCTGAATTGCAT
*
984159 TGCTTCACTACTCTTTTGTGAAGGCTGAATTACAT
1 TGCTTCACTACTCTTTTGTGAAGGCTGAATTGCAT
*
984194 TGCTTCACTACTCTTTTTTGAAGGCTGAATTGCAT
1 TGCTTCACTACTCTTTTGTGAAGGCTGAATTGCAT
*
984229 TGCTTCACTACTCTTCTGTGAAGGCTGAATTGCAT
1 TGCTTCACTACTCTTTTGTGAAGGCTGAATTGCAT
*
984264 TGCTTCAGTACTCTT
1 TGCTTCACTACTCTT
984279 CCGTGAAGAT
Statistics
Matches: 178, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 178 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (35 bp):
TGCTTCACTACTCTTTTGTGAAGGCTGAATTGCAT
Found at i:999967 original size:54 final size:54
Alignment explanation
Indices: 999830--1000220 Score: 592
Period size: 54 Copynumber: 7.3 Consensus size: 54
999820 TTCCCGAATG
999830 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
* *
999884 GGCACTA--TGTGCAACATAAGAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
* **
999936 GGTACCGTGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTT-TCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCT-GTATT
* * * *
999990 GGCACTTTGTGTTCAACCTAAAAAATTCATAATAAGTTTATGAATTTAC-GTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTT-CTGTATT
*
1000044 AGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
* * *
1000098 GGCATTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
* * *
1000152 GGCACTTTGTGTGCAACCTAAGAAATTTATAATTAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
1000206 GGCACTATGTGTGCA
1 GGCACTATGTGTGCA
1000221 CCCCACGTAA
Statistics
Matches: 304, Mismatches: 27, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
52 47 0.15
53 2 0.01
54 255 0.84
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
Found at i:1000242 original size:12 final size:12
Alignment explanation
Indices: 1000225--1000249 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1000215 TGTGCACCCC
1000225 ACGTAATTCATA
1 ACGTAATTCATA
1000237 ACGTAATTCATA
1 ACGTAATTCATA
1000249 A
1 A
1000250 TGAGGTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ACGTAATTCATA
Found at i:1001007 original size:54 final size:54
Alignment explanation
Indices: 1000936--1001063 Score: 139
Period size: 54 Copynumber: 2.4 Consensus size: 54
1000926 TCCTTATGTA
* * * * *
1000936 CGTATTGGCACTTTGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTC
1 CGTATTGGCACTATGTGTGCAACCCAAGAAATTCATAATGAGGTTATGAATTAC
* * * * *
1000990 CGTATTGGCACTATGTGTACACCCCACGTAATTCATAATGAGGTTGTGAATTAC
1 CGTATTGGCACTATGTGTGCAACCCAAGAAATTCATAATGAGGTTATGAATTAC
***
1001044 CGTATCAACACTATGTGTGC
1 CGTATTGGCACTATGTGTGC
1001064 GAAAACCACT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (54 bp):
CGTATTGGCACTATGTGTGCAACCCAAGAAATTCATAATGAGGTTATGAATTAC
Found at i:1007414 original size:35 final size:36
Alignment explanation
Indices: 1007349--1007419 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
1007339 TATGTGCAGG
1007349 GGGAACAGATTCCCCCTGGGTGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGTGGGTATCGATTCCCC
*
1007385 GGGAACAGATTCCCCCT-TGTGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGTGGGTATCGATTCCCC
1007420 CCTAAATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 17 0.50
36 17 0.50
ACGTcount: A:0.17, C:0.31, G:0.28, T:0.24
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTGGGTGGGTATCGATTCCCC
Found at i:1009820 original size:54 final size:54
Alignment explanation
Indices: 1009738--1010237 Score: 718
Period size: 54 Copynumber: 9.3 Consensus size: 54
1009728 TTACCGAATG
*
1009738 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
*
1009792 GGCACTATATGTGCAACCTAAGAAATTCATAATAAGTTTATGAA-TTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATT
* * * *
1009846 GGCACTATGTATGCAACCTAAGAAATTCATAATTATTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
* * *
1009900 GGCACTTTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCATATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
* *
1009954 GCCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATG-ATTTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATT
* * *
1010008 GGCACTATGTGTGCAACCTAATAAATACATAATAAGTTTATGAATATTCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
* *
1010062 GGCATTTTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
* * ** * *
1010116 GACACTTTGTGTGCAACCTAAGTTACTCATAATAAGTTTATGAATTTAT-ATATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTT-TCGTATT
* * *
1010170 GACACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTTCGTTTT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
*
1010224 GGCATTATGTGTGC
1 GGCACTATGTGTGC
1010238 CCCACATAAT
Statistics
Matches: 398, Mismatches: 42, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
53 10 0.03
54 379 0.95
55 9 0.02
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
Found at i:1016977 original size:127 final size:128
Alignment explanation
Indices: 1016737--1016992 Score: 505
Period size: 127 Copynumber: 2.0 Consensus size: 128
1016727 ACTTCTTATA
1016737 TGTTATTCTCCTTAAAAATGTTATTGTAACAATGTTTGAAGACTAAAACACAATGTCGGGAGATA
1 TGTTATTCTCCTTAAAAATGTTATTGTAACAATGTTTGAAGACTAAAACACAATGTCGGGAGATA
1016802 CATCACCGATCATCTAGCCATCATAGTATGCCAAAGCAGTAATAATTCCTCTTCTCGCCATAT
66 CATCACCGATCATCTAGCCATCATAGTATGCCAAAGCAGTAATAATTCCTCTTCTCGCCATAT
1016865 TGTTATTCTCCTT-AAAATGTTATTGTAACAATGTTTGAAGACTAAAACACAATGTCGGGAGATA
1 TGTTATTCTCCTTAAAAATGTTATTGTAACAATGTTTGAAGACTAAAACACAATGTCGGGAGATA
1016929 CATCACCGATCATCTAGCCATCATAGTATGCCAAAGCAGTAATAATTCCTCTTCTCGCCATAT
66 CATCACCGATCATCTAGCCATCATAGTATGCCAAAGCAGTAATAATTCCTCTTCTCGCCATAT
1016992 T
1 T
1016993 TTTAATATCT
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
127 115 0.90
128 13 0.10
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (128 bp):
TGTTATTCTCCTTAAAAATGTTATTGTAACAATGTTTGAAGACTAAAACACAATGTCGGGAGATA
CATCACCGATCATCTAGCCATCATAGTATGCCAAAGCAGTAATAATTCCTCTTCTCGCCATAT
Found at i:1017647 original size:15 final size:15
Alignment explanation
Indices: 1017627--1017703 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
1017617 AATGGTCCAA
1017627 AAAATACAATAACAT
1 AAAATACAATAACAT
*
1017642 AAAATACAATACCAT
1 AAAATACAATAACAT
*
1017657 AAATTTA-AATAACAT
1 AAA-ATACAATAACAT
* * *
1017672 AAATTTCAA-AATCAG
1 AAAATACAATAA-CAT
*
1017687 AAAATACAATTACAT
1 AAAATACAATAACAT
1017702 AA
1 AA
1017704 TTATGGTCCA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
14 4 0.08
15 42 0.86
16 3 0.06
ACGTcount: A:0.61, C:0.13, G:0.01, T:0.25
Consensus pattern (15 bp):
AAAATACAATAACAT
Found at i:1018906 original size:28 final size:28
Alignment explanation
Indices: 1018874--1018961 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
1018864 CATAGTCACA
1018874 AACATTCAAGTGAAATGTAATGTAGTTC
1 AACATTCAAGTGAAATGTAATGTAGTTC
* *
1018902 AACATTCAAGAGAAATATAATGTAGTTC
1 AACATTCAAGTGAAATGTAATGTAGTTC
* *
1018930 AACATTCAAGTAAAATGTAATGTAGTTT
1 AACATTCAAGTGAAATGTAATGTAGTTC
1018958 AACA
1 AACA
1018962 ACTAGAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (28 bp):
AACATTCAAGTGAAATGTAATGTAGTTC
Found at i:1019078 original size:2 final size:2
Alignment explanation
Indices: 1019071--1019095 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1019061 TGAAGTTCTT
1019071 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1019096 TTTGAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1022284 original size:17 final size:17
Alignment explanation
Indices: 1022250--1022301 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1022240 ACCGGACAAA
* *
1022250 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
1022267 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
1022284 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
1022299 TTT
1 TTT
1022302 CTACTGTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:1023418 original size:107 final size:107
Alignment explanation
Indices: 1023297--1023512 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 107
1023287 AATGATGTTG
*
1023297 TTAATGAAGTTTGTGTGGTAAACACCGCTAAAAAATACCTAAATACTAAATTTACTGTAGTGAAT
1 TTAATGAAGTTTGTGTAGTAAACACCGCTAAAAAATACCTAAATACTAAATTTACTGTAGTGAAT
1023362 ATGACATTATTTTTTGCAACGACTTTCCATTCCTAAATTTTC
66 ATGACATTATTTTTTGCAACGACTTTCCATTCCTAAATTTTC
1023404 TTAATGAAGTTTGTGTAGTAAACACCGCTAAAAAATACCTAAATACTAAATTTACTGTAGTGAAT
1 TTAATGAAGTTTGTGTAGTAAACACCGCTAAAAAATACCTAAATACTAAATTTACTGTAGTGAAT
1023469 ATGACATTATTTTTTGCAACGACTTTCCATTCCTAAATTTTC
66 ATGACATTATTTTTTGCAACGACTTTCCATTCCTAAATTTTC
1023511 TT
1 TT
1023513 CACAAACACT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (107 bp):
TTAATGAAGTTTGTGTAGTAAACACCGCTAAAAAATACCTAAATACTAAATTTACTGTAGTGAAT
ATGACATTATTTTTTGCAACGACTTTCCATTCCTAAATTTTC
Found at i:1024932 original size:15 final size:14
Alignment explanation
Indices: 1024912--1024969 Score: 64
Period size: 14 Copynumber: 4.0 Consensus size: 14
1024902 CTAATGTAGG
1024912 ATATTTTTATTAATT
1 ATATTTTT-TTAATT
1024927 ATATTTTTTTAATT
1 ATATTTTTTTAATT
*
1024941 ATGATTATTTTAATT
1 AT-ATTTTTTTAATT
*
1024956 -TCATTTTTTAAATT
1 AT-ATTTTTTTAATT
1024970 TAGGATCTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
14 19 0.50
15 19 0.50
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (14 bp):
ATATTTTTTTAATT
Found at i:1025972 original size:6 final size:6
Alignment explanation
Indices: 1025961--1025985 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1025951 AAACTATAAC
1025961 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
1025986 TAATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:1027642 original size:17 final size:17
Alignment explanation
Indices: 1027589--1027646 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
1027579 ATATAACATG
1027589 ATATTCTTATTTTAATA
1 ATATTCTTATTTTAATA
* *
1027606 TTAATTTTTAATACTTTAATA
1 AT-ATTCTT-AT--TTTAATA
1027627 ATATTCTTATTTTAATA
1 ATATTCTTATTTTAATA
1027644 ATA
1 ATA
1027647 ATTAATATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 11 0.33
18 5 0.15
19 4 0.12
20 5 0.15
21 8 0.24
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTCTTATTTTAATA
Found at i:1027725 original size:14 final size:15
Alignment explanation
Indices: 1027714--1027749 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
1027704 TTTTATAATA
1027714 ATATTAAAATAAATT
1 ATATTAAAATAAATT
1027729 ATATT-AAATAAATT
1 ATATTAAAATAAATT
1027743 ATATTAA
1 ATATTAA
1027750 TATTTACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATTAAAATAAATT
Found at i:1031707 original size:24 final size:24
Alignment explanation
Indices: 1031681--1031762 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 24
1031671 CAAAAAATGT
1031681 ATATAATATATAGTTTTTG-AAA-
1 ATATAATATATAGTTTTTGAAAAC
1031703 ATAT-ATAGTATAGTTTTT-AAATAC
1 ATATAATA-TATAGTTTTTGAAA-AC
** *
1031727 ATATTTTTATATAG-TTTCGAAAAC
1 ATA-TAATATATAGTTTTTGAAAAC
1031751 ATATAATATATA
1 ATATAATATATA
1031763 TAGTATACTT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
21 3 0.06
22 16 0.33
23 8 0.16
24 11 0.22
25 9 0.18
26 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (24 bp):
ATATAATATATAGTTTTTGAAAAC
Found at i:1031812 original size:26 final size:25
Alignment explanation
Indices: 1031783--1031839 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
1031773 TTTTAAAAAC
*
1031783 ATATTACATGATTTTAAAAATATATT
1 ATATTACATAATTTTAAAAATATA-T
* *
1031809 ATATTATATAATTTTTAAAATATAT
1 ATATTACATAATTTTAAAAATATAT
1031834 ATATTA
1 ATATTA
1031840 AGCTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATTACATAATTTTAAAAATATAT
Found at i:1033113 original size:24 final size:24
Alignment explanation
Indices: 1033068--1033123 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1033058 ATTTAATCAT
*
1033068 TATTTAATATTTCTCTTAATTTAA
1 TATTTAATATTTCTATTAATTTAA
* * *
1033092 TATTTAATATTTTTATTTATTTAT
1 TATTTAATATTTCTATTAATTTAA
*
1033116 TTTTTAAT
1 TATTTAAT
1033124 TTTATTCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (24 bp):
TATTTAATATTTCTATTAATTTAA
Found at i:1034165 original size:14 final size:15
Alignment explanation
Indices: 1034141--1034169 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1034131 TCAAAACCGA
1034141 TCTTCGATTCTTGAT
1 TCTTCGATTCTTGAT
1034156 TCTT-GATTCTTGAT
1 TCTTCGATTCTTGAT
1034170 CTGTATGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (15 bp):
TCTTCGATTCTTGAT
Found at i:1037271 original size:5 final size:5
Alignment explanation
Indices: 1037261--1037290 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
1037251 AGTAAACAAG
1037261 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1037291 TGTTTCAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:1039163 original size:15 final size:15
Alignment explanation
Indices: 1039143--1039172 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1039133 ATCCTTTAAA
1039143 AGCTCTATCCATCTT
1 AGCTCTATCCATCTT
1039158 AGCTCTATCCATCTT
1 AGCTCTATCCATCTT
1039173 CTCTACCTCA
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:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
AGCTCTATCCATCTT
Found at i:1042513 original size:20 final size:20
Alignment explanation
Indices: 1042488--1042525 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1042478 TCAAATTATA
*
1042488 AGTTTTTGAAACTTATAGTC
1 AGTTTTAGAAACTTATAGTC
*
1042508 AGTTTTAGAAAGTTATAG
1 AGTTTTAGAAACTTATAG
1042526 GAAATTTGGA
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:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (20 bp):
AGTTTTAGAAACTTATAGTC
Found at i:1047790 original size:13 final size:13
Alignment explanation
Indices: 1047772--1047797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1047762 ACTCACCTGG
1047772 TATGCCTTACTAT
1 TATGCCTTACTAT
1047785 TATGCCTTACTAT
1 TATGCCTTACTAT
1047798 CGAAATTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGCCTTACTAT
Found at i:1063057 original size:20 final size:23
Alignment explanation
Indices: 1063016--1063064 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
1063006 TTCTTGAACA
1063016 AAAAAATGACAATAAGAATAAAT
1 AAAAAATGACAATAAGAATAAAT
1063039 AAAAAAT-A-AATAA-AATAAAT
1 AAAAAATGACAATAAGAATAAAT
*
1063059 AGAAAA
1 AAAAAA
1063065 GAAAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 12 0.48
21 5 0.20
22 1 0.04
23 7 0.28
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (23 bp):
AAAAAATGACAATAAGAATAAAT
Found at i:1063226 original size:35 final size:35
Alignment explanation
Indices: 1063187--1063342 Score: 149
Period size: 35 Copynumber: 4.4 Consensus size: 35
1063177 TTTTCACATG
*
1063187 CTATATTATATACGTTTTCAAAAATATTTTAAAAA
1 CTATATTATATATGTTTTCAAAAATATTTTAAAAA
**
1063222 CTATA-TATTATATGTTTTCCAAAACGATTTTAAAAA
1 CTATATTA-TATATGTTTT-CAAAAATATTTTAAAAA
* *
1063258 CTTATATTATATATGTTTTCAAAAATGTTTTTAAAA
1 C-TATATTATATATGTTTTCAAAAATATTTTAAAAA
* *
1063294 CTATATGT-TA-ATGTTTTTAAAAA-AGTGTTTCAAAA
1 CTATAT-TATATATGTTTTCAAAAATA-T-TTTAAAAA
*
1063329 CCATATATATATAT
1 CTATAT-TATATAT
1063343 ATATATATAT
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
34 15 0.15
35 34 0.34
36 33 0.33
37 16 0.16
38 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (35 bp):
CTATATTATATATGTTTTCAAAAATATTTTAAAAA
Found at i:1063229 original size:37 final size:36
Alignment explanation
Indices: 1063188--1063343 Score: 151
Period size: 36 Copynumber: 4.3 Consensus size: 36
1063178 TTTCACATGC
1063188 TATATTATATACGTTTTCAAAAATATTTTAAAAACTA
1 TATATTATATA-GTTTTCAAAAATATTTTAAAAACTA
**
1063225 TATATTATAT-GTTTTCCAAAACGATTTTAAAAACT-
1 TATATTATATAGTTTT-CAAAAATATTTTAAAAACTA
* *
1063260 TATATTATATATGTTTTCAAAAATGTTTTTAAAACTA
1 TATATTATATA-GTTTTCAAAAATATTTTAAAAACTA
* * * *
1063297 TATGTTA-AT-GTTTTTAAAAA-AGTGTTTCAAAACCA
1 TATATTATATAGTTTTCAAAAATA-T-TTTAAAAACTA
1063332 TATATATATATA
1 TATAT-TATATA
1063344 TATATATATA
Statistics
Matches: 98, Mismatches: 12, Indels: 17
0.77 0.09 0.13
Matches are distributed among these distances:
34 11 0.11
35 28 0.29
36 36 0.37
37 23 0.23
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (36 bp):
TATATTATATAGTTTTCAAAAATATTTTAAAAACTA
Found at i:1063336 original size:72 final size:72
Alignment explanation
Indices: 1063188--1063344 Score: 192
Period size: 72 Copynumber: 2.2 Consensus size: 72
1063178 TTTCACATGC
* * *
1063188 TATATTATATACGTTTTCAAAAATATTTTAAAAACTATATATTATATGTTTTCCAAAACGATTTT
1 TATATTATATATGTTTTCAAAAATATTTTAAAAACTATATATTATATGTTTTCAAAAAAGATTTT
*
1063253 AAAAACT
66 AAAAACA
* * * *
1063260 TATATTATATATGTTTTCAAAAATGTTTTTAAAACTATATGTTA-ATGTTTTTAAAAAAG-TGTT
1 TATATTATATATGTTTTCAAAAATATTTTAAAAACTATATATTATATGTTTTCAAAAAAGAT-TT
*
1063323 TCAAAACCA
65 T-AAAAACA
1063332 TATATATATATAT
1 TATAT-TATATAT
1063345 ATATATATAT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
70 1 0.01
71 15 0.21
72 50 0.68
73 7 0.10
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (72 bp):
TATATTATATATGTTTTCAAAAATATTTTAAAAACTATATATTATATGTTTTCAAAAAAGATTTT
AAAAACA
Found at i:1078276 original size:77 final size:78
Alignment explanation
Indices: 1078149--1078305 Score: 307
Period size: 77 Copynumber: 2.0 Consensus size: 78
1078139 AAGGCTCGAA
1078149 TTAGGGGCTCATCTATCTTGACATAGAGTAAAAGTGCGATATAATCAGAATCTCTGTTTCTGGTC
1 TTAGGGGCTCATCTATCTTGACATAGAGTAAAAGTGCGATATAATCAGAATCTCTGTTTCTGGTC
1078214 GC-TTTTCAGGTG
66 GCTTTTTCAGGTG
1078226 TTAGGGGCTCATCTATCTTGACATAGAGTAAAAGTGCGATATAATCAGAATCTCTGTTTCTGGTC
1 TTAGGGGCTCATCTATCTTGACATAGAGTAAAAGTGCGATATAATCAGAATCTCTGTTTCTGGTC
1078291 GCTTTTTCAGGTG
66 GCTTTTTCAGGTG
1078304 TT
1 TT
1078306 CCAAATGCTC
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 67 0.85
78 12 0.15
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (78 bp):
TTAGGGGCTCATCTATCTTGACATAGAGTAAAAGTGCGATATAATCAGAATCTCTGTTTCTGGTC
GCTTTTTCAGGTG
Found at i:1080049 original size:22 final size:22
Alignment explanation
Indices: 1080024--1080076 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
1080014 AAAAGTAGGG
1080024 AAAAAATAAAAAAAAAC-ATGTT
1 AAAAAA-AAAAAAAAACAATGTT
*
1080046 AAAAGAAAAAAGAAAACAATGTT
1 AAAA-AAAAAAAAAAACAATGTT
*
1080069 AATAAAAA
1 AAAAAAAA
1080077 TACTAAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAAAAAAAAAAAAACAATGTT
Found at i:1080918 original size:20 final size:20
Alignment explanation
Indices: 1080887--1080933 Score: 85
Period size: 20 Copynumber: 2.3 Consensus size: 20
1080877 GTTCTTCCCT
1080887 TAGCCTCACCGTTGGCTTTAA
1 TAGCC-CACCGTTGGCTTTAA
1080908 TAGCCCACCGTTGGCTTTAA
1 TAGCCCACCGTTGGCTTTAA
1080928 TAGCCC
1 TAGCCC
1080934 GAGTTTGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.30
Consensus pattern (20 bp):
TAGCCCACCGTTGGCTTTAA
Found at i:1081397 original size:5 final size:5
Alignment explanation
Indices: 1081387--1081448 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
1081377 ATAAATAAGT
* *
1081387 AAATA AAATAA AAATAA AAATA AAA-A TAAA-A ACAGA AAATA AAATA
1 AAATA AAAT-A AAAT-A AAATA AAATA -AAATA AAATA AAATA AAATA
1081433 AAATA AAATA ATAATA
1 AAATA AAATA A-AATA
1081449 TGTATATACT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
4 3 0.06
5 32 0.64
6 15 0.30
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:1081402 original size:6 final size:6
Alignment explanation
Indices: 1081387--1081440 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
1081377 ATAAATAAGT
*
1081387 AAAT-A AAATAA AAATAA AAATAA AAATAA AAACAGA AAAT-A AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATA-A AAATAA AAATAA
1081433 AAATAA AA
1 AAATAA AA
1081441 TAATAATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
5 14 0.32
6 26 0.59
7 4 0.09
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:1087302 original size:15 final size:15
Alignment explanation
Indices: 1087282--1087310 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1087272 CCTACTATGT
1087282 TCTAAAAGTTCTAGC
1 TCTAAAAGTTCTAGC
1087297 TCTAAAAGTTCTAG
1 TCTAAAAGTTCTAG
1087311 ATGACATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (15 bp):
TCTAAAAGTTCTAGC
Found at i:1087518 original size:31 final size:30
Alignment explanation
Indices: 1087483--1087544 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 30
1087473 TTATCACTGC
*
1087483 TTGAAACTGGTTTTGAATTGGTAACCAACAA
1 TTGAAACTAGTTTTGAATTGGTAACC-ACAA
1087514 TTGAAACTAGTTTTGAATTGGTAACCACAA
1 TTGAAACTAGTTTTGAATTGGTAACCACAA
1087544 T
1 T
1087545 ATCATATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (30 bp):
TTGAAACTAGTTTTGAATTGGTAACCACAA
Found at i:1087738 original size:30 final size:31
Alignment explanation
Indices: 1087702--1087763 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
1087692 TTATCACTGC
1087702 TTGAAACT-GGTTTGAATTGGTAACCAACAA
1 TTGAAACTAGGTTTGAATTGGTAACCAACAA
*
1087732 TTGAAACTAGTTTTGAATTGGTAACCAACAA
1 TTGAAACTAGGTTTGAATTGGTAACCAACAA
1087763 T
1 T
1087764 ATCATATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (31 bp):
TTGAAACTAGGTTTGAATTGGTAACCAACAA
Found at i:1098117 original size:41 final size:42
Alignment explanation
Indices: 1098056--1098136 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 42
1098046 AATGACTTAT
* * *
1098056 CATCTTGCTCGAAAGGCTTACAGATGACCCAAATGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTAAG
* *
1098098 CATCATGCTCG-AAGACTTACTGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTA
1098137 CAAATCAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 24 0.71
42 10 0.29
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACCCAAAGGATTTAAG
Found at i:1098481 original size:239 final size:240
Alignment explanation
Indices: 1098051--1098540 Score: 779
Period size: 239 Copynumber: 2.0 Consensus size: 240
1098041 GCCCGAATGA
* *
1098051 CTTATCATCTTGCTCGAAAGGCTTACAGATGACCCAAATGATTTAAGCATCATGCTCGAAGACTT
1 CTTATGATCTTGCTCGAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAGACTT
*
1098116 ACTGATGACCCGAAGGATTTACAAATCAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTC
66 AC--ATGACCCAAAGGATTTACAAATCAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTC
* * * * *
1098181 AAGGAACCCCTTTTTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGAAACCCATAA
129 AAGGAACCCATTTTTTAAGCTTAACATCCTTTAACAACTCTTTTGAGATAATTAAAAACCCATAA
*
1098246 AGGCTTAGTTTTT-AAAATCTCATTTGAAAACATCATGCCTGAAGGT
194 AGGCTTAGTTTTTAAAAATCTCATTTGAAAACAACATGCCTGAAGGT
**
1098292 CTTATGATCTTGCTCGAAAGGCTTACAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACT
1 CTTATGATCTTGCTCGAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCG-AAGACT
1098357 TA-ATGACCCAAAGGATTTACAAATCAAGAAACCCTTG-AAATCAAGCTTAGTTTCTTAGTTGTC
65 TACATGACCCAAAGGATTTACAAATC-AGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTC
1098420 AAGGAACCCATTTTTTAAGCTTAACATCCTTTAACAACTCTTTTGAGATAATTAAAAACCCATAA
129 AAGGAACCCATTTTTTAAGCTTAACATCCTTTAACAACTCTTTTGAGATAATTAAAAACCCATAA
** *
1098485 AGGCTTTTTTTTTAAAAAAATCTCATTTGAAAACAACATGTCTGAAGGT
194 AGGCTTAGTTTTT--AAAAATCTCATTTGAAAACAACATGCCTGAAGGT
1098534 CTTATGA
1 CTTATGA
1098541 ATGGCACGAA
Statistics
Matches: 230, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
239 119 0.52
240 11 0.05
241 54 0.23
242 46 0.20
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (240 bp):
CTTATGATCTTGCTCGAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAGACTT
ACATGACCCAAAGGATTTACAAATCAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAGTTGTCAA
GGAACCCATTTTTTAAGCTTAACATCCTTTAACAACTCTTTTGAGATAATTAAAAACCCATAAAG
GCTTAGTTTTTAAAAATCTCATTTGAAAACAACATGCCTGAAGGT
Found at i:1104422 original size:19 final size:16
Alignment explanation
Indices: 1104386--1104437 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
1104376 ATAATGTCTG
1104386 AAAATTAATCAAATAA
1 AAAATTAATCAAATAA
1104402 AAAATTAAT-ACAATGATA
1 AAAATTAATCA-AAT-A-A
*
1104420 AAAA-TAATAAAATAA
1 AAAATTAATCAAATAA
1104435 AAA
1 AAA
1104438 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 5 0.16
16 13 0.41
17 8 0.25
18 6 0.19
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (16 bp):
AAAATTAATCAAATAA
Found at i:1106531 original size:3 final size:3
Alignment explanation
Indices: 1106523--1106589 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
1106513 TTCGGGCATG
* * * * *
1106523 TAA TAA TAA TAA TAA TAT TAA TAA TAA TAT TAT TAT TAT TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1106570 TAA TAA TAA T-A TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1106590 AATGGGACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 4 0.07
3 52 0.93
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1106546 original size:18 final size:18
Alignment explanation
Indices: 1106523--1106589 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
1106513 TTCGGGCATG
1106523 TAATAATAATAATAATAT
1 TAATAATAATAATAATAT
* *
1106541 TAATAATAATATTATTAT
1 TAATAATAATAATAATAT
* *
1106559 TATTAATAA-AATAATAA
1 TAATAATAATAATAATAT
*
1106576 TAAT-ATAAAAATAA
1 TAATAATAATAATAA
1106590 AATGGGACAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
16 4 0.10
17 13 0.32
18 24 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAATAATAATAATAATAT
Found at i:1113548 original size:3 final size:3
Alignment explanation
Indices: 1113542--1113569 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1113532 GATGATGATG
1113542 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1113570 ATATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1113844 original size:21 final size:21
Alignment explanation
Indices: 1113818--1113864 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1113808 CACAACCGTG
*
1113818 ATGAAAGGGCTTAACCTTTTC
1 ATGAAAGGACTTAACCTTTTC
* * *
1113839 GTGAAAGGATTTAATCTTTTC
1 ATGAAAGGACTTAACCTTTTC
1113860 ATGAA
1 ATGAA
1113865 GAGAATTGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (21 bp):
ATGAAAGGACTTAACCTTTTC
Found at i:1116711 original size:557 final size:557
Alignment explanation
Indices: 1115699--1117927 Score: 4314
Period size: 557 Copynumber: 4.0 Consensus size: 557
1115689 TTAAAACCCA
* * *
1115699 AAACATAACCAATTTTTGTTAAAGGATGAGAATTTAATAAATTAAATCTTGAAAAAAACTAACTT
1 AAACATAACCAATTTCTGTTAAAGGACGAGAATTTAATAAATTAAATCTTGAAAAAGACTAACTT
1115764 CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
66 CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
* * *
1115829 TACCTTTTCGATTTCTTGATCGAAATTCACCATTCATCACACAAACAATTACGAGCCTTATCACG
131 TACCTTTTCAATTTCTTGATCGAAATTCACCATTCATCATACAAAAAATTACGAGCCTTATCACG
*
1115894 TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTCT
196 TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTAT
*
1115959 GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAATGCCTTTAACTTCCTTAA
261 GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAACGCCTTTAACTTCCTTAA
1116024 GGATTGAGCATGAAGATTACTATATGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
326 GGATTGAGCATGAAGATTACTATATGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
1116089 CAACCAACCAATGTAATTTAGCCACTAAGAATGACTAGTTAAATTGAGCAATAAAATCAATAAAG
391 CAACCAACCAATGTAATTTAGCCACTAAGAATGACTAGTTAAATTGAGCAATAAAATCAATAAAG
1116154 AGTGAAATATGCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
456 AGTGAAATATGCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
1116219 ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
521 ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
1116256 AAACATAACCAATTTCTGTTAAAGGACGAGAATTTAATAAATTAAATCTTGAAAAAGACTAACTT
1 AAACATAACCAATTTCTGTTAAAGGACGAGAATTTAATAAATTAAATCTTGAAAAAGACTAACTT
1116321 CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
66 CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
*
1116386 TACCTTTTCGATTTCTTGATCGAAATTCACCATTCATCATACAAAAAATTACGAGCCTTATCACG
131 TACCTTTTCAATTTCTTGATCGAAATTCACCATTCATCATACAAAAAATTACGAGCCTTATCACG
*
1116451 TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTCT
196 TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTAT
1116516 GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAACGCCTTTAACTTCCTTAA
261 GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAACGCCTTTAACTTCCTTAA
1116581 GGATTGAGCATGAAGATTACTATATGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
326 GGATTGAGCATGAAGATTACTATATGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
*
1116646 CAACCAACCAATGTAATTTAGCCACTAAGAATGACTAGTTATATTGAGCAATAAAATCAATAAAG
391 CAACCAACCAATGTAATTTAGCCACTAAGAATGACTAGTTAAATTGAGCAATAAAATCAATAAAG
1116711 AGTGAAATATGCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
456 AGTGAAATATGCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
1116776 ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
521 ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
1116813 AAACATAACCAATTTCTGTTAAAGGACGAGAATTTAATAAATTAAATCTTGAAAAAGACTAACTT
1 AAACATAACCAATTTCTGTTAAAGGACGAGAATTTAATAAATTAAATCTTGAAAAAGACTAACTT
1116878 CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
66 CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
1116943 TACCTTTTCAATTTCTTGATCGAAATTCACCATTCATCATACAAAAAATTACGAGCCTTATCACG
131 TACCTTTTCAATTTCTTGATCGAAATTCACCATTCATCATACAAAAAATTACGAGCCTTATCACG
1117008 TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTAT
196 TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTAT
1117073 GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAACGCCTTTAACTTCCTTAA
261 GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAACGCCTTTAACTTCCTTAA
1117138 GGATTGAGCATGAAGATTACTATATGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
326 GGATTGAGCATGAAGATTACTATATGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
*
1117203 CAACCAACCAATGTAATTTAGCCACTAAGAATGACTAGTTATATTGAGCAATAAAATCAATAAAG
391 CAACCAACCAATGTAATTTAGCCACTAAGAATGACTAGTTAAATTGAGCAATAAAATCAATAAAG
1117268 AGTGAAATATGCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
456 AGTGAAATATGCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
1117333 ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
521 ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
1117370 AAACATAACCAATTTCTGTTAAAGGACGAGAATTTAATAAATTAAATCTTGAAAAAGACTAACTT
1 AAACATAACCAATTTCTGTTAAAGGACGAGAATTTAATAAATTAAATCTTGAAAAAGACTAACTT
1117435 CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
66 CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
1117500 TACCTTTTCAATTTCTTGATCGAAATTCACCATTCATCATACAAAAAATTACGAGCCTTATCACG
131 TACCTTTTCAATTTCTTGATCGAAATTCACCATTCATCATACAAAAAATTACGAGCCTTATCACG
1117565 TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTAT
196 TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTAT
1117630 GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAACGCCTTTAACTTCCTTAA
261 GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAACGCCTTTAACTTCCTTAA
*
1117695 GGATTGAGCATGAAGATTACTATCTGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
326 GGATTGAGCATGAAGATTACTATATGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
* *
1117760 CAACCAACTAATGTAATTTAGCCATTAAGAATGACTAGTTAAATTGAGCAATAAAATCAATAAAG
391 CAACCAACCAATGTAATTTAGCCACTAAGAATGACTAGTTAAATTGAGCAATAAAATCAATAAAG
*
1117825 AGTGAAATATTCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
456 AGTGAAATATGCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
1117890 ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
521 ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
1117927 A
1 A
1117928 CCTTTCTTGG
Statistics
Matches: 1658, Mismatches: 14, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
557 1658 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (557 bp):
AAACATAACCAATTTCTGTTAAAGGACGAGAATTTAATAAATTAAATCTTGAAAAAGACTAACTT
CTGTTGAACGGTGAGAATTTAATAAAACCTGAAACAATAGTACAATCTCAATGTATAGATACACA
TACCTTTTCAATTTCTTGATCGAAATTCACCATTCATCATACAAAAAATTACGAGCCTTATCACG
TTACATCAAGGCTTGTGGATGGGATAAAAATAGAGATTCTTTTCTTTGAACCTGCAAAAGGTTAT
GAAGTCATAACACAAAGTTAATGAGGCCTTACCCTACGCATCCATAACGCCTTTAACTTCCTTAA
GGATTGAGCATGAAGATTACTATATGTTGATCTTTTAAGAGCCTTTCATAGGTGAAATGTCCTTT
CAACCAACCAATGTAATTTAGCCACTAAGAATGACTAGTTAAATTGAGCAATAAAATCAATAAAG
AGTGAAATATGCTTCATTAGTATGCATTGGTAATTTGTTTGGATTTATCCACAATAACACAAAAC
ATAAATATATGCATATGGATTCAAATGAAAAGGTGTT
Found at i:1118416 original size:3 final size:3
Alignment explanation
Indices: 1118408--1118432 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1118398 TTAATCTAAC
1118408 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
1118433 ATATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1118827 original size:24 final size:24
Alignment explanation
Indices: 1118774--1118830 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
1118764 ACACTATGAA
* **
1118774 TTGTGTTTTGTAACTTATGTTTTG
1 TTGTGTCTTGTAACTTATGTTGAG
*
1118798 TCGTGTCTTGTAACTTATGTTGAG
1 TTGTGTCTTGTAACTTATGTTGAG
1118822 TTGTGTCTT
1 TTGTGTCTT
1118831 AGAATTGTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.09, G:0.23, T:0.56
Consensus pattern (24 bp):
TTGTGTCTTGTAACTTATGTTGAG
Found at i:1119095 original size:2 final size:2
Alignment explanation
Indices: 1119088--1119119 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1119078 AACTTTTACA
1119088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1119120 TAAATCTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1120400 original size:13 final size:13
Alignment explanation
Indices: 1120384--1120413 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1120374 TTTAATTGTG
1120384 AAAATTAAAAATT
1 AAAATTAAAAATT
*
1120397 AAAATTAAAATTT
1 AAAATTAAAAATT
1120410 AAAA
1 AAAA
1120414 GCATTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:1120672 original size:5 final size:5
Alignment explanation
Indices: 1120658--1120705 Score: 60
Period size: 5 Copynumber: 8.8 Consensus size: 5
1120648 ACCCAACAAG
1120658 AAAAT AAAAAT AAAAAT ATAAGAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT -AAAAT A-AA-AT AAAAT AAAAT AAAAT AAAAT AAAA
1120706 GGAAAAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 22 0.55
6 15 0.38
7 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1120764 original size:57 final size:57
Alignment explanation
Indices: 1120702--1120815 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
1120692 AAAATAAAAT
1120702 AAAAGGAAAAAAATAGTACTAAGAAGTAAATAATTATAATATATATATATATATATA
1 AAAAGGAAAAAAATAGTACTAAGAAGTAAATAATTATAATATATATATATATATATA
1120759 AAAAGGAAAAAAATAGTACTAAGAAGTAAATAATTATAATATATATATATATATATA
1 AAAAGGAAAAAAATAGTACTAAGAAGTAAATAATTATAATATATATATATATATATA
1120816 TATATATATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (57 bp):
AAAAGGAAAAAAATAGTACTAAGAAGTAAATAATTATAATATATATATATATATATA
Found at i:1120861 original size:2 final size:2
Alignment explanation
Indices: 1120793--1120844 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
1120783 AGTAAATAAT
1120793 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1120834 TA TA TA TA TA T
1 TA TA TA TA TA T
1120845 GAATGATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1122037 original size:6 final size:6
Alignment explanation
Indices: 1122028--1122094 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
1122018 AAACAAACAA
* * * *
1122028 AAAAAT AAAAAAT AAGAAAT -AAAAT AAGAAT AAGAAT AAGAAT AATAAT
1 AAAAAT -AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
1122077 AAATAAT AATAAT AAAAA
1 AAA-AAT AAAAAT AAAAA
1122095 AATATTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
5 4 0.08
6 33 0.63
7 15 0.29
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:1122051 original size:12 final size:12
Alignment explanation
Indices: 1122038--1122091 Score: 65
Period size: 12 Copynumber: 4.4 Consensus size: 12
1122028 AAAAATAAAA
1122038 AATAAGAAATAA-
1 AATAAG-AATAAT
*
1122050 AATAAGAATAAG
1 AATAAGAATAAT
1122062 AATAAGAATAAT
1 AATAAGAATAAT
*
1122074 AATAAATAATAAT
1 AAT-AAGAATAAT
1122087 AATAA
1 AATAA
1122092 AAAAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
11 5 0.13
12 22 0.58
13 11 0.29
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (12 bp):
AATAAGAATAAT
Found at i:1122076 original size:3 final size:3
Alignment explanation
Indices: 1122045--1122091 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
1122035 AAAAATAAGA
* * *
1122045 AAT AA- AAT AAG AAT AAG AAT AAG AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
1122090 AA
1 AA
1122092 AAAAATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:1122092 original size:13 final size:13
Alignment explanation
Indices: 1122068--1122092 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1122058 TAAGAATAAG
1122068 AATAATAATAAAT
1 AATAATAATAAAT
1122081 AATAATAATAAA
1 AATAATAATAAA
1122093 AAAATATTTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:1122187 original size:37 final size:35
Alignment explanation
Indices: 1122100--1122423 Score: 314
Period size: 37 Copynumber: 9.1 Consensus size: 35
1122090 AAAAAAATAT
* * *
1122100 TTTTAAAAACT-TATAATATATAAATTTCTAAAATG
1 TTTTAAAAACTATATATTATAT-ATTTTCAAAAATG
*
1122135 TTTTTAAAAAATTATATATTATACGTATTTTCAAAAATG
1 -TTTT-AAAAACTATATATTATA--TATTTTCAAAAATG
*
1122174 TTTTAAAAATTATATAATATATATATTTTCAAAAATG
1 TTTTAAAAACTATAT-AT-TATATATTTTCAAAAATG
1122211 TTTTAAAAACTATATATTATATATATTTTC-AAAATG
1 TTTTAAAAACTATATA-T-TATATATTTTCAAAAATG
1122247 TTTTTAAAAACTATATA--ATATA---T---AAATG
1 -TTTTAAAAACTATATATTATATATTTTCAAAAATG
*
1122275 TTTTCAAAACTA-TATAT-TATATAAATTTTCAAAAATG
1 TTTT-AAAA--ACTATATAT-TATATATTTTCAAAAATG
*
1122312 TTTTCAAAACTATATATTATATAAGTTTTC-AAAATG
1 TTTTAAAAACTATATATTATAT-A-TTTTCAAAAATG
*
1122348 ATTTTAAAAACTATATATTATATATTTTCTAAAATG
1 -TTTTAAAAACTATATATTATATATTTTCAAAAATG
*
1122384 TTTTAAAAACTATATATTATATAGTTTTCAAAAGTG
1 TTTTAAAAACTATATATTATATA-TTTTCAAAAATG
1122420 TTTT
1 TTTT
1122424 TTTATAAAAA
Statistics
Matches: 250, Mismatches: 11, Indels: 54
0.79 0.03 0.17
Matches are distributed among these distances:
27 4 0.02
28 9 0.04
29 5 0.02
30 2 0.01
31 4 0.02
33 5 0.02
34 2 0.01
35 37 0.15
36 43 0.17
37 109 0.44
38 14 0.06
39 15 0.06
40 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (35 bp):
TTTTAAAAACTATATATTATATATTTTCAAAAATG
Found at i:1122289 original size:101 final size:104
Alignment explanation
Indices: 1122100--1122423 Score: 349
Period size: 101 Copynumber: 3.0 Consensus size: 104
1122090 AAAAAAATAT
* * * *
1122100 TTTTAAAAACT-TATAATATATAA-ATTTCTAAAATGTTTTTAAAAAATTATATATTATACGTAT
1 TTTTAAAAACTATATATTATATAAGTTTTC-AAAATGATTTT-AAAAACTATATA-TATA--TA-
*
1122163 TTTCAAAAATGTTTTAAAAATTATATAATATATATATTTTCAAAAATG
60 -TT--AAAATGTTTTAAAAACTATATAATATATATATTTTCAAAAATG
*
1122211 TTTTAAAAACTATATATTATATATA-TTTTCAAAATGTTTTTAAAAACTATATA-ATATA-T-AA
1 TTTTAAAAACTATATATTATATA-AGTTTTCAAAATGATTTTAAAAACTATATATATATATTAAA
* * *
1122272 ATGTTTTCAAAACTATATATTATATAAATTTTCAAAAATG
65 ATGTTTTAAAAACTATATAATATATATATTTTCAAAAATG
*
1122312 TTTTCAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAAAACTATATATTATATATTTTC
1 TTTTAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAAAACTATATA-TATATA---T-
*
1122377 TAAAATGTTTTAAAAACTATAT-AT-TATATAGTTTTCAAAAGTG
61 TAAAATGTTTTAAAAACTATATAATATATATA-TTTTCAAAAATG
1122420 TTTT
1 TTTT
1122424 TTTATAAAAA
Statistics
Matches: 188, Mismatches: 13, Indels: 27
0.82 0.06 0.12
Matches are distributed among these distances:
100 1 0.01
101 87 0.46
103 5 0.03
104 1 0.01
107 7 0.04
108 17 0.09
109 22 0.12
111 22 0.12
112 21 0.11
113 5 0.03
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (104 bp):
TTTTAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAAAACTATATATATATATTAAAA
TGTTTTAAAAACTATATAATATATATATTTTCAAAAATG
Found at i:1122295 original size:25 final size:27
Alignment explanation
Indices: 1122242--1122308 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
1122232 TATATTTTCA
*
1122242 AAATGTTTTTAAAAACTATATAATATAT
1 AAATG-TTTTCAAAACTATATAATATAT
*
1122270 AAATGTTTTCAAAACTATATATTATAT
1 AAATGTTTTCAAAACTATATAATATAT
1122297 AAA--TTTTCAAAA
1 AAATGTTTTCAAAA
1122309 ATGTTTTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 9 0.24
27 23 0.62
28 5 0.14
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (27 bp):
AAATGTTTTCAAAACTATATAATATAT
Found at i:1122306 original size:138 final size:136
Alignment explanation
Indices: 1122142--1122406 Score: 392
Period size: 138 Copynumber: 1.9 Consensus size: 136
1122132 ATGTTTTTAA
* ** *
1122142 AAAATTATATATTATACGTATTTTCAAAAATGTTTTAAAAATTATATAATATATATA-TTTTCAA
1 AAAACTATATATTATACAAATTTTCAAAAATGTTTTAAAAACTATATAATATATA-AGTTTTC-A
1122206 AAATG-TTTTAAAAACTATATATTATATATATTT-TCAAAATGTTTTTAAAAACTATATAATATA
64 AAATGATTTTAAAAACTATATATTATATAT-TTTCT-AAAATG-TTTTAAAAACTATATAATATA
1122269 TAAATGTTTTC
126 TAAATGTTTTC
* * *
1122280 AAAACTATATATTATATAAATTTTCAAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAA
1 AAAACTATATATTATACAAATTTTCAAAAATGTTTTAAAAACTATATAATATATAAGTTTTCAAA
*
1122345 ATGATTTTAAAAACTATATATTATATATTTTCTAAAATGTTTTAAAAACTATATATTATATA
66 ATGATTTTAAAAACTATATATTATATATTTTCTAAAATGTTTTAAAAACTATATAATATATA
1122407 GTTTTCAAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
136 22 0.19
137 16 0.14
138 78 0.67
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (136 bp):
AAAACTATATATTATACAAATTTTCAAAAATGTTTTAAAAACTATATAATATATAAGTTTTCAAA
ATGATTTTAAAAACTATATATTATATATTTTCTAAAATGTTTTAAAAACTATATAATATATAAAT
GTTTTC
Found at i:1123464 original size:167 final size:166
Alignment explanation
Indices: 1123106--1123993 Score: 1177
Period size: 167 Copynumber: 5.3 Consensus size: 166
1123096 ATTTGCCTCT
* * * *
1123106 GAGCTGAATGTAATCGAACTCAAAGGTCTTTGGATGGCAAATAGCCATTCTCGACTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGATGGCAGATAGCCCTTCTCGACTTAAGCTATG
* * * *
1123171 CTGCAAATATTATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACT
66 CTGCAAATA-TGTGCCTTTGAGCTGAGTGTAATAGAACTCGAAGGTC-TTTGTTGGCAGATAACC
1123236 CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
129 CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
*
1123274 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGATGGTAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGATGGCAGATAGCCCTTCTCGACTTAAGCTATG
* *
1123339 CTGTAAATGATGTGCCTTTGAGCTGAGTGTAATAGAACTTGAAGGTCTTTGTTGGCAGATAACCC
66 CTGCAAAT-ATGTGCCTTTGAGCTGAGTGTAATAGAACTCGAAGGTCTTTGTTGGCAGATAACCC
* *
1123404 TTCTAGCCTTGAGTTGTGCTGCAAATGATATGCCTTG
130 TTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
* *
1123441 GAGCTGAGTGCAATTGAACTCGAAGGTCTTTGGATGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGATGGCAGATAGCCCTTCTCGACTTAAGCTATG
* * **
1123506 CTGCAAATATTGTGCCTTTGAGCTGAGTGTAATCGAACTCGTAGGTCTTTGTTGATAGATAACCC
66 CTGCAAATA-TGTGCCTTTGAGCTGAGTGTAATAGAACTCGAAGGTCTTTGTTGGCAGATAACCC
*
1123571 TTCTAACCTTGAGTTATGCTGCAAATGATGTGCCTTG
130 TTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
* * * * *
1123608 GAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGATGGCAGATAGCCCTTCTCGACTTAAGCTATG
* * * * *
1123673 CTGCAAATCATGTGTCTTTAAGCTGAGTGTAATAAAACTCAAAGGTCTTTGTTGACAGATAACCC
66 CTGCAAAT-ATGTGCCTTTGAGCTGAGTGTAATAGAACTCGAAGGTCTTTGTTGGCAGATAACCC
*
1123738 TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTG
130 TTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
** * * * * * * *
1123775 GAATTGAGTGTAGTCGAACTCGAAGGTATTT-TATTGGCAAATAGCCCTTCTTGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGA-TGGCAGATAGCCCTTCTCGACTTAAGCTAT
* * * *
1123839 GTTGCAAATAATGTGCCTTGGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTGGTTGGCAGATAAC
65 GCTGCAAAT-ATGTGCCTTTGAGCTGAGTGTAATAGAACTCGAAGGTCTTT-GTTGGCAGATAAC
* * * * ** *
1123904 CCTTCTCGACGTAAACTATGCTACAAATGATGTGCCTTG
128 CCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
* * * * *
1123943 GAGCTGAGCG-AAGTCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCT
1 GAGCTGAGTGTAA-TCGAACTCGAAGGTCTTTGGATGGCAGATAGCCCTTCT
1123994 AGCCTTGAGT
Statistics
Matches: 632, Mismatches: 81, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
166 1 0.00
167 447 0.71
168 183 0.29
169 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (166 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGATGGCAGATAGCCCTTCTCGACTTAAGCTATG
CTGCAAATATGTGCCTTTGAGCTGAGTGTAATAGAACTCGAAGGTCTTTGTTGGCAGATAACCCT
TCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTG
Found at i:1123471 original size:251 final size:250
Alignment explanation
Indices: 1123106--1124010 Score: 1066
Period size: 251 Copynumber: 3.6 Consensus size: 250
1123096 ATTTGCCTCT
** * * * * * *
1123106 GAGCTGAATGTAATCGAACTCAAAGGTCTTTGGATGGCAAATAGCCATTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAATAGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATG
*
1123171 CTGCAAAT-ATTATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAAC
66 CTGCAAATGA-TATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAAC
*
1123235 TCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGG
130 CCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGG
* * *
1123300 TCTTTGGATGGTAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTT
195 TCTTT-GATGGTAGATAGCCCTTCT-GACTTGAGCTATGCTGCAAATGATGTGCCTTG
* * * * * * *
1123358 GAGCTGAGTGTAATAGAACTTGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTGTG
1 GAGCTGAGCGTAATAGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATG
* * * *
1123422 CTGCAAATGATATGCCTTGGAGCTGAGTGCAATTGAACTCGAAGGTCTTTGGA-TGGCAGATAGC
66 CTGCAAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTT-TATTGGCAGATAAC
* * * * * *
1123486 CCTTCTCGACTTAAGCTATGCTGCAAAT-ATTGTGCCTTTGAGCTGAGTGTAATCGAACTCGTAG
130 CCTTCTAGCCTTGAGTTATGCTGCAAATGA-TGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAG
* * * * *
1123550 GTCTTTGTTGATAGATAACCCTTCTAACCTTGAGTTATGCTGCAAATGATGTGCCTTG
194 GTCTTTGATGGTAGATAGCCCTTCTGA-CTTGAGCTATGCTGCAAATGATGTGCCTTG
* * * * *
1123608 GAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAATAGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATG
* * * ** ** * * *
1123673 CTGCAAATCATGTGTCTTTAAGCTGAGTGTAATAAAACTCAAAGGTC-TTTGTTGACAGATAACC
66 CTGCAAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACC
* ** *
1123737 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAATTGAGTGTAGTCGAACTCGAAGGT
131 CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGT
* * * * * * *
1123802 ATTTTATTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATAATGTGCCTTG
196 CTTTGA-TGGTAGATAGCCCTTC-TGACTTGAGCTATGCTGCAAATGATGTGCCTTG
* * *
1123859 GAGCTGAGCGTAGTAGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACGTAAACTATG
1 GAGCTGAGCGTAATAGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATG
* * * * *
1123924 CTACAAATGATGTGCCTTGGAGCTGAGCG-AAGTCGAACTCGAAGGTCTTTTGTTGGTAGATAAC
66 CTGCAAATGATATGCCTTGGAGCTGAGTGTAA-TCGAACTCGAAGGTCTTTTATTGGCAGATAAC
1123988 CCTTCTAGCCTTGAGTTATGCTG
130 CCTTCTAGCCTTGAGTTATGCTG
1124011 TCAATAGTTT
Statistics
Matches: 549, Mismatches: 93, Indels: 22
0.83 0.14 0.03
Matches are distributed among these distances:
249 1 0.00
250 141 0.26
251 340 0.62
252 67 0.12
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (250 bp):
GAGCTGAGCGTAATAGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATG
CTGCAAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACC
CTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGT
CTTTGATGGTAGATAGCCCTTCTGACTTGAGCTATGCTGCAAATGATGTGCCTTG
Found at i:1124008 original size:84 final size:84
Alignment explanation
Indices: 1123106--1124010 Score: 985
Period size: 84 Copynumber: 10.8 Consensus size: 84
1123096 ATTTGCCTCT
* * * * * * * * * * *
1123106 GAGCTGAATGTAATCGAACTCAAAGGTCTTTGGATGGCAAATAGCCATTCTCGACTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* *
1123171 CTGCAAAT-ATTATGCCTTT
66 CTGCAAATGA-TGTGCCTTG
* *
1123190 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACTCTTCTAGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
1123255 CTGCAAATGATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * * * *
1123274 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGATGGTAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* *
1123339 CTGTAAATGATGTGCCTTT
66 CTGCAAATGATGTGCCTTG
* * *
1123358 GAGCTGAGTGTAATAGAACTTGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTGTG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1123422 CTGCAAATGATATGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * * * * *
1123441 GAGCTGAGTGCAATTGAACTCGAAGGTCTTTGGATGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1123506 CTGCAAAT-ATTGTGCCTTT
66 CTGCAAATGA-TGTGCCTTG
* ** *
1123525 GAGCTGAGTGTAATCGAACTCGTAGGTC-TTTGTTGATAGATAACCCTTCTAACCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
1123589 CTGCAAATGATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * * * *
1123608 GAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* * *
1123673 CTGCAAATCATGTGTCTTT
66 CTGCAAATGATGTGCCTTG
* ** * *
1123692 AAGCTGAGTGTAATAAAACTCAAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1123756 CTGTAAATGATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
** * * * * * * *
1123775 GAATTGAGTGTAGTCGAACTCGAAGGTATTTTATTGGCAAATAGCCCTTCTTGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
* *
1123840 TTGCAAATAATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * * * * **
1123859 GAGCTGAGCGTAGTAGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACGTAAACTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1123924 CTACAAATGATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
* *
1123943 GAGCTGAGCG-AAGTCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTAT
1 GAGCTGAGTGTAA-TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTAT
1124007 GCTG
65 GCTG
1124011 TCAATAGTTT
Statistics
Matches: 669, Mismatches: 145, Indels: 14
0.81 0.18 0.02
Matches are distributed among these distances:
83 201 0.30
84 467 0.70
85 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (84 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
CTGCAAATGATGTGCCTTG
Found at i:1125351 original size:99 final size:99
Alignment explanation
Indices: 1125179--1125379 Score: 314
Period size: 99 Copynumber: 2.0 Consensus size: 99
1125169 ACAACTCAAG
* * * * *
1125179 ATATTATAATCACCTTTATTAGGCTAGTTGAATATTATCCATAAAGCTGGGGCGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGAGCATTTAACCAATT
1125244 GCTCTAGA-GGACAACTCAAGCTTTATTGTATAT
66 GCTCTAGAGGGACAACTCAAGCTTTATTGTATAT
*
1125277 ATATTATAATCACCTTTATCAGGCTTAGCTGAATCTTATCCATAAAGCCGGAGCATTTAACCAAT
1 ATATTATAATCACCTTTATCAGGC-TAGCTGAATATTATCCATAAAGCCGGAGCATTTAACCAAT
* *
1125342 TGCTTTAGAGGGACATCTCAAGCTTTATTGTATAT
65 TGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT
1125377 ATA
1 ATA
1125380 AAATATTATA
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 23 0.25
99 43 0.46
100 27 0.29
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (99 bp):
ATATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGAGCATTTAACCAATT
GCTCTAGAGGGACAACTCAAGCTTTATTGTATAT
Done.