Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 142 of 290
Found at i:48229386 original size:78 final size:78
Alignment explanation
Indices: 48229257--48229601 Score: 498
Period size: 78 Copynumber: 4.4 Consensus size: 78
48229247 GGTAAACACG
* * * *
48229257 TGAAGGTCAGATCTACTATGTCTTCAATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
*
48229322 GGATCTACTTCAA
66 GGATCTGCTTCAA
* *
48229335 TGAAGGTCTA-ATCTGTTATGTCTTCTATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 TGAAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
48229399 TGGATCTGCTTCGA
65 TGGATCTGCTTCAA
* * *
48229413 TGAATGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
48229477 TGGATCTGCTTCAA
65 TGGATCTGCTTCAA
* * * * *
48229491 TGAAGGTCAGATCTACTGTGTCTTCGATTTGGTCCCCGTCTAATACAAAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
48229556 GGATCT-CTTCAA
66 GGATCTGCTTCAA
*
48229568 TGAAGGTCAGATTTGCTATGTCTTCGATCTGCTC
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC
48229602 TCCATCGAAT
Statistics
Matches: 240, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
77 37 0.15
78 201 0.84
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:48229777 original size:442 final size:443
Alignment explanation
Indices: 48228697--48230070 Score: 2038
Period size: 442 Copynumber: 3.1 Consensus size: 443
48228687 CAAATCTGCT
* * * ** * * * * * *
48228697 TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCTGATTTGCTCCCCGTC
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGACGCCAAATCTGTT-TCTTTGATTTGTTCACTGAC
* * * * *
48228762 TAATACAGAGATGCCAAATCTGTCATCTTGGATTTGCTTC-GATGTAAACACATGAAGGTCAGAT
65 -AGTACAGAGATGCCAAA--T-T-ATCTTAGATCTGCTTCAG-CGTAAACACGTGAAGGTCAGAT
* * * *
48228826 CTGCTATGTTTTCGTTCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
124 CTACTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
* * *
48228891 ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATTATCT
189 ATGAAGGTCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
48228956 TGGATCTGCTTCAATGAAGGT-TAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAAAG
254 TGGATCTGCTTCAATGAAGGTCTA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAG
* * *
48229020 ATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATTTGCTATGTCTTCGATCTGCTCTCC
318 ATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCC
* * ** * *
48229085 ATCGAATATGGAGATGCCAAATCATATTGGATCTGCTTCAATGAAGCTCAGATCTGCTATG
383 GTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
* * *
48229146 TCTTTGATCTGCTCTCCGTCGAATATGGAGACGCCAAATCTGTTTCTTCGATTTGTTCACTGATA
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGACGCCAAATCTGTTTCTTTGATTTGTTCACTGACA
* *
48229211 GTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGGGTAAACACGTGAAGGTCAGATCTACTAT
66 GTACAGAGATGCCAAATTATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTACTAT
* * *
48229276 GTCTTCAATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGG
131 GTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGG
*
48229341 TCTAATCTGTTATGTCTTCTATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
196 TCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
* * * *
48229406 GCTTCGATGAATGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAA
261 GCTTCAATGAAGGTCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
* * * *
48229471 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTACTGTGTCTTCGATTTGGTCCCCGTCTAATA
326 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATA
* *
48229536 CAAAGATGCCAAATCATCTTGGATCT-CTTCAATGAAGGTCAGATTTGCTATG
391 CAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
* *
48229588 TCTTCGATCTGCTCTCCATCGAATATGGAGACGCCAAATCTGTTTCTTTGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGACGCCAAATCTGTTTCTTTGATTTGTTCACTGACA
*
48229653 GTACAGAGATGCCAAATTATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGAACTACTAT
66 GTACAGAGATGCCAAATTATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTACTAT
*
48229718 GTCTTCGATCTGCTCCCCATCTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGG
131 GTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGG
48229783 TCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
196 TCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
48229848 GCTTCAATGAAGGTCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
261 GCTTCAATGAAGGTCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
*
48229913 TCATCTTGGATCTGCTTCAATGAAGGTCTA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAAT
326 TCATCTTGGATCTGCTTCAATGAAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAAT
*
48229977 ACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCTA-ATCTGTTATG
390 ACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC-AGATCTGCTATG
* * ** *
48230031 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCCGTCGAATATGGAGACGCCAAATC
48230071 ATCTTGGATC
Statistics
Matches: 836, Mismatches: 84, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
442 415 0.50
443 351 0.42
444 3 0.00
445 1 0.00
447 16 0.02
448 13 0.02
449 37 0.04
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (443 bp):
TCTTCGATCTGCTCTCCGTCGAATATGGAGACGCCAAATCTGTTTCTTTGATTTGTTCACTGACA
GTACAGAGATGCCAAATTATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTACTAT
GTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGG
TCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
GCTTCAATGAAGGTCTAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATA
CAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
Found at i:48230226 original size:78 final size:78
Alignment explanation
Indices: 48229715--48230200 Score: 859
Period size: 78 Copynumber: 6.2 Consensus size: 78
48229705 TCAGAACTAC
* *
48229715 TATGTCTTCGATCTGCTCCCCATCTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
48229780 AGGTCTAATCTGT
66 AGGTCTAATCTGT
48229793 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
48229858 AGGTCTAATCTGT
66 AGGTCTAATCTGT
48229871 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
48229936 AGGTCTAATCTGT
66 AGGTCTAATCTGT
48229949 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
48230014 AGGTCTAATCTGT
66 AGGTCTAATCTGT
48230027 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
*
48230092 AGGT-TAGATCTGC
66 AGGTCTA-ATCTGT
* * * *
48230105 TGTGTATTCGATATGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
*
48230170 AGGTC-AGATCTGC
66 AGGTCTA-ATCTGT
*
48230183 TATGTCTTCAATCTGCTC
1 TATGTCTTCGATCTGCTC
48230201 TCTGTCGAAT
Statistics
Matches: 395, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
77 2 0.01
78 393 0.99
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (78 bp):
TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
AGGTCTAATCTGT
Found at i:48230819 original size:20 final size:21
Alignment explanation
Indices: 48230789--48230827 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
48230779 ACCCAGCAAA
*
48230789 CCCAGACTTAAACTAGACCAG
1 CCCAGACTTAAACCAGACCAG
48230810 CCCA-ACTTAAACCAGACC
1 CCCAGACTTAAACCAGACC
48230828 TAAACAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (21 bp):
CCCAGACTTAAACCAGACCAG
Found at i:48231997 original size:21 final size:22
Alignment explanation
Indices: 48231973--48232030 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
48231963 GCTATTTTTT
48231973 TATTTTAAAAA-ACTATACATA
1 TATTTTAAAAATACTATACATA
**
48231994 TATTATTAAAAATACTATTTATA
1 TATT-TTAAAAATACTATACATA
48232017 TATTTATATAAAAT
1 TATTT-TA-AAAAT
48232031 TTTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 14 0.45
24 5 0.16
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTTTAAAAATACTATACATA
Found at i:48232101 original size:25 final size:25
Alignment explanation
Indices: 48232063--48232133 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
48232053 TCCTATATAT
48232063 ATTTATTATA-TTTTATTATATAAC
1 ATTTATTATATTTTTATTATATAAC
**
48232087 ATTTATTATATTTTTATTATATATT
1 ATTTATTATATTTTTATTATATAAC
* *
48232112 ACTTATTATTTTTTTATTATAT
1 ATTTATTATATTTTTATTATAT
48232134 GTTATGTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 10 0.24
25 32 0.76
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTATTATATTTTTATTATATAAC
Found at i:48232102 original size:11 final size:11
Alignment explanation
Indices: 48232058--48232133 Score: 64
Period size: 11 Copynumber: 6.5 Consensus size: 11
48232048 TATTTTCCTA
*
48232058 TATATATTTAT
1 TATATTTTTAT
48232069 TATA-TTTTAT
1 TATATTTTTAT
*
48232079 TATATAACATTTAT
1 TATAT---TTTTAT
48232093 TATATTTTTAT
1 TATATTTTTAT
48232104 TATATATTACTTAT
1 TATAT-TT--TTAT
*
48232118 TATTTTTTTAT
1 TATATTTTTAT
48232129 TATAT
1 TATAT
48232134 GTTATGTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.17
11 22 0.42
12 2 0.04
13 2 0.04
14 18 0.34
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTTTAT
Found at i:48242831 original size:25 final size:27
Alignment explanation
Indices: 48242790--48242844 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
48242780 AGTTAAACAT
*
48242790 GTATTTGGGTCAATTTAAC-CCTAGGG
1 GTATTTCGGTCAATTTAACTCCTAGGG
*
48242816 GTATTTCGGT-AATTTATCTCCTAGGG
1 GTATTTCGGTCAATTTAACTCCTAGGG
48242842 GTA
1 GTA
48242845 AAACTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (27 bp):
GTATTTCGGTCAATTTAACTCCTAGGG
Found at i:48244363 original size:26 final size:26
Alignment explanation
Indices: 48244332--48244439 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
48244322 TGAAATGCCC
*
48244332 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
48244358 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
48244384 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
48244410 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48244436 ATCA
1 ATCA
48244440 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:48251028 original size:25 final size:27
Alignment explanation
Indices: 48250991--48251043 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
48250981 TTAAACATGC
48250991 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
48251017 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
48251043 A
1 A
48251044 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:48253610 original size:27 final size:27
Alignment explanation
Indices: 48253569--48253627 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
48253559 GACAAGGGCT
48253569 ACAAATTCCCATAGCTCTAAAATGGCA
1 ACAAATTCCCATAGCTCTAAAATGGCA
* *
48253596 ACAAATTCTCGTAGCTCTAAAATGGCA
1 ACAAATTCCCATAGCTCTAAAATGGCA
48253623 ACAAA
1 ACAAA
48253628 CACTCAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (27 bp):
ACAAATTCCCATAGCTCTAAAATGGCA
Found at i:48254736 original size:21 final size:21
Alignment explanation
Indices: 48254712--48254799 Score: 158
Period size: 21 Copynumber: 4.2 Consensus size: 21
48254702 GGCACATGCT
* *
48254712 CGTGTGGAAGGGTAACACGCC
1 CGTGTGGGAGGGTAACACTCC
48254733 CGTGTGGGAGGGTAACACTCC
1 CGTGTGGGAGGGTAACACTCC
48254754 CGTGTGGGAGGGTAACACTCC
1 CGTGTGGGAGGGTAACACTCC
48254775 CGTGTGGGAGGGTAACACTCC
1 CGTGTGGGAGGGTAACACTCC
48254796 CGTG
1 CGTG
48254800 CCCCACACTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.19, C:0.24, G:0.39, T:0.18
Consensus pattern (21 bp):
CGTGTGGGAGGGTAACACTCC
Found at i:48255919 original size:46 final size:45
Alignment explanation
Indices: 48255816--48255994 Score: 150
Period size: 46 Copynumber: 3.8 Consensus size: 45
48255806 TGGGTTAAGT
* * *
48255816 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAC-TATCATCTCTTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTAT--TCTC-AA
*
48255864 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTAT-TCTC-AA
* ** *
48255910 GCCGGTGCATGTCTGAGACAT-GTCTTACACTAGCCTTCA-TCTCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACT-GGCTT-ATTCTCAA
* *
48255955 TGTCGATGCCATGACCCAGACATGGTCTTACACTGGCTTA
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTA
48255995 CATGAGTGAC
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 54 0.50
47 35 0.32
48 18 0.17
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTATTCTCAA
Found at i:48259498 original size:61 final size:61
Alignment explanation
Indices: 48259403--48259525 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
48259393 CTATTCCAAG
48259403 CCTAACCAAAGCCCCATTACAAACTTTACAGCACATGTATTCATAAAATTTTAGAATTTCT
1 CCTAACCAAAGCCCCATTACAAACTTTACAGCACATGTATTCATAAAATTTTAGAATTTCT
48259464 CCTAACCAAAGCCCCATTACAAACTTTACAGCACATGTATTCATAAAATTTTAGAATTTCT
1 CCTAACCAAAGCCCCATTACAAACTTTACAGCACATGTATTCATAAAATTTTAGAATTTCT
48259525 C
1 C
48259526 ATCAAATTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (61 bp):
CCTAACCAAAGCCCCATTACAAACTTTACAGCACATGTATTCATAAAATTTTAGAATTTCT
Found at i:48259547 original size:20 final size:19
Alignment explanation
Indices: 48259503--48259547 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
48259493 AGCACATGTA
*
48259503 TTCATAAAATTTTAGAATT
1 TTCATAAAATTTTACAATT
*
48259522 TCTCATCAAATTTTACAACTT
1 T-TCATAAAATTTTACAA-TT
48259543 TTCAT
1 TTCAT
48259548 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.47
Consensus pattern (19 bp):
TTCATAAAATTTTACAATT
Found at i:48261591 original size:42 final size:43
Alignment explanation
Indices: 48261544--48261818 Score: 215
Period size: 42 Copynumber: 6.5 Consensus size: 43
48261534 TGAAAAAAAG
* * *
48261544 GCCGCTATAGAACATGATCTTTAGCAGCGC-TTTCCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * * *
48261586 GCCGCTAAAGAACATGA-CATTAGTGACG-TCTCTCCCAAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCT-TTTCCCACAAAC
* *
48261628 GCCGTTAAAGAACATGACCTTTACCGGCGCTTTTCCCAC-AAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * * *
48261670 GCCACTAAAGAAAATGACTTTTAAG-GGCACTTTTCCTACAAAC
1 GCCGCTAAAGAACATGACCTTT-AGCGGCGCTTTTCCCACAAAC
** * * * * *
48261713 GATGCTATAGAATA-GACCTTTAGCAGCGCTTTTGCCATAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * * *
48261755 GCCACTATA-AATA-GACCTTTAGCGGTGCTTTTCCCTCAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
48261796 ACCGCTAAATAACATGACCTTTA
1 GCCGCTAAAGAACATGACCTTTA
48261819 AAAAAATATT
Statistics
Matches: 180, Mismatches: 44, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
41 42 0.23
42 103 0.57
43 34 0.19
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:48261863 original size:22 final size:23
Alignment explanation
Indices: 48261838--48261880 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
48261828 TTTATTTTAA
*
48261838 TTAAATAATAT-TTATTTCTATG
1 TTAAATAATATATTATGTCTATG
*
48261860 TTAAATATTATATTATGTCTA
1 TTAAATAATATATTATGTCTA
48261881 ATTTGTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (23 bp):
TTAAATAATATATTATGTCTATG
Found at i:48263064 original size:28 final size:27
Alignment explanation
Indices: 48263009--48263112 Score: 120
Period size: 28 Copynumber: 3.8 Consensus size: 27
48262999 AGCATGGCTG
* *
48263009 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* *
48263035 CCAGATACGGATATTTGTGGCAGTGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
48263063 CCAGAATCAGATGTTTGTGGCAGAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
*
48263091 CCAGAAATAGATATTTGTGGCA
1 CCAG-AACAGATATTTGTGGCA
48263113 TAACCAACAG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.08
27 7 0.11
28 51 0.78
29 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:48263093 original size:56 final size:54
Alignment explanation
Indices: 48263009--48263112 Score: 136
Period size: 56 Copynumber: 1.9 Consensus size: 54
48262999 AGCATGGCTG
* * *
48263009 CCAGAACAGATATTGTGACAGAGTCACCAGATACGGATATTTGTGGCAGTGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGTGCCA
* * *
48263063 CCAGAATCAGATGTTTGTGGCAGAGCCACCAGAAATAGATATTTGTGGCA
1 CCAGAA-CAGAT-ATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCA
48263113 TAACCAACAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 6 0.14
55 5 0.12
56 31 0.74
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (54 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGTGCCA
Found at i:48263123 original size:28 final size:29
Alignment explanation
Indices: 48263044--48263124 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 29
48263034 ACCAGATACG
48263044 GATATTTGTGGCAGT-GCCACCAG-AATCA
1 GATATTTGTGGCA-TAGCCACCAGAAATCA
* *
48263072 GATGTTTGTGGCAGAGCCACCAGAAAT-A
1 GATATTTGTGGCATAGCCACCAGAAATCA
* *
48263100 GATATTTGTGGCATAACCAACAGAA
1 GATATTTGTGGCATAGCCACCAGAA
48263125 TGCTTCCTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 42 0.93
29 3 0.07
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (29 bp):
GATATTTGTGGCATAGCCACCAGAAATCA
Found at i:48263548 original size:8 final size:8
Alignment explanation
Indices: 48263522--48263551 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
48263512 AAAGATGCCA
48263522 GCTTTTCG
1 GCTTTTCG
*
48263530 GCATTTCG
1 GCTTTTCG
48263538 GCTTTTCG
1 GCTTTTCG
48263546 GCTTTT
1 GCTTTT
48263552 ACCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:48265957 original size:40 final size:39
Alignment explanation
Indices: 48265920--48266011 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
48265910 GCTACTCGTT
*
48265920 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
48265960 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
48265999 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48266012 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:48265991 original size:39 final size:40
Alignment explanation
Indices: 48265901--48266064 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
48265891 CGGAATTTAA
** *
48265901 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
48265941 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48265980 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48266020 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48266060 CCGGA
1 CCGGA
48266065 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48267898 original size:12 final size:12
Alignment explanation
Indices: 48267881--48267906 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48267871 TAGACATACG
48267881 AAATAATAATAA
1 AAATAATAATAA
48267893 AAATAATAATAA
1 AAATAATAATAA
48267905 AA
1 AA
48267907 TCCAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:48275253 original size:20 final size:20
Alignment explanation
Indices: 48275216--48275259 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
48275206 GCACATGTAT
*
48275216 TCATAAAATTTCAGAACTTC
1 TCATAAAATTTCACAACTTC
* * *
48275236 TCATCAAATTTTACAACTTT
1 TCATAAAATTTCACAACTTC
48275256 TCAT
1 TCAT
48275260 TTTAGTCCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (20 bp):
TCATAAAATTTCACAACTTC
Found at i:48277864 original size:40 final size:40
Alignment explanation
Indices: 48277766--48278108 Score: 451
Period size: 40 Copynumber: 8.6 Consensus size: 40
48277756 TCCTCGTTCA
* * * ** *
48277766 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
48277805 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
48277845 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
48277885 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
48277925 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
48277965 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
48278005 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
48278045 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
48278085 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48278109 CAGCATTCAA
Statistics
Matches: 279, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
39 37 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:48280668 original size:39 final size:40
Alignment explanation
Indices: 48280604--48280700 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 40
48280594 TGAAATGAGC
* * *
48280604 CGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTT
1 CGGGACATAACCCGGATTTAATAACTCACACGAATGCCTT
* *
48280643 CGGGACATAACCCGGATTTAATAACTCGCACGAATGCTTT
1 CGGGACATAACCCGGATTTAATAACTCACACGAATGCCTT
*
48280683 CGGGACTTAACCCGGATT
1 CGGGACATAACCCGGATT
48280701 AAGTATCTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 27 0.53
40 24 0.47
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGGACATAACCCGGATTTAATAACTCACACGAATGCCTT
Found at i:48280694 original size:40 final size:40
Alignment explanation
Indices: 48280604--48280765 Score: 159
Period size: 40 Copynumber: 4.1 Consensus size: 40
48280594 TGAAATGAGC
* * * *
48280604 CGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTT
1 CGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTT
* *
48280643 CGGGACATAACCCGGATTTAATAACTCGCACGAATGCTTT
1 CGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTT
* * * *
48280683 CGGGACTTAACCCGGA-TTAAGTATCTCGCAAAAAGGCCTT
1 CGGGACATAACCCGGATTTAA-TAACTCGCACAAATGCCTT
* * * *
48280723 CGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTT
1 CGGGACATAACCCGG-ATTTAATAACTCGCACAAATGCCTT
48280763 CGG
1 CGG
48280766 ATCTTAGTCC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
39 31 0.30
40 70 0.67
41 1 0.01
42 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTT
Found at i:48300508 original size:14 final size:13
Alignment explanation
Indices: 48300477--48300515 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
48300467 TATCCTGGAA
48300477 AATTAA-AACAAG
1 AATTAAGAACAAG
*
48300489 AATTAAGAACACAT
1 AATTAAGAACA-AG
48300503 AATTAAGAACAAG
1 AATTAAGAACAAG
48300516 TCAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (13 bp):
AATTAAGAACAAG
Found at i:48308168 original size:44 final size:44
Alignment explanation
Indices: 48308104--48308215 Score: 188
Period size: 44 Copynumber: 2.5 Consensus size: 44
48308094 CATAGGATGT
48308104 CGATATGTGTGTGTGAGTAAGACCATGGCATCGATATGTGATTC
1 CGATATGTGTGTGTGAGTAAGACCATGGCATCGATATGTGATTC
*
48308148 TGATATGTGTGTGTGAGTAAGACCATGGCATCGATATGTGATTC
1 CGATATGTGTGTGTGAGTAAGACCATGGCATCGATATGTGATTC
* **
48308192 CGATATGTGTTTACGAGTAAGACC
1 CGATATGTGTGTGTGAGTAAGACC
48308216 CTGTCTGGGA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (44 bp):
CGATATGTGTGTGTGAGTAAGACCATGGCATCGATATGTGATTC
Found at i:48311813 original size:470 final size:470
Alignment explanation
Indices: 48310933--48311874 Score: 1884
Period size: 470 Copynumber: 2.0 Consensus size: 470
48310923 TAAAATTTTC
48310933 ATATCAAAATTTTCACATGTCATTTCTATCATATTACGGGCCATATGGTAAAATAAAAATAAAAT
1 ATATCAAAATTTTCACATGTCATTTCTATCATATTACGGGCCATATGGTAAAATAAAAATAAAAT
48310998 ATATTTTGGATTGAACTTGTGGTCCCAAAATCACGGTTCCAATTTCACTGAAAATAGACTGTTAC
66 ATATTTTGGATTGAACTTGTGGTCCCAAAATCACGGTTCCAATTTCACTGAAAATAGACTGTTAC
48311063 AACTCTCCCCCTTAGGGATTTTCGTCCCTGAAAATCTTACCAATAAAAAGATTCGGATATTGCTT
131 AACTCTCCCCCTTAGGGATTTTCGTCCCTGAAAATCTTACCAATAAAAAGATTCGGATATTGCTT
48311128 TCTCAATGTATCCTCCGGTTCCCATGTTGCCTCCTCAATGCCATGTCTTTGCCAAAGAACTTTTA
196 TCTCAATGTATCCTCCGGTTCCCATGTTGCCTCCTCAATGCCATGTCTTTGCCAAAGAACTTTTA
48311193 CCAAAGCTACCTTTTTATTTCTTAACTCTTTTGTTTCCTGAGCTAAGATTTTGATTGGTTCCTCA
261 CCAAAGCTACCTTTTTATTTCTTAACTCTTTTGTTTCCTGAGCTAAGATTTTGATTGGTTCCTCA
48311258 CCATATGTCATATCAGGCTGGATCTCTACCTTTGTCAGAGAGATAACATGTGAAGGATCAGATCG
326 CCATATGTCATATCAGGCTGGATCTCTACCTTTGTCAGAGAGATAACATGTGAAGGATCAGATCG
48311323 ATACCGCCGTAACATAGACACATGAAAAACATTATGAATCTGTTCAAGCTCTGGTGGTAAAGCTA
391 ATACCGCCGTAACATAGACACATGAAAAACATTATGAATCTGTTCAAGCTCTGGTGGTAAAGCTA
48311388 GCCGTTACACAACCG
456 GCCGTTACACAACCG
48311403 ATATCAAAATTTTCACATGTCATTTCTATCATATTACGGGCCATATGGTAAAATAAAAATAAAAT
1 ATATCAAAATTTTCACATGTCATTTCTATCATATTACGGGCCATATGGTAAAATAAAAATAAAAT
48311468 ATATTTTGGATTGAACTTGTGGTCCCAAAATCACGGTTCCAATTTCACTGAAAATAGACTGTTAC
66 ATATTTTGGATTGAACTTGTGGTCCCAAAATCACGGTTCCAATTTCACTGAAAATAGACTGTTAC
48311533 AACTCTCCCCCTTAGGGATTTTCGTCCCTGAAAATCTTACCAATAAAAAGATTCGGATATTGCTT
131 AACTCTCCCCCTTAGGGATTTTCGTCCCTGAAAATCTTACCAATAAAAAGATTCGGATATTGCTT
48311598 TCTCAATGTATCCTCCGGTTCCCATGTTGCCTCCTCAATGCCATGTCTTTGCCAAAGAACTTTTA
196 TCTCAATGTATCCTCCGGTTCCCATGTTGCCTCCTCAATGCCATGTCTTTGCCAAAGAACTTTTA
48311663 CCAAAGCTACCTTTTTATTTCTTAACTCTTTTGTTTCCTGAGCTAAGATTTTGATTGGTTCCTCA
261 CCAAAGCTACCTTTTTATTTCTTAACTCTTTTGTTTCCTGAGCTAAGATTTTGATTGGTTCCTCA
48311728 CCATATGTCATATCAGGCTGGATCTCTACCTTTGTCAGAGAGATAACATGTGAAGGATCAGATCG
326 CCATATGTCATATCAGGCTGGATCTCTACCTTTGTCAGAGAGATAACATGTGAAGGATCAGATCG
48311793 ATACCGCCGTAACATAGACACATGAAAAACATTATGAATCTGTTCAAGCTCTGGTGGTAAAGCTA
391 ATACCGCCGTAACATAGACACATGAAAAACATTATGAATCTGTTCAAGCTCTGGTGGTAAAGCTA
48311858 GCCGTTACACAACCG
456 GCCGTTACACAACCG
48311873 AT
1 AT
48311875 CCAATTCTTT
Statistics
Matches: 472, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
470 472 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (470 bp):
ATATCAAAATTTTCACATGTCATTTCTATCATATTACGGGCCATATGGTAAAATAAAAATAAAAT
ATATTTTGGATTGAACTTGTGGTCCCAAAATCACGGTTCCAATTTCACTGAAAATAGACTGTTAC
AACTCTCCCCCTTAGGGATTTTCGTCCCTGAAAATCTTACCAATAAAAAGATTCGGATATTGCTT
TCTCAATGTATCCTCCGGTTCCCATGTTGCCTCCTCAATGCCATGTCTTTGCCAAAGAACTTTTA
CCAAAGCTACCTTTTTATTTCTTAACTCTTTTGTTTCCTGAGCTAAGATTTTGATTGGTTCCTCA
CCATATGTCATATCAGGCTGGATCTCTACCTTTGTCAGAGAGATAACATGTGAAGGATCAGATCG
ATACCGCCGTAACATAGACACATGAAAAACATTATGAATCTGTTCAAGCTCTGGTGGTAAAGCTA
GCCGTTACACAACCG
Found at i:48319966 original size:28 final size:28
Alignment explanation
Indices: 48319890--48319966 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
48319880 TATAAACGTT
**
48319890 ATTGGGCCTAGTGGGCCATATAGATGTG
1 ATTGGGCCTAGTGGGCCATATAGATAAG
* * *
48319918 ATTTTGGCCTAATGGGTCATAT-GAATAAG
1 A-TTGGGCCTAGTGGGCCATATAG-ATAAG
*
48319947 ATTGGGCCTAGTCGGCCATA
1 ATTGGGCCTAGTGGGCCATA
48319967 AGCATGTATG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
28 17 0.45
29 21 0.55
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (28 bp):
ATTGGGCCTAGTGGGCCATATAGATAAG
Found at i:48322882 original size:304 final size:304
Alignment explanation
Indices: 48322291--48322885 Score: 815
Period size: 304 Copynumber: 2.0 Consensus size: 304
48322281 GAGTCACCAT
* * * *
48322291 AAAAATCTACATACTTTTATTAATGGTCTAATTGCCATATAAGGACCATAAGTTTTGATTTCCAT
1 AAAAATCTACATACTTTGATTAATGGTCTAATTACCATATAAGGACCATAAGTCTTGAATTCCAT
48322356 AGCTATTTGATCCTTATAGCTACTAGAATTCAACTTTCACATTTTATGCGATTTAGTCCTTCTTA
66 AGCTATTTGATCCTTATAGCTACTAGAATTCAACTTTCACATTTTATGCGATTTAGTCCTTCTTA
* ** *
48322421 TAATTAGGCATTAAATCGATAAAATTTTCATATCAAAATTTTCACACATCATTTCTATCATATTA
131 TAATTAAGCATTAAATCGATAAAATTTTCATATCAAAATTTTCACACATCATGCCTATCATAATA
* * ** * *
48322486 CGGGCCATATGGTAAAATAAAAATAAAATATATTTTGGATCAGATTTGTGGTCCTAAAACCACTG
196 CAGACCATATAATAAAATAAAAATAAAATATATTTTAGATCAGATTTGTGGTCCCAAAACCACTG
*
48322551 TTCCGATTTCACTGAAAAATGGGTTGTTACAATAAGTCACTAAG
261 TTCCAATTTCACTGAAAAATGGGTTGTTACAATAAGTCACTAAG
* **
48322595 AAAAATCTACATACTTTGCTTAATGGTCTAATTACCATATAAGGACC-TCTTGTCTTGAATTCCA
1 AAAAATCTACATACTTTGATTAATGGTCTAATTACCATATAAGGACCAT-AAGTCTTGAATTCCA
* *
48322659 TAGCTATTTGATCCTTATAGCTACTAGAATTTAACTTTCACATTTTATGCGATTTAGTCCTTGTT
65 TAGCTATTTGATCCTTATAGCTACTAGAATTCAACTTTCACATTTTATGCGATTTAGTCCTTCTT
* * * * *
48322724 GTAATTAAGCACTT-AATTGATAAAATTTTCATGTCAAAATTTTCACATGA-CATGCCTATTATA
130 ATAATTAAGCA-TTAAATCGATAAAATTTTCATATCAAAATTTTCACA-CATCATGCCTATCATA
** * **
48322787 ATACAGACCATATAATGGAATAAAAATAAACCT-TATTGTTAGATTGGATTTGTGGTCCCAAAAT
193 ATACAGACCATATAATAAAATAAAAATAAA-ATATATT-TTAGATCAGATTTGTGGTCCCAAAA-
*
48322851 CTA-TGTTCCAATTTCACTGAAAAAT-GGTTGTTACA
255 CCACTGTTCCAATTTCACTGAAAAATGGGTTGTTACA
48322886 CTTAGTACCT
Statistics
Matches: 254, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
303 1 0.00
304 205 0.81
305 46 0.18
306 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (304 bp):
AAAAATCTACATACTTTGATTAATGGTCTAATTACCATATAAGGACCATAAGTCTTGAATTCCAT
AGCTATTTGATCCTTATAGCTACTAGAATTCAACTTTCACATTTTATGCGATTTAGTCCTTCTTA
TAATTAAGCATTAAATCGATAAAATTTTCATATCAAAATTTTCACACATCATGCCTATCATAATA
CAGACCATATAATAAAATAAAAATAAAATATATTTTAGATCAGATTTGTGGTCCCAAAACCACTG
TTCCAATTTCACTGAAAAATGGGTTGTTACAATAAGTCACTAAG
Found at i:48324516 original size:15 final size:16
Alignment explanation
Indices: 48324496--48324535 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
48324486 TAAATTGGAA
48324496 AAATGAAAAGTT-ATT
1 AAATGAAAAGTTAATT
* *
48324511 AAATGACAATTTAATT
1 AAATGAAAAGTTAATT
48324527 AAATGAAAA
1 AAATGAAAA
48324536 AGTCATCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (16 bp):
AAATGAAAAGTTAATT
Found at i:48330724 original size:48 final size:47
Alignment explanation
Indices: 48330672--48330859 Score: 193
Period size: 48 Copynumber: 3.9 Consensus size: 47
48330662 GGCCACAATA
* *
48330672 TGAGAGCCAATGTAAGACCATGTCTGTGACATGGCATCGGCATTGAGG
1 TGAGAGCCAGTGTAAGACCATGTCTG-GACATGGCATCGGCATTGATG
* * * * *
48330720 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGATT
1 TGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGGCATTGATG
** *
48330768 TCG-GTAGTTAGTGTAAGACCATGTCTGGAACATGGCATCGAC-TTGATG
1 T-GAG-AGCCAGTGTAAGACCATGTCTGG-ACATGGCATCGGCATTGATG
*
48330816 -GATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATT
1 TGA-GAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGGCATT
48330860 ATACCCTATG
Statistics
Matches: 116, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
46 1 0.01
47 30 0.26
48 52 0.45
49 33 0.28
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (47 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGGCATTGATG
Found at i:48334152 original size:27 final size:27
Alignment explanation
Indices: 48334122--48334299 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48334112 ATATTGAGTC
* * * *
48334122 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48334149 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48334176 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48334204 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48334231 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48334258 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48334285 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48334300 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48334261 original size:82 final size:81
Alignment explanation
Indices: 48334143--48334298 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48334133 TGCTATATAA
* *
48334143 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48334208 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48334225 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48334289 CACTTAGTGC
65 CACTTAGTGC
48334299 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48342000 original size:27 final size:27
Alignment explanation
Indices: 48341970--48342147 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
48341960 ATATTGAGTC
* *
48341970 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
48341997 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
48342024 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
48342052 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
48342079 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
48342106 CACACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
48342133 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48342148 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48342112 original size:82 final size:81
Alignment explanation
Indices: 48341991--48342146 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
48341981 TGCTATATAA
* * *
48341991 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAA-TCGCA
48342056 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48342073 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCACACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCA
48342137 CACTTAGTGC
65 CACTTAGTGC
48342147 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48349865 original size:26 final size:26
Alignment explanation
Indices: 48349829--48349883 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
48349819 ACCTATAAAT
48349829 ACCTCTATTCCCTTCTCATCCAACAC
1 ACCTCTATTCCCTTCTCATCCAACAC
*
48349855 ACCTCTATTCCCTTCTCATTCAACAC
1 ACCTCTATTCCCTTCTCATCCAACAC
48349881 ACC
1 ACC
48349884 ATTCATTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.31
Consensus pattern (26 bp):
ACCTCTATTCCCTTCTCATCCAACAC
Found at i:48350368 original size:16 final size:16
Alignment explanation
Indices: 48350347--48350388 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
48350337 TGTAAGGTAA
48350347 TGAATGAATTAATTAT
1 TGAATGAATTAATTAT
48350363 TGAATGAATTAATTAT
1 TGAATGAATTAATTAT
*
48350379 TAAATGAATT
1 TGAATGAATT
48350389 GGAATTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (16 bp):
TGAATGAATTAATTAT
Found at i:48351992 original size:17 final size:17
Alignment explanation
Indices: 48351963--48352001 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
48351953 GATTTTTTGC
*
48351963 ATGT-ATTTTATAATTG
1 ATGTGATTTAATAATTG
48351979 ATGTGATTTAATAATTG
1 ATGTGATTTAATAATTG
*
48351996 TTGTGA
1 ATGTGA
48352002 AATTATGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (17 bp):
ATGTGATTTAATAATTG
Found at i:48352429 original size:63 final size:63
Alignment explanation
Indices: 48352313--48352452 Score: 165
Period size: 63 Copynumber: 2.2 Consensus size: 63
48352303 CTTGTTTACG
* * * * * *
48352313 ATATTGAATGTCTTGGTCACAACATTATTTAGTGGTTTGACCATAATATGCAGCTTGTATGCA
1 ATATTGAGTGGCTTGGCCACAACATTATTCAATGGTTTGACCATAAGATGCAGCTTGTATGCA
* * *
48352376 ATATTGAGTGGCTTGGCCACAACGTTATTCAATGGTTTGACCCTAACGA-GCAGCTTGTCTGCA
1 ATATTGAGTGGCTTGGCCACAACATTATTCAATGGTTTGACCATAA-GATGCAGCTTGTATGCA
* *
48352439 GTATTCAGTGGCTT
1 ATATTGAGTGGCTT
48352453 AACCATAACG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 64 0.98
64 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (63 bp):
ATATTGAGTGGCTTGGCCACAACATTATTCAATGGTTTGACCATAAGATGCAGCTTGTATGCA
Found at i:48355010 original size:40 final size:39
Alignment explanation
Indices: 48354966--48355070 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
48354956 AGTGACCATA
*
48354966 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
48355006 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
48355044 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
48355071 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48355027 original size:39 final size:40
Alignment explanation
Indices: 48354926--48355089 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
48354916 TTGAATGATG
* *
48354926 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
48354966 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
48355005 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
48355045 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
48355085 TCCGG
1 TCCGG
48355090 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:48355089 original size:79 final size:80
Alignment explanation
Indices: 48354926--48355076 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
48354916 TTGAATGATG
*
48354926 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
48354991 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
48355006 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
48355068 TTGAACGAG
64 TTGAACGAG
48355077 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:48363033 original size:40 final size:40
Alignment explanation
Indices: 48362939--48363083 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
48362929 TACTCGAATG
*
48362939 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
48362980 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
48363020 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
48363060 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
48363084 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:48366457 original size:176 final size:176
Alignment explanation
Indices: 48366154--48366505 Score: 553
Period size: 176 Copynumber: 2.0 Consensus size: 176
48366144 CCAGCCTTAC
* * * * *
48366154 ACCATGTGGGGAGACTACTCGACCCACCCAACTGCTACACACCACAGAAATTGCAGCGAGGCTGC
1 ACCATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAAAAATTACAACGAAGCTGC
*
48366219 CAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGACCACCAGAACA-TATATATAT
66 CAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGACCACCAGAACAGAATATATAT
* *
48366283 GTGGCGAAGCCACCAAATTGCAGCGAGGCTGCTAGATATTGTGACA
131 GTGGCGAAGCCACCAAATTGCAGCGAGGCTGCCAGATACTGTGACA
48366329 NACCATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAAAAATTACAACGAAGCTG
1 -ACCATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAAAAATTACAACGAAGCTG
* * * * *
48366394 CGAGATGTTGTGACGAAGTCACCAGATATAGATATTGTGGCTAGGCCACTAGAACAGATATATAT
65 CCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGACCACCAGAACAGA-ATATAT
*
48366459 ATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATACTGTGAC
129 ATGTGGCGAAGCCACCAAATTGCAGCGAGGCTGCCAGATACTGTGAC
48366506 GAAGTCACCA
Statistics
Matches: 160, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
176 110 0.69
178 50 0.31
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (176 bp):
ACCATGTGGGGAGACTACTCGACCCACCCAACCGCTACACACCACAAAAATTACAACGAAGCTGC
CAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGACCACCAGAACAGAATATATAT
GTGGCGAAGCCACCAAATTGCAGCGAGGCTGCCAGATACTGTGACA
Found at i:48368700 original size:8 final size:8
Alignment explanation
Indices: 48368687--48368712 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48368677 TTATGTAGTA
48368687 AATTTGTG
1 AATTTGTG
48368695 AATTTGTG
1 AATTTGTG
48368703 AATTTGTG
1 AATTTGTG
48368711 AA
1 AA
48368713 ATATGTGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (8 bp):
AATTTGTG
Found at i:48369212 original size:24 final size:25
Alignment explanation
Indices: 48369185--48369243 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
48369175 TCAATTGAGA
*
48369185 GAGCTTACTGATATTCA-ATCATAT
1 GAGCTTACTGATATTCAGATCATAG
* *
48369209 GAGCTTA-TCGATATTCAGCTCGTAG
1 GAGCTTACT-GATATTCAGATCATAG
48369234 GAGCTTACTG
1 GAGCTTACTG
48369244 TTTATAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 15 0.52
25 12 0.41
26 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (25 bp):
GAGCTTACTGATATTCAGATCATAG
Found at i:48371833 original size:47 final size:48
Alignment explanation
Indices: 48371720--48371837 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 48
48371710 GACGAGGGCT
* *
48371720 AGTGTAAG-GCATGTCTGGGACAT-GCATCGGCTAAGAGATAATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAAGAGATAATAGTC
* *
48371766 AGTGTAAGACCAT-TCTGGGACATGGCATCGACTTA-AGCT-ATGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAAGAGATAAT-AGTC
*
48371812 AGTGTAAGACCATGACTGGGACATGG
1 AGTGTAAGACCATGTCTGGGACATGG
48371838 TATTGGCACT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
45 2 0.03
46 38 0.60
47 23 0.37
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTAAGAGATAATAGTC
Found at i:48373771 original size:21 final size:20
Alignment explanation
Indices: 48373735--48373774 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
48373725 CTCATGAAAT
48373735 AGGGCACACACCCGTGTGGA
1 AGGGCACACACCCGTGTGGA
48373755 AGGGCA-ACACGCGCGTGTGG
1 AGGGCACACAC-C-CGTGTGG
48373775 TCATTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.23, C:0.28, G:0.40, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:48389779 original size:19 final size:19
Alignment explanation
Indices: 48389742--48389779 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
48389732 ACTTGCCAGA
*
48389742 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
48389761 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
48389780 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:48410471 original size:42 final size:43
Alignment explanation
Indices: 48410410--48410507 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
48410400 GACTTCTGTT
48410410 TTACGTGTAAGACCATGTCTGAGACA-TCGGCATCG-TATTTGA
1 TTACGTGTAAGACCATGTCTGAGACAGT-GGCATCGATATTTGA
* * * * *
48410452 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGA
1 TTACGTGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGA
*
48410495 TTACATGTAAGAC
1 TTACGTGTAAGAC
48410508 TGCGTCTGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 29 0.62
43 18 0.38
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGA
Found at i:48413098 original size:21 final size:21
Alignment explanation
Indices: 48413060--48413099 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48413050 AGAGCATCAA
*
48413060 GAGCCAAAAGGAGCCAAAAAC
1 GAGCCAAAAGGAGACAAAAAC
48413081 GAGCCAAAAAGG-GACAAAA
1 GAGCC-AAAAGGAGACAAAA
48413100 CGGACCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.55, C:0.20, G:0.25, T:0.00
Consensus pattern (21 bp):
GAGCCAAAAGGAGACAAAAAC
Found at i:48422225 original size:21 final size:21
Alignment explanation
Indices: 48422178--48422225 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
48422168 CCTTTCATAA
*
48422178 AGTATCGATTATTTTACTCTG
1 AGTATCGATTATTTTACTATG
48422199 -GCTATCGATTATTTTACTATG
1 AG-TATCGATTATTTTACTATG
48422220 AGTATC
1 AGTATC
48422226 AATACTCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (21 bp):
AGTATCGATTATTTTACTATG
Found at i:48424324 original size:20 final size:21
Alignment explanation
Indices: 48424299--48424338 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48424289 TTACCCAGTT
48424299 CATG-TTATCGAAATTTTCAA
1 CATGTTTATCGAAATTTTCAA
* *
48424319 CATGTTTATGGTAATTTTCA
1 CATGTTTATCGAAATTTTCA
48424339 TGAAAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (21 bp):
CATGTTTATCGAAATTTTCAA
Found at i:48427510 original size:40 final size:39
Alignment explanation
Indices: 48427466--48427570 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
48427456 AGTGACCATA
*
48427466 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
48427506 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
48427544 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
48427571 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48427527 original size:39 final size:40
Alignment explanation
Indices: 48427426--48427589 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
48427416 TTGAATGATG
* *
48427426 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
48427466 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
48427505 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
48427545 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
48427585 TCCGG
1 TCCGG
48427590 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:48427589 original size:79 final size:80
Alignment explanation
Indices: 48427426--48427576 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
48427416 TTGAATGATG
*
48427426 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
48427491 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
48427506 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
48427568 TTGAACGAG
64 TTGAACGAG
48427577 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:48435352 original size:40 final size:40
Alignment explanation
Indices: 48435322--48435571 Score: 376
Period size: 40 Copynumber: 6.3 Consensus size: 40
48435312 GGACTAAGAT
* * * *
48435322 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
48435362 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
48435402 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
48435442 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
48435482 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
48435522 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
48435561 CCGAAGGCATT
1 CCGAAGGCATT
48435572 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
39 34 0.17
40 165 0.83
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:48435406 original size:80 final size:80
Alignment explanation
Indices: 48435269--48435571 Score: 387
Period size: 80 Copynumber: 3.8 Consensus size: 80
48435259 TTGAATGCTG
* * * * * * * *
48435269 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* * **
48435332 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTGTTAAA
*
48435349 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
48435414 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* *
48435429 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
48435494 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* * * * *
48435509 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATT
48435572 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
79 34 0.17
80 160 0.80
81 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAA
Found at i:48435482 original size:120 final size:119
Alignment explanation
Indices: 48435269--48435571 Score: 383
Period size: 120 Copynumber: 2.5 Consensus size: 119
48435259 TTGAATGCTG
* * * * * * * * *
48435269 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
48435333 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
** * *
48435389 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* ** *
48435454 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
48435509 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
48435572 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
119 34 0.21
120 121 0.76
121 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:48445750 original size:42 final size:42
Alignment explanation
Indices: 48445702--48445904 Score: 219
Period size: 42 Copynumber: 4.8 Consensus size: 42
48445692 AATTTAGTAT
** * *
48445702 CAATGCCTCTGTCCCAGACAGGGTCTTATACGAAATCAGATA
1 CAATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
* *
48445744 CAATGCCGATGTCCCAAACATGGTCTTACAAGAAATCAGATA
1 CAATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
* * *
48445786 CGATACCGATGTCCCAGACATGGTCTTACAGGAAATCAGATA
1 CAATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
* * *
48445828 CGATGCCGATGTCTCAGACATGGTCTTACACGTAAATATCAAAT-
1 CAATGCCGATGTCCCAGACATGGTCTTACACG--AA-ATCAGATA
* * * * *
48445872 CGAGGCCTATGTCCTAGACACGGTCTTACACGA
1 CAATGCCGATGTCCCAGACATGGTCTTACACGA
48445905 TATCTCAGAT
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
42 104 0.75
44 29 0.21
45 6 0.04
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
CAATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
Found at i:48453011 original size:42 final size:42
Alignment explanation
Indices: 48452933--48453111 Score: 207
Period size: 42 Copynumber: 4.2 Consensus size: 42
48452923 GTCTCAAATG
* * ** *
48452933 TGGTCTTACATGTAATTCAG-TATCGATGCCTCTGTCCCAGACA
1 TGGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAAACA
* * * *
48452976 GGGTCTTATACGAAATCAGATACAATGCCGATGTCCCAGACA
1 TGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAACA
* * *
48453018 TGGTCTTACATGAAATCTGATATGATGCCGATGTCCCAAACA
1 TGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAACA
* *
48453060 TGGTCTTACACGAAATTAGATACGATGCCGATGTCTCAAACA
1 TGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAACA
48453102 TGGTCTTACA
1 TGGTCTTACA
48453112 TGTAAATATC
Statistics
Matches: 116, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 105 0.91
43 11 0.09
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAACA
Found at i:48453066 original size:84 final size:85
Alignment explanation
Indices: 48452933--48453158 Score: 253
Period size: 84 Copynumber: 2.7 Consensus size: 85
48452923 GTCTCAAATG
* ** * *
48452933 TGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACGAAATCAGATA
1 TGGTCTTACATGAAATTCAGTATCGATGCCGATGTCCCAAACAGGGTCTTACACGAAATCAGATA
*
48452998 CAATGCCGATGTCCCAGACA
66 CAATGCCGATGTCCCAAACA
* * *
48453018 TGGTCTTACATGAAA-TCTGATAT-GATGCCGATGTCCCAAACATGGTCTTACACGAAATTAGAT
1 TGGTCTTACATGAAATTCAG-TATCGATGCCGATGTCCCAAACAGGGTCTTACACGAAATCAGAT
* *
48453081 ACGATGCCGATGTCTCAAACA
65 ACAATGCCGATGTCCCAAACA
* * * *
48453102 TGGTCTTACATGTAAATATCA-AATCGAGGCCTG-TGTCCCAGACACGGTCTTACACGA
1 TGGTCTTACATG-AAAT-TCAGTATCGATGCC-GATGTCCCAAACAGGGTCTTACACGA
48453159 TATCTCAGAT
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
84 67 0.56
85 22 0.18
86 27 0.23
87 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (85 bp):
TGGTCTTACATGAAATTCAGTATCGATGCCGATGTCCCAAACAGGGTCTTACACGAAATCAGATA
CAATGCCGATGTCCCAAACA
Found at i:48457101 original size:48 final size:47
Alignment explanation
Indices: 48456995--48457103 Score: 112
Period size: 48 Copynumber: 2.3 Consensus size: 47
48456985 TTATGAGATC
* * *
48456995 CCATGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTG
1 CCATGTAAGACCATATTTGGGACATGGCATCGGCATCGATATGCGTG
* * * *
48457042 CCA-GTTAAAGACCATATTTGGGATATGGCATCGGCCTCGGTATGCGATT
1 CCATG-T-AAGACCATATTTGGGACATGGCATCGGCATCGATATGCG-TG
*
48457091 TCATGTAAGACCA
1 CCATGTAAGACCA
48457104 CATCTAGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
46 1 0.02
47 4 0.08
48 40 0.80
49 4 0.08
50 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (47 bp):
CCATGTAAGACCATATTTGGGACATGGCATCGGCATCGATATGCGTG
Found at i:48457166 original size:42 final size:42
Alignment explanation
Indices: 48457120--48457292 Score: 125
Period size: 42 Copynumber: 4.0 Consensus size: 42
48457110 GGATAAGGCG
** *
48457120 TTGATATGAGATTTCGTGTAAGACCATGTCGGGGACATGGCA
1 TTGATATGAGATCCCGTATAAGACCATGTCGGGGACATGGCA
* *
48457162 TTGATATGAGGTCCCGTATAAGACCATGTCTGGGACATGGCA
1 TTGATATGAGATCCCGTATAAGACCATGTCGGGGACATGGCA
* * * * * *
48457204 TCAGCACCGACATGAGA-CTTCGTATAAGACCATATCTGGGATATGGCA
1 T------TGATATGAGATC-CCGTATAAGACCATGTCGGGGACATGGCA
* * * *
48457252 TTGGTATGTAGA-CCCATGTAAGACCATGTCGAGGACATGGC
1 TTGATATG-AGATCCCGTATAAGACCATGTCGGGGACATGGC
48457293 TTTGGCATTT
Statistics
Matches: 102, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
42 63 0.62
43 4 0.04
47 1 0.01
48 34 0.33
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (42 bp):
TTGATATGAGATCCCGTATAAGACCATGTCGGGGACATGGCA
Found at i:48457226 original size:90 final size:90
Alignment explanation
Indices: 48457125--48457292 Score: 223
Period size: 90 Copynumber: 1.9 Consensus size: 90
48457115 AGGCGTTGAT
* * * * *
48457125 ATGAGATTTCGTGTAAGACCATGTCGGGGACATGGCATTGATATG-AGGTCCCGTATAAGACCAT
1 ATGAGACTTCGTATAAGACCATATCGGGGACATGGCATTGATATGTA-GACCCATATAAGACCAT
48457189 GTCTG-GGACATGGCATCAGCACCGAC
65 GTC-GAGGACATGGCATCAGCACCGAC
* * * *
48457215 ATGAGACTTCGTATAAGACCATATCTGGGATATGGCATTGGTATGTAGACCCATGTAAGACCATG
1 ATGAGACTTCGTATAAGACCATATCGGGGACATGGCATTGATATGTAGACCCATATAAGACCATG
48457280 TCGAGGACATGGC
66 TCGAGGACATGGC
48457293 TTTGGCATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 1 0.01
90 65 0.97
91 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (90 bp):
ATGAGACTTCGTATAAGACCATATCGGGGACATGGCATTGATATGTAGACCCATATAAGACCATG
TCGAGGACATGGCATCAGCACCGAC
Found at i:48465096 original size:90 final size:90
Alignment explanation
Indices: 48464988--48465153 Score: 201
Period size: 90 Copynumber: 1.8 Consensus size: 90
48464978 TGGCATTGAT
* * * *
48464988 ATGAGATTTCGCTTAAGACCATGTCGGGGACATGGAATCGATATG-AGGTCCCGTATAAGACCAT
1 ATGAGACTTCGCTTAAGACCATATCGGGGACATGGAATCGATATGTA-GACCCATATAAGACCAT
*
48465052 GTCTGGGACATGACATCGGCACCGAC
65 GTCGGGGACATGACATCGGCACCGAC
** * * * *
48465078 ATGAGACTTCG-TATAAGACCATATTTGGGATATGGCATCGGTATGTAGACCTATATAAGACCAT
1 ATGAGACTTCGCT-TAAGACCATATCGGGGACATGGAATCGATATGTAGACCCATATAAGACCAT
48465142 GTCGGGGACATG
65 GTCGGGGACATG
48465154 GCTTTGGCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 1 0.02
90 61 0.97
91 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (90 bp):
ATGAGACTTCGCTTAAGACCATATCGGGGACATGGAATCGATATGTAGACCCATATAAGACCATG
TCGGGGACATGACATCGGCACCGAC
Found at i:48465155 original size:42 final size:42
Alignment explanation
Indices: 48465001--48465155 Score: 114
Period size: 42 Copynumber: 3.5 Consensus size: 42
48464991 AGATTTCGCT
* * * *
48465001 TAAGACCATGTCGGGGACATGGAATCGATATG-AGGTCCCGTA
1 TAAGACCATGTCGGGGACATGGCATCGGTATGTA-GACCTGTA
* * * * *
48465043 TAAGACCATGTCTGGGACATGACATCGGCACCGACATGAGACTTCGTA
1 TAAGACCATGTCGGGGACATGGCATCGGTA-TG---T-AGACCT-GTA
* ** * *
48465091 TAAGACCATATTTGGGATATGGCATCGGTATGTAGACCTATA
1 TAAGACCATGTCGGGGACATGGCATCGGTATGTAGACCTGTA
48465133 TAAGACCATGTCGGGGACATGGC
1 TAAGACCATGTCGGGGACATGGC
48465156 TTTGGCATTT
Statistics
Matches: 85, Mismatches: 21, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
42 46 0.54
43 6 0.07
44 1 0.01
47 3 0.04
48 29 0.34
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (42 bp):
TAAGACCATGTCGGGGACATGGCATCGGTATGTAGACCTGTA
Found at i:48474055 original size:23 final size:23
Alignment explanation
Indices: 48474028--48474071 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
48474018 CAGTGTCAAT
* *
48474028 AATTTTTAGAGTCTAGAGTTTCA
1 AATTTTCAGAATCTAGAGTTTCA
*
48474051 AATTTTCAGAATCTATAGTTT
1 AATTTTCAGAATCTAGAGTTT
48474072 TAGAATCTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (23 bp):
AATTTTCAGAATCTAGAGTTTCA
Found at i:48475923 original size:15 final size:17
Alignment explanation
Indices: 48475888--48475924 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
48475878 GTTGTTTGTC
*
48475888 AAAAAGGAGAGAAAATT
1 AAAAAGGAGAGAAAATG
48475905 AAAAAGGA-AG-AAATG
1 AAAAAGGAGAGAAAATG
48475920 AAAAA
1 AAAAA
48475925 AAAAAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 2 0.11
17 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (17 bp):
AAAAAGGAGAGAAAATG
Found at i:48487719 original size:14 final size:14
Alignment explanation
Indices: 48487675--48487731 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
48487665 TGGCATGTGA
48487675 GAATGATGAATTGTT
1 GAAT-ATGAATTGTT
* *
48487690 GACATGTGAATGGTT
1 GA-ATATGAATTGTT
48487705 GAATATGAATTGTT
1 GAATATGAATTGTT
*
48487719 GAAT-TGAAGTGTT
1 GAATATGAATTGTT
48487732 AATTGTGGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 8 0.22
14 14 0.39
15 12 0.33
16 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.39
Consensus pattern (14 bp):
GAATATGAATTGTT
Found at i:48488828 original size:12 final size:12
Alignment explanation
Indices: 48488811--48488836 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48488801 ATTCTGTTTT
48488811 CAAGAATCAACC
1 CAAGAATCAACC
48488823 CAAGAATCAACC
1 CAAGAATCAACC
48488835 CA
1 CA
48488837 TGCTCTCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.35, G:0.08, T:0.08
Consensus pattern (12 bp):
CAAGAATCAACC
Found at i:48492353 original size:21 final size:21
Alignment explanation
Indices: 48492311--48492354 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
48492301 GTTTTTGCAC
** **
48492311 CAACAACAACAGGAGCCGCAG
1 CAACAACAACAACAGCAACAG
48492332 CAACAACAACAACAGCAACAG
1 CAACAACAACAACAGCAACAG
48492353 CA
1 CA
48492355 GTTACTCCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (21 bp):
CAACAACAACAACAGCAACAG
Found at i:48505822 original size:43 final size:43
Alignment explanation
Indices: 48505767--48505895 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
48505757 ATAACGTACA
*
48505767 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACACG-AATCACATATCG
*
48505810 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATTACATATACG
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACACGAATCACATAT-CG
* * * *
48505853 ATGCCGA-TGTCCTAGACATGGTCTTACACACAATCACATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACAC-GAATCACATATCG
48505896 TATATCCTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
42 11 0.15
43 52 0.70
44 11 0.15
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:48510382 original size:49 final size:48
Alignment explanation
Indices: 48510329--48510425 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
48510319 ATAAAGAGGG
* * *
48510329 TTTAAAATAAATAATATATAAAATAGTTT-AACTACATAATGTATATAAA
1 TTTAAAATAAATAATATAT-AAA-AGTTTAAAATAAATAACGTATATAAA
*
48510378 TTTAAAATAAATAATATGTAAAAGTTTAAAATAAATAACGTATATAAA
1 TTTAAAATAAATAATATATAAAAGTTTAAAATAAATAACGTATATAAA
48510426 AAGAAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 5 0.12
48 20 0.47
49 18 0.42
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (48 bp):
TTTAAAATAAATAATATATAAAAGTTTAAAATAAATAACGTATATAAA
Found at i:48510405 original size:24 final size:24
Alignment explanation
Indices: 48510328--48510426 Score: 103
Period size: 24 Copynumber: 4.0 Consensus size: 24
48510318 AATAAAGAGG
48510328 GTTTAAAATAAATAATATATAAAATA
1 GTTTAAAATAAATAATATAT-AAA-A
* * *
48510354 GTTT-AACTACATAATGTATATAAA
1 GTTTAAAATAAATAATATATA-AAA
*
48510378 -TTTAAAATAAATAATATGTAAAA
1 GTTTAAAATAAATAATATATAAAA
48510401 GTTTAAAATAAATAACGTATATAAAA
1 GTTTAAAATAAATAA--TATATAAAA
48510427 AGAAAATCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
23 6 0.10
24 28 0.47
25 14 0.23
26 12 0.20
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (24 bp):
GTTTAAAATAAATAATATATAAAA
Found at i:48512109 original size:43 final size:43
Alignment explanation
Indices: 48512047--48512808 Score: 633
Period size: 43 Copynumber: 17.6 Consensus size: 43
48512037 ATTTCCAGCT
*
48512047 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
* *
48512090 CGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
* * ** * * *
48512133 CGTTACCCTACTACTTAGGGGGTTAAGGCCCTTCGT--CTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCAACC
* * * *
48512177 TGTTTCCTTACTGCTTGGGGGGTTAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
* *
48512220 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTGAGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
** * *
48512263 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--ATTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCAACC
*
48512307 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
** * *
48512350 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--ATTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCAACC
* * *
48512394 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTGAGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
** * *
48512437 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--ATTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCAACC
*
48512481 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
** * * *
48512524 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--CTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCAACC
* * * *
48512568 TGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACC
1 TGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
* * ** * *
48512610 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCT-TCATCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATTCAACC
* * * *
48512654 TGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACC
1 TGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
* * ** * *
48512696 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCT-TCATCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATTCAACC
* * * *
48512740 TGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACC
1 TGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
*
48512782 TGTTACCCTACTGCTTAGGGGTTTAAG
1 TGTTACCCTACTGCTTAGGGGGTTAAG
48512809 GTTCTTCATC
Statistics
Matches: 566, Mismatches: 114, Indels: 79
0.75 0.15 0.10
Matches are distributed among these distances:
41 9 0.02
42 78 0.14
43 266 0.47
44 198 0.35
45 5 0.01
46 10 0.02
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (43 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACC
Found at i:48512284 original size:87 final size:87
Alignment explanation
Indices: 48512047--48512809 Score: 827
Period size: 87 Copynumber: 8.8 Consensus size: 87
48512037 ATTTCCAGCT
* * *
48512047 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCCGTTACCCTACTACTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
** *
48512112 TTAA-GATC-T-GTAAATTCAACC
66 TTAAGGCCCTTCGT--ATTCGACC
* * ** * * * * * *
48512133 CGTTACCCTACTACTTAGGGGGTTAAGGCCCTTCGT--CTTCGATCTGTTTCCTTACTGCTTGGG
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCAACCTGTTACCCTACTGCTTAGG
**
48512196 GGGTTAA-GATC-T-GTAAATTC-AGCC
63 GGGTTAAGGCCCTTCGT--ATTCGA-CC
* *
48512220 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
*
48512285 TTAAGGCCCTTCGTATTCGATC
66 TTAAGGCCCTTCGTATTCGACC
*
48512307 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
*
48512372 TTAAGGCCCTTCGTATTCGATC
66 TTAAGGCCCTTCGTATTCGACC
* * *
48512394 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
*
48512459 TTAAGGCCCTTCGTATTCGATC
66 TTAAGGCCCTTCGTATTCGACC
*
48512481 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
* *
48512546 TTAAGGCCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTATTCGACC
* * * *
48512568 TGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGG
1 TGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGG
* ** * * *
48512631 TTTAAGGTTCTTCATCTTCGATC
65 GTTAAGGCCCTTCGTATTCGACC
* * * *
48512654 TGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGG
1 TGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGG
* ** * * *
48512717 TTTAAGGTTCTTCATCTTCGATC
65 GTTAAGGCCCTTCGTATTCGACC
* * * *
48512740 TGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGG
1 TGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGG
*
48512803 TTTAAGG
65 GTTAAGG
48512810 TTCTTCATCT
Statistics
Matches: 624, Mismatches: 42, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
84 2 0.00
85 1 0.00
86 261 0.42
87 353 0.57
88 3 0.00
89 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (87 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
TTAAGGCCCTTCGTATTCGACC
Found at i:48512297 original size:130 final size:130
Alignment explanation
Indices: 48512047--48512829 Score: 745
Period size: 130 Copynumber: 6.0 Consensus size: 130
48512037 ATTTCCAGCT
* * * *
48512047 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCCGTTACCCTACTACTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
* * *
48512112 TTAAGATCTGTAAATTCAACCCGTTACCCTACTACTTAGGGGGTTAAGGCCCTTCGTCTTCGATC
66 TTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTATTCGATC
* * *
48512177 TGTTTCCTTACTGCTTGGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
* *
48512242 TTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTATTCGATC
66 TTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTATTCGATC
48512307 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
** * * * **
48512372 TTAAGGCCCTTCGT--ATTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT
66 TTAA-GATC-T-GTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--ATT
*
48512432 -GAGCC
126 CGA-TC
* ** * * *
48512437 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--ATTCGATCTGTTTCCCTACTGCTTAGG
1 TGTTTCCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCAACCTGTTACCCTACTGCTTAGG
*
48512500 GGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCG
63 GGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTATTCG
48512565 ATC
128 ATC
* * * *
48512568 TG-CTCCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGG
1 TGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGG
* * ** * * * * * ** * *
48512631 TTTAAGGTTCT-TCATCTTCGATCTGCT-CCACTACTGCTTAGGGAGATAA-GATCTGC-AATTC
65 GTTAA-GATCTGT-AAATTCAACCTGTTACC-CTACTGCTTAGGGGGTTAAGGCCCTTCGTATTC
* *
48512692 AACC
127 GATC
* * * ** * * *
48512696 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCT-TCATCTTCGATCTGCT-CCACTACTGCTTAGG
1 TGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATTCAACCTGTTACC-CTACTGCTTAGG
* * * * ** * *
48512759 GAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCG
63 GGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTATTCG
48512823 ATC
128 ATC
48512826 TGTT
1 TGTT
48512830 ACACCATTCT
Statistics
Matches: 527, Mismatches: 96, Indels: 60
0.77 0.14 0.09
Matches are distributed among these distances:
128 52 0.10
129 61 0.12
130 315 0.60
131 88 0.17
132 5 0.01
133 6 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (130 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGG
TTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTATTCGATC
Found at i:48512649 original size:86 final size:87
Alignment explanation
Indices: 48512225--48512828 Score: 860
Period size: 87 Copynumber: 7.0 Consensus size: 87
48512215 CAGCCTGTTA
* *
48512225 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
* *
48512290 GCCCTTCGTATTCGATCTGTTT
66 GCCCTTCGTCTTCGATCTGTCT
48512312 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
* *
48512377 GCCCTTCGTATTCGATCTGTTT
66 GCCCTTCGTCTTCGATCTGTCT
* *
48512399 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTGAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
* *
48512464 GCCCTTCGTATTCGATCTGTTT
66 GCCCTTCGTCTTCGATCTGTCT
48512486 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
48512551 GCCCTTCGTCTTCGATCTG-CT
66 GCCCTTCGTCTTCGATCTGTCT
* * * *
48512572 CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA
** *
48512636 GGTTCTTCATCTTCGATCTG-CT
65 GGCCCTTCGTCTTCGATCTGTCT
* * * *
48512658 CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA
** *
48512722 GGTTCTTCATCTTCGATCTG-CT
65 GGCCCTTCGTCTTCGATCTGTCT
* * * *
48512744 CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA
** *
48512808 GGTTCTTCATCTTCGATCTGT
65 GGCCCTTCGTCTTCGATCTGT
48512829 TACACCATTC
Statistics
Matches: 500, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
86 226 0.45
87 274 0.55
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (87 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
GCCCTTCGTCTTCGATCTGTCT
Found at i:48514193 original size:86 final size:87
Alignment explanation
Indices: 48514000--48514198 Score: 269
Period size: 86 Copynumber: 2.3 Consensus size: 87
48513990 ATTTCCAGCT
*
48514000 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*** * *
48514065 TTAAGGCCCTTCGCCTTCGATC
66 TTAAGGCCCTTAAACTTAGACC
* * *
48514087 TGTTTCCCTAGTGCTT-GGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
* *
48514151 TTAAGG-TCTGTAAATTTAG-CC
66 TTAAGGCCCT-TAAACTTAGACC
48514172 TGTTACCCTACTGCTTAGGGGGTTAAG
1 TGTTACCCTACTGCTTAGGGGGTTAAG
48514199 GCCCTTCGTC
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
85 17 0.18
86 67 0.69
87 13 0.13
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (87 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
TTAAGGCCCTTAAACTTAGACC
Found at i:48514260 original size:129 final size:130
Alignment explanation
Indices: 48514000--48514543 Score: 493
Period size: 129 Copynumber: 4.2 Consensus size: 130
48513990 ATTTCCAGCT
*
48514000 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
* * * * * *
48514065 TTAAGGCCCTTCGCCTTCGATCTGTTTCCCTAGTGCTT-GGGGGTTAAGATCTGTAAATTTAGCC
66 TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTCAACC
* *
48514129 TGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
48514194 TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTTCTTAGGGAGATAAGATCTGT-AATTCAACC
66 TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTCAACC
* * ** * *
48514258 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCT-TCATCTTC-GATCTGCT-CCACTACTGCTTAG
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATTCAG-CCTGTTACC-CTACTGCTTAG
* * ** * ** * * * * * **
48514320 GGAGATAA-GATCTGC-AATTCAACCTGTTACCCTACTGCTTAGGG-GTTTAAGGTTCT-TCATC
62 GGGGTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAG-ATAA-GATCTGT-AAA
* *
48514381 TTCGATC
124 TTCAACC
* * * * *
48514388 TGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGG
1 TGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* ** * * * **
48514451 TTTAAGGTTCTTCATCTTCGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTG-CAATTCGG
65 GTTAAGGCCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGTAAATTCAA
*
48514514 TC
129 CC
*
48514516 TGTTACCCTACTGCTTAGGGGTTTAAGA
1 TGTTACCCTACTGCTTAGGGGGTTAAGA
48514544 CCCTTCGTCT
Statistics
Matches: 330, Mismatches: 66, Indels: 39
0.76 0.15 0.09
Matches are distributed among these distances:
127 1 0.00
128 77 0.23
129 162 0.49
130 89 0.27
131 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (130 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
TTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTCAACC
Found at i:48514271 original size:86 final size:86
Alignment explanation
Indices: 48514136--48514561 Score: 647
Period size: 86 Copynumber: 4.9 Consensus size: 86
48514126 GCCTGTTACC
* * * * * * * *
48514136 CTACTGCTTAGGGGGTTAAGGTCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGT
* * *
48514201 CCTTCGTCTTCGATCTGTTTCC-
65 TCTTCATCTTCGATCTG-CTCCA
* *
48514223 CTACTTCTTAGGGAGATAAGATCTGTAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTT
1 CTACTGCTTAGGGAGATAAGATCTGCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTT
48514288 CTTCATCTTCGATCTGCTCCA
66 CTTCATCTTCGATCTGCTCCA
48514309 CTACTGCTTAGGGAGATAAGATCTGCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTT
1 CTACTGCTTAGGGAGATAAGATCTGCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTT
48514374 CTTCATCTTCGATCTGCTCCA
66 CTTCATCTTCGATCTGCTCCA
48514395 CTACTGCTTAGGGAGATAAGATCTGCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTT
1 CTACTGCTTAGGGAGATAAGATCTGCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTT
48514460 CTTCATCTTCGATCTGCTCCA
66 CTTCATCTTCGATCTGCTCCA
*** ***
48514481 CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTT
*
48514546 CTTCGTCTTCGATCTG
66 CTTCATCTTCGATCTG
48514562 TTACACCATT
Statistics
Matches: 317, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
85 3 0.01
86 293 0.92
87 21 0.07
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (86 bp):
CTACTGCTTAGGGAGATAAGATCTGCAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTT
CTTCATCTTCGATCTGCTCCA
Found at i:48514315 original size:44 final size:44
Alignment explanation
Indices: 48514046--48514561 Score: 279
Period size: 43 Copynumber: 12.0 Consensus size: 44
48514036 TTCAGCCTGT
* ** ** *
48514046 TACCCTACTGCTTAGGGGGTTAAGGCCCTTCGCCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGATCTTCATCTTCGATCTGC
* * * * * * *
48514090 TTCCCTAGTGCTT-GGGGGTTAA-GATCTGTAAAT-TTAG-CCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGATCT-T-CATCTTCGATCTGC
* * * * *
48514132 TACCCTACTGCTTAGGGGGTTAAGG-TCTGTAAAT-TTAG-CCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGATCT-T-CATCTTCGATCTGC
* ** * *
48514175 TACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGATCTTCATCTTCGATCTGC
* * * * * * *
48514219 TTCCCTACTTCTTAGGGAG-ATAA-GATCTGT-A-ATTCAACCTGT
1 TACCCTACTGCTTAGGG-GTTTAAGGATCT-TCATCTTCGATCTGC
*
48514261 TACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAGGATCTTCATCTTCGATCTGC
* * * * * *
48514305 T-CCACTACTGCTTAGGGAG-ATAA-GATCTGCA-ATTCAACCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGATCTTCATCTTCGATCTGC
*
48514347 TACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAGGATCTTCATCTTCGATCTGC
* * * * * *
48514391 T-CCACTACTGCTTAGGGAG-ATAA-GATCTGCA-ATTCAACCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGATCTTCATCTTCGATCTGC
*
48514433 TACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAGGATCTTCATCTTCGATCTGC
* * * * *
48514477 T-CCACTACTGCTTAGGGAG-ATAA-GATCTGCA-ATTCGGTCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGATCTTCATCTTCGATCTGC
* *
48514519 TACCCTACTGCTTAGGGGTTTAA-GACCCTTCGTCTTCGATCTG
1 TACCCTACTGCTTAGGGGTTTAAGGA-TCTTCATCTTCGATCTG
48514562 TTACACCATT
Statistics
Matches: 368, Mismatches: 73, Indels: 62
0.73 0.15 0.12
Matches are distributed among these distances:
41 4 0.01
42 121 0.33
43 122 0.33
44 117 0.32
45 4 0.01
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (44 bp):
TACCCTACTGCTTAGGGGTTTAAGGATCTTCATCTTCGATCTGC
Found at i:48522596 original size:19 final size:20
Alignment explanation
Indices: 48522572--48522614 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
48522562 GGTTTTTTCG
* *
48522572 TGAAATTTAATGCACATG-A
1 TGAAATGTAATGCAAATGAA
48522591 TGAAATGTAATGCAAATGAA
1 TGAAATGTAATGCAAATGAA
48522611 TGAA
1 TGAA
48522615 TGCAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.28
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:48527298 original size:20 final size:19
Alignment explanation
Indices: 48527266--48527305 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
48527256 TTAAGGCCAA
*
48527266 TTTTCATTTTTTTTTATTT
1 TTTTCATTCTTTTTTATTT
*
48527285 TTTTGCATTCTTTTTTCTTT
1 TTTT-CATTCTTTTTTATTT
48527305 T
1 T
48527306 AGAAAGAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTCATTCTTTTTTATTT
Found at i:48530584 original size:12 final size:12
Alignment explanation
Indices: 48530569--48530631 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
48530559 CAAGTTATCT
*
48530569 TAAATATTAAAA
1 TAAAAATTAAAA
*
48530581 TAAAAATAAAAA
1 TAAAAATTAAAA
*
48530593 TAAAAATTTAGAA
1 TAAAAA-TTAAAA
* *
48530606 TCAAAACTAAAA
1 TAAAAATTAAAA
*
48530618 TAAATAATAAAAA
1 TAAA-AATTAAAA
48530631 T
1 T
48530632 TAGATTAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
12 23 0.59
13 16 0.41
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (12 bp):
TAAAAATTAAAA
Found at i:48534530 original size:6 final size:6
Alignment explanation
Indices: 48534507--48534550 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
48534497 AATGTTACTA
*
48534507 ATTTTT A-TTTT ATATTTT ATTTTT ATTTTT GTATTTT ATTTTT A
1 ATTTTT ATTTTT AT-TTTT ATTTTT ATTTTT AT-TTTT ATTTTT A
48534551 GTTGTTATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.15
6 17 0.52
7 11 0.33
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:48534530 original size:13 final size:13
Alignment explanation
Indices: 48534508--48534550 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
48534498 ATGTTACTAA
48534508 TTTT-TATTTTAT
1 TTTTATATTTTAT
48534520 ATTTTAT-TTTTAT
1 -TTTTATATTTTAT
*
48534533 TTTTGTATTTTAT
1 TTTTATATTTTAT
48534546 TTTTA
1 TTTTA
48534551 GTTGTTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 20 0.77
14 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTTATATTTTAT
Found at i:48534536 original size:19 final size:18
Alignment explanation
Indices: 48534507--48534550 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
48534497 AATGTTACTA
48534507 ATTTTTATTTTATATTTT
1 ATTTTTATTTTATATTTT
*
48534525 ATTTTTATTTTTGTATTTT
1 ATTTTTA-TTTTATATTTT
48534544 ATTTTTA
1 ATTTTTA
48534551 GTTGTTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (18 bp):
ATTTTTATTTTATATTTT
Found at i:48535237 original size:49 final size:49
Alignment explanation
Indices: 48535145--48535238 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 49
48535135 CTAAACTCTA
* **
48535145 AACTCTTAATCCTTAATCCCTAGACCCTAAATTATAAATCCTAAAATAT
1 AACTCTTAATCCTTAACCCCTAGACCCTAAACCATAAATCCTAAAATAT
48535194 AACTCTTAATCC-TAGACCCCTA-ACCCTTAAACCAT-AATCCCTAAA
1 AACTCTTAATCCTTA-ACCCCTAGACCC-TAAACCATAAAT-CCTAAA
48535239 CCCATAATCC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
48 9 0.23
49 30 0.77
ACGTcount: A:0.39, C:0.30, G:0.02, T:0.29
Consensus pattern (49 bp):
AACTCTTAATCCTTAACCCCTAGACCCTAAACCATAAATCCTAAAATAT
Found at i:48535243 original size:15 final size:15
Alignment explanation
Indices: 48535200--48535253 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
48535190 ATATAACTCT
* *
48535200 TAAT-CCTAGACCCC
1 TAATCCCTAAACCCA
48535214 TAA-CCCTTAAA-CCA
1 TAATCCC-TAAACCCA
48535228 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
48535243 TAATCCATAAA
1 TAATCCCTAAA
48535254 ACTTAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 14 0.42
15 19 0.58
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:48535250 original size:22 final size:21
Alignment explanation
Indices: 48535211--48535252 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
48535201 AATCCTAGAC
*
48535211 CCCTAACCCTTAAACCATAAT
1 CCCTAACCCATAAACCATAAT
*
48535232 CCCTAAACCCATAATCCATAA
1 CCCT-AACCCATAAACCATAA
48535253 AACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCATAAACCATAAT
Found at i:48535651 original size:40 final size:40
Alignment explanation
Indices: 48535557--48535692 Score: 202
Period size: 40 Copynumber: 3.4 Consensus size: 40
48535547 GTTATATGAC
* * *
48535557 TTTTAGCGGCGTTTTACCGAAAGCACCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GT
48535598 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
* *
48535638 TTTTAGCGACGTTTTACCAGAAA-CGCCACTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCA-AAAGCGCCGCTATTGCTCTGT
48535678 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
48535693 TGGTAAAATG
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
40 50 0.57
41 38 0.43
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
Found at i:48535712 original size:12 final size:12
Alignment explanation
Indices: 48535697--48535722 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48535687 CGTTTTTGGT
48535697 AAAATGCCGCTA
1 AAAATGCCGCTA
48535709 AAAATGCCGCTA
1 AAAATGCCGCTA
48535721 AA
1 AA
48535723 GCCCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAAATGCCGCTA
Found at i:48536705 original size:47 final size:46
Alignment explanation
Indices: 48536593--48536764 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
48536583 AGGTTATTGT
* * * *
48536593 GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGCCAT-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GACGA
* *
48536639 GAGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGCTTTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGACGA
* * *
48536687 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACG-A
* * *
48536734 -AGCCAATGTAAGACATGTCTGGGATATGCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
48536765 AGACTACGAG
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 54 0.51
47 28 0.26
48 23 0.22
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGA
Found at i:48536775 original size:46 final size:44
Alignment explanation
Indices: 48536694--48536806 Score: 111
Period size: 46 Copynumber: 2.5 Consensus size: 44
48536684 CGAGTGCTAG
* * * *
48536694 TGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTAAGCCAA
1 TGTAAGACATGTCTGGGATATGCATCAGACTCGAGACGT--GCCAA
* * *
48536740 TGTAAGACATGTCTGGGATATGCAT-AGACTACGAGATGTGTCAG
1 TGTAAGACATGTCTGGGATATGCATCAGACT-CGAGACGTGCCAA
*
48536784 TGCAAGACCATGTCTGGGATATG
1 TGTAAGA-CATGTCTGGGATATG
48536807 GCATTGGCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
44 9 0.16
45 18 0.32
46 30 0.53
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGATATGCATCAGACTCGAGACGTGCCAA
Found at i:48540253 original size:39 final size:39
Alignment explanation
Indices: 48540199--48540284 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
48540189 TATTAAATGC
48540199 AAAACACATATTAATGATATTCAAACTATGACATAATTA
1 AAAACACATATTAATGATATTCAAACTATGACATAATTA
* *
48540238 AAAACTCATATTAATGATGTTCAAACTATGACATAATTA
1 AAAACACATATTAATGATATTCAAACTATGACATAATTA
*
48540277 AAGACACA
1 AAAACACA
48540285 AACTAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (39 bp):
AAAACACATATTAATGATATTCAAACTATGACATAATTA
Found at i:48545977 original size:46 final size:46
Alignment explanation
Indices: 48545880--48546009 Score: 147
Period size: 46 Copynumber: 2.8 Consensus size: 46
48545870 CGCATTTCAT
* ***
48545880 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTTGA
1 TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCCCAA
* *
48545926 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCGC-T-CGTCCCAA
1 TGCCGATGCATGTCCCAAACATGTCTTACACT-G-GCTTACATCCCAA
*
48545972 TGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCT
1 TGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT
48546010 CTCATAATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
46 43 0.61
47 17 0.24
48 11 0.15
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCCCAA
Found at i:48546029 original size:94 final size:92
Alignment explanation
Indices: 48545880--48546050 Score: 213
Period size: 94 Copynumber: 1.8 Consensus size: 92
48545870 CGCATTTCAT
* **
48545880 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGGCCGATGCATG-TCCCAA
1 TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGCT-CCAA
48545944 ACATGTCTTACACTAGCGCTCGTCCCAA
65 ACATGTCTTACACTAGCGCTCGTCCCAA
* *
48545972 TGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCT-CATAATGTA-GCCTATGCATGCTC
1 TGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATAATG-AGGCCGATGCATGCTC
* *
48546035 CAGACATGTTTTACAC
62 CAAACATGTCTTACAC
48546051 CAGCTCACAC
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
92 8 0.12
93 13 0.19
94 43 0.64
95 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGCTCCAAA
CATGTCTTACACTAGCGCTCGTCCCAA
Found at i:48549819 original size:43 final size:43
Alignment explanation
Indices: 48549760--48549911 Score: 216
Period size: 43 Copynumber: 3.5 Consensus size: 43
48549750 AAGTTTGGTT
* *
48549760 TAATATAA-TGGCACTAAATGTGCGATACAATTATAACTTCAGC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCAGC
48549803 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCAGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCAGC
* * * *
48549846 TAATTAATTGGCATTAAGTGTGTGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCAGC
* *
48549889 TAATTAATTAGCATTAAGTGTGC
1 TAATTAATTGGCACTAAGTGTGC
48549912 AAGTTCGTTG
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 3 0.03
43 97 0.97
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCAGC
Found at i:48564933 original size:40 final size:40
Alignment explanation
Indices: 48564878--48565105 Score: 350
Period size: 40 Copynumber: 5.7 Consensus size: 40
48564868 TAATTGAGGA
* *
48564878 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
48564918 TTATATCCAGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
48564958 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
48564998 TTATATCTGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * *
48565038 TTATATCCGGGCCAAGTTCCGAAGGCACTCGTACTGG-TG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
48565077 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
48565106 TGTGTTTGGA
Statistics
Matches: 173, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 28 0.16
40 145 0.84
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:48567092 original size:79 final size:81
Alignment explanation
Indices: 48566956--48567138 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
48566946 TCGAATGATG
* *
48566956 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48567020 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
48567035 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
48567097 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
48567115 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48567139 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:48567154 original size:40 final size:40
Alignment explanation
Indices: 48566957--48567140 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
48566947 CGAATGATGT
* * * *
48566957 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
48566997 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
48567037 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48567075 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48567116 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48567141 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:48567162 original size:79 final size:79
Alignment explanation
Indices: 48567009--48567173 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
48566999 GGACTAAGAT
* **
48567009 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
48567074 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
48567088 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
48567151 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48567167 CCGAAGG
1 CCGAAGG
48567174 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48580811 original size:40 final size:40
Alignment explanation
Indices: 48580756--48580983 Score: 323
Period size: 40 Copynumber: 5.7 Consensus size: 40
48580746 TAATTGAGGA
* * *
48580756 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGATGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
48580796 TTATATCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
48580836 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
48580876 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
* ** * * *
48580916 TTATATCCGGGCCAAGTTTCTAAGGCACTCGTACTGG-TG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
48580955 TTATATCCGAGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
48580984 TGTGTTTGGA
Statistics
Matches: 169, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 25 0.15
40 144 0.85
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:48582455 original size:56 final size:55
Alignment explanation
Indices: 48582366--48582529 Score: 233
Period size: 56 Copynumber: 2.9 Consensus size: 55
48582356 TTACATGTAA
* **
48582366 TCACATATCGATGCC-ACTATCCCAAACAG-GGTCTTACTCGCACACATATATCTGAG
1 TCACATATCGATGCCAACTAT--AAAAC-GTGGTCTTACTCGCACACATATATCAAAG
*
48582422 TCACATATCGATGCCAACATATAAAACGTGGTCTTAATCGCACACATATATCAAAG
1 TCACATATCGATGCCAAC-TATAAAACGTGGTCTTACTCGCACACATATATCAAAG
48582478 TCACATATCGATGCCAACGTATAAAACGTGGTCTTACTCGCACACATATATC
1 TCACATATCGATGCCAAC-TATAAAACGTGGTCTTACTCGCACACATATATC
48582530 GATGCCATGG
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
55 1 0.01
56 93 0.94
57 2 0.02
58 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (55 bp):
TCACATATCGATGCCAACTATAAAACGTGGTCTTACTCGCACACATATATCAAAG
Found at i:48583681 original size:14 final size:15
Alignment explanation
Indices: 48583664--48583692 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48583654 GCACGAAAAT
48583664 TTCACACA-AATAAA
1 TTCACACATAATAAA
48583678 TTCACACATAATAAA
1 TTCACACATAATAAA
48583693 CATATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48607038 original size:12 final size:12
Alignment explanation
Indices: 48607017--48607043 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48607007 GTTTATACAA
48607017 CAAATTATATAT
1 CAAATTATATAT
48607029 CAAATTATATAT
1 CAAATTATATAT
48607041 CAA
1 CAA
48607044 TAATAATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (12 bp):
CAAATTATATAT
Found at i:48608975 original size:15 final size:15
Alignment explanation
Indices: 48608952--48608982 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48608942 TCAAAAATTC
48608952 CAATACAAAACATAT
1 CAATACAAAACATAT
*
48608967 CAATCCAAAACATAT
1 CAATACAAAACATAT
48608982 C
1 C
48608983 TTTCACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:48611029 original size:42 final size:43
Alignment explanation
Indices: 48610951--48611101 Score: 148
Period size: 44 Copynumber: 3.5 Consensus size: 43
48610941 TCCCGGACGT
* * * *
48610951 GGTCTTACATGTAATTCA-ATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGAAATTCAGATAT-GATGCCTGTGTCCCAGACAC
* * *
48610994 GGTCTTATACGAAATT-AGATATGATGCC-GATGTCCCGGACAT
1 GGTCTTACACGAAATTCAGATATGATGCCTG-TGTCCCAGACAC
* *
48611036 GGTCTTACACGTAAATTTCA-ATTTGATGCCTGTGTTCCAGACAC
1 GGTCTTACACG-AAA-TTCAGATATGATGCCTGTGTCCCAGACAC
48611080 GGTCTTACACGATAATTCAGAT
1 GGTCTTACACGA-AATTCAGAT
48611102 CAATACCAAC
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
42 27 0.30
43 25 0.28
44 35 0.39
45 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
GGTCTTACACGAAATTCAGATATGATGCCTGTGTCCCAGACAC
Found at i:48621325 original size:14 final size:14
Alignment explanation
Indices: 48621306--48621333 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48621296 TTTTATTAAT
48621306 TTTTTCTTTATTTG
1 TTTTTCTTTATTTG
48621320 TTTTTCTTTATTTG
1 TTTTTCTTTATTTG
48621334 ATTGGGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTATTTG
Found at i:48623104 original size:17 final size:18
Alignment explanation
Indices: 48623082--48623115 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48623072 CACATTGAAG
48623082 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
48623099 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
48623116 CTTCCTTAGA
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:48624304 original size:29 final size:29
Alignment explanation
Indices: 48624244--48624357 Score: 167
Period size: 29 Copynumber: 4.0 Consensus size: 29
48624234 CAAACATGCA
** * **
48624244 TATGGCCCACCAGGCCC-AATCTCATTTA
1 TATGGCCCATTAGGCCCAAATCACATTCG
48624272 TATGGCCCATTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
48624301 TATGGCCCATTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
*
48624330 TATGACCCATTAGGCCCAAATCACATTC
1 TATGGCCCATTAGGCCCAAATCACATTC
48624358 ATAGTCATGC
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 15 0.19
29 64 0.81
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTCG
Found at i:48631485 original size:39 final size:40
Alignment explanation
Indices: 48631390--48631651 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
48631380 TTGAATGATG
*
48631390 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
48631428 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
48631469 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
48631508 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
48631547 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
48631586 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
48631625 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48631652 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48639501 original size:39 final size:40
Alignment explanation
Indices: 48639406--48639628 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
48639396 TTGAATGATG
*
48639406 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
48639444 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
48639485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
48639524 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
48639563 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
48639602 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48639629 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48639592 original size:79 final size:81
Alignment explanation
Indices: 48639406--48639628 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
48639396 TTGAATGATG
* * *
48639406 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
48639467 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
48639485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
48639547 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
48639563 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
48639627 TG
66 TG
48639629 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Done.