Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 124 of 352
Found at i:39755332 original size:40 final size:40
Alignment explanation
Indices: 39755229--39755487 Score: 299
Period size: 40 Copynumber: 6.5 Consensus size: 40
39755219 TGGATGATAA
* **
39755229 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
* * * *
39755270 CTGGGCAAAGTCCCGAAGGCATTTGTGCGAGTTATTACGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
39755310 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
39755350 CCGAGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
39755390 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * * *
39755430 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
39755470 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39755488 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.08
40 153 0.79
41 22 0.11
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:39763923 original size:20 final size:20
Alignment explanation
Indices: 39763898--39763935 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
39763888 ATCATGTCTG
39763898 GGACATTGGCATTGTATTAA
1 GGACATTGGCATTGTATTAA
39763918 GGACATTGGCATTGTATT
1 GGACATTGGCATTGTATT
39763936 GAGATTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (20 bp):
GGACATTGGCATTGTATTAA
Found at i:39763992 original size:43 final size:42
Alignment explanation
Indices: 39763918--39764015 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 42
39763908 ATTGTATTAA
* *
39763918 GGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCTG
1 GGACATTGGCATTGTATT-AGATTACATGTAAAACCATGTCAG
* * *
39763961 GGACATTGGCATTGTTAATT-GATTTCGTGTAAAACCTTGTCAG
1 GGACATTGGCATTG-T-ATTAGATTACATGTAAAACCATGTCAG
* *
39764004 GGATAGTGGCAT
1 GGACATTGGCAT
39764016 CGATATGTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 42 0.91
44 1 0.02
45 3 0.07
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (42 bp):
GGACATTGGCATTGTATTAGATTACATGTAAAACCATGTCAG
Found at i:39765158 original size:12 final size:12
Alignment explanation
Indices: 39765143--39765179 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
39765133 GGCTAGTACA
39765143 CGGGCGGGTGGC
1 CGGGCGGGTGGC
39765155 CGGGCGGGTGGC
1 CGGGCGGGTGGC
*
39765167 CGGGCGTGTGGC
1 CGGGCGGGTGGC
39765179 C
1 C
39765180 AAGTCAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.27, G:0.62, T:0.11
Consensus pattern (12 bp):
CGGGCGGGTGGC
Found at i:39772965 original size:44 final size:44
Alignment explanation
Indices: 39772805--39772970 Score: 185
Period size: 44 Copynumber: 3.7 Consensus size: 44
39772795 ATGGTTGAGC
*
39772805 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-A
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
* ** * *
39772848 ATGTCCGAACTCGTTGAGTTGAGTCC-AGTTCGTGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATG-GA-T-GCGA
39772896 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
* *
39772940 ACCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCA
39772971 CTTAGGGGCG
Statistics
Matches: 101, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.02
44 36 0.36
45 27 0.27
46 27 0.27
47 7 0.07
48 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
Found at i:39772969 original size:91 final size:90
Alignment explanation
Indices: 39772803--39772969 Score: 273
Period size: 91 Copynumber: 1.8 Consensus size: 90
39772793 GGATGGTTGA
*
39772803 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-GCCCGAACTCGTTGAGTT
39772868 GAGTCCAGTTCGTGAGATGTAACTAG
65 GAGTCCAGTTCGTGAGATGTAACTAG
* *
39772894 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-CCCGAGCTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAGCCCGAACTCGTTGAGTT
39772958 GAGTCCGAGTTC
65 GAGTCC-AGTTC
39772970 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
90 21 0.30
91 48 0.68
92 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (90 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAGCCCGAACTCGTTGAGTTG
AGTCCAGTTCGTGAGATGTAACTAG
Found at i:39775287 original size:40 final size:41
Alignment explanation
Indices: 39775152--39775337 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
39775142 TACTCGAATG
* *
39775152 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACT
* *
39775193 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACT
* *
39775234 ACATCCGGACTAAGAT-CCGAAGGCATTTATGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAAGCGACT
* *
39775274 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACT
* *
39775314 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
39775338 CTTGTGCGAG
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 63 0.47
41 68 0.51
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACT
Found at i:39775290 original size:81 final size:82
Alignment explanation
Indices: 39775154--39775307 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
39775144 CTCGAATGAT
* * * *
39775154 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTATGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
39775219 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
39775236 ATCCGGACTAAGAT-CCGAAGGCATTTATGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTATGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
39775299 TTTATGCTA
65 TTTATGCTA
39775308 GTGACCATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 39 0.59
82 26 0.39
83 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTATGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:39779080 original size:23 final size:23
Alignment explanation
Indices: 39779051--39779131 Score: 126
Period size: 23 Copynumber: 3.5 Consensus size: 23
39779041 ACGTTTACCG
39779051 CTATTAGCAGCTTTGCTGCATTA
1 CTATTAGCAGCTTTGCTGCATTA
* *
39779074 CTGTTAGCATCTTTGCTGCATTA
1 CTATTAGCAGCTTTGCTGCATTA
* *
39779097 CTTTTAGCAGCTTTGATGCATTA
1 CTATTAGCAGCTTTGCTGCATTA
39779120 CTATTAGCAGCT
1 CTATTAGCAGCT
39779132 ACGCTGCGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTGCATTA
Found at i:39779304 original size:28 final size:28
Alignment explanation
Indices: 39779259--39779338 Score: 79
Period size: 33 Copynumber: 2.7 Consensus size: 28
39779249 ATACTATTTT
* *
39779259 GGGCATAGGCCCACACTGTTACTACATA
1 GGGCTTAGGCCCAGACTGTTACTACATA
* *
39779287 GGGCTTAGGCCTAGACTGAACTATTACTGCATA
1 GGGCTTAGGCCCAGACTG-----TTACTACATA
39779320 GGGCTTAGGCCCAGACTGT
1 GGGCTTAGGCCCAGACTGT
39779339 ACTGTTATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
28 16 0.38
33 26 0.62
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (28 bp):
GGGCTTAGGCCCAGACTGTTACTACATA
Found at i:39779320 original size:33 final size:33
Alignment explanation
Indices: 39779277--39779362 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
39779267 GCCCACACTG
* *
39779277 TTACTACATAGGGCTTAGGCCTAGACTGAACTA
1 TTACTGCATAGGGCTTAGGCCCAGACTGAACTA
* *
39779310 TTACTGCATAGGGCTTAGGCCCAGACTGTACTG
1 TTACTGCATAGGGCTTAGGCCCAGACTGAACTA
* *
39779343 TTATTGAATAGGGCTTAGGC
1 TTACTGCATAGGGCTTAGGC
39779363 GCAAACTATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (33 bp):
TTACTGCATAGGGCTTAGGCCCAGACTGAACTA
Found at i:39781316 original size:25 final size:25
Alignment explanation
Indices: 39781288--39781349 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
39781278 ACGTCTGTTG
* * *
39781288 CATCATCGTTGATAG-CCTTCTGCTA
1 CATCACCGTTGATAGTCC-TCTACAA
*
39781313 CATCACCGTTAATAGTCCTCTACAA
1 CATCACCGTTGATAGTCCTCTACAA
39781338 CATCACCGTTGA
1 CATCACCGTTGA
39781350 AAATCCTTCG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 29 0.94
26 2 0.06
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (25 bp):
CATCACCGTTGATAGTCCTCTACAA
Found at i:39789951 original size:100 final size:100
Alignment explanation
Indices: 39789778--39789965 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 100
39789768 TATTGTGAGG
* * *
39789778 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAGCGAATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCACATGTGTAGTACT
*
39789843 AAGTGCAGGCTATTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
39789878 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACC-AGATTATTGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGA-ATAATTGGTCACATGTGTAGTAC
39789942 TAAGTGCAGGCTACTATGCGTACC
65 TAAGTGCAGGCTACTATGCGTACC
39789966 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 1 0.01
100 81 0.99
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:39789965 original size:49 final size:49
Alignment explanation
Indices: 39789776--39789970 Score: 230
Period size: 49 Copynumber: 3.9 Consensus size: 49
39789766 ACTATTGTGA
* * *
39789776 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAGC-GAATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAATT
* * * * *
39789825 GGTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-T
* * ** *
39789876 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
*
39789925 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
39789971 GCTTCGGCTA
Statistics
Matches: 120, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 79 0.66
50 3 0.03
51 38 0.32
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:39792800 original size:59 final size:59
Alignment explanation
Indices: 39792619--39792949 Score: 513
Period size: 59 Copynumber: 5.6 Consensus size: 59
39792609 GAGGTGTTAC
* *
39792619 AATAATTTTATGAATAATTGATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
* *
39792678 AATAATTCTATGAATAATTAATTAATTTT-TATTAAATAAATAAATAATCATATTTCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
* * * * *
39792736 AATAATTTTACGAATAATTAATTAATTTTCAATTAATTAATTAATTAATCATATTGCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
* ** *
39792795 AATAATTCTATGAATAATTGATTAATTTTTTATTAAATAAATAAATAATCATATTTCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
*
39792854 AATAATTTTATGAATAATTAATTAATTTTCAATTTAA-TAAATAAATAATCATATTTCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAA-TTAATTAAATAAATAATCATATTTCAT
39792913 AATAATTCTATGAATAATTAATTAATTTTCAATTAAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAAT
39792950 CATTCATTTA
Statistics
Matches: 244, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
58 58 0.24
59 182 0.75
60 4 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (59 bp):
AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
Found at i:39792883 original size:118 final size:118
Alignment explanation
Indices: 39792619--39792941 Score: 569
Period size: 118 Copynumber: 2.7 Consensus size: 118
39792609 GAGGTGTTAC
*
39792619 AATAATTTTATGAATAATTGATTAATTTTCAATTAATTAAATAAATAATCATATTTCATAATAAT
1 AATAATTTTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCATAATAAT
39792684 TCTATGAATAATTAATTAA-TTTTTATTAAATAAATAAATAATCATATTTCAT
66 TCTATGAATAATTAATTAATTTTTTATTAAATAAATAAATAATCATATTTCAT
* * * *
39792736 AATAATTTTACGAATAATTAATTAATTTTCAATTAATTAATTAATTAATCATATTGCATAATAAT
1 AATAATTTTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCATAATAAT
*
39792801 TCTATGAATAATTGATTAATTTTTTATTAAATAAATAAATAATCATATTTCAT
66 TCTATGAATAATTAATTAATTTTTTATTAAATAAATAAATAATCATATTTCAT
39792854 AATAATTTTATGAATAATTAATTAATTTTCAATTTAA-TAAATAAATAATCATATTTCATAATAA
1 AATAATTTTATGAATAATTAATTAATTTTCAA-TTAATTAAATAAATAATCATATTTCATAATAA
39792918 TTCTATGAATAATTAATTAATTTT
65 TTCTATGAATAATTAATTAATTTT
39792942 CAATTAATCA
Statistics
Matches: 193, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
117 78 0.40
118 111 0.58
119 4 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (118 bp):
AATAATTTTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCATAATAAT
TCTATGAATAATTAATTAATTTTTTATTAAATAAATAAATAATCATATTTCAT
Found at i:39796610 original size:43 final size:42
Alignment explanation
Indices: 39796548--39796697 Score: 129
Period size: 43 Copynumber: 3.5 Consensus size: 42
39796538 ATGAACGTCG
* * *
39796548 CTAAAGATCATGGTATTTAGCGGCGCTTCTACTAAAAACGCCA
1 CTAAAGAACATGATCTTTAGCGGCGCTTCT-CTAAAAACGCCA
* * * **
39796591 CTAAAGAACATAATCTTTAGCAGCACTTCTCCTAAAAACGCTG
1 CTAAAGAACATGATCTTTAGCGGCGCTTCT-CTAAAAACGCCA
* * * * * * *
39796634 CTAAAAAACATGATATTTAGTGGCGTTTGTCAAAAAAGTGCCA
1 CTAAAGAACATGATCTTTAGCGGCGCTTCTCTAAAAA-CGCCA
*
39796677 CTATAGAACATGATCTTTAGC
1 CTAAAGAACATGATCTTTAGC
39796698 AGCATTTGTA
Statistics
Matches: 81, Mismatches: 25, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
42 6 0.07
43 75 0.93
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (42 bp):
CTAAAGAACATGATCTTTAGCGGCGCTTCTCTAAAAACGCCA
Found at i:39796706 original size:43 final size:43
Alignment explanation
Indices: 39796581--39796739 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
39796571 CGCTTCTACT
* * * *
39796581 AAAAA-CGCCACTAAAGAACATAATCTTTAGCAGCACTTCTCCT
1 AAAAAGCGCCACTAAAGAACATGATCTTTAGCAGCATTTGT-CA
** * * ** *
39796624 AAAAA-CGCTGCTAAAAAACATGATATTTAGTGGCGTTTGTCA
1 AAAAAGCGCCACTAAAGAACATGATCTTTAGCAGCATTTGTCA
* *
39796666 AAAAAGTGCCACTATAGAACATGATCTTTAGCAGCATTTGT-A
1 AAAAAGCGCCACTAAAGAACATGATCTTTAGCAGCATTTGTCA
* * * *
39796708 GAAAAAGCGCCTCCAAAGATCATGTTCTTTAG
1 -AAAAAGCGCCACTAAAGAACATGATCTTTAG
39796740 TGGCATTTTT
Statistics
Matches: 88, Mismatches: 26, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
42 7 0.08
43 81 0.92
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (43 bp):
AAAAAGCGCCACTAAAGAACATGATCTTTAGCAGCATTTGTCA
Found at i:39800235 original size:16 final size:16
Alignment explanation
Indices: 39800214--39800245 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39800204 AATAAACAAG
39800214 TAAAGACTTTAAAATT
1 TAAAGACTTTAAAATT
*
39800230 TAAAGACTTTTAAATT
1 TAAAGACTTTAAAATT
39800246 CTAAGGTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
TAAAGACTTTAAAATT
Found at i:39806431 original size:48 final size:48
Alignment explanation
Indices: 39806197--39806440 Score: 232
Period size: 48 Copynumber: 5.1 Consensus size: 48
39806187 ATATGGCATC
* * * *
39806197 GGCATCGGCATCGATATGTGATCCCATGTAAGACCATGTTTGAGACAT
1 GGCATTGGCATCTATATGTGATCCCATGTAAGACCATGTCTGGGACAT
*
39806245 GGCATTGGCATCGT-TATGTGATCCCATGTAAGACCATGTTTGGGACAT
1 GGCATTGGCATC-TATATGTGATCCCATGTAAGACCATGTCTGGGACAT
* * * * *
39806293 GGCATTGGCATCGATATGAGAACATCGTGTAAGACCATAG-CTGGG-CTAT
1 GGCATTGGCATCTATATGTGATC-CCATGTAAGACCAT-GTCTGGGAC-AT
* * * *
39806342 CGGC-TTCG-A--TATGTGTGATCCCATGAAAGACAATGTCTGGGACAT
1 -GGCATTGGCATCTATATGTGATCCCATGTAAGACCATGTCTGGGACAT
* * * *
39806387 GGCATTGGCATCTATAAGTGGTCCCATGTAAGACCATATCTGGGATAT
1 GGCATTGGCATCTATATGTGATCCCATGTAAGACCATGTCTGGGACAT
39806435 GGCATT
1 GGCATT
39806441 TGCACCCTAC
Statistics
Matches: 158, Mismatches: 26, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
44 4 0.03
45 20 0.13
46 9 0.06
48 100 0.63
49 21 0.13
50 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
GGCATTGGCATCTATATGTGATCCCATGTAAGACCATGTCTGGGACAT
Found at i:39809031 original size:17 final size:17
Alignment explanation
Indices: 39809011--39809045 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
39809001 GATAAAGAGC
*
39809011 AATAAATTGATATGGCA
1 AATAAAATGATATGGCA
*
39809028 AATAAAATGATGTGGCA
1 AATAAAATGATATGGCA
39809045 A
1 A
39809046 TTCACAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (17 bp):
AATAAAATGATATGGCA
Found at i:39812531 original size:14 final size:14
Alignment explanation
Indices: 39812512--39812541 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39812502 CACTATGTGT
39812512 GTGAGTATTCCCGA
1 GTGAGTATTCCCGA
*
39812526 GTGAGTATTCTCGA
1 GTGAGTATTCCCGA
39812540 GT
1 GT
39812542 ATCTGATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (14 bp):
GTGAGTATTCCCGA
Found at i:39821005 original size:37 final size:37
Alignment explanation
Indices: 39820955--39821033 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
39820945 TTATTACGAA
* *
39820955 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
39820992 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
39821029 GTCTT
1 GTCTT
39821034 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:39821230 original size:47 final size:47
Alignment explanation
Indices: 39821152--39822220 Score: 1798
Period size: 47 Copynumber: 22.7 Consensus size: 47
39821142 CCCTTCGGGA
* * * ** * * *
39821152 CTTATCACATTTATGCACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821199 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39821246 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821293 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821340 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821387 CTTATCACACATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39821434 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39821481 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39821528 CTTATGACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821575 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821622 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39821669 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821716 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39821763 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821810 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39821857 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39821904 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821951 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39821998 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39822045 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39822092 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39822139 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39822186 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
39822221 AGAATCCTAA
Statistics
Matches: 969, Mismatches: 52, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
46 1 0.00
47 968 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39826062 original size:29 final size:29
Alignment explanation
Indices: 39825996--39826073 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
39825986 CTTAATAAAC
*
39825996 AACCACGCACACTTAGTG-CATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTTA
*
39826025 AACTCGCACACTTAGTGCCATGCA-TTTCA
1 AACCCGCACACTTAGTGCCATGCACTTT-A
*
39826054 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39826074 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 16 0.37
29 27 0.63
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTTA
Found at i:39826121 original size:43 final size:43
Alignment explanation
Indices: 39826055--39826157 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
39826045 TGCATTTCAA
*
39826055 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAAACGTGAACACTTATT
*
39826098 GCCCGCACACTTAGTGCCCATCTCACAAACGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAAACGTGAACACTTATT
39826141 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
39826158 TAAACCAACC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAAACGTGAACACTTATT
Found at i:39828076 original size:35 final size:37
Alignment explanation
Indices: 39828005--39828081 Score: 122
Period size: 35 Copynumber: 2.1 Consensus size: 37
39827995 TTATTACGAA
*
39828005 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
*
39828042 GTCTTACCCGGACA-AATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
39828077 GTCTT
1 GTCTT
39828082 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 20 0.53
36 4 0.11
37 14 0.37
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
Found at i:39828363 original size:47 final size:47
Alignment explanation
Indices: 39828202--39828618 Score: 690
Period size: 47 Copynumber: 8.7 Consensus size: 47
39828192 GCCCTTTGGG
*
39828202 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
39828252 ACTTTCACATTCATCACATCGGCCATTAGGCCTTCTCACAATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
*
39828300 ACTTTCACATTCATCACATCGGCCTTTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
39828347 ACTTTCACATTTATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
39828396 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
39828443 ACTTTCACATTCATCACATCGGCCATTAGGACTTACCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39828490 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39828537 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39828584 ACTTTCACATTCATCACATCGGCCATTAGCCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
39828619 CTATCATTTC
Statistics
Matches: 346, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
47 219 0.63
48 45 0.13
49 78 0.23
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:39828553 original size:25 final size:25
Alignment explanation
Indices: 39828479--39828555 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
39828469 TAGGACTTAC
39828479 CACATATATACACTTTCACATTCAT
1 CACATATATACACTTTCACATTCAT
**** ***
39828504 CACAT-CGGCCA-TTAGGCATT-AT
1 CACATATATACACTTTCACATTCAT
39828526 CACATATATACACTTTCACATTCAT
1 CACATATATACACTTTCACATTCAT
39828551 CACAT
1 CACAT
39828556 CGGCCATTAG
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.20
23 8 0.23
24 8 0.23
25 12 0.34
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (25 bp):
CACATATATACACTTTCACATTCAT
Found at i:39831166 original size:20 final size:19
Alignment explanation
Indices: 39831143--39831180 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
39831133 AGATGCTTGG
39831143 TGAATGGAA-CATGTGCTAAA
1 TGAAT-GAATCATG-GCTAAA
39831163 TGAATGAATCATGGCTAA
1 TGAATGAATCATGGCTAA
39831181 TAAGTATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGAATCATGGCTAAA
Found at i:39836123 original size:40 final size:40
Alignment explanation
Indices: 39836061--39836155 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
39836051 TCGATATCTT
* **
39836061 GCACACTAAGTGCCGTACATAGCTGAAGCTATCTCAAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
* * * *
39836101 GCACACAAAGTGCCATATATAGCCAAAGCTATGTCGAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
39836141 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
39836156 CAAATAACTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
Found at i:39836999 original size:43 final size:43
Alignment explanation
Indices: 39836938--39837034 Score: 158
Period size: 43 Copynumber: 2.3 Consensus size: 43
39836928 AACATGAAGT
*
39836938 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCTTAC
1 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
* * *
39836981 AATTCACCACTTTGACATTTCAATACGATATATTTTTGCATAC
1 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
39837024 AATTCACCACT
1 AATTCACCACT
39837035 GCATCATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (43 bp):
AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
Found at i:39837004 original size:21 final size:21
Alignment explanation
Indices: 39836938--39837004 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
39836928 AACATGAAGT
39836938 AATTCACCACTTTGACATTTC
1 AATTCACCACTTTGACATTTC
* * * *
39836959 AATACAATACATTTCTG-C-TTAC
1 AATTC-A-CCACTT-TGACATTTC
39836981 AATTCACCACTTTGACATTTC
1 AATTCACCACTTTGACATTTC
39837002 AAT
1 AAT
39837005 ACGATATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.37
Consensus pattern (21 bp):
AATTCACCACTTTGACATTTC
Found at i:39839885 original size:49 final size:51
Alignment explanation
Indices: 39839813--39839953 Score: 196
Period size: 49 Copynumber: 2.8 Consensus size: 51
39839803 ACTATTGTGA
* ** *
39839813 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAAAAACTGT
* *
39839862 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAACTGT
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAAAAACTGT
* *
39839913 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
39839954 ATATTTGTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 41 0.51
50 1 0.01
51 38 0.47
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (51 bp):
GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAAAAACTGT
Found at i:39839943 original size:51 final size:49
Alignment explanation
Indices: 39839818--39839953 Score: 182
Period size: 51 Copynumber: 2.7 Consensus size: 49
39839808 TGTGAGGTCG
* ** * * *
39839818 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAAAAATTGATCA
* *
39839867 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAACTGTGATCA
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAAAAA-T-TGATCA
39839918 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
39839954 ATATTTGTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
49 36 0.48
50 1 0.01
51 38 0.51
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCAAAAATTGATCA
Found at i:39841724 original size:66 final size:65
Alignment explanation
Indices: 39841597--39841724 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 65
39841587 TACTATGTGT
* * * *
39841597 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTGCATGCGTGGTTCCAAGTGAAG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAATG-AGCTAGGTACATGCGTGGTACCAAGTGAAG
39841662 G
65 G
* *
39841663 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAA-TGAGCTAGGT-ACATGCGTGGTACCAAGTG
39841725 TTCACCATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
65 7 0.13
66 45 0.83
67 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.20
Consensus pattern (65 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAATGAGCTAGGTACATGCGTGGTACCAAGTGAAGG
Found at i:39842773 original size:16 final size:17
Alignment explanation
Indices: 39842752--39842783 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39842742 ACTATGGTAT
39842752 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
39842768 ATGAAATAATTGATAT
1 ATGAAATAATTGATAT
39842784 GTGTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:39849498 original size:20 final size:20
Alignment explanation
Indices: 39849461--39849498 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39849451 TGATGGGGAG
*
39849461 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
39849481 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
39849499 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:39851384 original size:46 final size:46
Alignment explanation
Indices: 39851332--39851604 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
39851322 AGTGTGCTCT
*
39851332 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
39851378 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
39851424 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
39851470 CTGATATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
39851516 GTGATATGAAATGAACAAGACCAT-GTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
39851561 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
39851605 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
44 1 0.00
45 38 0.18
46 171 0.81
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:39855759 original size:35 final size:36
Alignment explanation
Indices: 39855719--39855790 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
39855709 TAACTTAATC
*
39855719 AAGCTTTCATGAT-AAAAAAAATCTATAAAAATCAA
1 AAGCTTTCATGATAAAAAAAAATCAATAAAAATCAA
39855754 AAGCTTTCATGATAAAAAAAAATCAATAAAAATCAA
1 AAGCTTTCATGATAAAAAAAAATCAATAAAAATCAA
39855790 A
1 A
39855791 GAAAAATAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 13 0.37
36 22 0.63
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.24
Consensus pattern (36 bp):
AAGCTTTCATGATAAAAAAAAATCAATAAAAATCAA
Found at i:39855774 original size:19 final size:19
Alignment explanation
Indices: 39855719--39855774 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
39855709 TAACTTAATC
39855719 AAGCTTTCATGATAAAAAA
1 AAGCTTTCATGATAAAAAA
*
39855738 AA--TCT-AT-A-AAAATCAA
1 AAGCTTTCATGATAAAA--AA
39855754 AAGCTTTCATGATAAAAAA
1 AAGCTTTCATGATAAAAAA
39855773 AA
1 AA
39855775 ATCAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
14 4 0.14
15 1 0.04
16 6 0.21
17 2 0.07
18 2 0.07
19 8 0.29
20 1 0.04
21 4 0.14
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (19 bp):
AAGCTTTCATGATAAAAAA
Found at i:39856578 original size:12 final size:12
Alignment explanation
Indices: 39856561--39856585 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39856551 TGTGTGAATT
39856561 AGAAATAATCTA
1 AGAAATAATCTA
39856573 AGAAATAATCTA
1 AGAAATAATCTA
39856585 A
1 A
39856586 TAAGCAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AGAAATAATCTA
Found at i:39856802 original size:18 final size:18
Alignment explanation
Indices: 39856754--39856803 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
39856744 ATATCATGAG
39856754 ATATATACAA-AATATAT
1 ATATATACAACAATATAT
* **
39856771 ATTTATACTTCAATATAT
1 ATATATACAACAATATAT
*
39856789 ATATATAAAACAATA
1 ATATATACAACAATA
39856804 AGCATCATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATACAACAATATAT
Found at i:39861541 original size:27 final size:28
Alignment explanation
Indices: 39861457--39861554 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
39861447 CATGAGATTG
* * * *
39861457 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
39861486 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
39861514 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39861541 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
39861555 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39861565 original size:27 final size:27
Alignment explanation
Indices: 39861485--39861567 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
39861475 TAAATTGTAC
* *
39861485 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
39861513 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
39861540 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
39861567 A
1 A
39861568 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:39861568 original size:29 final size:27
Alignment explanation
Indices: 39861457--39861568 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
39861447 CATGAGATTG
** * *
39861457 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
39861486 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
39861514 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
39861541 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
39861569 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:39869402 original size:27 final size:28
Alignment explanation
Indices: 39869318--39869415 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
39869308 CATGAGATTG
* * * *
39869318 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
39869347 GCACTAAGTGTGAGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
39869375 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39869402 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
39869416 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39869426 original size:27 final size:27
Alignment explanation
Indices: 39869346--39869428 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
39869336 TAAATTGTAC
* * *
39869346 AGCACTAAGTGTGAGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
39869374 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
39869401 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
39869428 A
1 A
39869429 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:39869429 original size:29 final size:27
Alignment explanation
Indices: 39869318--39869429 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
39869308 CATGAGATTG
** * *
39869318 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
39869347 GCACTAAGTGTGAGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
39869375 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
39869402 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
39869430 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 27 0.39
29 20 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:39875750 original size:15 final size:15
Alignment explanation
Indices: 39875730--39875759 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
39875720 CATGTAAGTG
39875730 AAAGGTCAAGAGTTA
1 AAAGGTCAAGAGTTA
39875745 AAAGGTCAAGAGTTA
1 AAAGGTCAAGAGTTA
39875760 TATTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (15 bp):
AAAGGTCAAGAGTTA
Found at i:39875947 original size:17 final size:17
Alignment explanation
Indices: 39875914--39875952 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
39875904 TAAGCTTTTG
39875914 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
39875931 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
39875948 ATTTT
1 ATTTT
39875953 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:39876718 original size:15 final size:15
Alignment explanation
Indices: 39876694--39876723 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39876684 TGGAGATCGA
*
39876694 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
39876709 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
39876724 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:39880098 original size:15 final size:15
Alignment explanation
Indices: 39880078--39880108 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39880068 GTCATGTAAG
39880078 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
39880093 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
39880108 T
1 T
39880109 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:39880298 original size:17 final size:17
Alignment explanation
Indices: 39880265--39880303 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
39880255 TAAGCTTTTG
39880265 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
39880282 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
39880299 ATTTT
1 ATTTT
39880304 CCACAGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:39885139 original size:13 final size:14
Alignment explanation
Indices: 39885121--39885156 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
39885111 ACTTGAAGGG
39885121 TTTCTTTTTT-TTT
1 TTTCTTTTTTCTTT
39885134 TTTCTTTTTTCTTT
1 TTTCTTTTTTCTTT
39885148 TTT-TTTTTT
1 TTTCTTTTTT
39885157 AGATTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (14 bp):
TTTCTTTTTTCTTT
Found at i:39885141 original size:7 final size:7
Alignment explanation
Indices: 39885121--39885156 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
39885111 ACTTGAAGGG
39885121 TTTCTTT
1 TTTCTTT
39885128 TTT-TTT
1 TTTCTTT
39885134 TTTCTTT
1 TTTCTTT
39885141 TTTCTTT
1 TTTCTTT
39885148 TTT-TTT
1 TTTCTTT
39885154 TTT
1 TTT
39885157 AGATTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (7 bp):
TTTCTTT
Found at i:39885163 original size:20 final size:20
Alignment explanation
Indices: 39885121--39885163 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
39885111 ACTTGAAGGG
***
39885121 TTTCTTTTTTTTTTTTCTTT
1 TTTCTTTTTTTTTTTTAGAT
39885141 TTTCTTTTTTTTTTTTAGAT
1 TTTCTTTTTTTTTTTTAGAT
39885161 TTT
1 TTT
39885164 TGAAGACGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.86
Consensus pattern (20 bp):
TTTCTTTTTTTTTTTTAGAT
Found at i:39886779 original size:9 final size:9
Alignment explanation
Indices: 39886747--39886796 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
39886737 ATTCAAAAAC
*
39886747 AATTATAAA
1 AATTATTAA
*
39886756 AACTATTAA
1 AATTATTAA
39886765 AA--ATTAA
1 AATTATTAA
39886772 AATTATTAA
1 AATTATTAA
*
39886781 AATGTATAAA
1 AAT-TATTAA
39886791 AATTAT
1 AATTAT
39886797 AATTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
7 7 0.20
9 20 0.57
10 8 0.23
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (9 bp):
AATTATTAA
Found at i:39886782 original size:25 final size:25
Alignment explanation
Indices: 39886747--39886800 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
39886737 ATTCAAAAAC
39886747 AATTATAAAAACTAT-TAAAAATTAA
1 AATTATAAAAA-TATATAAAAATTAA
* * *
39886772 AATTATTAAAATGTATAAAAATTAT
1 AATTATAAAAATATATAAAAATTAA
39886797 AATT
1 AATT
39886801 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AATTATAAAAATATATAAAAATTAA
Found at i:39887375 original size:13 final size:13
Alignment explanation
Indices: 39887357--39887381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39887347 TTAAAATATT
39887357 TTATAAATAAAAA
1 TTATAAATAAAAA
39887370 TTATAAATAAAA
1 TTATAAATAAAA
39887382 GTTTTTTAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTATAAATAAAAA
Found at i:39891357 original size:39 final size:40
Alignment explanation
Indices: 39891312--39891479 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
39891302 CGGGGTTTAG
* * *
39891312 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
39891351 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
39891391 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
39891431 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
39891472 CCGGATAT
1 CCGGATAT
39891480 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:39891462 original size:41 final size:40
Alignment explanation
Indices: 39891335--39891479 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
39891325 CTCGCACAAG
* * * * *
39891335 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
39891375 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
39891415 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
39891456 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
39891480 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:39904612 original size:24 final size:24
Alignment explanation
Indices: 39904585--39904917 Score: 236
Period size: 24 Copynumber: 13.9 Consensus size: 24
39904575 GAAATGACTT
*
39904585 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
39904609 TGGCACTATGTGTGTGAATTGGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
39904633 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
39904657 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
39904682 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
39904705 TGGCACTATATGTGTGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
* *
39904729 TGGCACTATGTGTACGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
39904753 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
39904778 -GGCACTATGTGTGCGAATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
* *
39904801 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
39904825 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
39904849 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
39904874 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
39904897 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
39904918 CCTTGCTTGA
Statistics
Matches: 240, Mismatches: 52, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
21 1 0.00
22 4 0.02
23 4 0.02
24 218 0.91
25 10 0.04
26 3 0.01
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:39904750 original size:96 final size:96
Alignment explanation
Indices: 39904586--39904888 Score: 525
Period size: 96 Copynumber: 3.2 Consensus size: 96
39904576 AAATGACTTT
* * * * **
39904586 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGTGAATTGGTATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
39904651 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
39904682 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTACGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
39904747 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
* *
39904778 GGCACTATGTGTGCGAATTTATATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
39904843 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
39904874 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
39904889 GGTTAACATG
Statistics
Matches: 197, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 197 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:39904889 original size:48 final size:48
Alignment explanation
Indices: 39904586--39904889 Score: 339
Period size: 48 Copynumber: 6.3 Consensus size: 48
39904576 AAATGACTTT
** * * ** *
39904586 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGTGAATTGGTAT
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
*
39904634 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
* * * * *
39904682 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGGCA--ATATGTATGTGAATTACTAA
* *
39904730 GGCACTATGTGTACGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
* ** * *
39904778 GGCACTATGTGTGCGAATTT-ATATGGCACTATATGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGA-ATGGCA--ATATGTATGTGAATTACTAA
*
39904826 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
39904874 GGCACTATGTGTGCGG
1 GGCACTATGTGTGCGG
39904890 GTTAACATGG
Statistics
Matches: 212, Mismatches: 34, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
46 15 0.07
47 11 0.05
48 160 0.75
49 11 0.05
50 15 0.07
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (48 bp):
GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
Found at i:39924613 original size:40 final size:40
Alignment explanation
Indices: 39924576--39924758 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
39924566 GCTACTCGTT
*
39924576 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
39924616 CAAATGCCTTTGGGACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
* * *
39924656 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
39924695 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
39924736 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
39924759 AACATCATTC
Statistics
Matches: 117, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
38 3 0.03
39 28 0.24
40 71 0.61
41 15 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:39929301 original size:40 final size:40
Alignment explanation
Indices: 39929205--39929359 Score: 213
Period size: 40 Copynumber: 3.8 Consensus size: 40
39929195 TATTCGGATG
* *
39929205 ATATTCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--G-CTAG-TGACT
*
39929248 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
39929288 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
39929328 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
39929360 GAGTTGCTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.02
40 71 0.70
41 1 0.01
43 28 0.27
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:39941836 original size:48 final size:49
Alignment explanation
Indices: 39941719--39942084 Score: 248
Period size: 48 Copynumber: 7.7 Consensus size: 49
39941709 AGGGTATAAT
* *
39941719 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAAT-GTC-TC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCATCGAG
* *** **
39941766 GTCGATGCCATGTTTGAGACAT-GTCTTACACTAACTATCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAG
* *
39941814 GCCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCGCAT-ATCCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--CATCAT-CG-AG
* * * * * * *
39941865 -TCGATGCCATGTCCAAGACATGATCTTATACTGAC-A-CCTCTATACG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATC-AT-CGAG
* *
39941912 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACTTTA-CGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATCATCGAG
* * ** *
39941960 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TTAGTC-TTAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCA-TCATCGAG
* * * *
39942006 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAG
* *
39942054 GCTGATG-CATGTCCTAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
39942085 AGTTCACAAT
Statistics
Matches: 249, Mismatches: 48, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
45 2 0.01
46 48 0.19
47 63 0.25
48 80 0.32
49 17 0.07
50 33 0.13
51 5 0.02
52 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAG
Found at i:39942018 original size:47 final size:46
Alignment explanation
Indices: 39941915--39942086 Score: 174
Period size: 47 Copynumber: 3.7 Consensus size: 46
39941905 TATACGTGCC
* * *
39941915 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACT-TTACGAGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTTACTCTTA--ATGCT
*
39941963 GATGCATGTCCCAGACAT-GTCTTACACTAGCTTTAGTCTTAATGCT
1 GATGCATGTCCCAGACATGGTCTTACACTAGC-TTACTCTTAATGCT
* *
39942009 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CTCATAATGTGGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTTACTCTTAA--T-GCT
*
39942057 GATGCATGTCCTAGACAT-GTCTTACACTAG
1 GATGCATGTCCCAGACATGGTCTTACACTAG
39942087 TTCACAATAA
Statistics
Matches: 108, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
45 5 0.05
46 31 0.29
47 46 0.43
48 26 0.24
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTAGCTTACTCTTAATGCT
Found at i:39942026 original size:94 final size:94
Alignment explanation
Indices: 39941915--39942086 Score: 274
Period size: 94 Copynumber: 1.8 Consensus size: 94
39941905 TATACGTGCC
* *
39941915 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACTTTACGAGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAACGAGGCCGATGCATGTCCCAGAC
39941979 ATGTCTTACACTAGCTTTAGTCTTAATGCT
65 ATGTCTTACACTAGCTTTAGTCTTAATGCT
* * * *
39942009 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGAGGCCGATGCATGTCCCAGACA
39942074 TGTCTTACACTAG
66 TGTCTTACACTAG
39942087 TTCACAATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 70 0.99
95 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTTTAGTCTTAATGCT
Found at i:39945249 original size:40 final size:41
Alignment explanation
Indices: 39945194--39945378 Score: 254
Period size: 40 Copynumber: 4.6 Consensus size: 41
39945184 TATTCGGATG
39945194 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
*
39945234 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGACT
*
39945277 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
* * *
39945317 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
*
39945357 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
39945379 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 9, Indels: 13
0.86 0.06 0.09
Matches are distributed among these distances:
39 17 0.13
40 74 0.57
41 2 0.02
43 34 0.26
44 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACT
Found at i:39945337 original size:83 final size:83
Alignment explanation
Indices: 39945198--39945352 Score: 283
Period size: 83 Copynumber: 1.9 Consensus size: 83
39945188 CGGATGATAT
* *
39945198 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTG
39945263 TGCGAGTAGTTGATATAC
66 TGCGAGTAGTTGATATAC
*
39945281 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTG
39945346 TGCGAGT
66 TGCGAGT
39945353 TGCTATATCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.24
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTG
TGCGAGTAGTTGATATAC
Found at i:39945397 original size:83 final size:82
Alignment explanation
Indices: 39945198--39945378 Score: 251
Period size: 83 Copynumber: 2.2 Consensus size: 82
39945188 CGGATGATAT
* * * *
39945198 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTG
39945263 TGCGAGTAGTTGATATAC
66 TGC-AGTAGTTGATATAC
* * *
39945281 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTG
* *
39945346 TGC-G-AGTTGCTATAT
66 TGCAGTAGTTGATATAC
39945361 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAATCCCGAAGG
39945379 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
79 15 0.16
80 11 0.12
81 1 0.01
83 65 0.71
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (82 bp):
CCGGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCGAAGACCCGAAGGCATGTG
TGCAGTAGTTGATATAC
Found at i:39958939 original size:40 final size:40
Alignment explanation
Indices: 39958748--39958931 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
39958738 TCGAATGATG
* * *
39958748 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** *
39958788 TCCGGACTAAGAT-CTAAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39958828 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39958867 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39958908 T-CGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
39958932 CAACGAGTAG
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 32 0.26
40 78 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39963728 original size:18 final size:18
Alignment explanation
Indices: 39963702--39963742 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
39963692 TAGGGATTTT
*
39963702 CGTTCCCGAAAATCTTAC
1 CGTTACCGAAAATCTTAC
39963720 CGTTACCGAAAATCTTAC
1 CGTTACCGAAAATCTTAC
39963738 CGTTA
1 CGTTA
39963743 AACAGATTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (18 bp):
CGTTACCGAAAATCTTAC
Found at i:39975770 original size:13 final size:13
Alignment explanation
Indices: 39975752--39975777 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39975742 CTGCCTCTAG
39975752 GTATGTTATAGGC
1 GTATGTTATAGGC
39975765 GTATGTTATAGGC
1 GTATGTTATAGGC
39975778 CTCGGAGGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
GTATGTTATAGGC
Found at i:39991368 original size:40 final size:40
Alignment explanation
Indices: 39991313--39991393 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
39991303 TGAATGGAAA
*
39991313 TGGGATCAGATTACTATGGATTTTGTGTCAGGGTTGCCGT
1 TGGGATCAGATTACTATGGATTTTGTGTCAGGATTGCCGT
*
39991353 TGGGATCAGATTACTATGGATTTTGTGTCAGGATTGTCGT
1 TGGGATCAGATTACTATGGATTTTGTGTCAGGATTGCCGT
39991393 T
1 T
39991394 AACTCTAGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.19, C:0.11, G:0.31, T:0.40
Consensus pattern (40 bp):
TGGGATCAGATTACTATGGATTTTGTGTCAGGATTGCCGT
Found at i:39999131 original size:27 final size:26
Alignment explanation
Indices: 39999093--39999180 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
39999083 CGGCATGGCT
* *
39999093 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGGCAGAGCC
*
39999119 ACCAGATACAGATATTATGGCAGAGCC
1 ACCAGA-ACAGATATTGTGGCAGAGCC
* *
39999146 ACCAAAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-TTGTGGCAGAGCC
39999173 ACCAGAAC
1 ACCAGAAC
39999181 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 13 0.25
27 40 0.75
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGGCAGAGCC
Found at i:40003811 original size:46 final size:46
Alignment explanation
Indices: 40003761--40003933 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
40003751 TGGTTGAGCA
40003761 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
40003807 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
40003852 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40003900 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40003934 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40003917 original size:93 final size:93
Alignment explanation
Indices: 40003758--40003928 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
40003748 GGATGGTTGA
* *
40003758 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40003823 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
40003851 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40003916 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40003929 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40011372 original size:46 final size:45
Alignment explanation
Indices: 40011322--40011493 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
40011312 TGGTTGAGCA
40011322 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
40011368 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
40011414 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
40011460 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40011494 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:40011476 original size:92 final size:92
Alignment explanation
Indices: 40011319--40011488 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
40011309 GGATGGTTGA
* *
40011319 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40011384 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
40011411 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40011476 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40011489 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:40014982 original size:42 final size:42
Alignment explanation
Indices: 40014923--40015041 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
40014913 TTAGGGCTAC
*
40014923 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATAGATA
* * * *
40014965 TGAGACTT-CGTGTAAGACCATAGCTGGGCTGTTGGCATAGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGAT-ATGGAATAGATA
* * *
40015008 CGAGATTACATGTAAGACCATATCTGGGGTATGG
1 TGAGATTACGTGTAAGACCATATCTGGGATATGG
40015042 CATTGGTACG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGAATAGATA
Found at i:40017537 original size:40 final size:40
Alignment explanation
Indices: 40017444--40017540 Score: 151
Period size: 40 Copynumber: 2.4 Consensus size: 40
40017434 CTAAGATGGT
*
40017444 ATCGCACACTTAGCGCCTCACATAGTCAAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCTCACATAGTCAAAGCTAGTTTAA
* *
40017484 ATCGCACACTTAGTGCCTCATATAG-CTGAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCTCACATAGTC-AAAGCTAGTTTAA
40017524 ATCGCACACTTAGTGCC
1 ATCGCACACTTAGTGCC
40017541 AAATACTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
39 1 0.02
40 52 0.98
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCACATAGTCAAAGCTAGTTTAA
Found at i:40021757 original size:33 final size:33
Alignment explanation
Indices: 40021715--40021780 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
40021705 CATAATATCT
40021715 AAAATAGACTCAAACCATTATTTAACCAAAACA
1 AAAATAGACTCAAACCATTATTTAACCAAAACA
40021748 AAAATAGACTCAAACCATTATTTAACCAAAACA
1 AAAATAGACTCAAACCATTATTTAACCAAAACA
40021781 TACTCAAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (33 bp):
AAAATAGACTCAAACCATTATTTAACCAAAACA
Found at i:40023070 original size:15 final size:15
Alignment explanation
Indices: 40023050--40023092 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
40023040 TCTATACAAC
40023050 TTCAAATTAATCTCA
1 TTCAAATTAATCTCA
* *
40023065 TTCAAACATAATTTCA
1 TTCAAA-TTAATCTCA
*
40023081 TTCAATTTAATC
1 TTCAAATTAATC
40023093 CAACAACACA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCAAATTAATCTCA
Found at i:40030552 original size:27 final size:27
Alignment explanation
Indices: 40030521--40030692 Score: 236
Period size: 27 Copynumber: 6.4 Consensus size: 27
40030511 ACCAATTTAT
*
40030521 CAAAATAACCCTGGTTTGTAAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTAC
* * * *
40030548 TAAAATATCCTTGGTTTATAAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTAC
*
40030575 CAAAATACCCCTAGTTTGTAAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTAC
*
40030602 CAAAATACCCCTGGTTTGTAAAATTAT
1 CAAAATACCCCTGGTTTGTAAAATTAC
*
40030629 CAAAATACCCCTAGTTTGTAAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTAC
** *
40030656 CAAAATACCCCTAATTTGTGAAATTAC
1 CAAAATACCCCTGGTTTGTAAAATTAC
*
40030683 TAAAATACCC
1 CAAAATACCC
40030693 TGGACCTATA
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
CAAAATACCCCTGGTTTGTAAAATTAC
Found at i:40030705 original size:81 final size:81
Alignment explanation
Indices: 40030521--40030719 Score: 222
Period size: 81 Copynumber: 2.5 Consensus size: 81
40030511 ACCAATTTAT
* ** * * * *
40030521 CAAAATAACCCTGGTTTGTAAAATTA-CTAAAATATCCTTGGTTTATAAAATTACCAAAATACCC
1 CAAAATACCCCTGGCCTATAAAATTATC-AAAATACCCCTAGTTTATAAAATTACCAAAATACCC
*
40030585 CTAGTTTGTAAAATTAC
65 CTAATTTGTAAAATTAC
** * *
40030602 CAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
1 CAAAATACCCCTGGCCTATAAAATTATCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCC
*
40030667 TAATTTGTGAAATTAC
66 TAATTTGTAAAATTAC
* **
40030683 TAAAATA-CCCTGGACCTATAAAATTATTGAAATACCC
1 CAAAATACCCCTGG-CCTATAAAATTATCAAAATACCC
40030720 TCGACCTGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 6 0.06
81 96 0.93
82 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
CAAAATACCCCTGGCCTATAAAATTATCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCC
TAATTTGTAAAATTAC
Found at i:40030730 original size:81 final size:79
Alignment explanation
Indices: 40030566--40030773 Score: 222
Period size: 81 Copynumber: 2.6 Consensus size: 79
40030556 CCTTGGTTTA
* ** *
40030566 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCA
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTA-CAAAATA-CCCTGGCCTATAAAATTATCA
* **
40030631 AAATACCCCTAGTTTG
64 AAATACCCCGAGCCTG
* **
40030647 TAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTGGACCTATAAAATTATTG
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTAC-AAAATACCCTGG-CCTATAAAATTATCA
40030712 AAATACCCTCGA-CCTG
64 AAATACCC-CGAGCCTG
** *
40030728 TAAAATTATTAAAATA-CCCTCAACTTGTAAAATTACAAAAGTACCC
1 TAAAATTACCAAAATACCCCT-AATTTGTAAAATTACAAAA-TACCC
40030774 CCAATTTATA
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
80 15 0.14
81 91 0.84
82 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (79 bp):
TAAAATTACCAAAATACCCCTAATTTGTAAAATTACAAAATACCCTGGCCTATAAAATTATCAAA
ATACCCCGAGCCTG
Found at i:40030823 original size:27 final size:27
Alignment explanation
Indices: 40030742--40030925 Score: 197
Period size: 27 Copynumber: 6.8 Consensus size: 27
40030732 ATTATTAAAA
* * * ***
40030742 TACCCTCAACTTGTAAAATTACAAAAG
1 TACCCTCAATTTATAAAATTACCATTT
* *
40030769 TACCCCCAATTTATAAAATTACCGTTT
1 TACCCTCAATTTATAAAATTACCATTT
40030796 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCAATTTATAAAATTACCATTT
** * *
40030823 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCAATTTATAAAATTACCATTT
* * * *
40030850 TAACCTCGATTTACAAAATTATCATTT
1 TACCCTCAATTTATAAAATTACCATTT
*
40030877 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCAATTTATAAAATTACCATTT
* *
40030904 TACCCTCGATTTACAAAATTAC
1 TACCCTCAATTTATAAAATTAC
40030926 TAAAATACCC
Statistics
Matches: 131, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (27 bp):
TACCCTCAATTTATAAAATTACCATTT
Found at i:40030934 original size:27 final size:27
Alignment explanation
Indices: 40030521--40030935 Score: 194
Period size: 27 Copynumber: 15.4 Consensus size: 27
40030511 ACCAATTTAT
* *
40030521 CAAAATAACCCT-GGTTTGTAAAATTAC
1 CAAAAT-ACCCTCGATTTATAAAATTAC
* * * *
40030548 TAAAATATCCTTGGTTTATAAAATTAC
1 CAAAATACCCTCGATTTATAAAATTAC
* *
40030575 CAAAATACCC-CTAGTTTGTAAAATTAC
1 CAAAATACCCTCGA-TTTATAAAATTAC
* * *
40030602 CAAAATACCC-CTGGTTTGTAAAATTAT
1 CAAAATACCCTC-GATTTATAAAATTAC
* *
40030629 CAAAATACCC-CTAGTTTGTAAAATTAC
1 CAAAATACCCTCGA-TTTATAAAATTAC
* * *
40030656 CAAAATACCC-CTAATTTGTGAAATTAC
1 CAAAATACCCTC-GATTTATAAAATTAC
* * ** *
40030683 TAAAATACCCTGGACCTATAAAATTAT
1 CAAAATACCCTCGATTTATAAAATTAC
** ** * *
40030710 TGAAATACCCTCGACCTGTAAAATTAT
1 CAAAATACCCTCGATTTATAAAATTAC
* * * *
40030737 TAAAATACCCTCAACTTGTAAAATTA-
1 CAAAATACCCTCGATTTATAAAATTAC
* *
40030763 CAAAAGTACCCCCAATTTATAAAATTAC
1 CAAAA-TACCCTCGATTTATAAAATTAC
**** *
40030791 CGTTTTACCCTCAATTTATAAAATTAC
1 CAAAATACCCTCGATTTATAAAATTAC
*** * *
40030818 CATTTTACCCTTGATTTACAAAATTAC
1 CAAAATACCCTCGATTTATAAAATTAC
**** * * *
40030845 CGTTTTAACCTCGATTTACAAAATTAT
1 CAAAATACCCTCGATTTATAAAATTAC
*** * *
40030872 CATTTTACCCTCAATTTATAGAATTAC
1 CAAAATACCCTCGATTTATAAAATTAC
*** *
40030899 CATTTTACCCTCGATTTACAAAATTAC
1 CAAAATACCCTCGATTTATAAAATTAC
*
40030926 TAAAATACCC
1 CAAAATACCC
40030936 ATGTAAGGTA
Statistics
Matches: 319, Mismatches: 61, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
26 8 0.03
27 309 0.97
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (27 bp):
CAAAATACCCTCGATTTATAAAATTAC
Found at i:40030950 original size:27 final size:27
Alignment explanation
Indices: 40030920--40031006 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
40030910 CGATTTACAA
* *
40030920 AATTACTAAAATACCCATGTAAGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
** *
40030947 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
* *
40030974 AATTACTAAAAAACCCCTGTAGGGTGG
1 AATTACTAAAATACCCCTGTAGGGTAG
40031001 AATTAC
1 AATTAC
40031007 CGAGATACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:40031510 original size:22 final size:22
Alignment explanation
Indices: 40031458--40031522 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
40031448 TTAAAGCCTT
* *
40031458 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
40031480 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
40031502 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
40031523 ACGCTTTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:40031900 original size:19 final size:19
Alignment explanation
Indices: 40031876--40031933 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
40031866 TTCTGATTTT
40031876 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
40031895 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
40031907 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
40031926 TGATTCTG
1 TGATTCTG
40031934 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:40031903 original size:6 final size:6
Alignment explanation
Indices: 40031865--40031984 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
40031855 ATGCATTGAC
* * *
40031865 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
40031915 -TTACCTG ATACTG ATTCTG ATTCTG ATTCT- ATCACCTA ATTCTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
40031965 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
40031985 AATGTTTCTT
Statistics
Matches: 91, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
5 7 0.08
6 66 0.73
7 14 0.15
8 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:40031911 original size:31 final size:31
Alignment explanation
Indices: 40031865--40032000 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
40031855 ATGCATTGAC
*
40031865 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
40031897 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * * *
40031928 ATTCTGATTCTGATTCTATCACCTAATTCTA
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
40031959 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
40031989 TTTCTTATTCTG
1 ATTCTGATTCTG
40032001 TAATGGGTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
30 15 0.17
31 66 0.74
32 8 0.09
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:40033941 original size:27 final size:27
Alignment explanation
Indices: 40033911--40033990 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
40033901 TTAGTTTACC
40033911 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTATCAAAATACCCCTGGTTTGTA
*
40033938 AAATTATCAAAATACTCCC-AGTTTGTA
1 AAATTATCAAAATAC-CCCTGGTTTGTA
* *
40033965 AAATTACCAAAATACCCCTGATTTGT
1 AAATTATCAAAATACCCCTGGTTTGT
40033991 GAATTTACTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.06
27 41 0.87
28 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTATCAAAATACCCCTGGTTTGTA
Found at i:40034025 original size:27 final size:27
Alignment explanation
Indices: 40033995--40034079 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
40033985 ATTTGTGAAT
* *
40033995 TTACTGAAATACGCTCGACCTATAAAA
1 TTACTGAAATACCCTCGACCTGTAAAA
40034022 TTACTGAAATACCCTCGACCTGTAAAA
1 TTACTGAAATACCCTCGACCTGTAAAA
* * *
40034049 TTATTGAAATACCCTCAACTTGTAAAA
1 TTACTGAAATACCCTCGACCTGTAAAA
40034076 TTAC
1 TTAC
40034080 CAACGTTCCC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
TTACTGAAATACCCTCGACCTGTAAAA
Found at i:40034123 original size:27 final size:27
Alignment explanation
Indices: 40034093--40034314 Score: 275
Period size: 27 Copynumber: 8.3 Consensus size: 27
40034083 CGTTCCCCCA
* * *
40034093 ATTTATAGAATTACCATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
40034120 ATTTACAAAATTACCGTTTTATCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
40034147 ATTTACAAAATTACCGTTTTACCCTCT
1 ATTTACAGAATTACCGTTTTACCCTCG
* * * *
40034174 ATTAATAAAATTATCGTTTT-CCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
40034200 ATTTACAGAATTATCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
40034227 ATTTATAGAACTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
**
40034254 ATTTACAGAATTATAGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
40034281 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
40034308 ATTTACA
1 ATTTACA
40034315 AAACTACTGA
Statistics
Matches: 167, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 21 0.13
27 146 0.87
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:40034242 original size:107 final size:108
Alignment explanation
Indices: 40034093--40034314 Score: 311
Period size: 107 Copynumber: 2.1 Consensus size: 108
40034083 CGTTCCCCCA
* * * *
40034093 ATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTACCGTTTTATCCTCGATTTACAAAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAACTACCGTTTTACCCTCGATTTACAAAAT
* * *
40034158 TACCGTTTTACCCTCTATTAATAAAATTATCGTTTT-CCCTCG
66 TACAGTTTTACCCTCGATTAATAAAATTACCGTTTTACCCTCG
* * * *
40034200 ATTTACAGAATTATCATTTTACCCTCGATTTATAGAACTACCGTTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAACTACCGTTTTACCCTCGATTTACAAAAT
* * *
40034265 TATAGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCG
66 TACAGTTTTACCCTCGATTAATAAAATTACCGTTTTACCCTCG
40034308 ATTTACA
1 ATTTACA
40034315 AAACTACTGA
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
107 87 0.87
108 13 0.13
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (108 bp):
ATTTACAGAATTACCATTTTACCCTCGATTTACAAAACTACCGTTTTACCCTCGATTTACAAAAT
TACAGTTTTACCCTCGATTAATAAAATTACCGTTTTACCCTCG
Found at i:40034353 original size:27 final size:26
Alignment explanation
Indices: 40034323--40034546 Score: 218
Period size: 27 Copynumber: 8.3 Consensus size: 26
40034313 CAAAACTACT
* *
40034323 GAAATACCCATGTCAGGTAGCATTACC
1 GAAATACCCCTGT-AGGTAGAATTACC
*
40034350 GAAATACCCATGTGAGGTAGAATTACC
1 GAAATACCCCTGT-AGGTAGAATTACC
*
40034377 GAAATACCCCTGTAGGGTAGAGTTACC
1 GAAATACCCCTGTA-GGTAGAATTACC
*
40034404 GAAATACCCCTGTAGGGTAAAATTACC
1 GAAATACCCCTGTA-GGTAGAATTACC
*
40034431 AAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGT-AGGTAGAATTACC
*
40034458 -AGAATACCCCTAG-AGGGTAGAATTACT
1 GA-AATACCCCT-GTA-GGTAGAATTACC
* * *
40034485 GAAATACCCCTGTAAGGAATAATTACT
1 GAAATACCCCTGT-AGGTAGAATTACC
* * *
40034512 AAAATACCCCTGTAGGGTGGAATTACA
1 GAAATACCCCTGTA-GGTAGAATTACC
*
40034539 GAGATACC
1 GAAATACC
40034547 TTGTGGGGTA
Statistics
Matches: 170, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.03
27 161 0.95
28 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (26 bp):
GAAATACCCCTGTAGGTAGAATTACC
Found at i:40034408 original size:81 final size:81
Alignment explanation
Indices: 40034323--40034546 Score: 242
Period size: 81 Copynumber: 2.8 Consensus size: 81
40034313 CAAAACTACT
** * *
40034323 GAAATACCCATGTCA-GGTAGCATTACCGAAATACCCATGTGAGGTAGAATTACC-GAAATACCC
1 GAAATACCCATGT-AGGGTAAAATTACCAAAATACCCATGTAAGGTAGAATTACCAG-AATACCC
*
40034386 CT-GTAGGGTAGAGTTACC
64 CTAG-AGGGTAGAATTACC
* *
40034404 GAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAAGGTAGAATTACCAGAATACCCCT
1 GAAATACCCATGTAGGGTAAAATTACCAAAATACCCATGTAAGGTAGAATTACCAGAATACCCCT
*
40034469 AGAGGGTAGAATTACT
66 AGAGGGTAGAATTACC
* * * * * *
40034485 GAAATACCCCTGTAAGG-AATAATTACTAAAATACCCCTGTAGGGTGGAATTA-CAGAGATACC
1 GAAATACCCATGTAGGGTAA-AATTACCAAAATACCCATGTAAGGTAGAATTACCAGA-ATACC
40034547 TTGTGGGGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
80 7 0.06
81 117 0.93
82 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (81 bp):
GAAATACCCATGTAGGGTAAAATTACCAAAATACCCATGTAAGGTAGAATTACCAGAATACCCCT
AGAGGGTAGAATTACC
Found at i:40035021 original size:22 final size:22
Alignment explanation
Indices: 40034993--40035053 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
40034983 AAGCCTTATG
* *
40034993 ATATGGCTTTGTGTCAACCTAC
1 ATATGGCTATGTGCCAACCTAC
40035015 ATATGGCTATGTGCCAACCTGA-
1 ATATGGCTATGTGCCAACCT-AC
* *
40035037 TTATGGCTGTGTGCCAA
1 ATATGGCTATGTGCCAA
40035054 ATGTATTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (22 bp):
ATATGGCTATGTGCCAACCTAC
Found at i:40035250 original size:26 final size:27
Alignment explanation
Indices: 40035212--40035284 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
40035202 ATTCTGTTAA
* * *
40035212 GTGGCTTTACCACATTATCTAT-TCTG
1 GTGGCTCTGCCACAATATCTATATCTG
*
40035238 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTATATCTG
* *
40035265 GTGACTCTGTCACAATATCT
1 GTGGCTCTGCCACAATATCT
40035285 GATAACTGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 18 0.45
27 22 0.55
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTATATCTG
Found at i:40035467 original size:31 final size:31
Alignment explanation
Indices: 40035430--40035493 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
40035420 ACATTTTGAT
40035430 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
* * *
40035461 TTTTGATTTTGTTACCTGGTATTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
40035492 TT
1 TT
40035494 CTGCCACCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.53
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTGATTCTGA
Found at i:40037651 original size:27 final size:27
Alignment explanation
Indices: 40037484--40037643 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
40037474 TTAGTTTACC
* *
40037484 AAATTATCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
40037511 AAATTACTAAAATACACTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
40037538 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
40037565 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
40037592 AAATTATCAAAATACCCC-AGCTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
40037618 AAATTACCAAAATACCCCTGATTTGT
1 AAATTACCAAAATACCCCTGGTTTGT
40037644 GAATTTACTG
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 23 0.20
27 91 0.80
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:40037741 original size:27 final size:27
Alignment explanation
Indices: 40037711--40037867 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
40037701 ATTACCAAAG
* *
40037711 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
40037738 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
40037765 TACCCTCGATTT-TCAAAATTATCATTT
1 TACCCTCGATTTAT-AAAATTACCGTTT
* *
40037792 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
40037819 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
40037846 TACGCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAAAATTAC
40037868 TAAAATACCC
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 114 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:40037755 original size:54 final size:54
Alignment explanation
Indices: 40037686--40037877 Score: 188
Period size: 54 Copynumber: 3.6 Consensus size: 54
40037676 TATTGAAATG
* * * * *
40037686 CCCTCAAATTGTAAAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCAAATTACCCTCGATTTATAGAATTATCGTTTTA
** * *
40037740 CCCTCAATTTATAAAATTACCATTTTACCCTCGATTT-TCAAAATTATCATTTTA
1 CCCTCAATTTATAAAATTACCAAATTACCCTCGATTTAT-AGAATTATCGTTTTA
* * * ***
40037794 CCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTATCGTTTTA
1 CCCTCAATTTATAAAATTACCAAATTACCCTCGATTTATAGAATTATCGTTTTA
* * * * *
40037848 CGCTCGATTTACAAAATTACTAAAATACCC
1 CCCTCAATTTATAAAATTACCAAATTACCC
40037878 ATGTAAGGTA
Statistics
Matches: 112, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
53 1 0.01
54 110 0.98
55 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
CCCTCAATTTATAAAATTACCAAATTACCCTCGATTTATAGAATTATCGTTTTA
Found at i:40037771 original size:81 final size:81
Alignment explanation
Indices: 40037686--40037877 Score: 208
Period size: 81 Copynumber: 2.4 Consensus size: 81
40037676 TATTGAAATG
40037686 CCCTCAAATTGT-AAAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTTTACCCTCAATTT
1 CCCTC-AATTGTCAAAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTTTACCCTCAATTT
40037750 ATAAAATTACCATTTTA
65 ATAAAATTACCATTTTA
* * * *** * * *
40037767 CCCTCGATTTTCAAAATTATCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTA
1 CCCTCAATTGTCAAAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTTTACCCTCAATTTA
* * *
40037832 TAGAATTATCGTTTTA
66 TAAAATTACCATTTTA
* * * *
40037848 CGCTCGATT-TACAAAATTACTAAAATACCC
1 CCCTCAATTGT-CAAAATTACCAAAGTACCC
40037878 ATGTAAGGTA
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
80 5 0.05
81 86 0.95
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (81 bp):
CCCTCAATTGTCAAAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTTTACCCTCAATTTA
TAAAATTACCATTTTA
Found at i:40037892 original size:27 final size:27
Alignment explanation
Indices: 40037870--40038110 Score: 306
Period size: 27 Copynumber: 9.0 Consensus size: 27
40037860 AAAATTACTA
* *
40037870 AAATACCCATGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
40037897 AAATACCCATGTAAGGTAGAACTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
40037924 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
40037951 GAATACCTCTGTAGGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
40037978 AAATACCCCTGTAGGGTAGAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
*
40038004 AGAATACCACTGTAGGGTAGAATTACCG
1 A-AATACCCCTGTAGGGTAGAATTACCG
* **
40038032 AAATACCCCTGTAGAGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
40038059 AAATACCCCTGTAGGGTGGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
40038086 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
40038111 ATTTTGCCCC
Statistics
Matches: 188, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
26 17 0.09
27 170 0.90
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:40038579 original size:21 final size:22
Alignment explanation
Indices: 40038540--40038600 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
40038530 AAGCCTTCTG
* * *
40038540 ATTATTGCTTTGTGTCAACCTC
1 ATTATGGCTCTGTGCCAACCTC
*
40038562 A-TATGGCTCTGTGCCAACCTG
1 ATTATGGCTCTGTGCCAACCTC
*
40038583 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
40038601 ATGTATTTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTC
Found at i:40038591 original size:22 final size:22
Alignment explanation
Indices: 40038537--40038600 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
40038527 TTAAAGCCTT
* * *
40038537 CTGATTATTGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
40038559 CTCA-TATGGCTCTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
40038580 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
40038601 ATGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:40038795 original size:26 final size:27
Alignment explanation
Indices: 40038759--40038831 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
40038749 ATTCTGTTAA
* *
40038759 GTGGCTTTGCCACATTATCTAT-TCTG
1 GTGGCTCTGCCACAATATCTATATCTG
*
40038785 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTATATCTG
* * *
40038812 GTGACTCAGTCACAATATCT
1 GTGGCTCTGCCACAATATCT
40038832 GATTACTGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 19 0.47
27 21 0.52
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTATATCTG
Found at i:40039007 original size:6 final size:6
Alignment explanation
Indices: 40038992--40039079 Score: 81
Period size: 6 Copynumber: 14.3 Consensus size: 6
40038982 ATTCTGTTAG
* * *
40038992 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
40039041 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CT
40039080 AGTTCTAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.04
6 57 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:40039064 original size:37 final size:31
Alignment explanation
Indices: 40038980--40039079 Score: 155
Period size: 31 Copynumber: 3.2 Consensus size: 31
40038970 TTTTGATTTT
* *
40038980 TGATTCTGTTAGCTGATACTGATTCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
40039011 TGATTCTGTTACCTGATACTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
40039042 TGATTCTGTCACCTAATTCTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
40039073 TGATTCT
1 TGATTCT
40039080 AGTTCTAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:40040982 original size:27 final size:26
Alignment explanation
Indices: 40040952--40041130 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 26
40040942 TTAGTTTACC
*
40040952 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTA-CAAAATACCCCTAGTTTGTA
* * *
40040979 AAATTACGAAAATACCCTTGGTTTATA
1 AAATTAC-AAAATACCCCTAGTTTGTA
40041006 AAATTACGAAAATACCCCTAGTTTGTA
1 AAATTAC-AAAATACCCCTAGTTTGTA
*
40041033 ATATTACCAAAATACCCCTAGTTTGTA
1 AAATTA-CAAAATACCCCTAGTTTGTA
*
40041060 AAATTATCAAAATACCCCCAGTTTGTA
1 AAATTA-CAAAATACCCCTAGTTTGTA
* * *
40041087 AAATTACCAAAATACTCCTAATTTGTG
1 AAATTA-CAAAATACCCCTAGTTTGTA
40041114 AAATTACTAAAATACCC
1 AAATTAC-AAAATACCC
40041131 TCAACTTGTA
Statistics
Matches: 134, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 131 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATTACAAAATACCCCTAGTTTGTA
Found at i:40041010 original size:54 final size:54
Alignment explanation
Indices: 40040943--40041213 Score: 228
Period size: 54 Copynumber: 5.0 Consensus size: 54
40040933 TAGAATACTT
** * * *
40040943 TAGTTTACCAAATTATCAAAATACCCCTGGTTTGTAAAATTACGAAAATACCCT
1 TAGTTTATAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
* *
40040997 TGGTTTATAAAATTA-CGAAAATACCCCTAGTTTGTAATATTACCAAAATACCCC
1 TAGTTTATAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
* * *
40041051 TAGTTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTACCAAAATACTCC
1 TAGTTTATAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
* * * ** ***
40041105 TAATTTGTGAAATTA-CTAAAATA-CCCTCAACTTGTAAAATTATTGAAATA-CCC
1 TAGTTTATAAAATTATC-AAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCC
* ** * * ** *
40041158 TCGACCTGTAAAATTATTAAAATA-CCCTCAACTTGTAAAATTACCAAAGTACCCC
1 TAG-TTTATAAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCC
40041213 T
1 T
40041214 GAATTATAGA
Statistics
Matches: 179, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
53 8 0.04
54 166 0.93
55 5 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TAGTTTATAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC
Found at i:40041089 original size:81 final size:81
Alignment explanation
Indices: 40040952--40041157 Score: 238
Period size: 81 Copynumber: 2.5 Consensus size: 81
40040942 TTAGTTTACC
* * *** *
40040952 AAATTATCAAAATACCCCTGGTTTGTAAAATTA-CGAAAATACCCTTGGTTTATAAAATTACGAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTATC-AAAATACCCCCAGTTTATAAAATTACCAA
*
40041016 AATACCCCTAGTTTGT-
65 AATACCCCTAATTTGTG
*
40041032 AATATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTACCAA
1 AA-ATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCCAGTTTATAAAATTACCAA
*
40041097 AATACTCCTAATTTGTG
65 AATACCCCTAATTTGTG
* ** **
40041114 AAATTACTAAAATA-CCCTCAACTTGTAAAATTATTGAAATACCC
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTATCAAAATACCC
40041158 TCGACCTGTA
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
80 6 0.06
81 99 0.92
82 3 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCCAGTTTATAAAATTACCAAA
ATACCCCTAATTTGTG
Found at i:40041139 original size:27 final size:27
Alignment explanation
Indices: 40040974--40041211 Score: 178
Period size: 27 Copynumber: 8.8 Consensus size: 27
40040964 TACCCCTGGT
* ****
40040974 TTGTAAAATTACGAAAATACCCTTGGT
1 TTGTAAAATTACTAAAATACCCTCAAC
* * **
40041001 TTATAAAATTACGAAAATACCC-CTAGT
1 TTGTAAAATTACTAAAATACCCTC-AAC
* * **
40041028 TTGTAATATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACTAAAATACCCTC-AAC
* **
40041055 TTGTAAAATTA-TCAAAATACCCCCAGT
1 TTGTAAAATTACT-AAAATACCCTCAAC
* *
40041082 TTGTAAAATTACCAAAATACTCCT-AAT
1 TTGTAAAATTACTAAAATAC-CCTCAAC
*
40041109 TTGTGAAATTACTAAAATACCCTCAAC
1 TTGTAAAATTACTAAAATACCCTCAAC
* * *
40041136 TTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTACTAAAATACCCTCAAC
* *
40041163 CTGTAAAATTATTAAAATACCCTCAAC
1 TTGTAAAATTACTAAAATACCCTCAAC
* *
40041190 TTGTAAAATTACCAAAGTACCC
1 TTGTAAAATTACTAAAATACCC
40041212 CTGAATTATA
Statistics
Matches: 180, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
26 3 0.02
27 174 0.97
28 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCTCAAC
Found at i:40041168 original size:81 final size:79
Alignment explanation
Indices: 40041004--40041213 Score: 208
Period size: 81 Copynumber: 2.6 Consensus size: 79
40040994 CCTTGGTTTA
* * **
40041004 TAAAATTACGAAAATACCCCTAGTTTGTAATATTACCAAAATACCCCTAGTTTGTAAAATTATCA
1 TAAAATTACCAAAATA-CCCTAATTTGTAA-ATTACCAAAATACCCCTAACTTGTAAAATTATCA
**
40041069 AAATACCCCCAGTTTG
64 AAATACCCCCAGCCTG
* *
40041085 TAAAATTACCAAAATACTCCTAATTTGTGAAATTACTAAAATA-CCCTCAACTTGTAAAATTATT
1 TAAAATTACCAAAATAC-CCTAATTTGT-AAATTACCAAAATACCCCT-AACTTGTAAAATTATC
* *
40041149 GAAATACCCTC-GACCTG
63 AAAATACCCCCAG-CCTG
** * *
40041166 TAAAATTATTAAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCT
1 TAAAATTACCAAAATACCCT-AATTTGT-AAATTACCAAAATACCCCT
40041214 GAATTATAGA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
80 9 0.08
81 92 0.86
82 6 0.06
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (79 bp):
TAAAATTACCAAAATACCCTAATTTGTAAATTACCAAAATACCCCTAACTTGTAAAATTATCAAA
ATACCCCCAGCCTG
Done.