Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 145 of 343
Found at i:48143588 original size:13 final size:13
Alignment explanation
Indices: 48143570--48143634 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
48143560 TGGCAGCTAG
48143570 GAAAAATAAAGAA
1 GAAAAATAAAGAA
48143583 GAAAAATAAAG-A
1 GAAAAATAAAGAA
* *
48143595 GTAAAGAGAAAGAA
1 G-AAAAATAAAGAA
*
48143609 CAAAAA-AAA-AA
1 GAAAAATAAAGAA
* *
48143620 GAAACATGAAGAA
1 GAAAAATAAAGAA
48143633 GA
1 GA
48143635 CTTAATGATT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
11 6 0.15
12 7 0.17
13 27 0.66
14 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.06
Consensus pattern (13 bp):
GAAAAATAAAGAA
Found at i:48144563 original size:22 final size:22
Alignment explanation
Indices: 48144531--48144575 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
48144521 GATGATTGTG
48144531 GCACTTCGGTGCAAATGAAAGT
1 GCACTTCGGTGCAAATGAAAGT
* * *
48144553 GCACTTTGGTGCAAGTGATAGT
1 GCACTTCGGTGCAAATGAAAGT
48144575 G
1 G
48144576 GCTCTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (22 bp):
GCACTTCGGTGCAAATGAAAGT
Found at i:48146936 original size:47 final size:45
Alignment explanation
Indices: 48146835--48147051 Score: 154
Period size: 48 Copynumber: 4.7 Consensus size: 45
48146825 TATAAGTGCT
* * *
48146835 GATGCATGTCCCAGACATGTCTTACACTAGCACGAAGCTTA-GCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACGCATCTTAGGCC
* * *
48146879 GATTCATGTCCCAGTCACGTCTTACACTGGCTAC-CATCATTGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGC-ACGCATC-TT-AGGCC
* * * * *
48146926 GATGCATGTCCCCAGCCACGTCTTACAGTGGCACTCATCTCTACGCC
1 GATGCATGT-CCCAGACACGTCTTACACTAGCACGCATCT-TAGGCC
* * * * *
48146973 GATTCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAAT-GT-GGCT
1 GA-TGCATGTCCCAGACA-CGTCTTACACTAGC-A-CG-CATCTTAGGCC
* *
48147021 GATGCATGTCCTAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACACGTCTTACACTAGC
48147052 CCTCGTCTCA
Statistics
Matches: 138, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 29 0.21
45 4 0.03
46 14 0.10
47 40 0.29
48 46 0.33
49 2 0.01
50 1 0.01
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCACGCATCTTAGGCC
Found at i:48147068 original size:94 final size:93
Alignment explanation
Indices: 48146783--48147100 Score: 270
Period size: 94 Copynumber: 3.4 Consensus size: 93
48146773 CTTCATTGAG
* * *
48146783 GCCGATGCCATAT-CCAGACATGGTCTTACACTAGCTCTTGTGTATAAGT-GCTGATGCATGTCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCT-AT-CGTA-ATGTGGCTGATGCATGTCC
***
48146846 CAGACATGTCTTACACTAGCACGAAG-CT-TA
63 CAGACATGTCTTACACTAGC-CCTCGTCTCTA
* * * * * * * * * *
48146876 GCCGAT-TCATGTCCCAGTCA-CGTCTTACACTGGCTACCATCATTGAGGCCGATGCATGTCCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTATCGT-AATGTGGCTGATGCATGT-CCC
* * * * * *
48146939 AGCCACGTCTTACAGTGGCACTCATCTCTA
64 AGACATGTCTTACACTAGCCCTCGTCTCTA
* * *
48146969 CGCCGATTCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAATGTGGCTGATGCATGTCCTA
1 -GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTATCGTAATGTGGCTGATGCATGTCCCA
*
48147034 GACATGTCTTACACTAGCCCTCGTCTCAA
65 GACATGTCTTACACTAGCCCTCGTCTCTA
* *
48147063 TGCCGATGCCATATCCTAGATATGGTCTTACACTAGCT
1 -GCCGATGCCATATCCCAGACATGGTCTTACACTAGCT
48147101 CTCACAAAAC
Statistics
Matches: 172, Mismatches: 44, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
90 2 0.01
91 12 0.07
92 37 0.22
93 14 0.08
94 64 0.37
95 27 0.16
96 16 0.09
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTATCGTAATGTGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCCCTCGTCTCTA
Found at i:48151357 original size:48 final size:45
Alignment explanation
Indices: 48151232--48151457 Score: 157
Period size: 47 Copynumber: 4.8 Consensus size: 45
48151222 AAGTTTAGCC
* * * * *
48151232 GATGCATGTCCTAGTCACGTCTTACACTGGCTACCTTCATT-GAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCT--C-TCATTCTACGCT
* *
48151279 GATGCATGTCCCAGACACGTCTTACATTGGCACTCATCTCTACGCT
1 GATGCATGTCCCAGACACGTCTTACACTGGCTCTCAT-TCTACGCT
* * * * ** *
48151325 GATGCCATGTCCCAGACATGGTCTTACATTGGCTGTCGTAATATGGCT
1 GATG-CATGTCCCAGACA-CGTCTTACACTGGCTCTCATTCTA-CGCT
* * * * * * *
48151373 GATGCATGTCCTAGACACGTCTTACACTAGCCCTCGTTTCAATGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTCTC-ATTCTACGCT
*
48151419 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 GATG-CATGTCCCAGACA-CGTCTTACACTGGCTCTCAT
48151458 AAAACCCAAT
Statistics
Matches: 140, Mismatches: 31, Indels: 16
0.75 0.17 0.09
Matches are distributed among these distances:
44 4 0.03
45 2 0.01
46 26 0.19
47 70 0.50
48 38 0.27
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTCTCATTCTACGCT
Found at i:48151378 original size:94 final size:94
Alignment explanation
Indices: 48151279--48151452 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 94
48151269 CATTGAGGCC
* * * *
48151279 GATGCATGTCCCAGACACGTCTTACATTGGCACTCATCTCTACGCTGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGACAT
*
48151344 GGTCTTACATTGGCTGTCGTAATATGGCT
66 GGTCTTACACTGGCTGTCGTAATATGGCT
* * * * *
48151373 GATGCATGTCCTAGACACGTCTTACACTAGCCCTCGTTTCAATGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGACAT
48151438 GGTCTTACACTGGCT
66 GGTCTTACACTGGCT
48151453 CTCATAAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (94 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTGTCGTAATATGGCT
Found at i:48160928 original size:25 final size:25
Alignment explanation
Indices: 48160894--48160956 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
48160884 AATCAAAATG
* *
48160894 AGAATTAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATCAGGTGAC
*
48160919 AGAATCAGAATCAGTATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
48160944 AGAATCAGAATCA
1 AGAATCAGAATCA
48160957 TAATGTGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:48161132 original size:27 final size:26
Alignment explanation
Indices: 48161077--48161157 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
48161067 CAGCATGGCT
* ** *
48161077 ACCAGAACAGATATTGTAACAAAGTC
1 ACCAGAACAGATAATGTGGCAAAGCC
* * *
48161103 ACCAGATACAGATATTGTGGTAGAGCC
1 ACCAGA-ACAGATAATGTGGCAAAGCC
48161130 ACCAGAACAGATAATGTGGCAAAGCC
1 ACCAGAACAGATAATGTGGCAAAGCC
48161156 AC
1 AC
48161158 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 25 0.54
27 21 0.46
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAAAGCC
Found at i:48161826 original size:12 final size:13
Alignment explanation
Indices: 48161798--48161830 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
48161788 TTATTTCTTT
48161798 TTCTCCATCTACC
1 TTCTCCATCTACC
*
48161811 TTCTCC-TCTTCC
1 TTCTCCATCTACC
48161823 TTCTCCAT
1 TTCTCCAT
48161831 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:48162930 original size:28 final size:28
Alignment explanation
Indices: 48162898--48162959 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
48162888 ATTTACTAGA
*
48162898 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
48162926 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
48162954 ATACCC
1 ATACCC
48162960 TTAGGGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:48163128 original size:29 final size:28
Alignment explanation
Indices: 48163068--48163130 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
48163058 AGGAAGCGTC
* *
48163068 CTGGTGGCTATGCCACAAATTATGTGTT
1 CTGGTGGCCATGCCACAAAATATGTGTT
*
48163096 CTGGTGGCCCTGCCACAAAATA-GTTGTAT
1 CTGGTGGCCATGCCACAAAATATG-TGT-T
48163125 CTGGTG
1 CTGGTG
48163131 ACTCTGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 22 0.73
29 7 0.23
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (28 bp):
CTGGTGGCCATGCCACAAAATATGTGTT
Found at i:48163618 original size:19 final size:19
Alignment explanation
Indices: 48163594--48163632 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
48163584 TTTTAATTAT
* *
48163594 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
48163613 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
48163632 T
1 T
48163633 ATGATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:48164210 original size:22 final size:22
Alignment explanation
Indices: 48164182--48164247 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
48164172 GCAAATACGT
48164182 TTGGCACACAGCCATAATCAGA
1 TTGGCACACAGCCATAATCAGA
* *
48164204 TTGGCACACAGCCAT-ATGTAGG
1 TTGGCACACAGCCATAAT-CAGA
*
48164226 TTGGCACAAAGCCATAATCAGA
1 TTGGCACACAGCCATAATCAGA
48164248 AGGCTTTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (22 bp):
TTGGCACACAGCCATAATCAGA
Found at i:48164704 original size:27 final size:27
Alignment explanation
Indices: 48164674--48165167 Score: 466
Period size: 27 Copynumber: 18.3 Consensus size: 27
48164664 GGGGTAGAAT
* *
48164674 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
48164701 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
48164728 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
48164755 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
48164782 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
48164809 TGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
48164836 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
48164863 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
48164890 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
48164917 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
48164944 AGT-ATTTCTACCC-ATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
48164970 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
48164997 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*** * * *
48165024 AACAATTCTACTCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
48165051 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
48165078 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
48165105 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
48165132 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
48165159 AATAATTTT
1 GGTAATTTT
48165168 GTAAATTGAG
Statistics
Matches: 397, Mismatches: 60, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
26 36 0.09
27 349 0.88
28 12 0.03
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:48164721 original size:54 final size:54
Alignment explanation
Indices: 48164674--48165167 Score: 548
Period size: 54 Copynumber: 9.2 Consensus size: 54
48164664 GGGGTAGAAT
* * * *
48164674 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
48164728 AGT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * * * * * * *
48164782 AGTAATTCTACCTTATAGGGGTATTTCTGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
48164836 GGT-ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
48164890 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
48164944 AGT-ATTTCTACCC-ATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * ** *
48164997 GGTAATTCTACCCTATAGGGGTATTTCAACAATTCTACTCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
** * * *
48165051 GGT-ATTTCTACCCTACAAGGGTATTTTGGCATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
48165105 GGTATTTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
**
48165159 AATAATTTT
1 GGTAATTTT
48165168 GTAAATTGAG
Statistics
Matches: 372, Mismatches: 59, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
53 57 0.15
54 306 0.82
55 9 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:48164800 original size:81 final size:81
Alignment explanation
Indices: 48164674--48165158 Score: 603
Period size: 81 Copynumber: 6.0 Consensus size: 81
48164664 GGGGTAGAAT
* * * * * *
48164674 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTAC
48164739 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * * * * *
48164755 GGTAATTCTATCCTACAGGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCTGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTAC
*
48164820 CCTACAAGGGTATTTT
66 CCTACAAGGGTATTTC
* * * * *
48164836 GGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTAC
* *
48164901 CCTATAGGGGTATTTC
66 CCTACAAGGGTATTTC
* * * *
48164917 AGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC-ATAAGGGTATTTCAGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTAC
48164981 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * ** * * *
48164997 GGTAATTCTACCCTATAGGGGTATTTCAACAATTCTACTCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTAC
*
48165062 CCTACAAGGGTATTTT
66 CCTACAAGGGTATTTC
* * * * * *
48165078 GGCATTTCTACCCTACAAGGGTATTTCGGTATTTTTACCCTACAAGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTAC
* *
48165143 CCTATAGGGGTATTTC
66 CCTACAAGGGTATTTC
48165159 AATAATTTTG
Statistics
Matches: 346, Mismatches: 57, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
80 69 0.20
81 277 0.80
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTAC
CCTACAAGGGTATTTC
Found at i:48165269 original size:53 final size:53
Alignment explanation
Indices: 48165212--48165459 Score: 248
Period size: 53 Copynumber: 4.6 Consensus size: 53
48165202 GGGGGACTTT
* * *
48165212 GATAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AATCGACGGTATTTC
1 GATAATTTTACAA-TCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTC
* * * * * * * *
48165265 GATAATTTTATAAACCAGGGGACTTTGGTAATTTTACAAGTTGAGGGTATTTC
1 GATAATTTTACAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTC
* * *
48165318 GGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTC
1 GATAATTTTAC-AATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTC
* * * *
48165372 -AGTAATTTTACAATCGACGGTATTTTGGTAATTTTACAAATCGAGGATATTTG
1 GA-TAATTTTACAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTC
* * * *
48165425 GGTAATTTTATAAACCGGGGGTATTTTAGTAATTT
1 GATAATTTTA-CAATCGAGGGTATTTTAGTAATTT
48165460 GGTAAACTAA
Statistics
Matches: 157, Mismatches: 33, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
52 17 0.11
53 77 0.49
54 63 0.40
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GATAATTTTACAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTC
Found at i:48165396 original size:80 final size:79
Alignment explanation
Indices: 48165214--48165459 Score: 264
Period size: 80 Copynumber: 3.1 Consensus size: 79
48165204 GGGACTTTGA
** * *
48165214 TAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AATCGACGGTA-TTTCGATAATTTTATA
1 TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAG-TAATTTTATA
* * *
48165277 AACCAGGGGACTTTGG
65 AACGAGGGTA-TTTAG
* * *
48165293 TAATTTTACAAGTTGAGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAA
1 TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTATAA
*
48165358 ATTGAGGGTATTTCAG
66 A-CGAGGGTATTT-AG
* * * **
48165374 TAATTTTACAA-TCGACGGTATTTTGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAA
1 TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTATAA
*
48165438 ACCGGGGGTATTTTAG
66 A-CGAGGGTA-TTTAG
48165454 TAATTT
1 TAATTT
48165460 GGTAAACTAA
Statistics
Matches: 140, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
79 33 0.24
80 83 0.59
81 24 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTATAA
ACGAGGGTATTTAG
Found at i:48165449 original size:27 final size:27
Alignment explanation
Indices: 48165214--48165459 Score: 239
Period size: 27 Copynumber: 9.2 Consensus size: 27
48165204 GGGACTTTGA
* **
48165214 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
48165241 TAATTTTAC-AATCGACGGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTCGG
* * *
48165267 TAATTTTATAAA-CCAGGGGACTTT-GG
1 TAATTTTACAAATCGAGGGTA-TTTCGG
* *
48165293 TAATTTTACAAGTTGAGGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* **
48165320 TAATTTTACAAATTGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
48165347 TAATTTTACAAATTGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
48165374 TAATTTTAC-AATCGACGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
48165400 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * * **
48165427 TAATTTTATAAACCGGGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCGG
48165454 TAATTT
1 TAATTT
48165460 GGTAAACTAA
Statistics
Matches: 184, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
26 63 0.34
27 121 0.66
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCGG
Found at i:48166824 original size:55 final size:54
Alignment explanation
Indices: 48166737--48166970 Score: 195
Period size: 55 Copynumber: 4.4 Consensus size: 54
48166727 ATTAGGGTTT
*
48166737 AAGGATACCATGTAAGACCATG-CAAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * *
48166792 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGG-C
* * * *
48166848 AAGG-TCCCATGTACA-ACCATGCCAAGGA-ATGAC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTA-AGACCATGTCAA-GACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
48166900 AATGATACCATGTAAGACCATGTCGAGACATGG-AAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
**
48166949 AAGGATACCACATAAGACCATG
1 AAGGATACCATGTAAGACCATG
48166971 AAAAGTCATG
Statistics
Matches: 146, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
49 19 0.13
52 9 0.06
53 34 0.23
54 11 0.08
55 65 0.45
56 8 0.05
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:48167204 original size:16 final size:16
Alignment explanation
Indices: 48167183--48167213 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48167173 ATAAATTTGA
48167183 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
48167199 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
48167214 CGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:48168930 original size:42 final size:43
Alignment explanation
Indices: 48168851--48168952 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
48168841 TCCCGGACGT
* **
48168851 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAAATCAATATCGATGCCAATGTCCCAGACAG
* *
48168894 GGTCTTACATG-AAATCAGGTAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATATCGATGCCAATGTCCCAGACAG
* *
48168936 GGTCTTATACGTAAATC
1 GGTCTTACATGTAAATC
48168953 TCAATCGAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.62
43 19 0.38
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCAATGTCCCAGACAG
Found at i:48169294 original size:9 final size:9
Alignment explanation
Indices: 48169280--48169304 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48169270 AACCATTCAA
48169280 TCATTCATT
1 TCATTCATT
48169289 TCATTCATT
1 TCATTCATT
48169298 TCATTCA
1 TCATTCA
48169305 AAAGAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCATTCATT
Found at i:48177012 original size:18 final size:18
Alignment explanation
Indices: 48176989--48177027 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
48176979 GTCATGCAAT
48176989 AGTAATCAATGCAGTAAC
1 AGTAATCAATGCAGTAAC
* *
48177007 AGTAATCAGTGTAGTAAC
1 AGTAATCAATGCAGTAAC
48177025 AGT
1 AGT
48177028 TTAAACAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.26
Consensus pattern (18 bp):
AGTAATCAATGCAGTAAC
Found at i:48177405 original size:27 final size:27
Alignment explanation
Indices: 48177375--48177658 Score: 268
Period size: 27 Copynumber: 10.5 Consensus size: 27
48177365 CATAGGGGTG
* *
48177375 AAACAATCATCTTACCATAAAAGGGCA
1 AAACAATCATTTTACCATATAAGGGCA
** * *
48177402 AAACAGGCATTTTACCACATAAGGGTA
1 AAACAATCATTTTACCATATAAGGGCA
*
48177429 AAACAATCATTTTACC-TCATACGGGCA
1 AAACAATCATTTTACCAT-ATAAGGGCA
*
48177456 AAATAATCATTTTACCATATAAGGGCA
1 AAACAATCATTTTACCATATAAGGGCA
* * *
48177483 AATCAGTCATTTTACCCTATAAGGGCA
1 AAACAATCATTTTACCATATAAGGGCA
* *
48177510 AAACAGTCATTTTACC-TCATAAGGGAA
1 AAACAATCATTTTACCAT-ATAAGGGCA
* * * *
48177537 AAATAGTTATTTTACCATATAAGAGCA
1 AAACAATCATTTTACCATATAAGGGCA
* * *
48177564 AAATAGTCATTTTACCCTATAAGGGCA
1 AAACAATCATTTTACCATATAAGGGCA
* * * * *
48177591 AAACAATCATTTTATCACAGAAAGGAA
1 AAACAATCATTTTACCATATAAGGGCA
*
48177618 AAACAATCATTTTATC-TCATAAGGGCA
1 AAACAATCATTTTACCAT-ATAAGGGCA
* *
48177645 AAATAGTCATTTTA
1 AAACAATCATTTTA
48177659 TTAATTTAGG
Statistics
Matches: 212, Mismatches: 40, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.00
27 209 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (27 bp):
AAACAATCATTTTACCATATAAGGGCA
Found at i:48177514 original size:81 final size:81
Alignment explanation
Indices: 48177379--48177658 Score: 359
Period size: 81 Copynumber: 3.5 Consensus size: 81
48177369 GGGGTGAAAC
* * * * *
48177379 AATCATCTTACCATAAAAGGGCAAAACAGGCATTTTACCAC-ATAAGGGTAAAACAATCATTTTA
1 AATCATTTTACCATATAAGGGCAAAATAGTCATTTTACC-CTATAAGGGCAAAACAATCATTTTA
* *
48177443 CCTCATACGGGCAAAAT
65 CCTCATAAGGGAAAAAT
*
48177460 AATCATTTTACCATATAAGGGC-AAATCAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTA
1 AATCATTTTACCATATAAGGGCAAAAT-AGTCATTTTACCCTATAAGGGCAAAACAATCATTTTA
48177524 CCTCATAAGGGAAAAAT
65 CCTCATAAGGGAAAAAT
* * * *
48177541 AGTTATTTTACCATATAAGAGCAAAATAGTCATTTTACCCTATAAGGGCAAAACAATCATTTTAT
1 AATCATTTTACCATATAAGGGCAAAATAGTCATTTTACCCTATAAGGGCAAAACAATCATTTTAC
* * * *
48177606 CACAGAAAGGAAAAAC
66 CTCATAAGGGAAAAAT
*
48177622 AATCATTTTATC-TCATAAGGGCAAAATAGTCATTTTA
1 AATCATTTTACCAT-ATAAGGGCAAAATAGTCATTTTA
48177659 TTAATTTAGG
Statistics
Matches: 174, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
80 5 0.03
81 165 0.95
82 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (81 bp):
AATCATTTTACCATATAAGGGCAAAATAGTCATTTTACCCTATAAGGGCAAAACAATCATTTTAC
CTCATAAGGGAAAAAT
Found at i:48181792 original size:19 final size:19
Alignment explanation
Indices: 48181768--48181811 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
48181758 TAGGCATATG
48181768 GCCCGATGACAAAGACCCA
1 GCCCGATGACAAAGACCCA
*
48181787 GCCCGATGACGAAGACCCA
1 GCCCGATGACAAAGACCCA
48181806 GCCCGA
1 GCCCGA
48181812 GCACCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.39, G:0.25, T:0.05
Consensus pattern (19 bp):
GCCCGATGACAAAGACCCA
Found at i:48183254 original size:27 final size:27
Alignment explanation
Indices: 48183224--48183340 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
48183214 TACTGAAATG
*
48183224 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
48183251 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
48183278 CCCTTGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
48183305 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
48183332 CCCTTGATT
1 CCCTCGATT
48183341 GTGAAATTAC
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:48183287 original size:54 final size:54
Alignment explanation
Indices: 48183238--48183340 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
48183228 CGATTTGTAG
* *
48183238 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTTGATTTACAA
1 AATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTTGATTTACAA
* *
48183292 AATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTTGATT
1 AATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTTGATT
48183341 GTGAAATTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (54 bp):
AATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTTGATTTACAA
Found at i:48183416 original size:54 final size:53
Alignment explanation
Indices: 48183339--48183497 Score: 192
Period size: 54 Copynumber: 2.9 Consensus size: 53
48183329 TTACCCTTGA
* ** *
48183339 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTATTTG-TAAAATTACCAAAATACCCCTAGT
* * * * *
48183393 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAACTACCGAAATACCACTAGT
1 TTGTGAAATTACCGAAATACCCCTA-TTTGTAAAATTACCAAAATACCCCTAGT
* *
48183447 TTGTGAATTTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TTGTGAAATTACCGAAATACCC-CTATTTGTAAAATTACCAAAATACCCCT
48183498 GATTTACAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 83 0.95
55 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (53 bp):
TTGTGAAATTACCGAAATACCCCTATTTGTAAAATTACCAAAATACCCCTAGT
Found at i:48183511 original size:27 final size:27
Alignment explanation
Indices: 48183372--48183497 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
48183362 TATAGGATAG
48183372 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
48183399 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
48183426 AACTACCGAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
48183453 ATTTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
48183480 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
48183498 GATTTACAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 79 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:48183585 original size:27 final size:27
Alignment explanation
Indices: 48183488--48183580 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
48183478 AAAATTACCA
*
48183488 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
48183515 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
48183544 AAATACCATTGGTTTACAAAATTACTA-
1 AAATACCCTTGATTTACAAAATTA-TAG
48183571 AAATACCCTT
1 AAATACCCTT
48183581 TGTTTGTAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
27 28 0.49
28 8 0.14
29 21 0.37
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:48184550 original size:25 final size:25
Alignment explanation
Indices: 48184512--48184581 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
48184502 AGGAAGTGCT
*
48184512 AAAAGGGC-TATGCCCCAGTTTACCG
1 AAAAGGGCAT-TGCCCCAGTTTACCA
* * *
48184537 AAGAGGGCATTGCCCCAATTTATCA
1 AAAAGGGCATTGCCCCAGTTTACCA
* *
48184562 AAAAGGGCTTTGTCCCAGTT
1 AAAAGGGCATTGCCCCAGTT
48184582 ATTAAAAGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCATTGCCCCAGTTTACCA
Found at i:48184775 original size:42 final size:42
Alignment explanation
Indices: 48184728--48184815 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
48184718 TAGTCTCCCC
** * *
48184728 AAATGGGCTTTTATGCATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
48184770 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
48184812 AAAT
1 AAAT
48184816 AGGCCTATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.43
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:48186826 original size:16 final size:16
Alignment explanation
Indices: 48186805--48186836 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48186795 GTTGTAATGC
48186805 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
48186821 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
48186837 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:48188156 original size:19 final size:19
Alignment explanation
Indices: 48188132--48188173 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
48188122 TTCGTGGACT
48188132 TGGGCCGAAATGGGCTAAA
1 TGGGCCGAAATGGGCTAAA
*
48188151 TGGGCCGGAATGGGCTAAA
1 TGGGCCGAAATGGGCTAAA
48188170 TGGG
1 TGGG
48188174 TCTGATGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.43, T:0.17
Consensus pattern (19 bp):
TGGGCCGAAATGGGCTAAA
Found at i:48188284 original size:28 final size:29
Alignment explanation
Indices: 48188253--48188370 Score: 143
Period size: 28 Copynumber: 4.2 Consensus size: 29
48188243 GTGAGCATGA
*
48188253 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
48188281 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
48188310 ATAAGAATAT-AATTGGGCCAAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
48188338 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
48188366 ATATG
1 ATATG
48188371 CATGTATGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
28 46 0.61
29 29 0.39
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:48189498 original size:17 final size:18
Alignment explanation
Indices: 48189476--48189509 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48189466 GTTTACCTGT
*
48189476 GTGGGGCTCACA-GGTCG
1 GTGGGGCCCACACGGTCG
48189493 GTGGGGCCCACACGGTC
1 GTGGGGCCCACACGGTC
48189510 TATTTTTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.29, G:0.44, T:0.15
Consensus pattern (18 bp):
GTGGGGCCCACACGGTCG
Found at i:48197022 original size:34 final size:34
Alignment explanation
Indices: 48196976--48197057 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
48196966 CTGAACAGAC
* **
48196976 TGGGCCTAAGCCCATAT-CAATCGCAATATCAGTG
1 TGGGCCTTAGCCCA-ATGCAATAACAATATCAGTG
* *
48197010 TGGGCCTTAGCCCAATGCAGTAACACTATCAGTG
1 TGGGCCTTAGCCCAATGCAATAACAATATCAGTG
48197044 TGGGCCTTAGCCCA
1 TGGGCCTTAGCCCA
48197058 CTTCAGTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 2 0.05
34 40 0.95
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (34 bp):
TGGGCCTTAGCCCAATGCAATAACAATATCAGTG
Found at i:48204476 original size:27 final size:26
Alignment explanation
Indices: 48204433--48204580 Score: 129
Period size: 27 Copynumber: 5.5 Consensus size: 26
48204423 TCCTATTTGG
48204433 TCGAAATA-CCCTCGATTTGTAAAATTA
1 TCGAAATACCCCT-G-TTTGTAAAATTA
*
48204460 TCAAAATACCCCTGATTTGTAAAATTA
1 TCGAAATACCCCTG-TTTGTAAAATTA
*
48204487 TCGAAATACCTCCAGTTTGTAAAATT-
1 TCGAAATACC-CCTGTTTGTAAAATTA
* * *
48204513 TCTGAAATAACCTTGTAGTGTAAAATTA
1 TC-GAAATACCCCTGT-TTGTAAAATTA
* * * *
48204541 CCAAAATACCCTTGTAGTGTAAAATTA
1 TCGAAATACCCCTGT-TTGTAAAATTA
*
48204568 TCGAAATAACCCT
1 TCGAAATACCCCT
48204581 ATAGGGTAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.05
27 89 0.87
28 8 0.08
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (26 bp):
TCGAAATACCCCTGTTTGTAAAATTA
Found at i:48204680 original size:34 final size:34
Alignment explanation
Indices: 48204641--48204734 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 34
48204631 TATAAATTTG
*
48204641 ACTGATTTGACTGTGATTGTATGACTGTGCTTTA
1 ACTGATTTGACTGTGATTGTATGACTGTCCTTTA
48204675 ACTGATTTGACTGTGATTGTATGACTGTCCTTTA
1 ACTGATTTGACTGTGATTGTATGACTGTCCTTTA
* * *
48204709 ATTGACTTG-CTTGTGGTTGTATGACT
1 ACTGATTTGAC-TGTGATTGTATGACT
48204735 ACATGCTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 1 0.02
34 54 0.98
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (34 bp):
ACTGATTTGACTGTGATTGTATGACTGTCCTTTA
Found at i:48207896 original size:27 final size:27
Alignment explanation
Indices: 48207854--48208024 Score: 152
Period size: 27 Copynumber: 6.3 Consensus size: 27
48207844 TATTTGGCCA
48207854 AAATACCCTC-AGTTTGTAAAATTACCG
1 AAATACCCTCGA-TTTGTAAAATTACCG
* * * *
48207881 AAATACCCCCGATTTGTAAAATCATCA
1 AAATACCCTCGATTTGTAAAATTACCG
48207908 AAATACCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
* * *
48207935 AAATA-CCTCCAGTTTGTAAAATTTCTG
1 AAATACCCTCGA-TTTGTAAAATTACCG
* * * *
48207962 AAATAACCTTG-TAGTGTAAAATTACCA
1 AAATACCCTCGAT-TTGTAAAATTACCG
* * *
48207989 AAATACCCTTG-TAGTGTAAAATTATCG
1 AAATACCCTCGAT-TTGTAAAATTACCG
48208016 AAATACCCT
1 AAATACCCT
48208025 TGTAGGGTAA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.05
27 110 0.92
28 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCG
Found at i:48207966 original size:54 final size:54
Alignment explanation
Indices: 48207852--48207956 Score: 169
Period size: 54 Copynumber: 1.9 Consensus size: 54
48207842 CCTATTTGGC
*
48207852 CAAAATACCCTC-AGTTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATCAT
1 CAAAATACCCTCGA-TTTGTAAAATTACCGAAATACCCCAGATTTGTAAAATCAT
48207906 CAAAATACCCTCGATTTGTAAAATTACCGAAATACCTCCAG-TTTGTAAAAT
1 CAAAATACCCTCGATTTGTAAAATTACCGAAATACC-CCAGATTTGTAAAAT
48207957 TTCTGAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
54 44 0.92
55 4 0.08
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (54 bp):
CAAAATACCCTCGATTTGTAAAATTACCGAAATACCCCAGATTTGTAAAATCAT
Found at i:48207980 original size:54 final size:52
Alignment explanation
Indices: 48207868--48208037 Score: 171
Period size: 54 Copynumber: 3.2 Consensus size: 52
48207858 ACCCTCAGTT
* * * * *
48207868 TGTAAAATTACCGAAATACCCCCGATTTGTAAAATCATCAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCCAG-TTTGTAAAAT-TTCGAAATACCCTTGTA-G
*
48207922 TGTAAAATTACCGAAATACCTCCAGTTTGTAAAATTTCTGAAATAACCTTGTAG
1 TGTAAAATTACCGAAATACC-CCAGTTTGTAAAATTTC-GAAATACCCTTGTAG
* ** *
48207976 TGTAAAATTACCAAAATACCCTTGTAGTGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCCAGT-TTGTAAAATT-TCGAAATACCCTTGTAG
*
48208030 GGTAAAAT
1 TGTAAAAT
48208038 GACTATTTTG
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
53 5 0.05
54 88 0.89
55 6 0.06
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (52 bp):
TGTAAAATTACCGAAATACCCCAGTTTGTAAAATTTCGAAATACCCTTGTAG
Found at i:48208125 original size:34 final size:34
Alignment explanation
Indices: 48208082--48208180 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 34
48208072 GGACTATGAA
* *
48208082 TTTAACTGATTTGATTGTGATTATATGACTGTGT
1 TTTAACTGATTTGACTGTGATTGTATGACTGTGT
* *
48208116 TTTAACTGATTTGACTATGATTGTATGACTTTGT
1 TTTAACTGATTTGACTGTGATTGTATGACTGTGT
* * *
48208150 TTTAATTGACTTGACTGTGGTTGTATGACTG
1 TTTAACTGATTTGACTGTGATTGTATGACTG
48208181 ACATGATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.22, C:0.08, G:0.21, T:0.48
Consensus pattern (34 bp):
TTTAACTGATTTGACTGTGATTGTATGACTGTGT
Found at i:48214660 original size:57 final size:58
Alignment explanation
Indices: 48214565--48214679 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 58
48214555 ATAGAAATGG
* * * *
48214565 TGAAAATTGATAAATGAGAAACATTTGGAAATGAATGTGTTTTTCTCCAAAATGAAAA
1 TGAAAATTGAGAAATGAGAAAAATTTGGAAATGAATGTGATTTCCTCCAAAATGAAAA
*
48214623 TGAAAATTGAGAAATGA-AAAAATTTGGAAATTAATGTGATTTCCTCCAAAATGAAAA
1 TGAAAATTGAGAAATGAGAAAAATTTGGAAATGAATGTGATTTCCTCCAAAATGAAAA
48214680 AAAAGAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
57 36 0.69
58 16 0.31
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.30
Consensus pattern (58 bp):
TGAAAATTGAGAAATGAGAAAAATTTGGAAATGAATGTGATTTCCTCCAAAATGAAAA
Found at i:48220885 original size:43 final size:43
Alignment explanation
Indices: 48220743--48220886 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 43
48220733 TCATACAATA
* * * *
48220743 CCAACATCCCAGACGTGGTCTTACATGT-AATCAAATATCGATG
1 CCAACATCCCAGACATGGTCTTACACGTAAATCAAATA-CGTTT
* * * *
48220786 CC-ACTATCCTAGACAGGGTCTTACACG-AAATCACATACGATAT
1 CCAAC-ATCCCAGACATGGTCTTACACGTAAATCAAATACG-TTT
* ** *
48220829 -CGATGTCCAAGACATGGTCTTACACGTAAATCAAATACGTTT
1 CCAACATCCCAGACATGGTCTTACACGTAAATCAAATACGTTT
*
48220871 CCAACGTCCCAGACAT
1 CCAACATCCCAGACAT
48220887 ACGTAAATCA
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 26 0.33
43 52 0.67
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
CCAACATCCCAGACATGGTCTTACACGTAAATCAAATACGTTT
Found at i:48221480 original size:148 final size:150
Alignment explanation
Indices: 48221211--48221508 Score: 537
Period size: 148 Copynumber: 2.0 Consensus size: 150
48221201 TTTCTTTAGT
* *
48221211 TCTTGATCTATATAAATTTAAATTTAACTTATTCAATTTCACATTCATTCAAATCAATCCAAAAA
1 TCTTGATCAATATAAATTTAAATTTAACTTATTCAATTTCACATTCATTCAAATAAATCCAAAAA
*
48221276 CACATATTTAGGGCACTTTACAAACTAGCCTTCACATTTTCACATTTTGACACTTAAG-TCCCTA
66 CACATATTTAGGGCACTTTACAAACTAGCCCTCACATTTTCACATTTTGACACTTAAGCTCCCTA
48221340 TTTCACAAAATCACAAAATA
131 TTTCACAAAATCACAAAATA
*
48221360 TCTTGATCAATATAAATTTAAATTTAACTTATTC-ATTTCACATTCATTCAAATAAATCCAAGAA
1 TCTTGATCAATATAAATTTAAATTTAACTTATTCAATTTCACATTCATTCAAATAAATCCAAAAA
48221424 CACATATTTAGGGCACTTTACAAACTAGCCCTCACATTTTCACATTTTGACACTTAAGTCTCCCT
66 CACATATTTAGGGCACTTTACAAACTAGCCCTCACATTTTCACATTTTGACACTTAAG-CTCCCT
48221489 ATTTCACAAAATCACAAAAT
130 ATTTCACAAAATCACAAAAT
48221509 CCACATAATT
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
148 85 0.59
149 33 0.23
150 25 0.17
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (150 bp):
TCTTGATCAATATAAATTTAAATTTAACTTATTCAATTTCACATTCATTCAAATAAATCCAAAAA
CACATATTTAGGGCACTTTACAAACTAGCCCTCACATTTTCACATTTTGACACTTAAGCTCCCTA
TTTCACAAAATCACAAAATA
Found at i:48223492 original size:16 final size:16
Alignment explanation
Indices: 48223471--48223513 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48223461 ATGAATTGGC
* *
48223471 AAAAGCCGAAATGCCG
1 AAAAGCCAAAATGCCA
48223487 AAAAGCCAAAATGCCA
1 AAAAGCCAAAATGCCA
*
48223503 AAAAGCTAAAA
1 AAAAGCCAAAA
48223514 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.56, C:0.21, G:0.16, T:0.07
Consensus pattern (16 bp):
AAAAGCCAAAATGCCA
Found at i:48223783 original size:29 final size:29
Alignment explanation
Indices: 48223747--48223838 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
48223737 TAGGCCCAAC
48223747 GGGCCATATAAATGTGATTTGGG-TCTAAT
1 GGGCCATATAAATGTGATTTGGGCT-TAAT
* * *
48223776 GGGCCATATACAGGTGATTTGGGCTTAAA
1 GGGCCATATAAATGTGATTTGGGCTTAAT
* *
48223805 GGGCCATATGAATATGA-TTGGGCTTAAT
1 GGGCCATATAAATGTGATTTGGGCTTAAT
48223833 GGGCCA
1 GGGCCA
48223839 GATACAGGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 16 0.30
29 37 0.69
30 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (29 bp):
GGGCCATATAAATGTGATTTGGGCTTAAT
Found at i:48237265 original size:20 final size:18
Alignment explanation
Indices: 48237231--48237270 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
48237221 CCTAATTTTT
48237231 CTTTTTCTTTTTCTTTCC
1 CTTTTTCTTTTTCTTTCC
48237249 CTTTTTCCTTCTTTCTTTCC
1 CTTTTT-CTT-TTTCTTTCC
48237269 CT
1 CT
48237271 ACTAATCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTTCTTTTTCTTTCC
Found at i:48249606 original size:93 final size:93
Alignment explanation
Indices: 48249494--48249665 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48249484 CGCCCATAAG
* *
48249494 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48249559 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48249587 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48249652 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48249666 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48249662 original size:46 final size:46
Alignment explanation
Indices: 48249487--48249662 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48249477 TGTAACCCGC
* * *
48249487 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48249533 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48249583 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48249626 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48249663 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48255110 original size:100 final size:101
Alignment explanation
Indices: 48254903--48255164 Score: 404
Period size: 103 Copynumber: 2.6 Consensus size: 101
48254893 TTGTATATAA
** * *
48254903 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCG-TGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
*
48254967 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAA--TAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
48255006 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCATATCTT
48255070 TGAAA-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
48255106 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGATATCCACCA
48255165 ATAACGGTTA
Statistics
Matches: 149, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
100 56 0.38
101 30 0.20
102 3 0.02
103 59 0.40
104 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGATATCCACCATATCTTT
GAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:48262484 original size:26 final size:26
Alignment explanation
Indices: 48262449--48262500 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
48262439 AATGTGAAAG
*
48262449 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
48262475 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
48262501 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:48262619 original size:102 final size:102
Alignment explanation
Indices: 48262371--48262634 Score: 433
Period size: 103 Copynumber: 2.6 Consensus size: 102
48262361 TTGTATATAA
** *
48262371 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
48262435 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAA-GTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
48262474 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
48262539 TGAAA-TAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAAGTAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
48262576 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
48262635 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
101 25 0.16
102 62 0.41
103 65 0.42
104 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:48267287 original size:93 final size:93
Alignment explanation
Indices: 48267175--48267346 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48267165 CGCCCATAAG
* *
48267175 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48267240 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48267268 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48267333 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48267347 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48267343 original size:46 final size:46
Alignment explanation
Indices: 48267168--48267343 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48267158 TGTAACCCGC
* * *
48267168 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48267214 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48267264 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48267307 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48267344 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48275997 original size:43 final size:43
Alignment explanation
Indices: 48275949--48276033 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
48275939 ATCTCCTAAT
* *
48275949 AGGATTATCGCGTGGGAGATATCATCATCAATCGTCATCAACC
1 AGGATTATCGCGTGGGAGATAACATCATCAATCATCATCAACC
48275992 AGGATTATCGCGTGGGAGATAACATCATCAATCATCATCAAC
1 AGGATTATCGCGTGGGAGATAACATCATCAATCATCATCAAC
48276034 TAGGTGTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (43 bp):
AGGATTATCGCGTGGGAGATAACATCATCAATCATCATCAACC
Found at i:48276567 original size:27 final size:26
Alignment explanation
Indices: 48276526--48276585 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
48276516 CGCCACATAT
* *
48276526 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
48276552 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
48276579 ATATCTG
1 ATATCTG
48276586 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:48280388 original size:43 final size:43
Alignment explanation
Indices: 48280327--48280411 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
48280317 GTCTCCTAAC
* * *
48280327 AGGATTATCGCGTGGGAGATATCGTCATCAATCATCATCAACT
1 AGGATTATCGCATAGGAGATATCATCATCAATCATCATCAACT
*
48280370 AGGATTATCGCATAGGAGATATCATCATCAATCGTCATCAAC
1 AGGATTATCGCATAGGAGATATCATCATCAATCATCATCAAC
48280412 CAGGTGTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
AGGATTATCGCATAGGAGATATCATCATCAATCATCATCAACT
Found at i:48297380 original size:30 final size:31
Alignment explanation
Indices: 48297304--48297386 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
48297294 TCAGTCTCGA
48297304 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
48297334 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
48297365 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
48297387 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:48297634 original size:25 final size:25
Alignment explanation
Indices: 48297606--48297675 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
48297596 CTCTTTTAAT
* *
48297606 AACTGGGGTAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
48297631 AACTGGGGCAGAGCCCTTTTCGATA
1 AACTGGGGCAGAGCCCTTTTCGATA
*
48297656 AACTAGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
48297676 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:48298714 original size:27 final size:26
Alignment explanation
Indices: 48298577--48298841 Score: 190
Period size: 27 Copynumber: 9.8 Consensus size: 26
48298567 ATTTCATCCT
* * *
48298577 ACAAGGGTGTTTTGGTAAATCTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* ** **
48298603 ACCAATGGTATTTCAGTAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
48298630 ACCAATGGTATTTCT-ATAATTTTTAGAA
1 A-CAAGGGTATTT-TGGTAA-TTTTACAA
* ** **
48298658 AGTCAAAGGTATTTTTATAATTTTGTAA
1 A--CAAGGGTATTTTGGTAATTTTACAA
48298686 ATCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
** * *
48298713 ATTGAGGGTATTTCGGTAATTTCACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
48298740 ACTAGTGGTATTTCGGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAA
*
48298767 ACTAGGGGTATTTTGGTAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
48298794 ACTAGGGGTATTTTGGTAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
48298821 ACTAGGGGTATTTTGGTAATT
1 AC-AAGGGTATTTTGGTAATT
48298842 CTATCCTACA
Statistics
Matches: 201, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.01
27 168 0.84
28 16 0.08
29 14 0.07
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:48298855 original size:54 final size:53
Alignment explanation
Indices: 48298691--48298874 Score: 228
Period size: 54 Copynumber: 3.4 Consensus size: 53
48298681 TGTAAATCAA
* * *
48298691 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTT-ACAAACTAG
*
48298745 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTTACAAACTAG
* **
48298799 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATT-TA-CAAACTAG
* *
48298853 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTTACAA
48298875 TCGAGGGTAA
Statistics
Matches: 115, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
53 2 0.02
54 105 0.91
55 8 0.07
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTACAAACTAG
Found at i:48298855 original size:81 final size:81
Alignment explanation
Indices: 48298691--48298883 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 81
48298681 TGTAAATCAA
* *
48298691 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCGG
*
48298756 TAATTTTACAAACTAG
66 TAATTCTACAAACTAG
* * *
48298772 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCG
**
48298836 GTAATTCTATCCTAC-AG
65 GTAATTCTA-CAAACTAG
** * *
48298853 GGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTA
48298884 AAACTATAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 83 0.86
82 5 0.05
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCGG
TAATTCTACAAACTAG
Found at i:48298860 original size:27 final size:27
Alignment explanation
Indices: 48298691--48298841 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
48298681 TGTAAATCAA
*
48298691 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
48298717 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
48298745 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
48298772 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
48298799 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
48298826 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
48298842 CTATCCTACA
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 114 0.98
28 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:48298928 original size:27 final size:27
Alignment explanation
Indices: 48298873--48298935 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
48298863 GTAATTTCAC
* *
48298873 AATCGAGGGTAAAACTATAATTTTGTA
1 AATCGAGGGTAAAACTATAATTCTATA
*
48298900 AATCGAGGGTAAAAC-AGTGATTCTATA
1 AATCGAGGGTAAAACTA-TAATTCTATA
*
48298927 AATTGAGGG
1 AATCGAGGG
48298936 CATTTCTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACTATAATTCTATA
Found at i:48301421 original size:40 final size:40
Alignment explanation
Indices: 48301377--48301481 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
48301367 CGACCAAAAA
* * *
48301377 TCGGCTATTTGTGGTACTTAGTGTGCGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
* * *
48301417 TCGGCTATATATGGCACTTAGTGTGCTATTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
** * *
48301457 TCAACTATGTACGGCACTTAGTGTG
1 TCGGCTATATATGGCACTTAGTGTG
48301482 TGAGATATCG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
Found at i:48310076 original size:40 final size:40
Alignment explanation
Indices: 48309997--48310157 Score: 225
Period size: 40 Copynumber: 4.0 Consensus size: 40
48309987 TGGATGATAA
* * * *
48309997 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
48310037 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
48310077 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
48310117 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
48310157 C
1 C
48310158 TGTCTAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:48312161 original size:40 final size:40
Alignment explanation
Indices: 48312106--48312182 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
48312096 CGCCAATTTG
*
48312106 TGGCACTTAGTGTGCGATTCT-ACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATT-TGACATAGCTTCGACTATATA
*
48312146 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGACTAT
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGACTAT
48312183 GTACGACACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGACATAGCTTCGACTATATA
Found at i:48312193 original size:40 final size:40
Alignment explanation
Indices: 48312109--48312199 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
48312099 CAATTTGTGG
* * *
48312109 CACTTAGTGTGCGATTCTACATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGATTCTACATAGCTTCGACTATATACGA
* *
48312149 CACTTAGTGTGCGATT-TGAGATAGCTTCGACTATGTACGA
1 CACTTAGTGTGCGATTCT-ACATAGCTTCGACTATATACGA
*
48312189 CACTTGGTGTG
1 CACTTAGTGTG
48312200 TGAGATATCG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (40 bp):
CACTTAGTGTGCGATTCTACATAGCTTCGACTATATACGA
Found at i:48312229 original size:28 final size:28
Alignment explanation
Indices: 48312189--48312255 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
48312179 CTATGTACGA
* *
48312189 CACTTGGTGTGTGAGATATCGAGTGTGG
1 CACTTAGTGTGTGAGATATCGAGTATGG
*
48312217 CACTTAGTGTGTGTGATATCGAGTATGG
1 CACTTAGTGTGTGAGATATCGAGTATGG
* *
48312245 TATTTAGTGTG
1 CACTTAGTGTG
48312256 CGAGGCATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.19, C:0.09, G:0.34, T:0.37
Consensus pattern (28 bp):
CACTTAGTGTGTGAGATATCGAGTATGG
Found at i:48316081 original size:30 final size:31
Alignment explanation
Indices: 48316033--48316090 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
48316023 TTTCCTAGCC
*
48316033 TAGGGGCAAAATCATAATTCTG-CAAAGGTT
1 TAGGAGCAAAATCATAATTCTGCCAAAGGTT
** *
48316063 TAGGAGCAAAATTGTAATTTTGCCAAAG
1 TAGGAGCAAAATCATAATTCTGCCAAAG
48316091 TTTGAGTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (31 bp):
TAGGAGCAAAATCATAATTCTGCCAAAGGTT
Found at i:48316650 original size:44 final size:44
Alignment explanation
Indices: 48316585--48316668 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
48316575 TTGATATCTT
* *
48316585 AAAGTCCATAGTTGTACCATGGCAAATAAGGAAGAATTGAAAAA
1 AAAGTCCATAGTTATAACATGGCAAATAAGGAAGAATTGAAAAA
** *
48316629 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATAGTT-ATAACATGGCAAATAAGGAAGAATTGA
48316669 CGGTTAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (44 bp):
AAAGTCCATAGTTATAACATGGCAAATAAGGAAGAATTGAAAAA
Found at i:48316980 original size:55 final size:54
Alignment explanation
Indices: 48316859--48317005 Score: 179
Period size: 55 Copynumber: 2.7 Consensus size: 54
48316849 ACAAGGATAT
* * *
48316859 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAAGAAAT
1 CATGAAAGACCATGCCAAGGCATGGCATTGATGAGTTCTAGAAGGCAAAGAAAC
* * * ***
48316913 CAT-ATAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCC
1 CATGA-AAGACCATGCCAAGGCATGGCATTGATGAGTT-CTAGAAGGCAAAGAAAC
*
48316968 CATGAAAGACCATGCCAAGGCATGGCATTGGTGAGTTC
1 CATGAAAGACCATGCCAAGGCATGGCATTGATGAGTTC
48317006 ATAAAGCAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
54 33 0.42
55 44 0.56
56 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (54 bp):
CATGAAAGACCATGCCAAGGCATGGCATTGATGAGTTCTAGAAGGCAAAGAAAC
Found at i:48317350 original size:54 final size:55
Alignment explanation
Indices: 48317285--48317432 Score: 201
Period size: 54 Copynumber: 2.7 Consensus size: 55
48317275 TTTGGTAAGA
*
48317285 CAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTAGAAGG
1 CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
* * * *
48317339 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGG
1 CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
***
48317394 CAAAGG-CCCCATGTAAGACCATGCCAAGGCATGGCATTG
1 C-AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTG
48317433 GTGAGTTCAT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 42 0.51
55 36 0.44
56 4 0.05
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (55 bp):
CAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTACTAGAAGG
Found at i:48317405 original size:435 final size:435
Alignment explanation
Indices: 48316595--48317458 Score: 1629
Period size: 435 Copynumber: 2.0 Consensus size: 435
48316585 AAAGTCCATA
*
48316595 GTTGTACCATGGCAAATAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCATTTAAGG
1 GTTGTACCATGGCAAATAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCATTTAAGA
*
48316660 AGGAATTGACGGTTAAGGATACCATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAG
66 AGGAATTGACGGTTAAGGATACCATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAA
48316725 ACCATGTCAAGACATGGCATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAGATATGGC
131 ACCATGTCAAGACATGGCATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAGATATGGC
*
48316790 ATTAACACTAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
196 ATTAACACTAAGACAAGGATACCATGGAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
48316855 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAAGAAATCATATAA
261 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAAGAAATCATATAA
48316920 GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGAAAGACCATGCCA
326 GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGAAAGACCATGCCA
48316985 AGGCATGGCATTGGTGAGTTCATAAAGCAAGGATACCACATCATC
391 AGGCATGGCATTGGTGAGTTCATAAAGCAAGGATACCACATCATC
*
48317030 GTTGTACCATGGCAATTAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCATTTAAGA
1 GTTGTACCATGGCAAATAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCATTTAAGA
48317095 AGGAATTGACGGTTAAGGATACCATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAA
66 AGGAATTGACGGTTAAGGATACCATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAA
* *
48317160 ACCATGTCAAGACATGGCATTGGCATTGATTAAGGACTCCATGTAAGACCACATCAAGATGTGGC
131 ACCATGTCAAGACATGGCATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAGATATGGC
*
48317225 ATTAACACTAAGACAAGGATGCCATGGAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
196 ATTAACACTAAGACAAGGATACCATGGAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
* *
48317290 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAGGAAATCATGTAA
261 ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAAGAAATCATATAA
*
48317355 GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGTAAGACCATGCCA
326 GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGAAAGACCATGCCA
*
48317420 AGGCATGGCATTGGTGAGTTCATAAAGCAATGATACCAC
391 AGGCATGGCATTGGTGAGTTCATAAAGCAAGGATACCAC
48317459 GTAAGATGAT
Statistics
Matches: 418, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
435 418 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (435 bp):
GTTGTACCATGGCAAATAAGGAAGAATTGAAAAAAAAGTCCATGTTCATAACATGGCATTTAAGA
AGGAATTGACGGTTAAGGATACCATGTAAGACCATGGCATTGGTATGGCTAGGATCTCGTGTAAA
ACCATGTCAAGACATGGCATCGGCATTGATTAAGGACTCCATGTAAGACCACATCAAGATATGGC
ATTAACACTAAGACAAGGATACCATGGAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
ATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGCAAAGAAATCATATAA
GACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCCCATGAAAGACCATGCCA
AGGCATGGCATTGGTGAGTTCATAAAGCAAGGATACCACATCATC
Found at i:48317415 original size:55 final size:54
Alignment explanation
Indices: 48317294--48317482 Score: 195
Period size: 55 Copynumber: 3.5 Consensus size: 54
48317284 ACAAGGATAT
* * * *
48317294 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTAGAAGGC-AAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-AAC
* **
48317348 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGCCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGAAC
* * * *
48317403 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAGC-AATGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGA-AC
* ** *
48317456 CACGTAAGATGATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
48317483 ATGGTAAGTT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 3 0.03
53 29 0.26
54 35 0.31
55 42 0.37
56 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGAAC
Found at i:48321316 original size:22 final size:22
Alignment explanation
Indices: 48321274--48321317 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
48321264 AATTATTTAC
* *
48321274 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
48321296 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
48321318 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:48321614 original size:40 final size:40
Alignment explanation
Indices: 48321540--48321761 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
48321530 AACTCAAGTA
* *
48321540 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
48321579 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
48321619 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
48321659 CCTTCGGGACTTAGCCCGGATATAGTCAATAACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
48321699 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
48321739 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
48321762 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 152 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:48335413 original size:82 final size:80
Alignment explanation
Indices: 48335291--48335512 Score: 301
Period size: 82 Copynumber: 2.8 Consensus size: 80
48335281 TATTCGGATG
*
48335291 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
**
48335355 TTTGTGCGAGTAGTTG-CT
66 TTCATGC---TAG-TGACT
*
48335373 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
48335437 TTCATGCTAGTGACT
66 TTCATGCTAGTGACT
* * *
48335452 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
48335513 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
78 2 0.02
79 22 0.17
80 37 0.29
81 17 0.13
82 51 0.40
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCTAGTGACT
Found at i:48335431 original size:40 final size:40
Alignment explanation
Indices: 48335291--48335512 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
48335281 TATTCGGATG
* *
48335291 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
48335330 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
48335373 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
48335412 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
48335452 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
48335492 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
48335513 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
38 2 0.01
39 40 0.24
40 85 0.52
41 2 0.01
42 28 0.17
43 7 0.04
44 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:48343116 original size:40 final size:40
Alignment explanation
Indices: 48343059--48343282 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
48343049 TATTCGGATG
* * *
48343059 ATATCCAGGCTATGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
48343099 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
48343142 ATACCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
48343182 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
48343222 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
48343262 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
48343283 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 12 0.08
40 110 0.69
41 1 0.01
43 36 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:48345464 original size:49 final size:47
Alignment explanation
Indices: 48345399--48345526 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 47
48345389 TGTTGGGTGT
*
48345399 CAGTGTAAGACCTGTCTGGGACATGGCATC-AGCTTGGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGA-CTT-GA-ATATGAAAGC
* * * * **
48345448 TAGTGTAAGACCTGTCTAGGACACGGCATCGACTTTAATATGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTGAATATGAAAGC
48345495 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCG
48345527 GCATTTGATC
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 18 0.27
48 18 0.27
49 30 0.45
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTGAATATGAAAGC
Found at i:48353289 original size:36 final size:36
Alignment explanation
Indices: 48353221--48353289 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
48353211 TTGGTCGCAT
* *
48353221 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA
1 GTGTAGTACTAAGTGCAAGCTACTACGCGTACCCGA
*
48353257 GTGTAGTACTAAGTGCAAGCTACTACGTGTACC
1 GTGTAGTACTAAGTGCAAGCTACTACGCGTACC
48353290 AGATTATTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (36 bp):
GTGTAGTACTAAGTGCAAGCTACTACGCGTACCCGA
Found at i:48353315 original size:85 final size:85
Alignment explanation
Indices: 48353172--48353338 Score: 289
Period size: 85 Copynumber: 2.0 Consensus size: 85
48353162 GAGGTCACGT
* *
48353172 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGC
*
48353237 AGGCTACTATGCGTACCCGA
66 AAGCTACTATGCGTACCCGA
*
48353257 GTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGC
*
48353322 AAGCTACTATGTGTACC
66 AAGCTACTATGCGTACC
48353339 AGATGGCTTC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (85 bp):
GTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGC
AAGCTACTATGCGTACCCGA
Found at i:48359462 original size:12 final size:12
Alignment explanation
Indices: 48359445--48359477 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
48359435 CCGTGTGTGA
48359445 TACACGGTCATG
1 TACACGGTCATG
48359457 TACACGGTCATG
1 TACACGGTCATG
48359469 TACACGGTC
1 TACACGGTC
48359478 GTGTGTCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (12 bp):
TACACGGTCATG
Found at i:48364533 original size:7 final size:7
Alignment explanation
Indices: 48364521--48364553 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
48364511 AAAATAAAAG
48364521 TTTTTTA
1 TTTTTTA
48364528 TTTTTTA
1 TTTTTTA
48364535 TTTTTTA
1 TTTTTTA
48364542 TTTTTTA
1 TTTTTTA
48364549 TTTTT
1 TTTTT
48364554 AATAAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:48364595 original size:7 final size:7
Alignment explanation
Indices: 48364577--48364606 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
48364567 ATAACAAATA
48364577 ATATATT
1 ATATATT
48364584 AATATATT
1 -ATATATT
48364592 ATATATT
1 ATATATT
48364599 ATATATT
1 ATATATT
48364606 A
1 A
48364607 ATTGTCATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:48371795 original size:48 final size:48
Alignment explanation
Indices: 48371724--48371819 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
48371714 TTCTTCTTCT
*
48371724 TCTTTGGCAGTTCTGGGCTATTGTTTCGATCAGTATGGGTAAGTGGTA
1 TCTTTGGCAGTTCTAGGCTATTGTTTCGATCAGTATGGGTAAGTGGTA
*
48371772 TCTTTGGCAGTTCTAGGCTATTGTTTCGATCAGTGTGGGTAAGTGGTA
1 TCTTTGGCAGTTCTAGGCTATTGTTTCGATCAGTATGGGTAAGTGGTA
48371820 ATCCTTCTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.17, C:0.12, G:0.31, T:0.40
Consensus pattern (48 bp):
TCTTTGGCAGTTCTAGGCTATTGTTTCGATCAGTATGGGTAAGTGGTA
Found at i:48373039 original size:34 final size:34
Alignment explanation
Indices: 48372992--48373067 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
48372982 ATTGCATTTT
*
48372992 CTGATACTGTTATTGTAATGGGCTAAAGCCCACA
1 CTGATACTATTATTGTAATGGGCTAAAGCCCACA
*
48373026 CTGATACTATTATTGTAATGGGCTAAGGCCCACA
1 CTGATACTATTATTGTAATGGGCTAAAGCCCACA
*
48373060 TTGATACT
1 CTGATACT
48373068 GGATTGTAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (34 bp):
CTGATACTATTATTGTAATGGGCTAAAGCCCACA
Found at i:48373503 original size:40 final size:40
Alignment explanation
Indices: 48373448--48373527 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
48373438 CGCAAGAAAG
48373448 AATGTTTTCGATAACTAATAACAATTCAACATACTTGACA
1 AATGTTTTCGATAACTAATAACAATTCAACATACTTGACA
48373488 AATGTTTTCGATAACTAATAACAATTCAACATACTTGACA
1 AATGTTTTCGATAACTAATAACAATTCAACATACTTGACA
48373528 TTTGTCTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (40 bp):
AATGTTTTCGATAACTAATAACAATTCAACATACTTGACA
Found at i:48379120 original size:40 final size:40
Alignment explanation
Indices: 48379065--48379328 Score: 465
Period size: 40 Copynumber: 6.6 Consensus size: 40
48379055 AACATTGGAT
48379065 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
48379105 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
48379145 CATATCCGGGCTAAGACGCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
48379185 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
48379225 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
48379265 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
48379305 TATGTCCGGGTTAAGACCCGAAGG
1 TATATCCGGGCTAAGACCCGAAGG
48379329 TAAATGTGTT
Statistics
Matches: 212, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 212 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:48387390 original size:34 final size:34
Alignment explanation
Indices: 48387338--48387411 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
48387328 ATTGTATTTT
* *
48387338 CTGATACTATTATCGTAATGGGCTAAAGCCCACA
1 CTGATATTGTTATCGTAATGGGCTAAAGCCCACA
* * **
48387372 TTGATATTGTTATTGTAATGGGCTAGGGCCCACA
1 CTGATATTGTTATCGTAATGGGCTAAAGCCCACA
48387406 CTGATA
1 CTGATA
48387412 CTGGACTATA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (34 bp):
CTGATATTGTTATCGTAATGGGCTAAAGCCCACA
Found at i:48389255 original size:25 final size:25
Alignment explanation
Indices: 48389217--48389293 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
48389207 CTGTAAACGA
* * *
48389217 TAAGCTCTTCCGAGTTGAATAATGG
1 TAAGCTCATACGAGTTGAATATTGG
* * *
48389242 TAAGCTCATGCGAGCTGAGTATTGG
1 TAAGCTCATACGAGTTGAATATTGG
* *
48389267 TAAGGTCATATGAGTTGAA-ATTGG
1 TAAGCTCATACGAGTTGAATATTGG
48389291 TAA
1 TAA
48389294 CTGATAAATC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 8 0.19
25 34 0.81
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (25 bp):
TAAGCTCATACGAGTTGAATATTGG
Found at i:48398199 original size:43 final size:42
Alignment explanation
Indices: 48398150--48398309 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
48398140 GTGTTCTCGA
* *
48398150 GTAAGACCACGTTTGGGATGTTGGCATTGATATGTGAATACGT
1 GTAAGACCACGTCTGGGACGTTGGCATTG-TATGTGAATACGT
* * * * * * *
48398193 GTAAGACCATGT-TCGGGACATTGGTATCGTATTTG-GTTCGT
1 GTAAGACCACGTCT-GGGACGTTGGCATTGTATGTGAATACGT
* * *
48398234 GTAAGACC-CTGTCTGGGACAG-TGGCATTGATATGTGATTGCAT
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATTG-TATGTGAATACGT
48398277 GTAAGACCACGTCTGGGACGTTGGCATTGTATG
1 GTAAGACCACGTCTGGGACGTTGGCATTGTATG
48398310 ATATATGTGA
Statistics
Matches: 93, Mismatches: 16, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
41 25 0.27
42 17 0.18
43 50 0.54
44 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.32
Consensus pattern (42 bp):
GTAAGACCACGTCTGGGACGTTGGCATTGTATGTGAATACGT
Found at i:48401035 original size:49 final size:50
Alignment explanation
Indices: 48400962--48401108 Score: 188
Period size: 50 Copynumber: 3.0 Consensus size: 50
48400952 GTAGCCGAAG
* * *
48400962 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * *
48401011 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACCACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * * *
48401061 CCATCTGATACATGTAGTATCCTGCACTTAGTACTACACACGTGACCT
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCT
48401109 CACAATAGCT
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 41 0.48
50 44 0.52
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:48403230 original size:15 final size:16
Alignment explanation
Indices: 48403206--48403237 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
48403196 AACAGAGAAG
48403206 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
48403222 CCAAG-ATAAAGAAAT
1 CCAAGAATAAAGAAAT
48403237 C
1 C
48403238 TATGATACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Found at i:48406050 original size:49 final size:50
Alignment explanation
Indices: 48405977--48406111 Score: 175
Period size: 49 Copynumber: 2.7 Consensus size: 50
48405967 GTAGCCGAAG
* *
48405977 CTATCTGGTACGCA-TAGTAGCCTGCAATTAGTACTACACATGCGA-CTAA
1 CTATCTGGTAC-AAGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
* *
48406026 TTATCTGGTACAAGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 CTATCTGGTACAAGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
* ** *
48406076 CCATCTAATACACGTAGTAGCCTGCACTTAGTACTA
1 CTATCTGGTACAAGTAGTAGCCTGCACTTAGTACTA
48406112 TACACGTGAC
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
48 1 0.01
49 39 0.52
50 35 0.47
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
CTATCTGGTACAAGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
Found at i:48406103 original size:50 final size:50
Alignment explanation
Indices: 48405991--48406123 Score: 178
Period size: 50 Copynumber: 2.7 Consensus size: 50
48405981 CTGGTACGCA
* * ** **
48405991 TAGTAGCCTGCAATTAGTACTACACATGCGA-CTAATTATCTGGTACAAG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACAAG
*
48406040 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACAAG
* *
48406090 TAGTAGCCTGCACTTAGTACTATACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
48406124 CACAATAGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 29 0.39
50 45 0.61
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTAATACAAG
Found at i:48406804 original size:30 final size:30
Alignment explanation
Indices: 48406770--48406829 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48406760 CTTTAATACG
48406770 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
48406800 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
48406830 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:48416903 original size:40 final size:39
Alignment explanation
Indices: 48416808--48417059 Score: 303
Period size: 40 Copynumber: 6.4 Consensus size: 39
48416798 ACCCAATTAT
* *** *
48416808 CTTCGGGATTTAG-CTGGATATAACCACTCGCACAAGGC
1 CTTCGGGACTTAGCCTGGATATAGTAACTCGCACAATGC
* * *
48416846 CGTCGGGTCTTAGCCTGGATATAGCT-ACTCGCTCACATGC
1 CTTCGGGACTTAGCCTGGATATAG-TAACTCGCACA-ATGC
*
48416886 CTTCGGGACTTAGCCTGGTTATAGTAACTCGCACAATTGC
1 CTTCGGGACTTAGCCTGGATATAGTAACTCGCACAA-TGC
* *
48416926 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGC
1 CTTCGGGACTTAGCCTGGATATAGTAACTCGCACAA-TGC
* *
48416966 CTTCGGGACTTGGCCTGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTAACTCGCAC-AATGC
*
48417006 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTAACTCGCAC-AATGC
48417046 CTTCGGG-CTTAGCC
1 CTTCGGGACTTAGCC
48417060 CGGTTATCAA
Statistics
Matches: 191, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
38 10 0.05
39 26 0.14
40 153 0.80
41 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGACTTAGCCTGGATATAGTAACTCGCACAATGC
Found at i:48417012 original size:120 final size:118
Alignment explanation
Indices: 48416833--48417066 Score: 344
Period size: 120 Copynumber: 2.0 Consensus size: 118
48416823 GGATATAACC
* * *
48416833 ACTCGCACAAGGCCGTCGGGTCTTAGCCTGGATATAGCTACTCGCTCACATGCCTTCGGGACTTA
1 ACTCGCACAAGGCCGTCGGGACTTAGCCTGGATATAGCTACTCGCACAAATGCCTTCGGGACTTA
* * *
48416898 GCCTGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
66 GCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTATAGTA
* * * *
48416952 ACTCGCACAATTGCCTTCGGGACTTGGCCTGGTTATAG-TAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAA-GGCCGTCGGGACTTAGCCTGGATATAGCT-ACTCGCACAAATGCCTTCGGGACT
48417016 TAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGTTAT
64 TAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGTTAT
48417067 CAATCCGAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
119 25 0.24
120 78 0.76
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (118 bp):
ACTCGCACAAGGCCGTCGGGACTTAGCCTGGATATAGCTACTCGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGTTATAGTA
Found at i:48422748 original size:40 final size:40
Alignment explanation
Indices: 48422693--48422916 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
48422683 TATTCGGATG
* *
48422693 ATATCCGGGCTAAGTCCCGAGGGAATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
48422733 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
48422776 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
48422816 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * ** *
48422856 ATATCCGGGCTCAGACCCGAAGGCATTTGTGTGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
48422896 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
48422917 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 12 0.08
40 110 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:48422836 original size:83 final size:80
Alignment explanation
Indices: 48422697--48422916 Score: 268
Period size: 83 Copynumber: 2.7 Consensus size: 80
48422687 CGGATGATAT
* * * * **
48422697 CCGGGCTAAGTCCCGAGGGAATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
48422762 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
48422780 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
48422845 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
48422860 CCGGGCTCAGACCCGAAGGCATTTGTG-TGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACTATATCCGGGCTAAGTCCCGAAG
48422917 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
79 17 0.14
80 43 0.35
81 2 0.02
83 62 0.50
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:48437656 original size:56 final size:57
Alignment explanation
Indices: 48437588--48437698 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
48437578 TACCTATATA
* * *
48437588 TGGCCCACTAGGCCC-AATCTCTTTCATATGGCC-CATCAGGCCC-ATTCACATTTATG
1 TGGCCCACTAGGCCCAAATCACATTCATATGGCCAC-T-AGGCCCAAATCACATTTATG
*
48437644 TGGCCCATTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
1 TGGCCCACTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
48437699 CAATCATGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
56 20 0.42
57 27 0.56
58 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (57 bp):
TGGCCCACTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTATG
Found at i:48437694 original size:28 final size:28
Alignment explanation
Indices: 48437585--48437696 Score: 129
Period size: 28 Copynumber: 4.0 Consensus size: 28
48437575 ACATACCTAT
* *
48437585 ATATGGCCCACTAGGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* *
48437613 ATATGGCCCA-TCAGGCCCATTCACATTT
1 ATATGGCCCACT-AGGCCCAATCACATTC
* *
48437641 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
48437670 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
48437697 TACAATCATG
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.01
28 57 0.79
29 14 0.19
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:48440668 original size:21 final size:21
Alignment explanation
Indices: 48440644--48440684 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48440634 GTTTCGATTT
48440644 GTCCGACAATGGATACGGGTA
1 GTCCGACAATGGATACGGGTA
*
48440665 GTCCGACAATGGATATGGGT
1 GTCCGACAATGGATACGGGT
48440685 TAGGGGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.34, T:0.22
Consensus pattern (21 bp):
GTCCGACAATGGATACGGGTA
Found at i:48447144 original size:46 final size:46
Alignment explanation
Indices: 48447094--48447222 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
48447084 TGGTTGAGCA
* *
48447094 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
48447140 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
48447186 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48447223 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:48452216 original size:25 final size:25
Alignment explanation
Indices: 48452187--48452236 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
48452177 GCCACAAAAG
48452187 TGACTCTTCATTAATTGTCAACCTA
1 TGACTCTTCATTAATTGTCAACCTA
48452212 TGACTCTTCATTAATTGTCAACCTA
1 TGACTCTTCATTAATTGTCAACCTA
48452237 AACTCTAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (25 bp):
TGACTCTTCATTAATTGTCAACCTA
Found at i:48454736 original size:46 final size:49
Alignment explanation
Indices: 48454630--48454751 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
48454620 TGTCTTCGAC
* * *
48454630 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * * *
48454680 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-A-CTGAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
48454726 ATGGACTTACATGACTCATTTCTGTC
1 ATGGACTTACATGACTCATTCCTGTC
48454752 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 26 0.42
47 1 0.02
48 5 0.08
50 30 0.48
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:48456175 original size:13 final size:13
Alignment explanation
Indices: 48456157--48456186 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48456147 AAACATATTT
48456157 AAAACATAACTTG
1 AAAACATAACTTG
*
48456170 AAAACATATCTTG
1 AAAACATAACTTG
48456183 AAAA
1 AAAA
48456187 TAGAGTATCA
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:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:48461290 original size:28 final size:28
Alignment explanation
Indices: 48461224--48461351 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
48461214 CATGAGATTG
* * **
48461224 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
48461253 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48461281 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
48461310 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48461338 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
48461352 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48461313 original size:57 final size:57
Alignment explanation
Indices: 48461224--48461351 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
48461214 CATGAGATTG
*
48461224 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
48461281 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
48461338 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
48461352 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:48471120 original size:20 final size:20
Alignment explanation
Indices: 48471066--48471121 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
48471056 CAAAAATCAA
48471066 TAAAATTT-TTAAAAATGAT
1 TAAAATTTATTAAAAATGAT
*
48471085 TAAATTTTAATT-AAAAT-ATT
1 TAAAATTT-ATTAAAAATGA-T
48471105 TAAAATTTATTAAAAAT
1 TAAAATTTATTAAAAAT
48471122 TAGAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 11 0.35
20 18 0.58
21 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAATTTATTAAAAATGAT
Found at i:48471149 original size:49 final size:48
Alignment explanation
Indices: 48471096--48471188 Score: 109
Period size: 49 Copynumber: 1.9 Consensus size: 48
48471086 AAATTTTAAT
* * *
48471096 TAAAATATTTAAAATTTATTAAAAAT-TAGAAA-AATATATATAAAAATCG
1 TAAAAAATATAAAATATA-TAAAAATATAGAAATAA-AT-TATAAAAATCG
*
48471145 TAAAAAATATGAAATATATAAAAATATAGAAATAAATTATAAAA
1 TAAAAAATATAAAATATATAAAAATATAGAAATAAATTATAAAA
48471189 TTTTATAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
48 14 0.37
49 22 0.58
50 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (48 bp):
TAAAAAATATAAAATATATAAAAATATAGAAATAAATTATAAAAATCG
Found at i:48471218 original size:9 final size:9
Alignment explanation
Indices: 48471206--48471261 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
48471196 GAAACGTAAG
48471206 AAAATTATA
1 AAAATTATA
* *
48471215 AAAAATGTA
1 AAAATTATA
*
48471224 AAGAAATAT-
1 AA-AATTATA
48471233 AAAATTCATAA
1 AAAATT-AT-A
48471244 AAAATTATA
1 AAAATTATA
48471253 AAAATTATA
1 AAAATTATA
48471262 GTATCAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 3 0.08
9 23 0.59
10 7 0.18
11 6 0.15
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:48471249 original size:11 final size:10
Alignment explanation
Indices: 48471106--48471261 Score: 53
Period size: 10 Copynumber: 16.0 Consensus size: 10
48471096 TAAAATATTT
* *
48471106 AAAATTTATT
1 AAAAATTATA
*
48471116 AAAAATTA-G
1 AAAAATTATA
48471125 AAAAATATATA
1 AAAAAT-TATA
**
48471136 TAAAAATCGTA
1 -AAAAATTATA
*
48471147 AAAAA-TATG
1 AAAAATTATA
*
48471156 AAATA-TAT-
1 AAAAATTATA
*
48471164 AAAAATATAGA
1 AAAAAT-TATA
48471175 AATAAATTATA
1 AA-AAATTATA
**
48471186 AAATTTTATA
1 AAAAATTATA
* **
48471196 GAAACGTA-A
1 AAAAATTATA
*
48471205 GAAAATTATA
1 AAAAATTATA
48471215 AAAAATGTA-A
1 AAAAAT-TATA
*
48471225 AGAAA-TAT-
1 AAAAATTATA
48471233 -AAAATTCATA
1 AAAAATT-ATA
48471243 AAAAATTAT-
1 AAAAATTATA
48471252 AAAAATTATA
1 AAAAATTATA
48471262 GTATCAAAAG
Statistics
Matches: 108, Mismatches: 23, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
7 3 0.03
8 7 0.06
9 32 0.30
10 39 0.36
11 17 0.16
12 10 0.09
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:48476383 original size:22 final size:23
Alignment explanation
Indices: 48476328--48476384 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
48476318 ATTAGGTACC
*
48476328 ATTGTCGACGCACTTGGGCTTTT
1 ATTGTCGACGCACTTAGGCTTTT
*
48476351 TTTGTCGACGCACTTAGGC-TTT
1 ATTGTCGACGCACTTAGGCTTTT
*
48476373 ATTGTCAACGCA
1 ATTGTCGACGCA
48476385 GTTCATTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (23 bp):
ATTGTCGACGCACTTAGGCTTTT
Done.