Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 144 of 284
Found at i:48227020 original size:47 final size:47
Alignment explanation
Indices: 48226785--48227022 Score: 323
Period size: 47 Copynumber: 5.1 Consensus size: 47
48226775 ACACATTTCG
* * *
48226785 CATTAGCCATTCGACCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCA
* * * *
48226832 AATTGGCCATTCGGCCTTATCTCATATATGAATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCA
* * *
48226879 CATTGGCCATTCGAACTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCA
* * * *
48226926 AATTGGCCATTCGGCCTTATCTCATATATGAATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCA
* * *
48226973 CATTGGCCATTCGAACTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCA
48227020 CAT
1 CAT
48227023 AAAATCCTAA
Statistics
Matches: 163, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 163 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCA
Found at i:48232891 original size:27 final size:27
Alignment explanation
Indices: 48232853--48232904 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
48232843 ATAATCACAT
48232853 AATTCCTAGTGACATGTCACATTGTTA
1 AATTCCTAGTGACATGTCACATTGTTA
48232880 AATTCCTAGTGACATGTCACATTGT
1 AATTCCTAGTGACATGTCACATTGT
48232905 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (27 bp):
AATTCCTAGTGACATGTCACATTGTTA
Found at i:48237830 original size:40 final size:40
Alignment explanation
Indices: 48237773--48238002 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
48237763 GATGATAACG
*
48237773 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
48237813 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
* *
48237853 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
*
48237893 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCC
*
48237933 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTAAT-TCC
*
48237973 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
48238003 AGCTATATTC
Statistics
Matches: 174, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
39 4 0.02
40 168 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC
Found at i:48237910 original size:80 final size:80
Alignment explanation
Indices: 48237773--48238028 Score: 340
Period size: 80 Copynumber: 3.2 Consensus size: 80
48237763 GATGATAACG
* * *
48237773 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCAAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
*
48237838 CTAG-TGACTA-ATTCC
66 CGAGTTG-CTATA-TCC
* *
48237853 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAATTCCGAGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
48237918 CGAGTTGCTATATCC
66 CGAGTTGCTATATCC
** *
48237933 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
* *
48237997 GCGAGTAGCTATATTC
65 GCGAGTTGCTATATCC
* *
48238013 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
48238029 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 16 0.10
80 139 0.88
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTGCTATATCC
Found at i:48238009 original size:40 final size:40
Alignment explanation
Indices: 48237773--48238028 Score: 303
Period size: 40 Copynumber: 6.4 Consensus size: 40
48237763 GATGATAACG
*
48237773 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCC
* *
48237813 GGGCTAAGTCCCAAAGGCATTTGTGCTAGT-GACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTAATTCC
*
48237853 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTAATTCC
* *
48237893 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTAAT-TCC
*
48237933 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTA-CT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTAGCTAAT-TCC
*
48237973 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTA-ATTCC
* *
48238013 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
48238029 TACTTGGTTT
Statistics
Matches: 194, Mismatches: 14, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
39 20 0.10
40 168 0.87
41 4 0.02
42 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTAATTCC
Found at i:48242268 original size:42 final size:42
Alignment explanation
Indices: 48242207--48242324 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
48242197 AATTCAATGG
* *
48242207 CGATGCCTCTGTCCTAGACAAGGTCTTACAC-AAAATC-AAAT
1 CGATGCC-GTGTCCCAGACAAGGTCTTACACGAAAATCTAAAT
* * * *
48242248 ACGATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAAT
1 -CGATGCCG-TGTCCCAGACAAGGTCTTACACGAAAATCTAAAT
* *
48242292 CGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 CGATGCC-GTGTCCCAGACAAGGTCTTACACGA
48242325 TATCTCAGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 26 0.42
43 32 0.52
44 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
CGATGCCGTGTCCCAGACAAGGTCTTACACGAAAATCTAAAT
Found at i:48242311 original size:85 final size:84
Alignment explanation
Indices: 48242166--48242322 Score: 208
Period size: 85 Copynumber: 1.8 Consensus size: 84
48242156 AACAAGTACA
* * * * *
48242166 ATGCCGATGTCCTAGACGTGGTCTTACATGTAATTCAATGGCGATGCCTCTGTCCTAGACAAGGT
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAAT-GCGAGGCCTCTGTCCCAGACAAGGT
48242231 CTTACACAAAATCAAATACG
65 CTTACACAAAATCAAATACG
* * *
48242251 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAAT-CGAGGCCTGTGTCCCAGACACGG
1 ATGCCGATGTCCCAGACATGGTCTTACACGT-AAT-TCAATGCGAGGCCTCTGTCCCAGACAAGG
48242315 TCTTACAC
64 TCTTACAC
48242323 GATATCTCAG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 54 0.87
86 3 0.05
87 5 0.08
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (84 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAATGCGAGGCCTCTGTCCCAGACAAGGTC
TTACACAAAATCAAATACG
Found at i:48244755 original size:93 final size:93
Alignment explanation
Indices: 48244648--48244818 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
48244638 GCCCCTAAGT
* *
48244648 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48244713 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
48244741 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48244806 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48244819 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48244815 original size:46 final size:46
Alignment explanation
Indices: 48244643--48244815 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
48244633 AACCCGCCCC
* * *
48244643 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
48244689 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
48244737 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
48244782 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48244816 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:48245272 original size:30 final size:30
Alignment explanation
Indices: 48245238--48245297 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48245228 ATTTAATACG
48245238 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48245268 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48245298 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48246220 original size:50 final size:50
Alignment explanation
Indices: 48246145--48246243 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
48246135 CGTCCTCGAA
48246145 AATCTTACCGGTAAACAGGTGTGGATATTTGTTTCTCAAAGTTTCTTCAG
1 AATCTTACCGGTAAACAGGTGTGGATATTTGTTTCTCAAAGTTTCTTCAG
*
48246195 AATCTTACCGGTAAACAGGTGTGGATATTTGTTTCTCATAGTTTCTTCA
1 AATCTTACCGGTAAACAGGTGTGGATATTTGTTTCTCAAAGTTTCTTCA
48246244 AGTTCCCATG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (50 bp):
AATCTTACCGGTAAACAGGTGTGGATATTTGTTTCTCAAAGTTTCTTCAG
Found at i:48252142 original size:46 final size:46
Alignment explanation
Indices: 48252075--48252246 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
48252065 AACCCGCCCC
*
48252075 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
48252121 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
48252169 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
48252214 TAAGTGAACTCGGATTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
48252247 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 58 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:48252190 original size:93 final size:93
Alignment explanation
Indices: 48252080--48252250 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
48252070 GCCCCTAAGT
* * *
48252080 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
*
48252145 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
48252173 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCATAAGTGAACTCGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
48252238 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48252251 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48262287 original size:93 final size:93
Alignment explanation
Indices: 48262180--48262350 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
48262170 GCCCCTAAGT
* * *
48262180 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
48262245 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
48262273 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
48262338 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48262351 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48262347 original size:46 final size:46
Alignment explanation
Indices: 48262175--48262347 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
48262165 AACCCGCCCC
* * * *
48262175 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
48262221 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
48262269 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
48262314 TAAGTAAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48262348 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:48262803 original size:30 final size:30
Alignment explanation
Indices: 48262769--48262828 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48262759 ATTTAATACG
*
48262769 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
* * * *
48262799 AACTTTTGCATAATTAAACTTTTTCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
48262829 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTAAACTTTTGCCCCTA
Found at i:48263250 original size:24 final size:24
Alignment explanation
Indices: 48263218--48263265 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48263208 TAACTATGGA
48263218 GAACCCTTGAAATTTCGGCCTAAT
1 GAACCCTTGAAATTTCGGCCTAAT
48263242 GAACCCTTGAAATTTCGGCCTAAT
1 GAACCCTTGAAATTTCGGCCTAAT
48263266 TAAGAAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (24 bp):
GAACCCTTGAAATTTCGGCCTAAT
Found at i:48272925 original size:55 final size:55
Alignment explanation
Indices: 48272840--48272950 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
48272830 AAAGTCAAGG
* *
48272840 AATATGAATCCTCGTTCCCAAGCTTTAGCTGGGCAATCATATGGGAATTATAAGA
1 AATATGAATCCTCATTCCCAAGCTTTAGCTGGGCAATCATATGGAAATTATAAGA
* *
48272895 AATATGGATCCTCATTCCCAAG-TTTCAGCTGGGCAATCATATGGAAATTTTAAGA
1 AATATGAATCCTCATTCCCAAGCTTT-AGCTGGGCAATCATATGGAAATTATAAGA
48272950 A
1 A
48272951 GCAGAATGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 3 0.06
55 48 0.94
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (55 bp):
AATATGAATCCTCATTCCCAAGCTTTAGCTGGGCAATCATATGGAAATTATAAGA
Found at i:48281134 original size:27 final size:27
Alignment explanation
Indices: 48281103--48281280 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48281093 TAAATTGTAC
48281103 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48281130 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48281156 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48281184 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48281212 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48281239 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48281266 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48281281 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48281217 original size:82 final size:81
Alignment explanation
Indices: 48281104--48281259 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48281094 AAATTGTACA
* *
48281104 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48281168 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48281185 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48281250 TGCGAGTTGA
65 TGCGAATTGA
48281260 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48281271 original size:82 final size:81
Alignment explanation
Indices: 48281100--48281280 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48281090 GATTAAATTG
* *
48281100 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48281165 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48281181 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48281245 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48281263 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48281281 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48281291 original size:27 final size:27
Alignment explanation
Indices: 48281185--48281291 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
48281175 TGACCATGCG
* * * *
48281185 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
48281213 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
48281240 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
48281267 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
48281292 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:48282723 original size:23 final size:23
Alignment explanation
Indices: 48282692--48282806 Score: 112
Period size: 23 Copynumber: 5.0 Consensus size: 23
48282682 AAGATACCAT
48282692 GGCAACCTGATATGAAATGTGTA
1 GGCAACCTGATATGAAATGTGTA
*
48282715 GGCAGCCTGATATGAAATGTGTA
1 GGCAACCTGATATGAAATGTGTA
* * **
48282738 AG--ACCATGGT-TGAAA-GATACCA
1 GGCAACC-TGATATGAAATG-T-GTA
48282760 TGGCAACCTGATATGAAATGTGTA
1 -GGCAACCTGATATGAAATGTGTA
*
48282784 GGCAGCCTGATATGAAATGTGTA
1 GGCAACCTGATATGAAATGTGTA
48282807 AGACCATGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
20 1 0.01
21 8 0.11
22 4 0.05
23 46 0.63
24 4 0.05
25 9 0.12
26 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCAACCTGATATGAAATGTGTA
Found at i:48282763 original size:69 final size:69
Alignment explanation
Indices: 48282652--48282833 Score: 364
Period size: 69 Copynumber: 2.6 Consensus size: 69
48282642 AGTGTGGTCT
48282652 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAGG
48282717 CAGC
66 CAGC
48282721 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAGG
48282786 CAGC
66 CAGC
48282790 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
48282834 GCCTTGTAAC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 113 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (69 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAGG
CAGC
Found at i:48285590 original size:56 final size:56
Alignment explanation
Indices: 48285523--48285631 Score: 200
Period size: 56 Copynumber: 1.9 Consensus size: 56
48285513 TCTATCTCAG
*
48285523 ATTTGTGGTCACGAAACCACTATTCCGATTAAGCCCTAATTCAGGATATTACAAGC
1 ATTTGTGGTCACGAAACCACTATTCCGATTAAGCCCTAACTCAGGATATTACAAGC
*
48285579 ATTTGTGGTCACGAAACCACTATTCCGATTAGGCCCTAACTCAGGATATTACA
1 ATTTGTGGTCACGAAACCACTATTCCGATTAAGCCCTAACTCAGGATATTACA
48285632 CTTTGCACTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (56 bp):
ATTTGTGGTCACGAAACCACTATTCCGATTAAGCCCTAACTCAGGATATTACAAGC
Found at i:48287785 original size:49 final size:49
Alignment explanation
Indices: 48287713--48287944 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
48287703 CTAGTACGCA
* *
48287713 TAGTAGCTTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* ** **
48287762 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGATACACG
* * * * *
48287812 TAGTAGCCTGCACTTAGTACTAAACACGTGATCGAAGTTATCGGGTACGCG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACG
* * ** * *
48287863 TAGTAGCCTGCACTAAGTACTACACATGCAATCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
*
48287912 TAGTATCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
48287945 TCACAATAGA
Statistics
Matches: 149, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 69 0.46
50 45 0.30
51 35 0.23
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
Found at i:48289338 original size:13 final size:13
Alignment explanation
Indices: 48289317--48289346 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48289307 ATAAACACTA
*
48289317 TTTTTAAGTTATG
1 TTTTCAAGTTATG
48289330 TTTTCAAGTTATG
1 TTTTCAAGTTATG
48289343 TTTT
1 TTTT
48289347 ATACATGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (13 bp):
TTTTCAAGTTATG
Found at i:48289382 original size:13 final size:13
Alignment explanation
Indices: 48289364--48289388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48289354 CTCCTATATG
48289364 AGCCTATGTTTTA
1 AGCCTATGTTTTA
48289377 AGCCTATGTTTT
1 AGCCTATGTTTT
48289389 TATACTACGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (13 bp):
AGCCTATGTTTTA
Found at i:48296468 original size:19 final size:19
Alignment explanation
Indices: 48296444--48296513 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
48296434 AACATACACA
48296444 AGTAAGCTTATAGAAGCCT
1 AGTAAGCTTATAGAAGCCT
48296463 AGTAAGCTTATAGAAGCCT
1 AGTAAGCTTATAGAAGCCT
*
48296482 AGTAAGCTTATAGAAGCTT
1 AGTAAGCTTATAGAAGCCT
*
48296501 AGTAAGCTCATAG
1 AGTAAGCTTATAG
48296514 GCATAGAAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (19 bp):
AGTAAGCTTATAGAAGCCT
Found at i:48296827 original size:46 final size:46
Alignment explanation
Indices: 48296776--48296895 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
48296766 ACACACTGAA
* *
48296776 GCCATAGCCCTGCCATGGTCTTACACGGATCACATATCATACCGAT
1 GCCATAGCCCGGACATGGTCTTACACGGATCACATATCATACCGAT
* * *
48296822 GCCATATCCCGGATATGGTCTTATACGGATCACATATCATACCGAT
1 GCCATAGCCCGGACATGGTCTTACACGGATCACATATCATACCGAT
* * *
48296868 GCCATATCCAGGA-ATGGTCTTATACGGA
1 GCCATAGCCCGGACATGGTCTTACACGGA
48296896 GGCACATTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 15 0.22
46 53 0.78
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCGGACATGGTCTTACACGGATCACATATCATACCGAT
Found at i:48296902 original size:46 final size:46
Alignment explanation
Indices: 48296790--48296895 Score: 187
Period size: 46 Copynumber: 2.3 Consensus size: 46
48296780 TAGCCCTGCC
* *
48296790 ATGGTCTTACACGGATCACATATCATACCGATGCCATATCCCGGAT
1 ATGGTCTTATACGGATCACATATCATACCGATGCCATATCCAGGAT
48296836 ATGGTCTTATACGGATCACATATCATACCGATGCCATATCCAGGA-
1 ATGGTCTTATACGGATCACATATCATACCGATGCCATATCCAGGAT
48296881 ATGGTCTTATACGGA
1 ATGGTCTTATACGGA
48296896 GGCACATTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 15 0.26
46 43 0.74
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGGTCTTATACGGATCACATATCATACCGATGCCATATCCAGGAT
Found at i:48296954 original size:53 final size:51
Alignment explanation
Indices: 48296811--48297015 Score: 135
Period size: 52 Copynumber: 4.1 Consensus size: 51
48296801 CGGATCACAT
* *
48296811 ATCATACCGATGCCATATCCC-GGATATGGTCTTATACGGA-TCAC--AT---
1 ATCATACCGATGCCATA-CCCAGCA-ATGGTCTTATACGGAGGCACATATCAC
* *
48296857 ATCATACCGATGCCATATCCAGGAATGGTCTTATACGGAGGCACATTATCAC
1 ATCATACCGATGCCATACCCAGCAATGGTCTTATACGGAGGCACA-TATCAC
* * *
48296909 ATCATACCGATGTCATAGCCCAGCCATGGTCTTATATGG-GAGCACATAT--C
1 ATCATACCGATGCCATA-CCCAGCAATGGTCTTATACGGAG-GCACATATCAC
* * * * * *
48296959 ATAATACACTAATGCCATAGCACAACTATGGTCGTATACGG-GTGCACATATCAC
1 ATCATAC-C-GATGCCATA-CCCAGCAATGGTCTTATACGGAG-GCACATATCAC
48297013 ATC
1 ATC
48297016 CATTCCGTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
45 17 0.13
46 23 0.18
49 2 0.02
50 7 0.05
51 1 0.01
52 53 0.41
53 22 0.17
54 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (51 bp):
ATCATACCGATGCCATACCCAGCAATGGTCTTATACGGAGGCACATATCAC
Found at i:48306971 original size:37 final size:37
Alignment explanation
Indices: 48306921--48306991 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
48306911 ATCCAAAAAC
48306921 TCTTTTGTAATAGTGTTGTAGTTAAGGTGCATGTTTG
1 TCTTTTGTAATAGTGTTGTAGTTAAGGTGCATGTTTG
*
48306958 TCTTTT-TCAATAGTGTTGTTGTTAAGGTGCATGT
1 TCTTTTGT-AATAGTGTTGTAGTTAAGGTGCATGT
48306992 CCGTTAGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.49
Consensus pattern (37 bp):
TCTTTTGTAATAGTGTTGTAGTTAAGGTGCATGTTTG
Found at i:48309416 original size:18 final size:18
Alignment explanation
Indices: 48309393--48309427 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
48309383 CTTAAAATGC
48309393 TCTTTCCCTTGTGATCAT
1 TCTTTCCCTTGTGATCAT
48309411 TCTTTCCCTTGTGATCA
1 TCTTTCCCTTGTGATCA
48309428 CAAATTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.11, T:0.49
Consensus pattern (18 bp):
TCTTTCCCTTGTGATCAT
Found at i:48309593 original size:3 final size:3
Alignment explanation
Indices: 48309585--48309625 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
48309575 GGCTTCAGTA
48309585 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
48309626 AGCCGATGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:48319088 original size:42 final size:41
Alignment explanation
Indices: 48319055--48319207 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 41
48319045 TGAGTTTACG
**
48319055 TGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGA-TTCA
* * * *
48319097 TGTAGGACCATGTCTGGGACATGGCATCGATATGAGAATCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
* *
48319138 TGTAAGACCATAAT-TGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCAT-ATCTGGGATA-TGGCATCGATATGAGAT-TCA
* * *
48319181 TGCAAGACTATATCTAGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
48319208 TGGTATGATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
41 16 0.18
42 57 0.63
43 17 0.19
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
Found at i:48328867 original size:40 final size:40
Alignment explanation
Indices: 48328816--48329927 Score: 1812
Period size: 40 Copynumber: 27.8 Consensus size: 40
48328806 CATTTGAATG
48328816 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
48328856 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
48328896 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
48328936 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
48328976 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329016 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
48329056 ATATCCGGGCTAAGACCCGACGGCGTTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329096 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
48329136 ATATCCGGGCTAAGACCCGACGGCGTTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329176 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
48329216 ATATCCGGGCTAAGACCCGACGGCGTTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329256 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
48329296 ATATCCGGGCTAAGACCCGACGGCGTTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329336 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
48329376 ATATCCGGGCTAAGACCCGACGGCGTTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329416 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
48329456 ATATCCGGGCTAAGACCCGACGGCGTTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329496 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
48329536 ATATCCGGGCTAAGACCCGACGGCGTTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329576 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
48329616 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
48329656 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
48329696 ATATCCGGGATAAGACCCGAAGGCATTTTTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
48329736 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
48329776 ATATCCGGGCTAAGACCCGACGGCGTTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
48329816 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
48329856 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
** * *
48329896 ATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
48329928 TTGTGGTTAT
Statistics
Matches: 990, Mismatches: 80, Indels: 4
0.92 0.07 0.00
Matches are distributed among these distances:
39 2 0.00
40 987 1.00
41 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:48349308 original size:28 final size:27
Alignment explanation
Indices: 48349244--48349395 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
48349234 ATATTAAGTC
* *
48349244 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
48349271 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
48349299 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
48349326 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
48349354 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
48349381 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48349396 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48349328 original size:55 final size:55
Alignment explanation
Indices: 48349244--48349420 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
48349234 ATATTAAGTC
* * *
48349244 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
*
48349299 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
48349354 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
48349410 CGCACACTTAG
1 CGCACACTTAG
48349421 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:48354955 original size:459 final size:459
Alignment explanation
Indices: 48354097--48355015 Score: 1838
Period size: 459 Copynumber: 2.0 Consensus size: 459
48354087 TATAATTCTT
48354097 TCTACTTAAAGAGATATTTGAGGCTAGTATGGTCTCTATAGATGGTACATTGCTCACCATACAAG
1 TCTACTTAAAGAGATATTTGAGGCTAGTATGGTCTCTATAGATGGTACATTGCTCACCATACAAG
48354162 TAATGTCGCCAAATCTTGATTGTAAATACGATTGGTGCTACTCTAGATCGTATGATGTGTAGTTT
66 TAATGTCGCCAAATCTTGATTGTAAATACGATTGGTGCTACTCTAGATCGTATGATGTGTAGTTT
48354227 CACTCATGAGGCTTTAATTGTCTTGAGGCATGAGCCACCACCCTTCCTTCTTGCATCATCACGTA
131 CACTCATGAGGCTTTAATTGTCTTGAGGCATGAGCCACCACCCTTCCTTCTTGCATCATCACGTA
48354292 ACCAAGTCCCATGTACGAAGTGTCACTCTAGACCACAAAGTCTTTCCCAAGTTCTAGTTGAACCA
196 ACCAAGTCCCATGTACGAAGTGTCACTCTAGACCACAAAGTCTTTCCCAAGTTCTAGTTGAACCA
48354357 ACATTGGTGCTTTAATGAGTATCACATTAAGTTTCTCGAAGCTCTTTTTTCTGTCTTCTGTCCAT
261 ACATTGGTGCTTTAATGAGTATCACATTAAGTTTCTCGAAGCTCTTTTTTCTGTCTTCTGTCCAT
48354422 TCAGATTCCTCATATTTTTGCATTAGCTCTGTTAAGGGTGTCGCGATAGTGATGAATCCTTCCAC
326 TCAGATTCCTCATATTTTTGCATTAGCTCTGTTAAGGGTGTCGCGATAGTGATGAATCCTTCCAC
48354487 AACCTACGATTGTAAACTGAAAAATATATAGGATTTTTCATATGTAATTTATCACCTTTTTTACT
391 AACCTACGATTGTAAACTGAAAAATATATAGGATTTTTCATATGTAATTTATCACCTTTTTTACT
48354552 TAAC
456 TAAC
48354556 TCTACTTAAAGAGATATTTGAGGCTAGTATGGTCTCTATAGATGGTACATTGCTCACCATACAAG
1 TCTACTTAAAGAGATATTTGAGGCTAGTATGGTCTCTATAGATGGTACATTGCTCACCATACAAG
48354621 TAATGTCGCCAAATCTTGATTGTAAATACGATTGGTGCTACTCTAGATCGTATGATGTGTAGTTT
66 TAATGTCGCCAAATCTTGATTGTAAATACGATTGGTGCTACTCTAGATCGTATGATGTGTAGTTT
48354686 CACTCATGAGGCTTTAATTGTCTTGAGGCATGAGCCACCACCCTTCCTTCTTGCATCATCACGTA
131 CACTCATGAGGCTTTAATTGTCTTGAGGCATGAGCCACCACCCTTCCTTCTTGCATCATCACGTA
48354751 ACCAAGTCCCATGTACGAAGTGTCACTCTAGACCACAAAGTCTTTCCCAAGTTCTAGTTGAACCA
196 ACCAAGTCCCATGTACGAAGTGTCACTCTAGACCACAAAGTCTTTCCCAAGTTCTAGTTGAACCA
48354816 ACATTGGTGCTTTAATGAGTATCACATTAAGTTTCTCGAAGCTCTTTTTTCTGTCTTCTGTCCAT
261 ACATTGGTGCTTTAATGAGTATCACATTAAGTTTCTCGAAGCTCTTTTTTCTGTCTTCTGTCCAT
48354881 TCAGATTCCTCATATTTTTGCATTAGCTCTGTTAAGGGTGTCGCGATAGTGATGAATCCTTCCAC
326 TCAGATTCCTCATATTTTTGCATTAGCTCTGTTAAGGGTGTCGCGATAGTGATGAATCCTTCCAC
48354946 AACCTACGATTGTAAACTGAAAAATATATAGGATTTTTCATATGTAATTTATCACCTTTTTTACT
391 AACCTACGATTGTAAACTGAAAAATATATAGGATTTTTCATATGTAATTTATCACCTTTTTTACT
48355011 TAAC
456 TAAC
48355015 T
1 T
48355016 TCGTTGTTAA
Statistics
Matches: 460, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
459 460 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (459 bp):
TCTACTTAAAGAGATATTTGAGGCTAGTATGGTCTCTATAGATGGTACATTGCTCACCATACAAG
TAATGTCGCCAAATCTTGATTGTAAATACGATTGGTGCTACTCTAGATCGTATGATGTGTAGTTT
CACTCATGAGGCTTTAATTGTCTTGAGGCATGAGCCACCACCCTTCCTTCTTGCATCATCACGTA
ACCAAGTCCCATGTACGAAGTGTCACTCTAGACCACAAAGTCTTTCCCAAGTTCTAGTTGAACCA
ACATTGGTGCTTTAATGAGTATCACATTAAGTTTCTCGAAGCTCTTTTTTCTGTCTTCTGTCCAT
TCAGATTCCTCATATTTTTGCATTAGCTCTGTTAAGGGTGTCGCGATAGTGATGAATCCTTCCAC
AACCTACGATTGTAAACTGAAAAATATATAGGATTTTTCATATGTAATTTATCACCTTTTTTACT
TAAC
Found at i:48362238 original size:15 final size:15
Alignment explanation
Indices: 48362218--48362273 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
48362208 GTATATTGGG
48362218 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
48362233 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
48362248 TTTC-TCAATCTTGGA
1 TTTCTTTATTC-TGGA
48362263 TTTCTTTATTC
1 TTTCTTTATTC
48362274 AGTTTTCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 4 0.12
15 25 0.76
16 4 0.12
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48365023 original size:46 final size:46
Alignment explanation
Indices: 48364967--48365142 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
48364957 TATTTGGGCA
*
48364967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *** * ** *
48365013 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGAAATATAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GC-AAACG
* * *
48365060 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
48365106 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48365143 GCGGATTACA
Statistics
Matches: 101, Mismatches: 26, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
45 4 0.04
46 64 0.63
47 29 0.29
48 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:48365122 original size:93 final size:93
Alignment explanation
Indices: 48364963--48365135 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
48364953 AGGATATTTG
***
48364963 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
48365028 TTGAGTCCGAGTTCGTGAAATATAACTA
66 TTGAGTCCGAGTTCGTGAAATATAACTA
* *
48365056 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
48365121 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
48365136 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAAATATAACTA
Found at i:48367030 original size:137 final size:138
Alignment explanation
Indices: 48366779--48367097 Score: 489
Period size: 137 Copynumber: 2.3 Consensus size: 138
48366769 GAAAACATAG
48366779 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATCTATTAATAT
1 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATCTATTAATAT
* * * * * *
48366844 AAACAGTTATATTAATTAATTTCTGTCAAAATATAAATGACATGGAAATTACTTTTCTTTTGGAA
66 AAAAAATTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAA
*
48366909 AGAATTTA
131 AGAATATA
* ** *
48366917 GTTAATATATGAATTTGATTCATACAAAATATTAATTGTATA-ATTTTATTGAATTTATTAATAT
1 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATCTATTAATAT
48366981 AAAAAATTATATTAATTAATTT-TGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
66 AAAAAATTATATTAATTAATTTCT-GTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
48367045 AAGAATATA
130 AAGAATATA
* * *
48367054 ATTAATATATGAATTTGATTCATGCAAATTATTATTTGTATATA
1 ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATA
48367098 AACAATTATA
Statistics
Matches: 164, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
136 1 0.01
137 121 0.74
138 42 0.26
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (138 bp):
ATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAAATCTATTAATAT
AAAAAATTATATTAATTAATTTCTGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAA
AGAATATA
Found at i:48369445 original size:18 final size:20
Alignment explanation
Indices: 48369417--48369455 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48369407 TAAAAATCAT
48369417 TAAATAATA-TTCTAAAAAA
1 TAAATAATATTTCTAAAAAA
*
48369436 TAAA-AATATTTTTAAAAAA
1 TAAATAATATTTCTAAAAAA
48369455 T
1 T
48369456 TAATTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATAATATTTCTAAAAAA
Found at i:48371158 original size:12 final size:12
Alignment explanation
Indices: 48371143--48371168 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48371133 GTAATGGACA
48371143 TTGGACATTTAT
1 TTGGACATTTAT
48371155 TTGGACATTTAT
1 TTGGACATTTAT
48371167 TT
1 TT
48371169 TGGTGATGTT
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:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:48373263 original size:28 final size:28
Alignment explanation
Indices: 48373195--48373432 Score: 372
Period size: 28 Copynumber: 8.5 Consensus size: 28
48373185 CATGAGATTG
* * ** *
48373195 GCACTAAGTGTGCGGGTTTAAATTGCACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48373224 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48373252 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48373280 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48373308 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48373336 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48373364 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48373392 GCACTAAGTGTGCGAG-TTGATTACT-TA
1 GCACTAAGTGTGCGAGTTTGATTA-TATA
*
48373419 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48373433 GACTTAATAT
Statistics
Matches: 200, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
27 22 0.11
28 160 0.80
29 18 0.09
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48383268 original size:28 final size:28
Alignment explanation
Indices: 48383170--48383268 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
48383160 CATGAGATTT
* * **
48383170 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
48383199 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48383227 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48383255 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
48383269 GACTTACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 46 0.73
29 17 0.27
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48387736 original size:68 final size:67
Alignment explanation
Indices: 48387664--48387813 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
48387654 CATCATGTGT
* * * *
48387664 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
48387726 ATGTAG
62 ATGTAG
** * *
48387732 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
48387797 AG
66 AG
48387799 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
48387814 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:48387769 original size:64 final size:64
Alignment explanation
Indices: 48387688--48387871 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
48387678 AGACATTATG
* *
48387688 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
48387752 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48387817 AA
63 AA
* * * *
48387819 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
48387872 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48391498 original size:27 final size:27
Alignment explanation
Indices: 48391438--48391524 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 27
48391428 CATACAAGTG
* * * *
48391438 GCTTCGCCACATATACTATTTCTGGTG
1 GCTTTGCCACATATACTGTTACTGGTA
48391465 GCTTTGCCACATATACTGTTACTGGTA
1 GCTTTGCCACATATACTGTTACTGGTA
* * *
48391492 GCCTTGCTAC-GATACTGTTACTGGTA
1 GCTTTGCCACATATACTGTTACTGGTA
48391518 GCTTTGC
1 GCTTTGC
48391525 TGCGATACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 21 0.40
27 31 0.60
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GCTTTGCCACATATACTGTTACTGGTA
Found at i:48391511 original size:26 final size:26
Alignment explanation
Indices: 48391477--48391557 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
48391467 TTTGCCACAT
*
48391477 ATACTGTTACTGGTAGCCTTGCTACG
1 ATACTGTTACTGGTAGCCTTGCTGCG
*
48391503 ATACTGTTACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGTAGCCTTGCTGCG
* * * *
48391529 ATACTTTTACTAGCAACCTTGCTGCG
1 ATACTGTTACTGGTAGCCTTGCTGCG
48391555 ATA
1 ATA
48391558 TTGGTGTCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGTAGCCTTGCTGCG
Found at i:48395522 original size:18 final size:18
Alignment explanation
Indices: 48395482--48395523 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
48395472 GGTAATATTT
*
48395482 TTGGGCTTGATGGGCCAC
1 TTGGGCATGATGGGCCAC
*
48395500 ATGGGCATG-TGGGCCTAC
1 TTGGGCATGATGGGCC-AC
48395518 TTGGGC
1 TTGGGC
48395524 CACATAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.12, C:0.21, G:0.40, T:0.26
Consensus pattern (18 bp):
TTGGGCATGATGGGCCAC
Found at i:48395873 original size:27 final size:27
Alignment explanation
Indices: 48395815--48395882 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
48395805 ACTGTATTAA
* * *
48395815 ACTGATGGCTTCGCCATATATACTATT
1 ACTGGTGGCTTTGCCACATATACTATT
* *
48395842 TCTGGTGGCTTTGCCACATATACTGTT
1 ACTGGTGGCTTTGCCACATATACTATT
**
48395869 ACTGGCAGCTTTGC
1 ACTGGTGGCTTTGC
48395883 TGCGATACTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
ACTGGTGGCTTTGCCACATATACTATT
Found at i:48395904 original size:26 final size:26
Alignment explanation
Indices: 48395861--48395928 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
48395851 TTTGCCACAT
*
48395861 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
*
48395887 ATACTGTTA-TCGGTAGCTTTACTGCG
1 ATACTGTTACT-GGCAGCTTTACTGCG
*
48395913 ATACTGTTAGTGGCAG
1 ATACTGTTACTGGCAG
48395929 GCTTGTTGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 1 0.03
26 35 0.95
27 1 0.03
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:48399116 original size:42 final size:42
Alignment explanation
Indices: 48399069--48399148 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
48399059 GCTCGTGAGT
* * * *
48399069 GGTTCACTCGATTTCGCAAATAGGTGTGTATTCACACATTGC
1 GGTTCACTCAATTTCGCAAACAAGTATGTATTCACACATTGC
*
48399111 GGTTCACTCAATTTGGCAAACAAGTATGTATTCACACA
1 GGTTCACTCAATTTCGCAAACAAGTATGTATTCACACA
48399149 CTTAATAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
GGTTCACTCAATTTCGCAAACAAGTATGTATTCACACATTGC
Found at i:48399569 original size:27 final size:27
Alignment explanation
Indices: 48399523--48399592 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
48399513 CCCCAAGACA
*** *
48399523 GGTAAAATGACTAAAATACCCCTATAG
1 GGTAAAATGACTATTTTACCCCTAGAG
*
48399550 GGTAAAATGACTATTTTACCCCTCGAG
1 GGTAAAATGACTATTTTACCCCTAGAG
48399577 GGT-AAATGACTGATTT
1 GGTAAAATGACT-ATTT
48399593 GTGCTATGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.22
27 29 0.78
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (27 bp):
GGTAAAATGACTATTTTACCCCTAGAG
Found at i:48399762 original size:27 final size:27
Alignment explanation
Indices: 48399707--48399766 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
48399697 ATACTGGTGT
* **
48399707 CTTTGCCACATATACTATTTCTGGTAG
1 CTTTGCCACATATACTATTACTGACAG
*
48399734 CTTTGCCACATATACTGTTACTGACAG
1 CTTTGCCACATATACTATTACTGACAG
48399761 CTTTGC
1 CTTTGC
48399767 TGTGATACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (27 bp):
CTTTGCCACATATACTATTACTGACAG
Found at i:48399780 original size:26 final size:26
Alignment explanation
Indices: 48399745--48399825 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
48399735 TTTGCCACAT
*
48399745 ATACTGTTACTGACAGCTTTGCTGTG
1 ATACTGTTACTGACAGCTTTGCTGCG
* *
48399771 ATACTATTACT-AGCAGCTTTGCTGCA
1 ATACTGTTACTGA-CAGCTTTGCTGCG
* *
48399797 ATACTGTTACTGGA-AGCATTGCTGGG
1 ATACTGTTACT-GACAGCTTTGCTGCG
48399823 ATA
1 ATA
48399826 TTGGTGTGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.02
26 43 0.96
28 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGACAGCTTTGCTGCG
Found at i:48399819 original size:52 final size:53
Alignment explanation
Indices: 48399718--48399825 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 53
48399708 TTTGCCACAT
* * * * *
48399718 ATACTATTTCTGGTAGCTTTGCCACATATACTGTTACTGACAGCTTTGCTGTG
1 ATACTATTACTAGCAGCTTTGCCACATATACTGTTACTGACAGCATTGCTGGG
**
48399771 ATACTATTACTAGCAGCTTTGCTGCA-ATACTGTTACTGGA-AGCATTGCTGGG
1 ATACTATTACTAGCAGCTTTGCCACATATACTGTTACT-GACAGCATTGCTGGG
48399823 ATA
1 ATA
48399826 TTGGTGTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
52 24 0.51
53 23 0.49
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (53 bp):
ATACTATTACTAGCAGCTTTGCCACATATACTGTTACTGACAGCATTGCTGGG
Found at i:48401004 original size:17 final size:18
Alignment explanation
Indices: 48400982--48401015 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48400972 CACATTGAAA
48400982 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
48400999 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
48401016 CTTAAAAAGA
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:48402103 original size:29 final size:29
Alignment explanation
Indices: 48402027--48402122 Score: 115
Period size: 29 Copynumber: 3.3 Consensus size: 29
48402017 CAAGTCTACA
* *
48402027 TACATGCATATGGCCCACTAGGCCC-AAT
1 TACATTCATATGGCCCATTAGGCCCAAAT
48402055 CT-CATTCATATGGCCCATTAGGCCCAAAT
1 -TACATTCATATGGCCCATTAGGCCCAAAT
* * *
48402084 TACATTCGTATGGCCTATTAGGCCTAAAT
1 TACATTCATATGGCCCATTAGGCCCAAAT
*
48402113 CACATTCATA
1 TACATTCATA
48402123 GTCATGCTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 22 0.38
29 36 0.62
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TACATTCATATGGCCCATTAGGCCCAAAT
Found at i:48403068 original size:29 final size:30
Alignment explanation
Indices: 48403034--48403093 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
48403024 CTGCACAAAG
* *
48403034 TAAGAGAGGAAGAACAATGG-TTTCGGCTT
1 TAAGAGAGGAAGAACAAGGGATTTCAGCTT
48403063 TAAGAGAGGAAGAACAAGGGATTTCAGCTT
1 TAAGAGAGGAAGAACAAGGGATTTCAGCTT
48403093 T
1 T
48403094 TAGATCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.37, C:0.10, G:0.30, T:0.23
Consensus pattern (30 bp):
TAAGAGAGGAAGAACAAGGGATTTCAGCTT
Found at i:48408527 original size:17 final size:18
Alignment explanation
Indices: 48408505--48408538 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48408495 CACATTGAAG
48408505 TGTTTT-ATCAAAAACCT
1 TGTTTTCATCAAAAACCT
*
48408522 TGTTTTCATTAAAAACC
1 TGTTTTCATCAAAAACC
48408539 CTTCAAAAGA
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:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCAAAAACCT
Found at i:48409623 original size:29 final size:29
Alignment explanation
Indices: 48409552--48409646 Score: 138
Period size: 29 Copynumber: 3.3 Consensus size: 29
48409542 AAGTCTACAT
* *
48409552 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
48409580 TCATTCATATGGCCCATTAGGCCCAAACC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
48409609 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
48409638 ACATTCATA
1 ACATTCATA
48409647 GTCATGCTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 21 0.36
29 37 0.64
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48409880 original size:16 final size:16
Alignment explanation
Indices: 48409859--48409890 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48409849 CCAAACTTCT
48409859 GGCTTTTCGGCATTTC
1 GGCTTTTCGGCATTTC
48409875 GGCTTTTCGGCATTTC
1 GGCTTTTCGGCATTTC
48409891 AGGATTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.25, T:0.44
Consensus pattern (16 bp):
GGCTTTTCGGCATTTC
Found at i:48413908 original size:40 final size:40
Alignment explanation
Indices: 48413860--48414167 Score: 562
Period size: 40 Copynumber: 7.7 Consensus size: 40
48413850 GCAAACACCT
* * *
48413860 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48413900 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48413940 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48413980 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48414020 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48414060 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48414100 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48414140 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
48414168 NNNNNNNNNN
Statistics
Matches: 262, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 262 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:48427220 original size:29 final size:29
Alignment explanation
Indices: 48427163--48427277 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
48427153 TACCTGTATC
* * * *
48427163 TGGCCCAGTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
48427191 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
*
48427220 TGGCCCATTAGGCCCACATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
48427249 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
48427277 T
1 T
48427278 TCTTGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.63
30 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:48431198 original size:39 final size:39
Alignment explanation
Indices: 48431155--48431229 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
48431145 GTCGTAGGTG
* * *
48431155 GATCCATGATTGTCAGGCAACCATGCGATCCCCATAATA
1 GATCCACGATTGTCAGGCAACCATACAATCCCCATAATA
48431194 GATCCACGATTGTCAGGCAACCATACAATCCCCATA
1 GATCCACGATTGTCAGGCAACCATACAATCCCCATA
48431230 TACTTCTTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (39 bp):
GATCCACGATTGTCAGGCAACCATACAATCCCCATAATA
Found at i:48431699 original size:28 final size:29
Alignment explanation
Indices: 48431657--48431769 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
48431647 CCTGTACCTA
* * *
48431657 GCCCATTAAGACC-AATCATATTCATATG
1 GCCCATTAGGCCCAAATCACATTCATATG
*
48431685 GCCCATTAGGCCCAAATCACCTGT-ATATG
1 GCCCATTAGGCCCAAATCACAT-TCATATG
*
48431714 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATTCATATG
** *
48431743 GCCTGTTAGGCCC-AGTCACATTCATAT
1 GCCCATTAGGCCCAAATCACATTCATAT
48431770 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.33
29 48 0.66
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTCATATG
Found at i:48431999 original size:8 final size:8
Alignment explanation
Indices: 48431980--48432022 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
48431970 GTAGCCAAAC
*
48431980 TTTCGGCG
1 TTTCGGCA
*
48431988 TTTCAGCA
1 TTTCGGCA
*
48431996 TTTCGGCG
1 TTTCGGCA
*
48432004 TTTCGACA
1 TTTCGGCA
48432012 TTTCGGCA
1 TTTCGGCA
48432020 TTT
1 TTT
48432023 TGGCTTTTGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (8 bp):
TTTCGGCA
Found at i:48432001 original size:16 final size:16
Alignment explanation
Indices: 48431980--48432018 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
48431970 GTAGCCAAAC
48431980 TTTCGGCGTTTC-AGCA
1 TTTCGGCGTTTCGA-CA
48431996 TTTCGGCGTTTCGACA
1 TTTCGGCGTTTCGACA
48432012 TTTCGGC
1 TTTCGGC
48432019 ATTTTGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.10, C:0.26, G:0.26, T:0.38
Consensus pattern (16 bp):
TTTCGGCGTTTCGACA
Found at i:48434441 original size:27 final size:27
Alignment explanation
Indices: 48434387--48434448 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
48434377 AATACCTGTG
* * **
48434387 TACCCTTTTAGGGTAGAATTACTGAAA
1 TACCCTTGTAGGGCAGAATTACCAAAA
*
48434414 TGCCCTTGTAGGGCAGAATTACCAAAA
1 TACCCTTGTAGGGCAGAATTACCAAAA
48434441 TACCCTTG
1 TACCCTTG
48434449 GTTTACAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (27 bp):
TACCCTTGTAGGGCAGAATTACCAAAA
Found at i:48434460 original size:27 final size:27
Alignment explanation
Indices: 48434430--48434543 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
48434420 TGTAGGGCAG
**
48434430 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
48434457 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
48434484 AATTACAAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * *
48434511 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
48434538 AATTAC
1 AATTAC
48434544 TGAAACACCC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:48434488 original size:54 final size:54
Alignment explanation
Indices: 48434430--48434543 Score: 183
Period size: 54 Copynumber: 2.1 Consensus size: 54
48434420 TGTAGGGCAG
* *
48434430 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACAAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAA
** *
48434484 AATTACAAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTGA
1 AATTACAAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAA
48434538 AATTAC
1 AATTAC
48434544 TGAAACACCC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AATTACAAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAA
Found at i:48434554 original size:54 final size:53
Alignment explanation
Indices: 48434430--48434597 Score: 174
Period size: 54 Copynumber: 3.1 Consensus size: 53
48434420 TGTAGGGCAG
* * * *
48434430 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACAAAAACACCCTTGGTTT-TAAAATTACCAAAATACCCCTGATTTGTAA
* *
48434484 AATTACAAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTGA
1 AATTACAAAAACACCCTTGGTTT-TAAAATTACCAAAATACCCCTGATTTGTAA
** *** * * **
48434538 AATTACTGAAACACCCTCAACTTTTAAAATTACCAAAGTACCCCCGATTTACAA
1 AATTACAAAAACACCCT-TGGTTTTAAAATTACCAAAATACCCCTGATTTGTAA
48434592 AATTAC
1 AATTAC
48434598 CGTTTTACTT
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 94 0.97
55 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (53 bp):
AATTACAAAAACACCCTTGGTTTTAAAATTACCAAAATACCCCTGATTTGTAA
Found at i:48434593 original size:27 final size:27
Alignment explanation
Indices: 48434430--48434598 Score: 153
Period size: 27 Copynumber: 6.3 Consensus size: 27
48434420 TGTAGGGCAG
* * **
48434430 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
48434457 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
* * *
48434484 AATTACAAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
48434511 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
** * *
48434538 AATTACTGAAACA-CCCTCAACTTT-TAA
1 AATTACCAAAATACCCCT-GA-TTTGTAA
* * **
48434565 AATTACCAAAGTACCCCCGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
48434592 AATTACC
1 AATTACC
48434599 GTTTTACTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
26 7 0.06
27 104 0.89
28 6 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:48434649 original size:27 final size:27
Alignment explanation
Indices: 48434619--48434838 Score: 329
Period size: 27 Copynumber: 8.1 Consensus size: 27
48434609 TGATTTACAA
*
48434619 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
48434646 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
48434673 AATTACTGAAATACCCCTGTCA-GGTAG
1 AATTACTGAAATACCCCTGT-AGGGTAG
48434700 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48434727 AGTTACTGAAACACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
48434754 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
48434781 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
48434808 AAATA-TCGAAATACCCCTGTAAGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
48434835 AATT
1 AATT
48434839 CCAAGATACC
Statistics
Matches: 178, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
26 2 0.01
27 175 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:48435710 original size:6 final size:6
Alignment explanation
Indices: 48435699--48435752 Score: 74
Period size: 6 Copynumber: 8.8 Consensus size: 6
48435689 TTGTCACCTA
*
48435699 ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TCTCCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-T-CTG ATTCTG ATTCTG
48435748 ATTCT
1 ATTCT
48435753 CATTTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 1 0.02
6 37 0.86
7 4 0.09
8 1 0.02
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:48435714 original size:25 final size:25
Alignment explanation
Indices: 48435652--48435716 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
48435642 CATTCACATT
* *
48435652 TTGATTCTGATTCTGTTACCAGATA
1 TTGATTCTGATTTTGTCACCAGATA
48435677 TTGATTCTGATTTTGTCACCTA-AT-
1 TTGATTCTGATTTTGTCACC-AGATA
48435701 TCTGATTCTGATTTTG
1 T-TGATTCTGATTTTG
48435717 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (25 bp):
TTGATTCTGATTTTGTCACCAGATA
Found at i:48435718 original size:37 final size:37
Alignment explanation
Indices: 48435677--48435750 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
48435667 TTACCAGATA
*
48435677 TTGATTCTGATTTTGTCACCTAATTCTGATTCTGATT
1 TTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
* *
48435714 TTGATTCTGATTCTGTCTCCTGATTCTGATTCTGATT
1 TTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
48435751 CTCATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.51
Consensus pattern (37 bp):
TTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
Found at i:48437641 original size:27 final size:27
Alignment explanation
Indices: 48437599--48437705 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
48437589 AATCTCATAT
* *
48437599 CTGTAGGCTAGCATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTAAAATACCC
*
48437626 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTAAAATACCC
* * *
48437653 TTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTAAAATACCC
*
48437680 CTGTAGGGTAGAATTACCAAAATACC
1 CTGTAGGGTAGAATTACTAAAATACC
48437706 TTTAGTTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTAAAATACCC
Found at i:48437669 original size:54 final size:54
Alignment explanation
Indices: 48437600--48438102 Score: 342
Period size: 54 Copynumber: 9.3 Consensus size: 54
48437590 ATCTCATATC
* *
48437600 TGTAGGCTAGCATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT
* * **
48437654 TGTAGGGTAGAATTACTGAAATGCCCCTGTAGGGTAGAATTACCAAAATA-CCT
1 TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT
** * * * ** * ** *
48437707 T-TAGTTTACAAAATTGCCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCAT
1 TGTAGGGT--AGAATTACTAAAATACCCCT-GTAGGGTAGAATTACTGAAATACCCT
** * * ** * *
48437762 TGGT-TTGTAAAATTACCAAAATACCCCTG-A-TTTATGAAATTACTGAAGTACCCC
1 T-GTAGGGTAGAATTACTAAAATACCCCTGTAGGGTA-G-AATTACTGAAATACCCT
* *** ***** * * * * *
48437816 CG-ATTTATAGAATTACCGTTTTACCCTCGATTTA---CAAAATTATTGAAATACCCC
1 TGTA-GGGTAGAATTACTAAAATACCC-C--TGTAGGGTAGAATTACTGAAATACCCT
* * *
48437870 TGTAGGGTAGAATTATTAAAATACACCTGTAGGGTAGAATTACTAAAATACCCT
1 TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT
* * *
48437924 TGTAGGATAGAGTTACTGAAATACCCCCTGTAGGGTAGAATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTAAAATA-CCCCTGTAGGGTAGAATTACTGAAATACCCT
* * *
48437979 TGTAGGGTAGAATTACTAAAATACCCCTATAGGATAGAATTATTGAAATACCCT
1 TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT
* ** * *
48438033 TGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCT
1 TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT
* *
48438087 TGTGGGGTAAAATTAC
1 TGTAGGGTAGAATTAC
48438103 CATTTTTCCT
Statistics
Matches: 350, Mismatches: 79, Indels: 40
0.75 0.17 0.09
Matches are distributed among these distances:
51 3 0.01
52 7 0.02
53 7 0.02
54 271 0.77
55 56 0.16
56 3 0.01
57 2 0.01
58 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (54 bp):
TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT
Found at i:48437721 original size:27 final size:27
Alignment explanation
Indices: 48437691--48437786 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
48437681 TGTAGGGTAG
* * **
48437691 AATTACCAAAATACCTTTAGTTTACAA
1 AATTACCAAAATACCATTGGTTTGTAA
* **
48437718 AATTGCCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCATTGGTTTGTAA
48437745 AATTACCAAAATACCATTGGTTTGTAA
1 AATTACCAAAATACCATTGGTTTGTAA
48437772 AATTACCAAAATACC
1 AATTACCAAAATACC
48437787 CCTGATTTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCATTGGTTTGTAA
Found at i:48437801 original size:27 final size:27
Alignment explanation
Indices: 48437691--48437832 Score: 124
Period size: 27 Copynumber: 5.3 Consensus size: 27
48437681 TGTAGGGTAG
* * *
48437691 AATTACCAAAATA-CCTTTAGTTTACAA
1 AATTACCAAAATACCCCTGA-TTTATAA
* * *
48437718 AATTGCCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGATTTATAA
** * *
48437745 AATTACCAAAATACCATTGGTTTGTAA
1 AATTACCAAAATACCCCTGATTTATAA
*
48437772 AATTACCAAAATACCCCTGATTTATGA
1 AATTACCAAAATACCCCTGATTTATAA
** * * *
48437799 AATTACTGAAGTACCCCCGATTTATAG
1 AATTACCAAAATACCCCTGATTTATAA
48437826 AATTACC
1 AATTACC
48437833 GTTTTACCCT
Statistics
Matches: 93, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 90 0.97
28 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTATAA
Found at i:48437883 original size:27 final size:27
Alignment explanation
Indices: 48437853--48438102 Score: 302
Period size: 27 Copynumber: 9.2 Consensus size: 27
48437843 CGATTTACAA
*
48437853 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48437880 AATTATTAAAATACACCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48437907 AATTACTAAAATACCCTTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
48437934 AGTTACTGAAATACCCCCTGTAGGGTAG
1 AATTACTGAAATA-CCCCTGTAGGGTAG
*
48437962 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48437989 AATTACTAAAATACCCCTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48438016 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48438043 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
48438070 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
48438097 AATTAC
1 AATTAC
48438103 CATTTTTCCT
Statistics
Matches: 192, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 168 0.88
28 24 0.12
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:48437983 original size:82 final size:80
Alignment explanation
Indices: 48437853--48438089 Score: 321
Period size: 82 Copynumber: 2.9 Consensus size: 80
48437843 CGATTTACAA
* * *
48437853 AATTATTGAAATACCCCTGTAGGGTAGAATTATTAAAATACACCTGTAGGGTAGAATTACTAAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATAC-CCTGTAGGGTAGAATTACTAAAA
48437918 TACCCTTGTAGGATAG
65 TACCCTTGTAGGATAG
*
48437934 AGTTACTGAAATACCCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTAAA
1 AATTACTGAAATA-CCCCTGTAGGGTAGAATTACTGAAATACCC-TGTAGGGTAGAATTACTAAA
* *
48437999 ATACCCCTATAGGATAG
64 ATACCCTTGTAGGATAG
* * * * ** *
48438016 AATTATTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATA-CCCTGTAGGGTAGAATTACTAAAA
48438081 TACCCTTGT
65 TACCCTTGT
48438090 GGGGTAAAAT
Statistics
Matches: 137, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
81 62 0.45
82 75 0.55
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (80 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTGTAGGGTAGAATTACTAAAAT
ACCCTTGTAGGATAG
Found at i:48437992 original size:109 final size:108
Alignment explanation
Indices: 48437853--48438102 Score: 347
Period size: 109 Copynumber: 2.3 Consensus size: 108
48437843 CGATTTACAA
* * * * *
48437853 AATTATTGAAATACCCCTGTAGGGTAGAATTATTAAAATACACCTGTAGGGTAGAATTACTAAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACACCTATAGGATAGAATTACTAAAA
** *
48437918 TACCCTTGTAGGATAGAGTTACTGAAATACCCCCTGTAGGGTAG
66 TACCCTTGTAGGATAGAAATACCGAAATA-CCCCTGTAGGGTAG
* * *
48437962 AATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGATAGAATTATTGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACACCTATAGGATAGAATTACTAAAA
*
48438027 TACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
66 TACCCTTGTAGGATAGAAATACCGAAATACCCCTGTAGGGTAG
* * * *
48438070 AATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTAC
48438103 CATTTTTCCT
Statistics
Matches: 125, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 43 0.34
109 82 0.66
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (108 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACACCTATAGGATAGAATTACTAAAA
TACCCTTGTAGGATAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:48438543 original size:22 final size:22
Alignment explanation
Indices: 48438491--48438546 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
48438481 GCCAATTATT
* * *
48438491 CTGATTTTGGCTTTGCGCCAAC
1 CTGATTATGGCTTTACGCCAAA
*
48438513 CT-ACATATGGCTTTACGCCAAA
1 CTGA-TTATGGCTTTACGCCAAA
48438535 CTGATTATGGCT
1 CTGATTATGGCT
48438547 GTGTGACAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTACGCCAAA
Found at i:48438779 original size:6 final size:6
Alignment explanation
Indices: 48438770--48438843 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
48438760 TTGCATTCAC
* * *
48438770 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
48438820 ATTTTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG
48438844 TCACCTGATT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 3 0.06
6 44 0.81
7 5 0.09
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:48438805 original size:31 final size:30
Alignment explanation
Indices: 48438770--48438852 Score: 86
Period size: 25 Copynumber: 2.9 Consensus size: 30
48438760 TTGCATTCAC
48438770 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTG-TACCTGATACTG
* **
48438801 ATTCTGATTCTG--TC---ACCTAATTTTG
1 ATTCTGATTCTGATTCTGTACCTGATACTG
48438826 ATTCTGATTCTGATTCTGTCACCTGAT
1 ATTCTGATTCTGATTCTGT-ACCTGAT
48438853 TTTAATTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
25 20 0.48
27 2 0.05
29 2 0.05
31 18 0.43
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.46
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTACCTGATACTG
Found at i:48438853 original size:25 final size:25
Alignment explanation
Indices: 48438770--48438837 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
48438760 TTGCATTCAC
* *
48438770 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
48438795 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
48438820 ATTTTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
48438838 ATTCTGTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:48438855 original size:31 final size:30
Alignment explanation
Indices: 48438770--48438867 Score: 116
Period size: 31 Copynumber: 3.4 Consensus size: 30
48438760 TTGCATTCAC
*
48438770 ATTCTGATTCTGATTCTGTTACCTGA---T
1 ATTCTGATTCTGATTCTGTCACCTGATTTT
*
48438797 A--CTGATTCTGATTCTGTCACCTAATTTT
1 ATTCTGATTCTGATTCTGTCACCTGATTTT
48438825 GATTCTGATTCTGATTCTGTCACCTGATTTT
1 -ATTCTGATTCTGATTCTGTCACCTGATTTT
*
48438856 AATTTTGATTCT
1 -ATTCTGATTCT
48438868 CATTTTGATT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 21 0.35
27 1 0.02
28 1 0.02
29 1 0.02
31 36 0.60
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTGATTTT
Found at i:48439736 original size:19 final size:19
Alignment explanation
Indices: 48439712--48439751 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
48439702 TCGCACAATC
48439712 ATACAAGACCGAGACATGA
1 ATACAAGACCGAGACATGA
48439731 ATACAAGACCGAGACATGA
1 ATACAAGACCGAGACATGA
48439750 AT
1 AT
48439752 TTACGTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (19 bp):
ATACAAGACCGAGACATGA
Found at i:48442247 original size:11 final size:11
Alignment explanation
Indices: 48442227--48442259 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
48442217 AATGTTTTTC
48442227 TTGCTTTAATT
1 TTGCTTTAATT
*
48442238 TTGTTTTAATT
1 TTGCTTTAATT
48442249 TTGCTTTAATT
1 TTGCTTTAATT
48442260 ACAATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (11 bp):
TTGCTTTAATT
Found at i:48448744 original size:20 final size:19
Alignment explanation
Indices: 48448672--48448747 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 19
48448662 GTACGGGATT
* *
48448672 GCACTTCAGTGCCTTTATTT
1 GCACTT-AGTGCCTCTATTC
48448692 GCACTTAAGTGCCTCTGATTAC
1 GCACTT-AGTGCCTCT-ATT-C
* *
48448714 ACATTTA-TGCCTCTATTC
1 GCACTTAGTGCCTCTATTC
48448732 GCACTTAGGTGCCTCT
1 GCACTTA-GTGCCTCT
48448748 GTTATGCATC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 6 0.13
19 3 0.07
20 28 0.62
21 4 0.09
22 4 0.09
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (19 bp):
GCACTTAGTGCCTCTATTC
Found at i:48450565 original size:22 final size:22
Alignment explanation
Indices: 48450540--48450637 Score: 60
Period size: 22 Copynumber: 4.3 Consensus size: 22
48450530 AACATGCTAT
48450540 TTGTAGACAAGCCACCACATAA
1 TTGTAGACAAGCCACCACATAA
* * *
48450562 TTGTGGATAAATGGCCA-CATAATACA
1 TTGTAGA-CAA--GCCACCA-CATA-A
*
48450588 TTGTGGACAAGCCACCACATAA
1 TTGTAGACAAGCCACCACATAA
*
48450610 TTGTCA-ATAA--CAGCCACATAA
1 TTGT-AGACAAGCCA-CCACATAA
48450631 TTGTAGA
1 TTGTAGA
48450638 TAAATTGCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
20 3 0.05
21 13 0.22
22 14 0.23
23 9 0.15
24 4 0.07
25 9 0.15
26 8 0.13
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (22 bp):
TTGTAGACAAGCCACCACATAA
Found at i:48453954 original size:30 final size:31
Alignment explanation
Indices: 48453872--48453954 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
48453862 TCAATCTCGA
* *
48453872 CATAT-ACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGACCGAAGCCTTTTCATAAAT
*
48453902 CATATCACTGGGCC-ATAGCCTTTTCATAAAT
1 CATATCACTGGACCGA-AGCCTTTTCATAAAT
*
48453933 CATGTCACT-GACCGAAGCCTTT
1 CATATCACTGGACCGAAGCCTTT
48453955 ACTGTGAGCG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 16 0.34
31 31 0.66
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTGGACCGAAGCCTTTTCATAAAT
Found at i:48454208 original size:25 final size:25
Alignment explanation
Indices: 48454174--48454243 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
48454164 CTCTTTTAAT
*
48454174 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
48454199 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
48454224 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
48454244 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:48458592 original size:30 final size:31
Alignment explanation
Indices: 48458510--48458592 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
48458500 TCAATCTCGA
* *
48458510 CATAT-ACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGACCGAAGCCTTTTCATAAAT
*
48458540 CATATCACTGGGCC-ATAGCCTTTTCATAAAT
1 CATATCACTGGACCGA-AGCCTTTTCATAAAT
*
48458571 CATGTCACT-GACCGAAGCCTTT
1 CATATCACTGGACCGAAGCCTTT
48458593 ACTGTGAGCG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 16 0.34
31 31 0.66
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTGGACCGAAGCCTTTTCATAAAT
Found at i:48458841 original size:25 final size:25
Alignment explanation
Indices: 48458813--48458882 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
48458803 CTCTTTTAAT
*
48458813 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
48458838 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
48458863 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
48458883 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:48459821 original size:27 final size:27
Alignment explanation
Indices: 48459787--48459916 Score: 111
Period size: 27 Copynumber: 4.7 Consensus size: 27
48459777 ATCTACAAAC
48459787 CAAGGGTATTTCAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
48459814 CAATGGTATTTTTA-TAATTTT-TAGAAAGT
1 CAAGGGTA-TTTCAGTAATTTTGT--AAA-T
*
48459843 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
48459870 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** *
48459897 TGAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
48459917 CACAAACCAG
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.01
27 53 0.64
28 13 0.16
29 15 0.18
30 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:48459878 original size:56 final size:54
Alignment explanation
Indices: 48459780--48459949 Score: 171
Period size: 54 Copynumber: 3.1 Consensus size: 54
48459770 TTGGTAAATC
* * *
48459780 TACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAATGGTATTTTTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTATTTTGATAA-TTT
* * * *
48459835 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTATTTTGATAATTT
** * *** * *
48459890 TACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAATCAAG-GGTATTTTGATAATTT
48459944 TACAAA
1 TACAAA
48459950 CTAGGGGTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.02
54 43 0.44
55 13 0.13
56 39 0.40
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTATTTTGATAATTT
Found at i:48459921 original size:27 final size:25
Alignment explanation
Indices: 48459845--48459969 Score: 117
Period size: 27 Copynumber: 4.7 Consensus size: 25
48459835 TAGAAAGTCA
**
48459845 AGGGTATTTCT-GTAATTTTGTAAAT
1 AGGGTATTT-TGGTAATTTTACAAAT
48459870 CAGGGGTATTTTGGTAATTTTACAAATT
1 -A-GGGTATTTTGGTAATTTTACAAA-T
* * *
48459898 GAGGGTATTTCGGTAATTTCACAAACC
1 -AGGGTATTTTGGTAATTTTACAAA-T
48459925 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAA-T
48459952 AGGGGTATTTTGGTAATT
1 A-GGGTATTTTGGTAATT
48459970 CTATCCTACA
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
26 4 0.05
27 77 0.92
28 3 0.04
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (25 bp):
AGGGTATTTTGGTAATTTTACAAAT
Found at i:48459988 original size:27 final size:27
Alignment explanation
Indices: 48459871--48459972 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
48459861 TTTGTAAATC
*
48459871 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTCTACAAACT
* * *
48459897 TGAGGGTATTTCGGTAATT-TCACAAACC
1 AG-GGGTATTTTGGTAATTCT-ACAAACT
* *
48459925 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCTACAAACT
48459952 AGGGGTATTTTGGTAATTCTA
1 AGGGGTATTTTGGTAATTCTA
48459973 TCCTACAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.03
27 59 0.94
28 2 0.03
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTCTACAAACT
Found at i:48459997 original size:54 final size:54
Alignment explanation
Indices: 48459845--48459969 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
48459835 TAGAAAGTCA
* *** * *
48459845 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAATAG
*
48459899 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAA-TAG
*
48459954 -GGGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
48459970 CTATCCTACA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 60 0.97
55 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAATAG
Found at i:48460009 original size:27 final size:26
Alignment explanation
Indices: 48459867--48460009 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 26
48459857 TAATTTTGTA
*
48459867 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTTGGTAATTTCAC
* *
48459893 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 -AATCAG-GGGTATTTTGGTAATTTCAC
* * *
48459920 AAACCAGTGGTATTTTGGTAATTTTAC
1 -AATCAGGGGTATTTTGGTAATTTCAC
*
48459947 AAACTAGGGGTATTTTGGTAA-TTCTATC
1 AATC-AGGGGTATTTTGGTAATTTC-A-C
* **
48459975 -CTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CAGGGGTATTTTGGTAATTTCAC
48460001 AATCGAGGG
1 AATC-AGGG
48460010 TAAAACGGTA
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
26 8 0.09
27 77 0.85
28 6 0.07
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (26 bp):
AATCAGGGGTATTTTGGTAATTTCAC
Found at i:48460035 original size:27 final size:27
Alignment explanation
Indices: 48460001--48460143 Score: 166
Period size: 27 Copynumber: 5.3 Consensus size: 27
48459991 GTAATTTCAC
48460001 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
48460028 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
48460055 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*** * *
48460082 AA-CTGAGGGTAAAATATTAATTCTGTT
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
48460109 AATCGAGGATAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
48460136 AATC-AGGG
1 AATCGAGGG
48460144 GTACTTTGAT
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.05
27 91 0.93
28 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:48460146 original size:54 final size:54
Alignment explanation
Indices: 48460001--48460137 Score: 211
Period size: 54 Copynumber: 2.5 Consensus size: 54
48459991 GTAATTTCAC
* *
48460001 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTGTA
* * *
48460055 AATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATATTAATTCTGTT
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTGTA
* *
48460109 AATCGAGGATAAAACGGTAATTCTGTAAA
1 AATCGAGGGTAAAACGGTAATTTTGTAAA
48460138 TCAGGGGTAC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTGTA
Found at i:48460186 original size:27 final size:27
Alignment explanation
Indices: 48460156--48460293 Score: 138
Period size: 27 Copynumber: 5.1 Consensus size: 27
48460146 ACTTTGATAA
* *
48460156 TTTACAAGTCGAGGGTATTTCAGTAAT
1 TTTACAAATCGACGGTATTTCAGTAAT
* *
48460183 TTTAC-AATCAACGGTATTTCGGTAAT
1 TTTACAAATCGACGGTATTTCAGTAAT
* * ** *
48460209 TTTATAAACCGGGGGTACTTT-GGTAAT
1 TTTACAAATCGACGGTA-TTTCAGTAAT
* *
48460236 TTTACAAGTCGAAGGTATTTCAGTAAT
1 TTTACAAATCGACGGTATTTCAGTAAT
48460263 TTTACAAATCGACGGTATTTC-GATAAT
1 TTTACAAATCGACGGTATTTCAG-TAAT
48460290 TTTA
1 TTTA
48460294 GTAAACTAAA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
26 25 0.28
27 62 0.69
28 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (27 bp):
TTTACAAATCGACGGTATTTCAGTAAT
Found at i:48460256 original size:80 final size:80
Alignment explanation
Indices: 48460123--48460299 Score: 257
Period size: 80 Copynumber: 2.2 Consensus size: 80
48460113 GAGGATAAAA
* * * *
48460123 CGGTAATTCTGTAAATCAGGGGTACTTTGATAATTTACAAGTCGAGGGTATTTCAGTAATTTTAC
1 CGGTAATTTTATAAACCAGGGGTACTTTGATAATTTACAAGTCGAAGGTATTTCAGTAATTTTAC
48460188 -AATCAACGGTATTT
66 AAATCAACGGTATTT
* *
48460202 CGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTA
1 CGGTAATTTTATAAACCAGGGGTACTTTGATAA-TTTACAAGTCGAAGGTATTTCAGTAATTTTA
*
48460267 CAAATCGACGGTATTT
65 CAAATCAACGGTATTT
*
48460283 CGATAATTTTAGTAAAC
1 CGGTAATTTTA-TAAAC
48460300 TAAAGTATTC
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 28 0.32
80 31 0.36
81 23 0.26
82 5 0.06
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (80 bp):
CGGTAATTTTATAAACCAGGGGTACTTTGATAATTTACAAGTCGAAGGTATTTCAGTAATTTTAC
AAATCAACGGTATTT
Found at i:48460290 original size:54 final size:53
Alignment explanation
Indices: 48460156--48460293 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 53
48460146 ACTTTGATAA
* *
48460156 TTTACAAGTCGAGGGTATTTC-AGTAATTTTACAATCAACGGTATTTCGGTAAT
1 TTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCAACGGTATTTCAGTAAT
* * * *
48460209 TTTATAAACCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAAT
1 TTTACAAATCGAGGGTA-TTTCGATAATTTTACAA-TC-AACGGTATTTCAGTAAT
*
48460263 TTTACAAATCGACGGTATTTCGATAATTTTA
1 TTTACAAATCGAGGGTATTTCGATAATTTTA
48460294 GTAAACTAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
53 27 0.39
54 40 0.58
55 2 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (53 bp):
TTTACAAATCGAGGGTATTTCGATAATTTTACAATCAACGGTATTTCAGTAAT
Found at i:48462589 original size:31 final size:31
Alignment explanation
Indices: 48462551--48462629 Score: 158
Period size: 31 Copynumber: 2.5 Consensus size: 31
48462541 TTTAACGGTT
48462551 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
48462582 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
48462613 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
48462630 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:48462700 original size:42 final size:42
Alignment explanation
Indices: 48462653--48462744 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
48462643 TGGCCCTTAG
* ** *
48462653 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
48462695 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
48462737 GCCCATTT
1 GCCCATTT
48462745 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:48462918 original size:25 final size:25
Alignment explanation
Indices: 48462890--48462959 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
48462880 CTCTTTTAAT
*
48462890 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
48462915 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
48462940 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
48462960 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:48463526 original size:284 final size:294
Alignment explanation
Indices: 48462990--48463572 Score: 945
Period size: 284 Copynumber: 2.0 Consensus size: 294
48462980 AACCCAACCC
* * * *
48462990 ATGCGACATGTCAAGTATGCATAATGTCATGCCCATATTTGAATCAAACAATCACAGTCAAGTCA
1 ATGCAACATGCCAAGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCACAATCAAGTCA
*
48463055 TTCATATCACCAACATATGTTCGCAATCAAATCCATCAACCACACAGTCCAAGTCAGTCACTTGC
66 TTCATATCACCAACATATATTCGCAATCAAATCCA-CAA-CACACAGTCCAAGTCAGTCACTTGC
*
48463120 CCACAAGGGCAAAATAGTCATTTTTCATATTATAAGGGTAATTTCATAATTTTACCAAATATCAG
129 CCACAAGGGCAAAACAGTCATTTTTCATATTATAAGGGTAATTTCATAATTTTACCAAATATCAG
48463185 GGTTTTCCATGTTCATTAACAATTATCAATATTTTTGAGTGTTTAAACAATGATCTTTAACCCAC
194 GGTTTTCCATGTTCATTAACAATTATCAATATTTTTGAGTGTTTAAACAATGATCTTTAACCCAC
*
48463250 TTTATCAAATTTGGGCTTTTGGGCCCAAAACCCCTA
259 TTTATCAAATTCGGGCTTTTGGGCCCAAAACCCCTA
*
48463286 ATGCAACATGCCATGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCACAATCAAGTCA
1 ATGCAACATGCCAAGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCACAATCAAGTCA
** * * *
48463351 TTTGTATCACCAATATATA-T---ATTCACAAT-CA-AA-TC-CA-T-C-AGTCAGTCACTTGCC
66 TTCATATCACCAACATATATTCGCAATCA-AATCCACAACACACAGTCCAAGTCAGTCACTTGCC
48463405 CACAAGGGCAAAACAGTCATTTTTCATATTATAAGGGTAATTTCATAATTTTACCAAATATCAGG
130 CACAAGGGCAAAACAGTCATTTTTCATATTATAAGGGTAATTTCATAATTTTACCAAATATCAGG
48463470 GTTTTCCATGTTCATTAACAATTATCAATATTTTTGAGTGTTTAAACAATGATCTTTAACCCACT
195 GTTTTCCATGTTCATTAACAATTATCAATATTTTTGAGTGTTTAAACAATGATCTTTAACCCACT
48463535 TTATCAAATTCGGGCTTTTGGGCCCAAAACCCCTA
260 TTATCAAATTCGGGCTTTTGGGCCCAAAACCCCTA
48463570 ATG
1 ATG
48463573 GGCCCTACGA
Statistics
Matches: 273, Mismatches: 13, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
284 181 0.66
285 1 0.00
286 1 0.00
287 2 0.01
288 1 0.00
290 2 0.01
292 6 0.02
293 3 0.01
295 1 0.00
296 75 0.27
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (294 bp):
ATGCAACATGCCAAGTATGCAGAATGTCATGCCCATATTTGAATCAAACAATCACAATCAAGTCA
TTCATATCACCAACATATATTCGCAATCAAATCCACAACACACAGTCCAAGTCAGTCACTTGCCC
ACAAGGGCAAAACAGTCATTTTTCATATTATAAGGGTAATTTCATAATTTTACCAAATATCAGGG
TTTTCCATGTTCATTAACAATTATCAATATTTTTGAGTGTTTAAACAATGATCTTTAACCCACTT
TATCAAATTCGGGCTTTTGGGCCCAAAACCCCTA
Found at i:48464173 original size:54 final size:53
Alignment explanation
Indices: 48464107--48464309 Score: 194
Period size: 54 Copynumber: 3.8 Consensus size: 53
48464097 CATCCTACAA
* * **
48464107 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAATCAT
1 GGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTTACAAA-CAT
* ** *
48464161 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAAC-T
1 GGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTTACAAACAT
* * * ** *
48464213 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 -G-GGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTTACAAAC-AT
** *
48464269 GGGTATTTTGGTAATTCTATCCTA-CAGGGGTATTTCAGTAA
1 GGGTATTTTGGTAATTCTA-CAAACCAAGGGTATTTCAGTAA
48464310 GTTCAGAATC
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 118 0.95
55 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
GGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTTACAAACAT
Found at i:48464303 original size:27 final size:27
Alignment explanation
Indices: 48464107--48464284 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
48464097 CATCCTACAA
* * * * *
48464107 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
** ** *
48464134 GGGTATTTCAGTAATTTTGTAAA-TCAT
1 GGGTATTTTGGTAATTTTACAAACT-AG
* *
48464161 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
** *
48464188 GGGTATTTCAGTAATTTCACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
48464215 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
48464242 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
48464269 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
48464285 CTATCCTACA
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
27 124 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:48464461 original size:27 final size:27
Alignment explanation
Indices: 48464316--48464458 Score: 184
Period size: 27 Copynumber: 5.3 Consensus size: 27
48464306 GTAAGTTCAG
*
48464316 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
48464343 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* *
48464370 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
48464397 AA-CTGAGGGTAAAATAGTAATTCTATA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
*
48464424 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
48464451 AATC-AGGG
1 AATCGAGGG
48464459 GTACTTTGAT
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
26 6 0.06
27 94 0.92
28 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:48464461 original size:54 final size:54
Alignment explanation
Indices: 48464316--48464452 Score: 220
Period size: 54 Copynumber: 2.5 Consensus size: 54
48464306 GTAAGTTCAG
* * *
48464316 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTATA
*
48464370 AATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTATA
* *
48464424 AATCGAGGGTAAAATGGTAATTCTGTAAA
1 AATCGAGGGTAAAACGGTAATTTTGTAAA
48464453 TCAGGGGTAC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTATA
Done.