Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 137 of 349
Found at i:44067348 original size:37 final size:37
Alignment explanation
Indices: 44067294--44067378 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
44067284 TTTGAGTACG
*
44067294 TGTAAGACCATAGCTGGGCTATGGCATCGTAATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTAATCACA
* * * *
44067331 TGTAAGACCATATCTGGGCTATGGCATTGTGATCCCA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTAATCACA
44067368 TGTAAGACCAT
1 TGTAAGACCAT
44067379 GTTTGGGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (37 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGTAATCACA
Found at i:44067411 original size:48 final size:48
Alignment explanation
Indices: 44067358--44067538 Score: 254
Period size: 48 Copynumber: 3.8 Consensus size: 48
44067348 GCTATGGCAT
*
44067358 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
44067406 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATCGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* ** * *
44067454 TGTGATCCTATGTAAGACCATGTCTAAGACATGGCTTTGGCATCTATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
** * *
44067502 TGTGATTTCGTGTAAGACCATGCCTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
44067539 CGATATGGGA
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:44072096 original size:13 final size:12
Alignment explanation
Indices: 44072080--44072114 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
44072070 TATCAAAAAC
44072080 AAAAAAGAAAATT
1 AAAAAA-AAAATT
44072093 AAAAAAAAAATT
1 AAAAAAAAAATT
44072105 AACAAAAAAA
1 AA-AAAAAAA
44072115 GCCACATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (12 bp):
AAAAAAAAAATT
Found at i:44073104 original size:19 final size:19
Alignment explanation
Indices: 44073067--44073115 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
44073057 TTCCTATTAT
* *
44073067 TTTATTATTTTATTTTTAG
1 TTTATTATTATATTGTTAG
*
44073086 TTTATTATTATCTTGTTAG
1 TTTATTATTATATTGTTAG
* *
44073105 TGTATTCTTAT
1 TTTATTATTAT
44073116 TATGATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.04, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTATTATTATATTGTTAG
Found at i:44074712 original size:33 final size:33
Alignment explanation
Indices: 44074674--44074750 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 33
44074664 TAGCTGATTT
*
44074674 TATTTT-TT-TGTCTATTTTCTCTATTCTTTTT-TC
1 TATTTTGTTATGTCT-TTATCT-TATT-TTTTTGTC
*
44074707 TATTTTGTTATTTCTTTATCTTATTTTTTTGTC
1 TATTTTGTTATGTCTTTATCTTATTTTTTTGTC
*
44074740 TATTTTCTTAT
1 TATTTTGTTAT
44074751 TTAGTTTGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 5 0.13
33 22 0.58
34 7 0.18
35 4 0.11
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.73
Consensus pattern (33 bp):
TATTTTGTTATGTCTTTATCTTATTTTTTTGTC
Found at i:44074721 original size:21 final size:21
Alignment explanation
Indices: 44074673--44074723 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
44074663 TTAGCTGATT
44074673 TTATTT-TTTTGTCTATTTTC
1 TTATTTCTTTTGTCTATTTTC
* *
44074693 TCTA-TTCTTTTTTCTATTTTG
1 T-TATTTCTTTTGTCTATTTTC
44074714 TTATTTCTTT
1 TTATTTCTTT
44074724 ATCTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.75
Consensus pattern (21 bp):
TTATTTCTTTTGTCTATTTTC
Found at i:44075637 original size:23 final size:22
Alignment explanation
Indices: 44075611--44075654 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
44075601 ATTTTATTAG
*
44075611 AAAACGAGAAAAAAATTAAAAAA
1 AAAAAGAGAAAAAAA-TAAAAAA
*
44075634 AAAAAGTGAAAAAAATAAAAA
1 AAAAAGAGAAAAAAATAAAAA
44075655 TGAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAAGAGAAAAAAATAAAAAA
Found at i:44075646 original size:15 final size:14
Alignment explanation
Indices: 44075619--44075664 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
44075609 AGAAAACGAG
*
44075619 AAAAAAATTAAAAA
1 AAAAAAATGAAAAA
*
44075633 AAAAAAGTGAAAAA
1 AAAAAAATGAAAAA
44075647 AATAAAAATGAAAAA
1 AA-AAAAATGAAAAA
44075662 AAA
1 AAA
44075665 GAGATTGAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.11
Consensus pattern (14 bp):
AAAAAAATGAAAAA
Found at i:44075647 original size:16 final size:15
Alignment explanation
Indices: 44075619--44075664 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
44075609 AGAAAACGAG
*
44075619 AAAAAAAT-TAAAAA
1 AAAAAAATGAAAAAA
*
44075633 AAAAAAGTGAAAAAA
1 AAAAAAATGAAAAAA
*
44075648 ATAAAAATGAAAAAA
1 AAAAAAATGAAAAAA
44075663 AA
1 AA
44075665 GAGATTGAGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.11
Consensus pattern (15 bp):
AAAAAAATGAAAAAA
Found at i:44078283 original size:37 final size:37
Alignment explanation
Indices: 44078224--44078325 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
44078214 AGCTCAGACG
* *
44078224 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
44078261 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
44078298 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
44078326 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:44078522 original size:47 final size:47
Alignment explanation
Indices: 44078444--44079095 Score: 1043
Period size: 47 Copynumber: 13.6 Consensus size: 47
44078434 CCCTTCGGGA
* * * * * *
44078444 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44078491 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44078538 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44078585 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44078632 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44078679 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44078726 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44078775 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44078822 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44078873 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44078924 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44078973 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44079020 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44079069 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
44079096 TATTCAAATA
Statistics
Matches: 576, Mismatches: 21, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
47 340 0.59
49 139 0.24
51 97 0.17
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44078776 original size:96 final size:96
Alignment explanation
Indices: 44078444--44079095 Score: 1082
Period size: 96 Copynumber: 6.8 Consensus size: 96
44078434 CCCTTCGGGA
* * * * * * *
44078444 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44078507 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
44078538 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
44078601 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
44078632 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44078695 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
44078726 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44078791 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
44078822 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----AT
44078887 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
60 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44078924 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44078989 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
44079020 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44079085 ACTTTCACATT
66 ACTTTCACATT
44079096 TATTCAAATA
Statistics
Matches: 528, Mismatches: 20, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
93 1 0.00
94 183 0.35
96 203 0.38
98 48 0.09
100 47 0.09
102 46 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44081241 original size:37 final size:37
Alignment explanation
Indices: 44081191--44081266 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
44081181 AGAAGATGAA
44081191 CATTTTTTTTCTTTTGTTTTCTTCCTTCAATTCACGG
1 CATTTTTTTTCTTTTGTTTTCTTCCTTCAATTCACGG
44081228 CATTTTTTTTCTTTTGTTTTCTTCCTTCAATTCACGG
1 CATTTTTTTTCTTTTGTTTTCTTCCTTCAATTCACGG
44081265 CA
1 CA
44081267 ATGGAGAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.12, C:0.22, G:0.08, T:0.58
Consensus pattern (37 bp):
CATTTTTTTTCTTTTGTTTTCTTCCTTCAATTCACGG
Found at i:44082703 original size:13 final size:13
Alignment explanation
Indices: 44082685--44082724 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
44082675 GTCTATAGAC
44082685 CTCAGATGTGATT
1 CTCAGATGTGATT
44082698 CTCAGATGTGATT
1 CTCAGATGTGATT
*
44082711 CCCAGTAT-TGATT
1 CTCAG-ATGTGATT
44082724 C
1 C
44082725 CTCTTCACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 23 0.92
14 2 0.08
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (13 bp):
CTCAGATGTGATT
Found at i:44093683 original size:29 final size:29
Alignment explanation
Indices: 44093630--44093903 Score: 171
Period size: 29 Copynumber: 9.4 Consensus size: 29
44093620 TCAATGATCA
* * *
44093630 ATGAAAAGGGATAGCTTC-AGGTATCGAAT
1 ATGAAAAGGGATAGTTTCGA-CTATCGATT
* *
44093659 ATGGAAAGGGATAGTTTCGACTATCTATT
1 ATGAAAAGGGATAGTTTCGACTATCGATT
* ** * * * *
44093688 ATGAAAAGGGATGGTGACAACCATCAACT
1 ATGAAAAGGGATAGTTTCGACTATCGATT
* ** * **
44093717 ATGAAAAGGGATGGTGACGACCATCGAAA
1 ATGAAAAGGGATAGTTTCGACTATCGATT
*
44093746 ATGAAAAGGGATAGCTTT-GGCTATCGATT
1 ATGAAAAGGGATAG-TTTCGACTATCGATT
* *
44093775 ATGAAAAAGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGTTTCGA-CTATCGATT
* * * *
44093804 ATGAAAGGGGATGGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGTTTCGACTATCGATT
* * **
44093833 ATGAAAAAGGATGGTGACGAGC-ATCGATT
1 ATGAAAAGGGATAGTTTCGA-CTATCGATT
** *
44093862 ATGAAAAGGGATAGTGACGACCATTCG-TT
1 ATGAAAAGGGATAGTTTCGACTA-TCGATT
44093891 AATGAAAAGGGAT
1 -ATGAAAAGGGAT
44093904 GGTTAAGACC
Statistics
Matches: 197, Mismatches: 39, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
28 3 0.02
29 176 0.89
30 18 0.09
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGTTTCGACTATCGATT
Found at i:44093778 original size:58 final size:58
Alignment explanation
Indices: 44093630--44093875 Score: 203
Period size: 58 Copynumber: 4.2 Consensus size: 58
44093620 TCAATGATCA
* * * * ** * *
44093630 ATGAAAAGGGATAGCTTCAGG-TATCGAATATGGAAAGGGATAGTTTCGACTATCTATT
1 ATGAAAAGGGATAGCTTC-GGCTATCGATTATGAAAAAGGATGGTGACGACCATCGATT
* * ** * * * * **
44093688 ATGAAAAGGGAT-GGTGACAACCATCAACTATGAAAAGGGATGGTGACGACCATCGAAA
1 ATGAAAAGGGATAGCT-TCGGCTATCGATTATGAAAAAGGATGGTGACGACCATCGATT
* * * *
44093746 ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAAGGATAGCT-TC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAAGGAT-GGTGACGA-CCATCGATT
* * *
44093804 ATGAAAGGGGATGGCTTCGGCTATCGATTATGAAAAAGGATGGTGACGAGCATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAAGGATGGTGACGACCATCGATT
44093862 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
44093876 TGACGACCAT
Statistics
Matches: 143, Mismatches: 38, Indels: 14
0.73 0.19 0.07
Matches are distributed among these distances:
57 5 0.03
58 133 0.93
59 5 0.03
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAAGGATGGTGACGACCATCGATT
Found at i:44093830 original size:87 final size:87
Alignment explanation
Indices: 44093630--44093873 Score: 210
Period size: 87 Copynumber: 2.8 Consensus size: 87
44093620 TCAATGATCA
* * *
44093630 ATGAAAAGGGATAGCTTCAGG-TATCGAATATGGAAAGGGATAGTTTCGACTATCTATTATGAAA
1 ATGAAAAGGGATGGCTTC-GGCTATCGAATATGAAAAGGGATAGTTTCGACTATCGATTATGAAA
* *
44093694 AGGGATGGTGACAACCATCAACT
65 AAGGATGCTGACAACCATCAACT
* * * * *
44093717 ATGAAAAGGGATGG-TGACGACCATCGAAAATGAAAAGGGATAGCTTT-GGCTATCGATTATGAA
1 ATGAAAAGGGATGGCT-TCGGCTATCGAATATGAAAAGGGATAG-TTTCGACTATCGATTATGAA
* * * * *
44093780 AAAGGATAGCT-TCAGCTATCGATT
64 AAAGGAT-GCTGACAACCATCAACT
* * * * **
44093804 ATGAAAGGGGATGGCTTCGGCTATCGATTATGAAAAAGGATGGTGACGAGC-ATCGATTATGAAA
1 ATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATAGTTTCGA-CTATCGATTATGAAA
*
44093868 AGGGAT
65 AAGGAT
44093874 AGTGACGACC
Statistics
Matches: 123, Mismatches: 27, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
86 3 0.02
87 113 0.92
88 7 0.06
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (87 bp):
ATGAAAAGGGATGGCTTCGGCTATCGAATATGAAAAGGGATAGTTTCGACTATCGATTATGAAAA
AGGATGCTGACAACCATCAACT
Found at i:44093836 original size:116 final size:116
Alignment explanation
Indices: 44093629--44093875 Score: 293
Period size: 116 Copynumber: 2.1 Consensus size: 116
44093619 ATCAATGATC
* * * *
44093629 AATGAAAAGGGATAGCTTCAGGTATCGAATATGGAAAGGGATAGTTTCGACTATCTATTATGAAA
1 AATGAAAAGGGATAGCTTCAGGTATCGAATATGAAAAAGGATAGCTTCGACTATCGATTATGAAA
*
44093694 AGGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGACGACCATCGAA
66 AGGGATGGTGACAACCATCAACTATGAAAAAGGATGGTGACGACCATCGAA
* *
44093745 AATGAAAAGGGATAGCTT-TGGCTATCGATTATGAAAAAGGATAGCTTC-AGCTATCGATTATGA
1 AATGAAAAGGGATAGCTTCAGG-TATCGAATATGAAAAAGGATAGCTTCGA-CTATCGATTATGA
* * ** * * * * *
44093808 AAGGGGATGGCT-TCGGCTATCGATTATGAAAAAGGATGGTGACGAGCATCGAT
64 AAAGGGATGG-TGACAACCATCAACTATGAAAAAGGATGGTGACGACCATCGAA
*
44093861 TATGAAAAGGGATAG
1 AATGAAAAGGGATAG
44093876 TGACGACCAT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
115 3 0.03
116 107 0.96
117 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (116 bp):
AATGAAAAGGGATAGCTTCAGGTATCGAATATGAAAAAGGATAGCTTCGACTATCGATTATGAAA
AGGGATGGTGACAACCATCAACTATGAAAAAGGATGGTGACGACCATCGAA
Found at i:44093898 original size:30 final size:29
Alignment explanation
Indices: 44093652--44093946 Score: 170
Period size: 29 Copynumber: 10.1 Consensus size: 29
44093642 AGCTTCAGGT
* * ** *
44093652 ATCGAATATGGAAAGGGATAGTTTCGACT
1 ATCGATTATGAAAAGGGATAGTGACGACC
* * *
44093681 ATCTATTATGAAAAGGGATGGTGACAACC
1 ATCGATTATGAAAAGGGATAGTGACGACC
* * *
44093710 ATCAACTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATAGTGACGACC
** ** * *
44093739 ATCGAAAATGAAAAGGGATAGCT-TTGGCT
1 ATCGATTATGAAAAGGGATAG-TGACGACC
* * *
44093768 ATCGATTATGAAAAAGGATAGCT-TC-AGCT
1 ATCGATTATGAAAAGGGATAG-TGACGA-CC
* * * * *
44093797 ATCGATTATGAAAGGGGATGGCT-TCGGCT
1 ATCGATTATGAAAAGGGATAG-TGACGACC
* * *
44093826 ATCGATTATGAAAAAGGATGGTGACGAGC
1 ATCGATTATGAAAAGGGATAGTGACGACC
44093855 ATCGATTATGAAAAGGGATAGTGACGACC
1 ATCGATTATGAAAAGGGATAGTGACGACC
* * *
44093884 ATTCG-TTAATGAAAAGGGATGGTTAAGACC
1 A-TCGATT-ATGAAAAGGGATAGTGACGACC
* ** *
44093914 AAT-GAATATGAAAAGGGACGGTTACGACC
1 -ATCGATTATGAAAAGGGATAGTGACGACC
44093943 ATCG
1 ATCG
44093947 TTTAACACAC
Statistics
Matches: 214, Mismatches: 43, Indels: 18
0.78 0.16 0.07
Matches are distributed among these distances:
28 3 0.01
29 185 0.86
30 25 0.12
31 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATAGTGACGACC
Found at i:44107648 original size:40 final size:40
Alignment explanation
Indices: 44107593--44107899 Score: 542
Period size: 40 Copynumber: 7.7 Consensus size: 40
44107583 AACATTGGAT
*
44107593 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44107633 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44107673 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
44107713 TGTATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
44107753 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44107793 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44107833 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
44107873 TATATCCGGGTTATGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
44107900 ATGTGTTTGT
Statistics
Matches: 254, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:44120606 original size:34 final size:34
Alignment explanation
Indices: 44120533--44120619 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
44120523 TGTACTGAAT
*
44120533 TGGGCTAAGGCCCACACTGATACTATTACCGTAA
1 TGGGCTAAGGCCCACACTGATACTACTACCGTAA
* * * *
44120567 TGGGCTGAGGCCCACACTGATATTGCTACTGTTAA
1 TGGGCTAAGGCCCACACTGATACTACTACCG-TAA
* *
44120602 -GGGCTTAGGCCCAAACTG
1 TGGGCTAAGGCCCACACTG
44120620 TTTGCACTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 42 0.93
35 3 0.07
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATACTACTACCGTAA
Found at i:44129954 original size:22 final size:20
Alignment explanation
Indices: 44129911--44129949 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44129901 CAATTTAAAA
44129911 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
44129931 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
44129950 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:44130072 original size:20 final size:20
Alignment explanation
Indices: 44130047--44130086 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
44130037 AAATATTTTC
44130047 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
44130067 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
44130087 TCATTTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:44130100 original size:14 final size:14
Alignment explanation
Indices: 44130070--44130112 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
44130060 CCAGAAAAGT
**
44130070 AAATCATTTTCCAG
1 AAATCATTTTCTGG
44130084 AAATCATTTTCTGG
1 AAATCATTTTCTGG
*
44130098 AAAACATTTTACTGG
1 AAATCATTTT-CTGG
44130113 TAAACAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCTGG
Found at i:44147614 original size:40 final size:40
Alignment explanation
Indices: 44147559--44147776 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
44147549 CGGATGATAA
* * *
44147559 CCGGGCTAAGTCCCGAAGGCGTTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
44147599 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44147639 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44147679 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44147719 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
44147759 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44147777 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 146 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44166393 original size:147 final size:147
Alignment explanation
Indices: 44166126--44166414 Score: 472
Period size: 147 Copynumber: 2.0 Consensus size: 147
44166116 CGCTAACAGG
*
44166126 TATAAACCAATTTAAATAAATCCCCATTTAAAGATAAAACTTAAAACGACCGAATTACATAATAT
1 TATAAACCAATTTAAATAAATCCCCAATTAAAGATAAAACTTAAAACGACCGAATTACATAATAT
* ** **
44166191 TTAACCCAAATAAAGCTACCATAATTTAAAGGTCCAGTATGTAATATAGTAGTGGTGTGGCCTTT
66 TTAACCCAAATAAAGCTACCATAATTTAAAGATCCAGTACATAATATAACAGTGGTGTGGCCTTT
44166256 CCCGAGTCCCTCGGTGA
131 CCCGAGTCCCTCGGTGA
* *
44166273 TATAAACCAATTTCAATAAATCCCTAATTAAAGATAAAACTTAAAACGGA-CGAATTACATAATA
1 TATAAACCAATTTAAATAAATCCCCAATTAAAGATAAAACTTAAAAC-GACCGAATTACATAATA
* *
44166337 TTTAACGCATATAAAGCTACCATAATTTAAAGATCCAGTACATAATATAACAGTGGTGTGGCCTT
65 TTTAACCCAAATAAAGCTACCATAATTTAAAGATCCAGTACATAATATAACAGTGGTGTGGCCTT
44166402 TCCCGAGTCCCTC
130 TCCCGAGTCCCTC
44166415 ACAGTACTGA
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
147 129 0.98
148 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (147 bp):
TATAAACCAATTTAAATAAATCCCCAATTAAAGATAAAACTTAAAACGACCGAATTACATAATAT
TTAACCCAAATAAAGCTACCATAATTTAAAGATCCAGTACATAATATAACAGTGGTGTGGCCTTT
CCCGAGTCCCTCGGTGA
Found at i:44170216 original size:22 final size:23
Alignment explanation
Indices: 44170177--44170219 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
44170167 GAGATTCTAC
*
44170177 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAACCTCTACACTCCACT
44170200 CCGTCCAACC-CTACACTCCA
1 CCGTCCAACCTCTACACTCCA
44170220 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.53, G:0.05, T:0.21
Consensus pattern (23 bp):
CCGTCCAACCTCTACACTCCACT
Found at i:44175107 original size:24 final size:24
Alignment explanation
Indices: 44175061--44175112 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
44175051 CTTATAAAAC
*
44175061 ATTTTAACATTTAATTCACATATA
1 ATTTTAACATTTAATTCAAATATA
* *
44175085 ATTTT-ACATTTCATTGCAAATATT
1 ATTTTAACATTTAATT-CAAATATA
44175109 ATTT
1 ATTT
44175113 AAACTCAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTAACATTTAATTCAAATATA
Found at i:44178165 original size:39 final size:39
Alignment explanation
Indices: 44178108--44178185 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
44178098 ATACATACAA
*
44178108 CTTTCATATTCCTCAATAAAACATCAAAGAATAAACATG
1 CTTTCATATTCCTCAATAAAACATCAAAAAATAAACATG
*
44178147 CTTTCATATTCCTTAATAAAACATCAAAAAATAAACATG
1 CTTTCATATTCCTCAATAAAACATCAAAAAATAAACATG
44178186 GCACACATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.29
Consensus pattern (39 bp):
CTTTCATATTCCTCAATAAAACATCAAAAAATAAACATG
Found at i:44183735 original size:40 final size:41
Alignment explanation
Indices: 44183705--44183875 Score: 190
Period size: 40 Copynumber: 4.3 Consensus size: 41
44183695 GCTACTCGTT
* *
44183705 CAAATGCCTTCGAGACATAGCCC-GATTATAGTAACTCACA
1 CAAATGCCTTCGAGACATAACCCGGATTATAGTAACTCGCA
* *
44183745 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATTATAGTAACTCGCA
* * *
44183785 CAAATGCCTTCGGGACTTATCCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATTATAGTAACTCGCA
* * * * * *
44183825 CCAATGCCTTCG-GGCTTAGCCCGGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATTATAGTAACTCGCA
44183864 CAAATGCCTTCG
1 CAAATGCCTTCG
44183876 GATCTTAGTC
Statistics
Matches: 119, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 34 0.29
40 81 0.68
41 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGAGACATAACCCGGATTATAGTAACTCGCA
Found at i:44183819 original size:80 final size:80
Alignment explanation
Indices: 44183705--44183929 Score: 271
Period size: 80 Copynumber: 2.8 Consensus size: 80
44183695 GCTACTCGTT
* * * *
44183705 CAAATGCCTTCGAGACATAGCCC-GATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTATCCCGGATT-TAGTAACTCACACAAATGCCTTCGGGACTTAGCCCG
*
44183769 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* *
44183785 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
*
44183849 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * *
44183864 CAAATGCCTTC-GGATCTTAGT-CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCA-CACAAATGCCTTCGGGACTTAGCC
44183926 CGGA
63 CGGA
44183930 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.02
79 58 0.46
80 61 0.48
81 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:44183913 original size:119 final size:120
Alignment explanation
Indices: 44183707--44183929 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
44183697 TACTCGTTCA
*
44183707 AATGCCTTCGAGACATAGCCCGATTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGAGACATAGCCCGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* * *
44183772 TTAGTAACTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* * * * **
44183827 AATGCCTTCG-GGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGAGACATAGCCC-GAATATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* *
44183889 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
44183930 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 64 0.73
120 21 0.24
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGAGACATAGCCCGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:44184852 original size:56 final size:56
Alignment explanation
Indices: 44184790--44184905 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
44184780 TAGTTTATTG
44184790 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
*
44184846 CCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
44184902 CCAT
1 CCAT
44184906 CATCCCTTGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
Found at i:44235299 original size:30 final size:30
Alignment explanation
Indices: 44235265--44235325 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44235255 TCCTTAACTC
44235265 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44235295 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44235325 A
1 A
44235326 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:44242861 original size:34 final size:34
Alignment explanation
Indices: 44242812--44242911 Score: 173
Period size: 34 Copynumber: 2.9 Consensus size: 34
44242802 AGAAAAACAT
* *
44242812 AGAAATTGGGCAAATTGCTCTTGAAGACCTTCAA
1 AGAAATTGTGAAAATTGCTCTTGAAGACCTTCAA
*
44242846 AGAAATTGTGAAAATTGCTTTTGAAGACCTTCAA
1 AGAAATTGTGAAAATTGCTCTTGAAGACCTTCAA
44242880 AGAAATTGTGAAAATTGCTCTTGAAGACCTTC
1 AGAAATTGTGAAAATTGCTCTTGAAGACCTTC
44242912 TAATTAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (34 bp):
AGAAATTGTGAAAATTGCTCTTGAAGACCTTCAA
Found at i:44245968 original size:38 final size:37
Alignment explanation
Indices: 44245943--44246096 Score: 173
Period size: 38 Copynumber: 4.0 Consensus size: 37
44245933 ATATGTTGGA
44245943 ATTATATCCAGGTTAAATCCTGCAGGCTTCGTGCTGGT
1 ATTATATCCAGGTTAAATCC-GCAGGCTTCGTGCTGGT
*
44245981 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCAGGTTAAAT-CCGCAGGCTTCGTGCTGGT
* * * *
44246019 ATTATATCTAGGTTAAATCCCGCAAGCTTAGTGCTAGT
1 ATTATATCCAGGTTAAAT-CCGCAGGCTTCGTGCTGGT
* * * *
44246057 ATTATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 ATTATA-TCCAGGTTAAA-T-CCGCAGGCTTCGTGCTGGT
44246097 GACTGGATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
38 73 0.72
39 11 0.11
40 17 0.17
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (37 bp):
ATTATATCCAGGTTAAATCCGCAGGCTTCGTGCTGGT
Found at i:44246025 original size:76 final size:78
Alignment explanation
Indices: 44245943--44246096 Score: 213
Period size: 76 Copynumber: 2.0 Consensus size: 78
44245933 ATATGTTGGA
* * * * *
44245943 ATTATATCCAGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-TCCCGCAG
1 ATTATATCCAGGTTAAATCCCGCAAGCTTAGTGCTAGTATTATATCCGAGCTTAAAGTCCCGCAG
44246006 GCTTCGTGCTGGT
66 GCTTCGTGCTGGT
* *
44246019 ATTATATCTAGGTTAAATCCCGCAAGCTTAGTGCTAGTATTATATTCGAGCTTAAAGTCCCGCAG
1 ATTATATCCAGGTTAAATCCCGCAAGCTTAGTGCTAGTATTATATCCGAGCTTAAAGTCCCGCAG
* *
44246084 GTTTTGTGCTGGT
66 GCTTCGTGCTGGT
44246097 GACTGGATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
76 42 0.63
77 6 0.09
78 19 0.28
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (78 bp):
ATTATATCCAGGTTAAATCCCGCAAGCTTAGTGCTAGTATTATATCCGAGCTTAAAGTCCCGCAG
GCTTCGTGCTGGT
Found at i:44252326 original size:85 final size:85
Alignment explanation
Indices: 44252183--44252358 Score: 343
Period size: 85 Copynumber: 2.1 Consensus size: 85
44252173 CGGCCATGAC
44252183 CATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTA
1 CATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTA
44252248 AGGATTAATAAAATAAAGAG
66 AGGATTAATAAAATAAAGAG
44252268 CATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTA
1 CATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTA
*
44252333 AGGATTAATAAAATAAAGGG
66 AGGATTAATAAAATAAAGAG
44252353 CATGGG
1 CATGGG
44252359 CAATAAAATA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 90 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (85 bp):
CATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTA
AGGATTAATAAAATAAAGAG
Found at i:44253755 original size:49 final size:47
Alignment explanation
Indices: 44253624--44254030 Score: 586
Period size: 47 Copynumber: 8.6 Consensus size: 47
44253614 TATTTGAATA
* * *
44253624 AATGTGAAAGTGTATTTATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44253671 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44253718 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
44253767 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44253816 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44253863 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44253910 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
44253957 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
44254004 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44254031 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 248 0.73
49 92 0.27
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:44253908 original size:22 final size:22
Alignment explanation
Indices: 44253881--44254002 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
44253871 CATGTGTATG
44253881 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
44253903 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
44253928 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
44253950 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
44253975 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
44253997 TGTGAT
1 TGTGAT
44254003 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:44256524 original size:38 final size:38
Alignment explanation
Indices: 44256460--44256534 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
44256450 AATCCGAGTT
*
44256460 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
44256498 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
44256535 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:44256646 original size:40 final size:40
Alignment explanation
Indices: 44256588--44256985 Score: 642
Period size: 40 Copynumber: 10.1 Consensus size: 40
44256578 AGGTCTCGAC
44256588 GATG-ATCC-GGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
44256626 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
44256666 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
44256706 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
44256746 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
44256786 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
44256825 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
44256865 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
44256905 GATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
44256944 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
44256984 GA
1 GA
44256986 CGTGTATTCG
Statistics
Matches: 339, Mismatches: 17, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
38 4 0.01
39 76 0.22
40 259 0.76
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:44256883 original size:119 final size:119
Alignment explanation
Indices: 44256588--44256985 Score: 656
Period size: 119 Copynumber: 3.4 Consensus size: 119
44256578 AGGTCTCGAC
*
44256588 GATG-ATCC-GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
44256651 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
66 AGCATTCATGCTAGTGATGTATCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGT
44256706 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
44256771 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
66 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
44256825 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
* * * ** * *
44256890 AGCATTCGTGCTAGTGATATATCCGTGCTAAACCCGAAGAGCATTCGTGCTGGT
66 AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
* * * * *
44256944 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
44256986 CGTGTATTCG
Statistics
Matches: 265, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
118 4 0.02
119 175 0.66
120 86 0.32
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAG
AGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
Found at i:44258383 original size:85 final size:85
Alignment explanation
Indices: 44258240--44258418 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
44258230 GGCCGGCCAT
44258240 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
44258305 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
44258325 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
44258390 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
44258410 GGGCATGGG
1 GAGCATGGG
44258419 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:44259733 original size:47 final size:47
Alignment explanation
Indices: 44259680--44260133 Score: 619
Period size: 47 Copynumber: 9.6 Consensus size: 47
44259670 TATTTGAATA
* * *
44259680 AATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* **
44259727 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCGGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* **
44259774 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCGGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
44259823 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44259872 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44259919 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44259966 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
44260013 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
44260060 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
44260107 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44260134 TCCCGAAGGG
Statistics
Matches: 382, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 289 0.76
49 91 0.24
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:44262677 original size:29 final size:29
Alignment explanation
Indices: 44262643--44262745 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
44262633 TAATCAACCG
* * *
44262643 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTCAGTGCCATGCA-TTTCAAGCT
* *
44262672 CGCACACTTAGCGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
44262701 CGCACACTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
44262730 CGCACACTCAGTGCCA
1 CGCACACTCAGTGCCA
44262746 ATCTCTCAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 3 0.04
29 65 0.96
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTCAGTGCCATGCATTTCAAGCT
Found at i:44270625 original size:29 final size:29
Alignment explanation
Indices: 44270590--44270721 Score: 194
Period size: 29 Copynumber: 4.6 Consensus size: 29
44270580 TAATCAACCG
* * *
44270590 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTCAGTGCCATGCA-TTTCAAGCT
* * *
44270619 TGCACACTTAGCGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
44270648 CGCACACTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
44270677 CGCACACTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
44270706 CGCACACTCAGTGCCA
1 CGCACACTCAGTGCCA
44270722 ATCTCTCAAC
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 3 0.03
29 92 0.97
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTCAGTGCCATGCATTTCAAGCT
Found at i:44275452 original size:38 final size:38
Alignment explanation
Indices: 44275403--44275601 Score: 220
Period size: 38 Copynumber: 5.2 Consensus size: 38
44275393 GCAGGCTATA
* ** *
44275403 TGCTGGAATTATATCCGGGTTAAATCCCATAGGCTTCC
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
44275441 TACTGGTATTATATCCAGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
44275479 TGCTGGTATTATATCTGGGTTAAATCCCGCTA-GCTTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGC-AGGCTTCG
* * * *
44275517 TGCTAGTATTATATTCGAGCTTAAAGTCCCGCAGGCTTCA
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
* * *
44275557 TGCTGGTATTATATCTGGGTTAAATCCCGCTGGCTTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
44275595 TGACTGG
1 TG-CTGG
44275602 ATTCGGGTTT
Statistics
Matches: 133, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
38 91 0.68
39 18 0.14
40 24 0.18
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:44275483 original size:76 final size:78
Alignment explanation
Indices: 44275392--44275585 Score: 252
Period size: 76 Copynumber: 2.5 Consensus size: 78
44275382 CTTAAAGATT
* * * *
44275392 CGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCC-ATAGGCTTCCTACTGGTATTATA-
1 CGCAGGCT-TCATGCTGGTATTATATCTGGGTTAAATCCCGATA-GCTTACTACTAGTATTATAT
*
44275454 TCCAGGTTAAA-TCC
64 TCCAGCTTAAAGTCC
* * * *
44275468 CGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCCGCTAGCTTAGTGCTAGTATTATATTC
1 CGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCCGATAGCTTACTACTAGTATTATATTC
*
44275533 GAGCTTAAAGTCC
66 CAGCTTAAAGTCC
44275546 CGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCCG
1 CGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCCG
44275586 CTGGCTTAGT
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
75 1 0.01
76 49 0.48
77 11 0.11
78 42 0.41
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (78 bp):
CGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCCGATAGCTTACTACTAGTATTATATTC
CAGCTTAAAGTCC
Found at i:44275569 original size:78 final size:76
Alignment explanation
Indices: 44275392--44275596 Score: 261
Period size: 78 Copynumber: 2.7 Consensus size: 76
44275382 CTTAAAGATT
* * * ** * *
44275392 CGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCC-ATAGGCTTCCTACTGGTATTATAT
1 CGCAGGCT-TCATGCTGGTATTATATCTGGGTTAAATCCCGCTA-GCTTAGTGCTAGTATTATAT
*
44275455 CCAGGTTAAATCC
64 CCAGCTTAAATCC
*
44275468 CGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCCGCTAGCTTAGTGCTAGTATTATATTC
1 CGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCCGCTAGCTTAGTGCTAGTATTATA-TC
*
44275533 GAGCTTAAAGTCC
65 CAGCTTAAA-TCC
*
44275546 CGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCCGCTGGCTTAGTG
1 CGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCCGCTAGCTTAGTG
44275597 ACTGGATTCG
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
75 1 0.01
76 49 0.43
77 11 0.10
78 52 0.46
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (76 bp):
CGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCCGCTAGCTTAGTGCTAGTATTATATCC
AGCTTAAATCC
Found at i:44277556 original size:29 final size:27
Alignment explanation
Indices: 44277514--44277576 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 27
44277504 TTTTTCATTT
* * *
44277514 ATTTCACATTTTAACCACTAAATTTCCA
1 ATTTCACAATTTAACC-CAAAATTTACA
44277542 CATTTCACAATTTAACCCAAAATTTACA
1 -ATTTCACAATTTAACCCAAAATTTACA
44277570 ATTTCAC
1 ATTTCAC
44277577 TAATAATTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 7 0.23
28 9 0.29
29 15 0.48
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTTCACAATTTAACCCAAAATTTACA
Found at i:44282499 original size:15 final size:15
Alignment explanation
Indices: 44282479--44282534 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
44282469 GTATCTTGGG
44282479 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
44282494 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
44282509 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
44282524 TTTCTTTATTC
1 TTTCTTTATTC
44282535 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:44284980 original size:46 final size:46
Alignment explanation
Indices: 44284930--44285102 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
44284920 TGGTTGAGCA
44284930 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
44284976 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44285021 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44285069 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44285103 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44285086 original size:93 final size:93
Alignment explanation
Indices: 44284927--44285097 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
44284917 GGATGGTTGA
* *
44284927 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44284992 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
44285020 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44285085 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44285098 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:44291248 original size:26 final size:28
Alignment explanation
Indices: 44291161--44291257 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
44291151 CATGAGATTG
* * * *
44291161 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
44291190 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44291218 GCACTAAGTGTGCGAG-TTGA-TATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44291244 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44291258 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.30
27 4 0.06
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44296141 original size:12 final size:12
Alignment explanation
Indices: 44296124--44296153 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44296114 GACCCGTGCA
44296124 ACCCATATTACG
1 ACCCATATTACG
*
44296136 ACCCATATTGCG
1 ACCCATATTACG
44296148 ACCCAT
1 ACCCAT
44296154 TGATACGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.37, G:0.10, T:0.23
Consensus pattern (12 bp):
ACCCATATTACG
Found at i:44302288 original size:47 final size:47
Alignment explanation
Indices: 44302204--44302558 Score: 593
Period size: 47 Copynumber: 7.5 Consensus size: 47
44302194 TTCGGGACTC
* * * * * * * *
44302204 ATCACATTTATACACTTTCACATCCATCCCGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
44302251 GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
44302298 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
44302345 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
44302392 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
44302439 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
44302486 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
44302535 ACCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
44302559 TATTCAAATA
Statistics
Matches: 293, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 247 0.84
49 46 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:44305798 original size:40 final size:40
Alignment explanation
Indices: 44305766--44306073 Score: 474
Period size: 40 Copynumber: 7.7 Consensus size: 40
44305756 CCAGCATGAT
* * * *
44305766 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
44305806 TGCTCTTTAGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
44305846 TGCTCTTCGGGACTTAGCCCGGATATACCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
44305886 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
44305926 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
44305966 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
44306006 TACTCTTCGGGACTTAGCCCGAATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
44306046 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
44306074 GTCGAGACCT
Statistics
Matches: 245, Mismatches: 23, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 241 0.98
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:44306028 original size:23 final size:23
Alignment explanation
Indices: 44305957--44306031 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 23
44305947 GATACATCAC
*
44305957 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATACTCTTCGGGACT
* * *
44305980 TAGCCCGGATA--CATC---AC-
1 TAGCACGAATACTCTTCGGGACT
44305997 TAGCACGAATACTCTTCGGGACT
1 TAGCACGAATACTCTTCGGGACT
*
44306020 TAGCCCGAATAC
1 TAGCACGAATAC
44306032 ATCACTAGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
17 9 0.24
18 2 0.05
19 3 0.08
21 3 0.08
22 2 0.05
23 19 0.50
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (23 bp):
TAGCACGAATACTCTTCGGGACT
Found at i:44306170 original size:38 final size:38
Alignment explanation
Indices: 44306128--44306201 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
44306118 AATTTTAATT
*
44306128 CGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTACC
1 CGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTACC
* *
44306166 CGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
44306202 AACTCGGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (38 bp):
CGGACATAATCTCTTCACATAGCCAGCGGGTCTTTACC
Found at i:44308768 original size:49 final size:47
Alignment explanation
Indices: 44308597--44308810 Score: 320
Period size: 47 Copynumber: 4.5 Consensus size: 47
44308587 TTCGGGGCTC
* * ** * * * *
44308597 ATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
44308644 GTCACATATATACACTTTCACATTCATTACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
44308691 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
44308738 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
44308787 ATCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
44308811 TATTCAAATA
Statistics
Matches: 153, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 106 0.69
49 47 0.31
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:44308788 original size:96 final size:94
Alignment explanation
Indices: 44308597--44308810 Score: 320
Period size: 96 Copynumber: 2.3 Consensus size: 94
44308587 TTCGGGGCTC
* * ** * * *
44308597 ATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGCCCTGTCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACACTTT
*
44308662 CACATTCATTACATCGGCCATTAGGCCTT
66 CACATTCATCACATCGGCCATTAGGCCTT
* *
44308691 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCAC--ATATATACACT
44308756 TTCACATTCATCACATCGGCCATTAGGCCTT
64 TTCACATTCATCACATCGGCCATTAGGCCTT
44308787 ATCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
44308811 TATTCAAATA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 43 0.40
96 65 0.60
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTT
Found at i:44318008 original size:52 final size:52
Alignment explanation
Indices: 44317947--44318052 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
44317937 CCATTTCCAC
44317947 TCGAGTATCATAATCGGCTGAAGCAATCCAGTAGGTACCTGATGTTTGGCTT
1 TCGAGTATCATAATCGGCTGAAGCAATCCAGTAGGTACCTGATGTTTGGCTT
44317999 TCGAGTATCATAATCGGCTGAAGCAATCCAGTAGGTACCTGATGTTTGGCTT
1 TCGAGTATCATAATCGGCTGAAGCAATCCAGTAGGTACCTGATGTTTGGCTT
44318051 TC
1 TC
44318053 ACTTGCTGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (52 bp):
TCGAGTATCATAATCGGCTGAAGCAATCCAGTAGGTACCTGATGTTTGGCTT
Found at i:44325510 original size:39 final size:40
Alignment explanation
Indices: 44325306--44325528 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
44325296 TTGAATGCTG
* * * * * *
44325306 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
44325346 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
44325386 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
44325426 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
44325466 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
44325505 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44325529 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:44325548 original size:79 final size:80
Alignment explanation
Indices: 44325381--44325563 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
44325371 GTGCGAGATA
* * *
44325381 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
44325446 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
44325461 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
44325525 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
44325540 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
44325564 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:44355400 original size:27 final size:27
Alignment explanation
Indices: 44355369--44355546 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
44355359 TATATGAGTC
* * * *
44355369 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
44355396 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44355423 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44355451 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44355478 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44355505 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44355532 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44355547 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44355508 original size:82 final size:81
Alignment explanation
Indices: 44355390--44355545 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
44355380 TGCTATATAA
*
44355390 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44355455 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44355472 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44355536 CACTTAGTGC
65 CACTTAGTGC
44355546 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44363428 original size:27 final size:27
Alignment explanation
Indices: 44363397--44363573 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44363387 TATATGAGTC
* * * *
44363397 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
44363424 CGCACACTTAGTGCTAC-TAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44363450 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44363478 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44363505 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44363532 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44363559 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44363574 GTACAATTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
26 25 0.19
27 81 0.62
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44363562 original size:81 final size:81
Alignment explanation
Indices: 44363418--44363572 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
44363408 TGCTATATAA
*
44363418 TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
44363483 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
44363499 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGC
1 TCAACTCGCACACTTAGTGCTA-C-TAATCAAATCGCACACTTAGTGCAACATAGTCAAACTCGC
44363562 ACACTTAGTGC
64 ACACTTAGTGC
44363573 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 35 0.52
82 31 0.46
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACTAATCAAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
ACTTAGTGCCGCATGG
Found at i:44370949 original size:6 final size:6
Alignment explanation
Indices: 44370931--44371033 Score: 68
Period size: 6 Copynumber: 16.8 Consensus size: 6
44370921 AAAAAACATT
* * *
44370931 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACACA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
44370980 ATCAGA ATCAGA ATCAGT ACCAGGTA A-CAGA ATCAAA ATAAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
44371029 ATCAG
1 ATCAG
44371034 GTAACAGAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
5 4 0.05
6 64 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:44370982 original size:37 final size:37
Alignment explanation
Indices: 44370940--44371033 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
44370930 TATCAGAACT
** *
44370940 AGAATCAGAATCAGAATCAGAATTAGGTGACACAATC
1 AGAATCAGAATCAGAATCAGAACCAGGTAACACAATC
* *
44370977 AGAATCAGAATCAGAATCAGTACCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAACCAGGTAACACAATC
* * *
44371014 AAAATAAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
44371034 GTAACAGAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAACCAGGTAACACAATC
Found at i:44371011 original size:31 final size:31
Alignment explanation
Indices: 44370976--44371048 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
44370966 GTGACACAAT
* *
44370976 CAGAATCAGAATCAGAATCAGTACCAGGTAA
1 CAGAATCAAAATAAGAATCAGTACCAGGTAA
*
44371007 CAGAATCAAAATAAGAATCAGTATCAGGTAA
1 CAGAATCAAAATAAGAATCAGTACCAGGTAA
*
44371038 CAGAATAAAAA
1 CAGAATCAAAA
44371049 ATCAGAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.16
Consensus pattern (31 bp):
CAGAATCAAAATAAGAATCAGTACCAGGTAA
Found at i:44371235 original size:27 final size:26
Alignment explanation
Indices: 44371193--44371294 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
44371183 ACTCAGTTAT
* *
44371193 CAGATATTGTGACAGAGCCACAAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
44371219 CAGATATTTGTGGCAGAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
*
44371246 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
44371274 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
44371295 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 6 0.09
27 55 0.80
28 8 0.12
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:44371481 original size:22 final size:22
Alignment explanation
Indices: 44371453--44371517 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44371443 GCAAATACGT
* *
44371453 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
44371475 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
44371497 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
44371518 AAGGTTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:44371991 original size:27 final size:27
Alignment explanation
Indices: 44371961--44372158 Score: 261
Period size: 27 Copynumber: 7.3 Consensus size: 27
44371951 TACCCCACAA
* * *
44371961 GGTATCTCGGTAATTCCACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
44371988 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * **
44372015 GGCATTGCAATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
44372042 GGTATTTCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
44372069 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
44372096 GGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
44372123 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
44372150 GGTATTTCG
1 GGTATTTCG
44372159 ATATTTTACA
Statistics
Matches: 150, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:44372157 original size:81 final size:81
Alignment explanation
Indices: 44371968--44372161 Score: 291
Period size: 81 Copynumber: 2.4 Consensus size: 81
44371958 CAAGGTATCT
* *
44371968 CGGTAATTCCACCCTATAGGGGTATTT-TAGTAATTCTACCCTACAGGGGCATTGCAATAATTCT
1 CGGTAATTCTACCCTATAGGGGTATTTCGA-TAATTCTACCCTACAGGGGCATTGCAATAATTCT
*
44372032 ACCCTACAGGGGTATTT
65 ACCCTACAGGGGTATTC
* * * *
44372049 CGATAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
1 CGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGCATTGCAATAATTCTA
*
44372114 CCCTATAGGGGTATTC
66 CCCTACAGGGGTATTC
*
44372130 CGGTAATTCTACCCTACAGGGGTATTTCGATA
1 CGGTAATTCTACCCTATAGGGGTATTTCGATA
44372162 TTTTACAAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 101 0.99
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (81 bp):
CGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGCATTGCAATAATTCTA
CCCTACAGGGGTATTC
Found at i:44372198 original size:27 final size:26
Alignment explanation
Indices: 44372161--44372327 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 26
44372151 GTATTTCGAT
* *
44372161 ATTTTACAAATCGAGAGTATTTTGATA
1 ATTTTACAAATC-AGGGTATTTTGGTA
*
44372188 ATTTCACAAATCAGGGGTATTTTGGTA
1 ATTTTACAAATCA-GGGTATTTTGGTA
*
44372215 ATTTTACAAGTCAGGGGTATTTTGGTA
1 ATTTTACAAATCA-GGGTATTTTGGTA
* *
44372242 ATTTTACAAACCAGAGGTATTTTAGTA
1 ATTTTACAAATCAG-GGTATTTTGGTA
*
44372269 ATTTTACAAACCAGGGCTATTTTGGTA
1 ATTTTACAAATCAGGG-TATTTTGGTA
**
44372296 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAATC-AGGGTATTTTGGTA
44372323 ATTTT
1 ATTTT
44372328 GTAAACTAAG
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.03
27 116 0.94
28 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTTTACAAATCAGGGTATTTTGGTA
Found at i:44372278 original size:81 final size:81
Alignment explanation
Indices: 44372146--44372327 Score: 230
Period size: 81 Copynumber: 2.3 Consensus size: 81
44372136 TTCTACCCTA
* * * * *
44372146 CAGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTTGATAATTTCACAAATCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCGAGAGTATTTTGATAATTTCACAAACCAGGGCTATTT
44372210 TGGTAATTTTACA-AGT
66 TGGTAATTTTACAGA-T
*
44372226 CAGGGGTATTTTGGTAATTTTACAAACC-AGAGGTATTTT-AGTAATTTTACAAACCAGGGCTAT
1 CAGGGGTATTTTGGTAATTTTACAAACCGAGA-GTATTTTGA-TAATTTCACAAACCAGGGCTAT
*
44372289 TTTGGTAATTTTACTGAT
64 TTTGGTAATTTTACAGAT
44372307 C-GAGGGTATTTTGGTAATTTT
1 CAG-GGGTATTTTGGTAATTTT
44372328 GTAAACTAAG
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
80 18 0.20
81 71 0.79
82 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACCGAGAGTATTTTGATAATTTCACAAACCAGGGCTATTT
TGGTAATTTTACAGAT
Found at i:44372339 original size:27 final size:26
Alignment explanation
Indices: 44372177--44372344 Score: 138
Period size: 27 Copynumber: 6.2 Consensus size: 26
44372167 CAAATCGAGA
* * * *
44372177 GTATTTTGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTATAAA-CAAGG
* * *
44372204 GTATTTTGGTAATTTTACAAGTCAGGG
1 GTATTTTGGTAATTTTATAA-ACAAGG
* *
44372231 GTATTTTGGTAATTTTACAAACCAGAG
1 GTATTTTGGTAATTTTATAAACAAG-G
* * *
44372258 GTATTTTAGTAATTTTACAAACCAGG
1 GTATTTTGGTAATTTTATAAACAAGG
* * *
44372284 GCTATTTTGGTAATTTTACTGATCGAGG
1 G-TATTTTGGTAATTTTA-TAAACAAGG
*
44372312 GTATTTTGGTAATTTTGTAAACTAAGG
1 GTATTTTGGTAATTTTATAAAC-AAGG
44372339 GTATTT
1 GTATTT
44372345 CAATAATTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.06
27 107 0.89
28 6 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GTATTTTGGTAATTTTATAAACAAGG
Found at i:44372342 original size:81 final size:81
Alignment explanation
Indices: 44372146--44372354 Score: 223
Period size: 81 Copynumber: 2.6 Consensus size: 81
44372136 TTCTACCCTA
* * * * * *
44372146 CAGGGGTATTTCGAT-ATTTTACAAATCGAGA-GTATTTT-GATAATTTCACAAATCAGGGGTAT
1 CAGGGGTATTTTGGTAATTTTACAAA-CAAGAGGTATTTTAG-TAATTTTACAAACCAGGGCTAT
44372208 TTTGGTAATTTTACAAGT
64 TTTGGTAATTTTACAAGT
*
44372226 CAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACCAGGGCTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACAAGAGGTATTTTAGTAATTTTACAAACCAGGGCTATTT
*
44372291 TGGTAATTTTAC-TGAT
66 TGGTAATTTTACAAG-T
** * *
44372307 C-GAGGGTATTTTGGTAATTTTGTAAACTAAG-GGTATTTCAATAATTTT
1 CAG-GGGTATTTTGGTAATTTTACAAAC-AAGAGGTATTTTAGTAATTTT
44372355 GTAAATCGAG
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
80 19 0.17
81 89 0.80
82 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACAAGAGGTATTTTAGTAATTTTACAAACCAGGGCTATTT
TGGTAATTTTACAAGT
Found at i:44372378 original size:27 final size:27
Alignment explanation
Indices: 44372348--44372554 Score: 281
Period size: 27 Copynumber: 7.7 Consensus size: 27
44372338 GGTATTTCAA
*
44372348 TAATTTTGTAAATCGAGGATAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* **
44372375 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTTTGTAAATCGAGGGTAAAACGG
*
44372402 TAATTTTATAAATCGAGGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
44372429 TAATTTTGAAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
44372456 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
44372483 TAATTTTATAAATCGAGGGTAAAACGA
1 TAATTTTGTAAATCGAGGGTAAAACGG
*
44372510 TAATTTTGTAAATCGAGGGTGAAAC-G
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
44372536 TAATTCTATAAATCGAGGG
1 TAATTTTGTAAATCGAGGG
44372555 CATTTCAGTA
Statistics
Matches: 158, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 17 0.11
27 141 0.89
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAACGG
Found at i:44372390 original size:81 final size:81
Alignment explanation
Indices: 44372347--44372554 Score: 328
Period size: 81 Copynumber: 2.6 Consensus size: 81
44372337 GGGTATTTCA
*
44372347 ATAATTTTGTAAATCGAGGATAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
1 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
*
44372412 AATCGAGGGTAAAACG
66 AATCAAGGGTAAAACG
* * * *
44372428 GTAATTTTGAAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATA
1 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
*
44372493 AATCGAGGGTAAAACG
66 AATCAAGGGTAAAACG
* *
44372509 ATAATTTTGTAAATCGAGGGTGAAAC-GTAATTCTATAAATCGAGGG
1 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
44372555 CATTTCAGTA
Statistics
Matches: 117, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 19 0.16
81 98 0.84
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
AATCAAGGGTAAAACG
Found at i:44374161 original size:25 final size:25
Alignment explanation
Indices: 44374089--44374195 Score: 80
Period size: 25 Copynumber: 4.3 Consensus size: 25
44374079 ACCACAACTA
44374089 GTATGAGCTTACCGATTT-TAGCTC
1 GTATGAGCTTACCGATTTCTAGCTC
* * *
44374113 ATAAGAGCTTACTGA-TTCTCAGCTC
1 GTATGAGCTTACCGATTTCT-AGCTC
* *
44374138 GTATTAGCTTACCAATTTCTAGCTC
1 GTATGAGCTTACCGATTTCTAGCTC
* *
44374163 ATCA-GAGCATT-TCGA-TTCATAGCTC
1 GT-ATGAGC-TTACCGATTTC-TAGCTC
44374188 GTATGAGC
1 GTATGAGC
44374196 ATACATGTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
23 2 0.03
24 17 0.27
25 37 0.59
26 7 0.11
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (25 bp):
GTATGAGCTTACCGATTTCTAGCTC
Found at i:44374170 original size:50 final size:49
Alignment explanation
Indices: 44374089--44374195 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 49
44374079 ACCACAACTA
*
44374089 GTATGAGCTTACCGATTTTAGCTCATAAGAGC-TTACTGATTC-TCAGCTC
1 GTATGAGCTTACCAATTTTAGCTCATAAGAGCATTAC-GATTCAT-AGCTC
* * *
44374138 GTATTAGCTTACCAATTTCTAGCTCATCAGAGCATTTCGATTCATAGCTC
1 GTATGAGCTTACCAATTT-TAGCTCATAAGAGCATTACGATTCATAGCTC
44374188 GTATGAGC
1 GTATGAGC
44374196 ATACATGTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
49 16 0.32
50 30 0.60
51 4 0.08
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (49 bp):
GTATGAGCTTACCAATTTTAGCTCATAAGAGCATTACGATTCATAGCTC
Found at i:44377903 original size:17 final size:18
Alignment explanation
Indices: 44377881--44377914 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44377871 TACATTGAAG
44377881 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
44377898 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
44377915 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:44379121 original size:29 final size:29
Alignment explanation
Indices: 44379081--44379186 Score: 119
Period size: 28 Copynumber: 3.8 Consensus size: 29
44379071 TTTGGCCCCT
* *
44379081 TTAGG-CCTAATCTCATTCATATGGCCAA
1 TTAGGCCCCAATCACATTCATATGGCCAA
* * *
44379109 TTAGGCCCAAATCACTTTCATATGACCAA
1 TTAGGCCCCAATCACATTCATATGGCCAA
* *
44379138 TT-GGCCCCAATCACATTCATATAGCCCA
1 TTAGGCCCCAATCACATTCATATGGCCAA
*
44379166 TCA-GCCCCAATCACATTCATA
1 TTAGGCCCCAATCACATTCATA
44379187 GTCATGCAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
28 45 0.68
29 21 0.32
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.27
Consensus pattern (29 bp):
TTAGGCCCCAATCACATTCATATGGCCAA
Found at i:44385938 original size:43 final size:44
Alignment explanation
Indices: 44385875--44385960 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 44
44385865 ACCAAAATAT
*
44385875 GATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAAC
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
* *
44385919 GATA-TCGGGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
44385961 TGAAATGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (44 bp):
GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
Found at i:44386300 original size:38 final size:38
Alignment explanation
Indices: 44386255--44386472 Score: 312
Period size: 38 Copynumber: 5.7 Consensus size: 38
44386245 GGCTTAAAGA
44386255 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
* * *
44386293 CTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
* * *
44386331 CCCGCAGGCTTCGTGCTGGTAATATATCCGTGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
44386369 CCCGCAGGCTTCGTGCTGGTATTATA-TCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTC-GGGTTAAAT
* **
44386407 CCCACAGGCTTCGTGCTAATATTATATTCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
* * *
44386445 CCCGCAGGCCTAGTACTGGTATTATATT
1 CCCGCAGGCTTCGTGCTGGTATTATATT
44386473 TAGGCCTTAA
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
37 1 0.01
38 158 0.98
39 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
Found at i:44386539 original size:45 final size:43
Alignment explanation
Indices: 44386482--44386598 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 43
44386472 TTAGGCCTTA
* * * * *
44386482 AGCCTAGAAGGCTATTATGCCGGTGAGAT-ACTATTCGGGCCTTTG
1 AGCCTAGCAGGCTATAATGCCGGTGACATGAC-A-TCGAGCC-TCG
*
44386527 AGCCTAGCAGGCTCTAATGCCGGTGACATGACATCGAGCCTCG
1 AGCCTAGCAGGCTATAATGCCGGTGACATGACATCGAGCCTCG
* *
44386570 AGCCTAGCAGGCGA-AATGCTGGTGA-ATGA
1 AGCCTAGCAGGCTATAATGCCGGTGACATGA
44386599 ATAAAAGTCT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
41 4 0.06
42 10 0.16
43 14 0.23
44 6 0.10
45 26 0.42
46 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (43 bp):
AGCCTAGCAGGCTATAATGCCGGTGACATGACATCGAGCCTCG
Found at i:44388854 original size:46 final size:46
Alignment explanation
Indices: 44388784--44388953 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
44388774 TGTAACCCGC
* *
44388784 CCATAAGTGAACTTGGACTAAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
*
44388830 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCACAT
* * * *
44388880 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
44388923 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
44388954 TTGGGATGCC
Statistics
Matches: 104, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 56 0.54
47 26 0.25
48 1 0.01
49 1 0.01
50 7 0.07
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
Found at i:44388906 original size:93 final size:93
Alignment explanation
Indices: 44388792--44388963 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
44388782 GCCCATAAGT
* *
44388792 GAACTTGGACTAAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTAAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
44388857 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
44388885 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTAAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
* *
44388950 CGAGTTGGGATGCC
66 CGAGCTCGGATGCC
44388964 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTAAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:44388978 original size:46 final size:46
Alignment explanation
Indices: 44388826--44388978 Score: 116
Period size: 46 Copynumber: 3.3 Consensus size: 46
44388816 TCGGGCATTC
* * * *
44388826 ACATCCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTT
1 ACATCC-T-AGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCCA--T
* * * *
44388876 ACATCTCT--CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 ACATC-CTAGTGAACTCGGACTCAACTCAACGAGTT-GG-GATGCCCAT
* * *
44388923 CCAT--AAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCCAA
1 ACATCCTAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCCAT
44388967 ACATCCTAGTGA
1 ACATCCTAGTGA
44388979 CATGTCACTT
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 30 0.38
47 27 0.34
48 1 0.01
49 4 0.05
50 6 0.08
51 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
ACATCCTAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCCAT
Found at i:44392471 original size:43 final size:43
Alignment explanation
Indices: 44392413--44392494 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
44392403 AATATTATAT
* *
44392413 TCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAAATAGTA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAGTA
*
44392456 TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAAT
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
44392495 GAAATGTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAGTA
Found at i:44392838 original size:38 final size:38
Alignment explanation
Indices: 44392796--44392928 Score: 212
Period size: 38 Copynumber: 3.5 Consensus size: 38
44392786 GACCTACAGA
*
44392796 CTTCGTGCTGGTATTATATCTGGGTTAAATCCCGCAGG
1 CTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGG
*
44392834 CTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGG
1 CTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGG
*
44392872 CTTCGTGCTGGTATTATATCCGGGTTAAATTCCGCAGG
1 CTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGG
* * *
44392910 CCTAGTACTGGTATTATAT
1 CTTCGTGCTGGTATTATAT
44392929 TCAGGCCTTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 88 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
CTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGG
Found at i:44392980 original size:44 final size:44
Alignment explanation
Indices: 44392925--44393055 Score: 153
Period size: 45 Copynumber: 3.0 Consensus size: 44
44392915 TACTGGTATT
* * *
44392925 ATATTCAGGCCTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
*
44392968 ACTATTCGGGCCTTTGAGCGTAGCAGGCTATAATGCCGGTGACATG
1 A-TATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * *
44393014 ATA-TCGAGCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATG
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
44393055 A
1 A
44393056 ATAAAAGTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 15 0.19
44 15 0.19
45 31 0.40
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (44 bp):
ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:44394318 original size:28 final size:28
Alignment explanation
Indices: 44394284--44394386 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 28
44394274 GGCCCCTTTA
* *
44394284 GGCCC-AATCTCATTCATATGACCCATT
1 GGCCCAAATCACATTCATATGACCCATC
*
44394311 GAGCCCAAATCACTTTCATATGACCCATC
1 G-GCCCAAATCACATTCATATGACCCATC
* * * *
44394340 GGCCCTAATCATATTCATATGGCCTATC
1 GGCCCAAATCACATTCATATGACCCATC
*
44394368 GGCCCCAATCACATTCATA
1 GGCCCAAATCACATTCATA
44394387 GTCTTGCAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.67
29 20 0.31
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (28 bp):
GGCCCAAATCACATTCATATGACCCATC
Found at i:44394642 original size:24 final size:23
Alignment explanation
Indices: 44394598--44394643 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
44394588 TGTAGCCAAA
* *
44394598 CTTTCGGCTTTTTGGCTTTTTGG
1 CTTTCGGCATTTTGGCATTTTGG
*
44394621 CTTTACGGCATTTTGGGATTTTG
1 CTTT-CGGCATTTTGGCATTTTG
44394644 CCGATCTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.07, C:0.15, G:0.26, T:0.52
Consensus pattern (23 bp):
CTTTCGGCATTTTGGCATTTTGG
Found at i:44397516 original size:18 final size:16
Alignment explanation
Indices: 44397484--44397522 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
44397474 TTACTAAATA
44397484 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
44397500 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
44397518 AATAA
1 AATAA
44397523 CATTAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:44398084 original size:43 final size:42
Alignment explanation
Indices: 44398036--44398189 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 42
44398026 ATAGGATTTC
44398036 CGATATGTGTTCTCGTGTAAGACCATGTCTAGGACGTTGGCAT
1 CGATATGTGTT-TCGTGTAAGACCATGTCTAGGACGTTGGCAT
* * *
44398079 CGATATGTGATTTCGAGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATGTG-TTTCGTGTAAGACCATGTCTAGGACGTTGGCAT
* * *
44398122 CG-TAATTGTGATTCGTGTAAGACCCTGTCTAGGATAG-TGGCAT
1 CGAT-A-TGTGTTTCGTGTAAGACCATGTCTAGGA-CGTTGGCAT
* * *
44398165 CGACATGTGATTACATGTAAGACCA
1 CGATATGTG-TTTCGTGTAAGACCA
44398190 CATTTGGGAT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 5 0.05
43 80 0.88
44 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
CGATATGTGTTTCGTGTAAGACCATGTCTAGGACGTTGGCAT
Found at i:44415572 original size:43 final size:43
Alignment explanation
Indices: 44415416--44415573 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
44415406 ATGTGTTATT
* *
44415416 GTGTAAGACCATGTATGGGATGTTGGCATCGAT-TTGTGATTTAC
1 GTGTAAGACCACGTCTGGGATGTTGGCATCGATATT-TGA-TTAC
* ** ** * *
44415460 GTGTAAGACCATGTCTGGGACATTGGTGTCG-TATATGATTTC
1 GTGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTAC
*
44415502 GTGTAAGACC-CTGTCTGGGATAG-TGGCATGGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATTAC
* *
44415545 ATGTAAGACCACGTCTAGGATGTTGGCAT
1 GTGTAAGACCACGTCTGGGATGTTGGCAT
44415574 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 28 0.31
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTAC
Found at i:44415777 original size:21 final size:21
Alignment explanation
Indices: 44415751--44415791 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44415741 ATGTATATGG
**
44415751 AAATGAAATGTGAATAAATGT
1 AAATGAAACATGAATAAATGT
44415772 AAATGAAACATGAATAAATG
1 AAATGAAACATGAATAAATG
44415792 AATAAGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.17, T:0.24
Consensus pattern (21 bp):
AAATGAAACATGAATAAATGT
Found at i:44419902 original size:79 final size:82
Alignment explanation
Indices: 44419791--44419975 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
44419781 GCTACTCGTT
* *
44419791 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
44419854 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
44419871 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
44419934 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
44419951 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44419976 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:44419975 original size:40 final size:40
Alignment explanation
Indices: 44419772--44419975 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
44419762 CGGAATTTAA
** *
44419772 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44419812 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
44419852 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44419891 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
44419931 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
44419971 CCGGA
1 CCGGA
44419976 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44427842 original size:79 final size:82
Alignment explanation
Indices: 44427731--44427915 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
44427721 GCTACTCGTT
* *
44427731 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
44427794 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
44427811 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
44427874 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
44427891 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44427916 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:44427915 original size:40 final size:40
Alignment explanation
Indices: 44427712--44427915 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
44427702 CGGAATTTAA
** *
44427712 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44427752 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
44427792 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44427831 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
44427871 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
44427911 CCGGA
1 CCGGA
44427916 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44429712 original size:14 final size:14
Alignment explanation
Indices: 44429693--44429724 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
44429683 AGTAGAATAA
44429693 TGATTGAATTGTAT
1 TGATTGAATTGTAT
44429707 TGATTGAATTGTAT
1 TGATTGAATTGTAT
44429721 TGAT
1 TGAT
44429725 GGCTGAGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (14 bp):
TGATTGAATTGTAT
Found at i:44438165 original size:15 final size:16
Alignment explanation
Indices: 44438129--44438158 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44438119 ACATATCATT
44438129 TATTTCATTATATCAA
1 TATTTCATTATATCAA
44438145 TATTTCA-TATATCA
1 TATTTCATTATATCA
44438159 TAGTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:44444829 original size:93 final size:93
Alignment explanation
Indices: 44444701--44444871 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
44444691 GCCCATAAGT
* * *
44444701 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44444766 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* *
44444794 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
44444859 CGAGTTCAGATGC
66 CGAGCTCAGATGC
44444872 TCAAATATTC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:44444865 original size:46 final size:46
Alignment explanation
Indices: 44444693--44444862 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
44444683 TGTAACCCGC
* * * *
44444693 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
44444739 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
44444785 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
44444832 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
44444863 TTCAGATGCT
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 60 0.60
47 30 0.30
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:44444887 original size:46 final size:44
Alignment explanation
Indices: 44444744--44444887 Score: 103
Period size: 46 Copynumber: 3.1 Consensus size: 44
44444734 CGCATCCATA
* * *
44444744 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCC-A--AATATCT
* * * *** *
44444791 -CTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 AGT-GAACTCGGACTCAACTCAACGAGTTC--AGATGC-CAAATATCT
44444837 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAAATATTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGC-CAAATA-TCT
44444883 AGTGA
1 AGTGA
44444888 CATGTCACTT
Statistics
Matches: 76, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
44 7 0.09
45 1 0.01
46 32 0.42
47 30 0.39
49 5 0.07
50 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCAAATATCT
Found at i:44450271 original size:40 final size:40
Alignment explanation
Indices: 44450216--44450299 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
44450206 GTGAACTCAG
44450216 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGA
1 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGA
*
44450256 ACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGA
1 ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGA
44450296 ACTC
1 ACTC
44450300 GGACTGAACT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
ACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGA
Found at i:44467051 original size:27 final size:27
Alignment explanation
Indices: 44467021--44467613 Score: 656
Period size: 27 Copynumber: 22.0 Consensus size: 27
44467011 ATGGTGACTA
*
44467021 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
44467048 AAATACCCCTATAGGATTAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
44467075 AAATACCCCTGTAGGGTAAAATAATCA
1 AAATACCCCTATAGGGTAAAATGACCG
* * **
44467102 AAATTCCTCC-ATTGGGTAAAATGACTA
1 AAATACC-CCTATAGGGTAAAATGACCG
*
44467129 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
44467156 AAATACCCCTATAGGGTAAATTGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
44467183 AAATACCCCTGTAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCG
44467210 AAATA-CCCTCATAGGGTAAAATGACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
* * *
44467237 AAACA-CCCTAGTAGCGTAAAAGGACCG
1 AAATACCCCTA-TAGGGTAAAATGACCG
* *
44467264 AAATA-CCCTATAGGGTAAAAGGACTG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
44467290 AAATACCCCTATAGGGTAAACTGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
44467317 AAATACCCCTATAGGGTAAAAGGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
44467344 AAAAATACCCCTGTAGGGTAAAATAATCT
1 --AAATACCCCTATAGGGTAAAATGACCG
*
44467373 AAATACCCCTATAGAGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
44467400 AAATACCCCTGTAGGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
44467427 AAATACCCCTGTAGGGTAAAATGACCT
1 AAATACCCCTATAGGGTAAAATGACCG
* *
44467454 AAATACCTCTATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
44467481 AAATACCCC-ATAGGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
44467507 AAATACCCCCATAGGGTAAAAGGATCA
1 AAATACCCCTATAGGGTAAAATGACCG
* * * * *
44467534 AAATACCCCTCTAAGGTATAATGGCTG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * * *
44467561 TAATACCCCTGTAGTGTATAATGACTG
1 AAATACCCCTATAGGGTAAAATGACCG
* * *
44467588 TAATACCCCTGTAAGGTAAAATGACC
1 AAATACCCCTATAGGGTAAAATGACC
44467614 AATTTTCCCT
Statistics
Matches: 479, Mismatches: 79, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
26 51 0.11
27 404 0.84
28 2 0.00
29 22 0.05
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCG
Found at i:44474807 original size:17 final size:17
Alignment explanation
Indices: 44474782--44474815 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44474772 CGACAACAAC
*
44474782 CTTAGTGCTTTAGCAAT
1 CTTAGTGCTGTAGCAAT
*
44474799 CTTATTGCTGTAGCAAT
1 CTTAGTGCTGTAGCAAT
44474816 AGGTGATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (17 bp):
CTTAGTGCTGTAGCAAT
Found at i:44482455 original size:43 final size:43
Alignment explanation
Indices: 44482383--44482522 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 43
44482373 ATGTGATATT
* * * *
44482383 GTGTAAGACCATGTCTGAGACCTTAGCATCGATCTGA-GATCAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATAT-ATGATCAC
**
44482426 GTGTAAGACCATGTCTGGGACATTGGCATC-ATATATGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATCAC
* * * * * * *
44482468 GTGAAAGACCCTGTCTGGGATAGTGGCATCGATATTTAATAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATCAC
*
44482511 ATGTAAGACCAT
1 GTGTAAGACCAT
44482523 ATCTAGGATA
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 1 0.01
42 33 0.42
43 44 0.56
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATCAC
Found at i:44487775 original size:29 final size:29
Alignment explanation
Indices: 44487718--44487803 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
44487708 TACCTGTATC
* *
44487718 TGGCCCATTAAG-CCTAATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
*
44487746 TGGCCCATTAGGCCCAAATCATATTTATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
* * *
44487775 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
44487803 T
1 T
44487804 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 22 0.44
29 28 0.56
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCATATTCATA
Found at i:44487823 original size:18 final size:17
Alignment explanation
Indices: 44487791--44487833 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
44487781 GTTAGGCCCA
* *
44487791 GTCACATTCATATTCAT
1 GTCACATACAAATTCAT
*
44487808 GCTCACATACAAATTCCT
1 G-TCACATACAAATTCAT
44487826 GTCACATA
1 GTCACATA
44487834 GCATCAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (17 bp):
GTCACATACAAATTCAT
Found at i:44490056 original size:7 final size:7
Alignment explanation
Indices: 44490044--44490068 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44490034 ATGAAAGAAT
44490044 GATGAGG
1 GATGAGG
44490051 GATGAGG
1 GATGAGG
44490058 GATGAGG
1 GATGAGG
44490065 GATG
1 GATG
44490069 GTTAAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.56, T:0.16
Consensus pattern (7 bp):
GATGAGG
Found at i:44490279 original size:18 final size:18
Alignment explanation
Indices: 44490256--44490290 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44490246 TGAGACTTGG
44490256 TCAAATGTAAATCTTCGA
1 TCAAATGTAAATCTTCGA
44490274 TCAAATGTAAATCTTCG
1 TCAAATGTAAATCTTCG
44490291 GGCAAATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
TCAAATGTAAATCTTCGA
Found at i:44490296 original size:18 final size:18
Alignment explanation
Indices: 44490257--44490297 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
44490247 GAGACTTGGT
*
44490257 CAAATGTAAATCTTCGAT
1 CAAATGTAAATCTTCGAG
*
44490275 CAAATGTAAATCTTCGGG
1 CAAATGTAAATCTTCGAG
44490293 CAAAT
1 CAAAT
44490298 CTCTAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (18 bp):
CAAATGTAAATCTTCGAG
Found at i:44496915 original size:28 final size:28
Alignment explanation
Indices: 44496852--44496916 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
44496842 TCAGTGTACG
* *
44496852 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* * *
44496880 AGACATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
44496908 AAATATTGA
1 AAATATTGA
44496917 ATGATTAAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Done.