Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 289 of 322
Found at i:95994987 original size:27 final size:27
Alignment explanation
Indices: 95994947--95995058 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
95994937 AGGAAGCGTC
*
95994947 CTGGTGGCTGTGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
95994974 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
95995001 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
95995029 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
95995055 CTGG
1 CTGG
95995059 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:95995053 original size:54 final size:54
Alignment explanation
Indices: 95994947--95995058 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
95994937 AGGAAGCGTC
* * *
95994947 CTGGTGGCTGTGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* *
95995001 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
95995055 CTGG
1 CTGG
95995059 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:96001853 original size:27 final size:26
Alignment explanation
Indices: 96001795--96001908 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 26
96001785 AGGAAGCGTC
* *
96001795 CTGGTGGCTGTGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
96001823 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
96001850 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
96001878 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
96001904 CTGGT
1 CTGGT
96001909 AGCCATGCTG
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 8 0.10
27 39 0.49
28 32 0.41
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:96001880 original size:55 final size:54
Alignment explanation
Indices: 96001795--96001908 Score: 167
Period size: 55 Copynumber: 2.1 Consensus size: 54
96001785 AGGAAGCGTC
* *
96001795 CTGGTGGCTGTGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* *
96001850 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
96001904 CTGGT
1 CTGGT
96001909 AGCCATGCTG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
54 21 0.39
55 33 0.61
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:96005836 original size:67 final size:70
Alignment explanation
Indices: 96005728--96005869 Score: 209
Period size: 67 Copynumber: 2.1 Consensus size: 70
96005718 GAGGAAGCGT
* * *
96005728 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC-ATATAT-T-TGTTCTGGTGACTTAGTCA
1 TCTGGCAGCCTCGCTGCAATCTAGTGGCCTCGCCACAATATATATCTGTTCTGGTGACCTAGCCA
96005790 CAATA
66 CAATA
* *
96005795 TCTGGCAGCCTCGCTGCAATCTAGTGGCTTCGCCACATATATATATCTGTTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCGCTGCAATCTAGTGGCCTCGCCACA-ATATATATCTGTTCTGGTGACCTAGCC
96005860 ACAATA
65 ACAATA
96005866 TCTG
1 TCTG
96005870 TATCTGGTGA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 34 0.52
69 6 0.09
70 1 0.02
71 25 0.38
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (70 bp):
TCTGGCAGCCTCGCTGCAATCTAGTGGCCTCGCCACAATATATATCTGTTCTGGTGACCTAGCCA
CAATA
Found at i:96005866 original size:26 final size:27
Alignment explanation
Indices: 96005837--96005896 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
96005827 CCACATATAT
*
96005837 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
96005863 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
96005890 ATATCTG
1 ATATCTG
96005897 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:96008245 original size:39 final size:39
Alignment explanation
Indices: 96008202--96008279 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
96008192 TTAAACGTTG
*
96008202 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
* *
96008241 AGGTTAGCATTTGGGTTGTTCAATGTGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
96008280 TTAGGGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:96010124 original size:47 final size:49
Alignment explanation
Indices: 96009895--96010163 Score: 474
Period size: 49 Copynumber: 5.6 Consensus size: 49
96009885 TTAAACCCAT
96009895 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
96009944 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
96009993 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* *
96010042 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* *
96010091 ATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
96010138 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
96010164 TCCCGAAGGG
Statistics
Matches: 213, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
47 52 0.24
48 7 0.03
49 154 0.72
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:96010338 original size:37 final size:37
Alignment explanation
Indices: 96010282--96010361 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
96010272 CCGGGCTCTA
* * *
96010282 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
96010319 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
96010356 AAGACT
1 AAGACT
96010362 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:96016106 original size:21 final size:21
Alignment explanation
Indices: 96016082--96016122 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
96016072 TTAAAACAAG
96016082 TGAAGAAAAAG-AAAAAGAGAA
1 TGAA-AAAAAGCAAAAAGAGAA
*
96016103 TGAAAAAGAGCAAAAAGAGA
1 TGAAAAAAAGCAAAAAGAGA
96016123 TTGAGAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.68, C:0.02, G:0.24, T:0.05
Consensus pattern (21 bp):
TGAAAAAAAGCAAAAAGAGAA
Found at i:96023496 original size:42 final size:42
Alignment explanation
Indices: 96023394--96023484 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
96023384 GGACAAATGA
*
96023394 CCCGTGTTCAAGCCTGTGTCAACCACACGGCTGAGACACACG
1 CCCGTGTTCAAGCCCGTGTCAACCACACGGCTGAGACACACG
*
96023436 CCCGTGTTCAAGCCCGTGTCAACCACATGGCTGAGACACACG
1 CCCGTGTTCAAGCCCGTGTCAACCACACGGCTGAGACACACG
96023478 CCCGTGT
1 CCCGTGT
96023485 CTCTATCCGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (42 bp):
CCCGTGTTCAAGCCCGTGTCAACCACACGGCTGAGACACACG
Found at i:96027272 original size:27 final size:27
Alignment explanation
Indices: 96027242--96027476 Score: 178
Period size: 27 Copynumber: 8.7 Consensus size: 27
96027232 TGTAGGGTAG
* *
96027242 AATTACTGAAATACCCTTGGTTTATAA
1 AATTACAGAAATACCCTTGATTTATAA
* * *
96027269 AATTACAAAAATACCCCT-AGTTTGTAA
1 AATTACAGAAATACCCTTGA-TTTATAA
* * *
96027296 ACTTATC-GAAATACCCTCGAATTATAA
1 AATTA-CAGAAATACCCTTGATTTATAA
*
96027323 AATTACCA-AAATACCCTTGATTTGTAA
1 AATTA-CAGAAATACCCTTGATTTATAA
96027350 AATTACAGAAATACCAC-TGATTTGA-AA
1 AATTACAGAAATACC-CTTGATTT-ATAA
* * * **
96027377 AATTACCGAAATGCCCTTAATTTGGAA
1 AATTACAGAAATACCCTTGATTTATAA
* * * *
96027404 AATTATAAAAATACCCCTGATTTACAA
1 AATTACAGAAATACCCTTGATTTATAA
*
96027431 AATTACAGAAATACCATT-AGTTT-TCAA
1 AATTACAGAAATACCCTTGA-TTTAT-AA
*
96027458 AATTACCGAAATACCCTTG
1 AATTACAGAAATACCCTTG
96027477 GTTTGCAGAT
Statistics
Matches: 160, Mismatches: 36, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
26 4 0.03
27 153 0.96
28 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGATTTATAA
Found at i:96027286 original size:54 final size:54
Alignment explanation
Indices: 96027216--96027338 Score: 126
Period size: 54 Copynumber: 2.3 Consensus size: 54
96027206 GTAGGCTAAT
* * * **
96027216 ATTACTAAAATGCCCCT-GTAGGGTAGAA-TTA-CTGAAATACCCTTGGTTTATAAA
1 ATTACAAAAATACCCCTAGT-GGGTA-AACTTATC-GAAATACCCTCGAATTATAAA
**
96027270 ATTACAAAAATACCCCTAGTTTGTAAACTTATCGAAATACCCTCGAATTATAAA
1 ATTACAAAAATACCCCTAGTGGGTAAACTTATCGAAATACCCTCGAATTATAAA
*
96027324 ATTACCAAAATACCC
1 ATTACAAAAATACCC
96027339 TTGATTTGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 2 0.03
54 53 0.91
55 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (54 bp):
ATTACAAAAATACCCCTAGTGGGTAAACTTATCGAAATACCCTCGAATTATAAA
Found at i:96027387 original size:81 final size:80
Alignment explanation
Indices: 96027250--96027474 Score: 256
Period size: 81 Copynumber: 2.8 Consensus size: 80
96027240 AGAATTACTG
* * * * * *
96027250 AAATACCCTTGGTTTATAAAATTACAAAAATACCCCTAGTTTGTAAACTTATCGAAATACCCTCG
1 AAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAATACCCT-G
*
96027315 AATTAT-AAAATTACCA
65 AATT-TGAAAATTACAA
* * *
96027331 AAATACCCTTGATTTGTAAAATTACAGAAATACCACT-GATTTGAAAAATTACCGAAATGCCCTT
1 AAATACCCTTGATTTATAAAATTACAGAAATACCACTAG-TTTGAAAAATTACCGAAATACCCTG
*
96027395 AATTTGGAAAATTATAA
65 AATTT-GAAAATTACAA
* * * **
96027412 AAATACCCCTGATTTACAAAATTACAGAAATACCATTAGTTTTCAAAATTACCGAAATACCCT
1 AAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAATACCCT
96027475 TGGTTTGCAG
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 5 0.04
81 115 0.94
82 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (80 bp):
AAATACCCTTGATTTATAAAATTACAGAAATACCACTAGTTTGAAAAATTACCGAAATACCCTGA
ATTTGAAAATTACAA
Found at i:96027490 original size:27 final size:27
Alignment explanation
Indices: 96027242--96027503 Score: 157
Period size: 27 Copynumber: 9.7 Consensus size: 27
96027232 TGTAGGGTAG
* **
96027242 AATTACTGAAATACCCTTGGTTTATAA
1 AATTACCGAAATACCCTTGGTTTGCAA
** * * *
96027269 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * * ** **
96027296 ACTTATCGAAATACCCTCGAATTATAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * *
96027323 AATTACCAAAATACCCTTGATTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * *
96027350 AATTACAGAAATACCAC-TGATTTGAAA
1 AATTACCGAAATACC-CTTGGTTTGCAA
* ** *
96027377 AATTACCGAAATGCCCTTAATTTGGAA
1 AATTACCGAAATACCCTTGGTTTGCAA
*** * * *
96027404 AATTATAAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * * *
96027431 AATTACAGAAATACCATTAGTTTTCAA
1 AATTACCGAAATACCCTTGGTTTGCAA
*
96027458 AATTACCGAAATACCCTTGGTTTGCAG
1 AATTACCGAAATACCCTTGGTTTGCAA
* * *
96027485 ATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTG
96027504 TAGGGTGAAA
Statistics
Matches: 182, Mismatches: 51, Indels: 4
0.77 0.22 0.02
Matches are distributed among these distances:
26 1 0.01
27 180 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGGTTTGCAA
Found at i:96027816 original size:41 final size:41
Alignment explanation
Indices: 96027752--96027861 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
96027742 TTAAGAATCG
* * * * *
96027752 CATGGTCGCTTGACGACCATGGATTCA-TCGATTGAGGATCA
1 CATGGTTGCTTGACGACCGTGGATCCACT-GATTAAGGACCA
* * *
96027793 CATGGTTGCTTGACAATCGTGGATCCACTGATTAAGGACCG
1 CATGGTTGCTTGACGACCGTGGATCCACTGATTAAGGACCA
96027834 CATGGTTGCTTGACGACCGTGGATCCAC
1 CATGGTTGCTTGACGACCGTGGATCCAC
96027862 CGGTGGCTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (41 bp):
CATGGTTGCTTGACGACCGTGGATCCACTGATTAAGGACCA
Found at i:96032345 original size:26 final size:27
Alignment explanation
Indices: 96032243--96032375 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
96032233 ATCACTTGCC
* *
96032243 CTACAGGGGTATTTCGATAATTTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
*
96032270 CCACAAGGGTATTTCGGTAATTTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
* *
96032297 CTACAAGGGTATTTTGGTAATTTTATA
1 CTACAAGGGTATTTCGGTAATTTTACA
*
96032324 CTATAAGGGTATTT-GGTAA-TTTACA
1 CTACAAGGGTATTTCGGTAATTTTACA
* **
96032349 -AATCGGGGGTATTTCGGTAATTTTACA
1 CTA-CAAGGGTATTTCGGTAATTTTACA
96032376 ATCTGAGGGT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.01
25 13 0.14
26 10 0.11
27 67 0.74
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (27 bp):
CTACAAGGGTATTTCGGTAATTTTACA
Found at i:96039326 original size:43 final size:41
Alignment explanation
Indices: 96039226--96039356 Score: 147
Period size: 43 Copynumber: 3.1 Consensus size: 41
96039216 ATATCGATTA
* * *
96039226 ATCGATGCCACTGTCCCAAATAAGGTCTTACACGAATCAAAT
1 ATCGATGCCAC-GTCCCAAACATGGTCTTACACGAATCACAT
* *
96039268 AT-GATGCCGATGTCCCAGACATGGTCTTACACGTAATCACAT
1 ATCGATGCC-ACGTCCCAAACATGGTCTTACACG-AATCACAT
* *
96039310 ATCGATGCCAACGTCCCAAACGTGGTCTTACACGAGAACACAT
1 ATCGATGCC-ACGTCCCAAACATGGTCTTACACGA-ATCACAT
96039353 ATCG
1 ATCG
96039357 GAAATCCTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
41 25 0.33
42 13 0.17
43 37 0.49
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (41 bp):
ATCGATGCCACGTCCCAAACATGGTCTTACACGAATCACAT
Found at i:96040495 original size:14 final size:15
Alignment explanation
Indices: 96040478--96040506 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
96040468 ACACAAAAAT
96040478 TTCACACA-TATAAA
1 TTCACACATTATAAA
96040492 TTCACACATTATAAA
1 TTCACACATTATAAA
96040507 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:96041027 original size:16 final size:18
Alignment explanation
Indices: 96040996--96041028 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
96040986 TTAATTATAA
96040996 TTAATTAAGCTTTAATCC
1 TTAATTAAGCTTTAATCC
96041014 TTAATT-AG-TTTAATC
1 TTAATTAAGCTTTAATC
96041029 TAATGACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (18 bp):
TTAATTAAGCTTTAATCC
Found at i:96042120 original size:22 final size:22
Alignment explanation
Indices: 96042078--96042120 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
96042068 AAAAATATTT
**
96042078 TATCTTCTCTTTTTTTTTTTAC
1 TATCTTCTCTTTTTTCCTTTAC
96042100 TATCTTC-CTCTTTTTCCTTTA
1 TATCTTCTCT-TTTTTCCTTTA
96042121 TTTTTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.67
Consensus pattern (22 bp):
TATCTTCTCTTTTTTCCTTTAC
Found at i:96047912 original size:39 final size:39
Alignment explanation
Indices: 96047866--96047994 Score: 177
Period size: 39 Copynumber: 3.1 Consensus size: 39
96047856 GCTCTGATGA
96047866 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
96047905 GCTTCAGTTAGCCTTCGGGCTTCCGGGCTTTCGTCTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCC--G---T--T-TAGCACTTATGT
96047952 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
96047991 GCTT
1 GCTT
96047995 TAGCTAGATT
Statistics
Matches: 80, Mismatches: 2, Indels: 16
0.82 0.02 0.16
Matches are distributed among these distances:
39 39 0.49
40 1 0.01
41 1 0.01
42 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 35 0.44
ACGTcount: A:0.12, C:0.28, G:0.24, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:96047948 original size:47 final size:47
Alignment explanation
Indices: 96047879--96047976 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
96047869 TCAGTTAGCC
* *
96047879 TCCGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCT
1 TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCT
*
96047926 TCCGGGCTTTCGTCTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCT
1 TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCT
96047973 TCCG
1 TCCG
96047977 TTTAGCACTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.10, C:0.30, G:0.26, T:0.35
Consensus pattern (47 bp):
TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCT
Found at i:96048010 original size:39 final size:39
Alignment explanation
Indices: 96047926--96048013 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 39
96047916 CCTTCGGGCT
* * *
96047926 TCCGGGCTTTCGTCTAGCACTTATGTGCTTCAGTTAGCC
1 TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGCTAGAC
* * *
96047965 TCCGGGCTTCCGTTTAGCACTTATGTGCTTTAGCTAGAT
1 TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGCTAGAC
*
96048004 TTCGGGCTTC
1 TCCGGGCTTC
96048014 AGATCACGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
TCCGGGCTTCCGTCTAGCACTTATGTGCTTCAGCTAGAC
Found at i:96055724 original size:6 final size:6
Alignment explanation
Indices: 96055713--96055770 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
96055703 ACTAAAGCGA
* ** *
96055713 TCTCTT TCTCTT TCTCTT TCTCTA TCTCGC TCTCTA TCTCGTT T-TCTT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTC-TT TCTCTT
*
96055761 TCCCTT TCTC
1 TCTCTT TCTC
96055771 GANNNNNNNN
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 3 0.07
6 37 0.88
7 2 0.05
ACGTcount: A:0.03, C:0.36, G:0.03, T:0.57
Consensus pattern (6 bp):
TCTCTT
Found at i:96056690 original size:21 final size:22
Alignment explanation
Indices: 96056656--96056697 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
96056646 CTCGCTACCG
96056656 ATTTGGTAACAATAAAAAATTA
1 ATTTGGTAACAATAAAAAATTA
* *
96056678 ATTT-GTAATAATATAAAATT
1 ATTTGGTAACAATAAAAAATT
96056698 TCTTCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (22 bp):
ATTTGGTAACAATAAAAAATTA
Found at i:96058817 original size:22 final size:22
Alignment explanation
Indices: 96058792--96058847 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
96058782 TCAAAGTCAA
*
96058792 TGTCTTGACATCCACACCTTGG
1 TGTCGTGACATCCACACCTTGG
*
96058814 TGTCGTGACATCTACACCTTGG
1 TGTCGTGACATCCACACCTTGG
*
96058836 TGTCGCGACATC
1 TGTCGTGACATC
96058848 AGCAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.30
Consensus pattern (22 bp):
TGTCGTGACATCCACACCTTGG
Found at i:96061575 original size:21 final size:21
Alignment explanation
Indices: 96061550--96061599 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
96061540 GCCTAAGTGT
96061550 AAAAGTGATTCATATGTGTTA
1 AAAAGTGATTCATATGTGTTA
96061571 AAAAGTGATTCATATGTGTTA
1 AAAAGTGATTCATATGTGTTA
96061592 AAAAGTGA
1 AAAAGTGA
96061600 AATTACCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (21 bp):
AAAAGTGATTCATATGTGTTA
Found at i:96066183 original size:40 final size:40
Alignment explanation
Indices: 96066120--96066300 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
96066110 ATTCGGATTG
*
96066120 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
96066159 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
96066199 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
96066239 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
96066279 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
96066301 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 29 0.22
40 100 0.78
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:96069056 original size:26 final size:25
Alignment explanation
Indices: 96069022--96069075 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
96069012 CTTTCTCCTT
* * * *
96069022 TTTCTTTTCTTTTCTTCTTTCTTTC
1 TTTCTTTTCGTTCCTTCTCTATTTC
96069047 TTTCTATTTCGTTCCTTCTCTATTTC
1 TTTCT-TTTCGTTCCTTCTCTATTTC
96069073 TTT
1 TTT
96069076 TTCTTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTCTTTTCGTTCCTTCTCTATTTC
Found at i:96069244 original size:3 final size:3
Alignment explanation
Indices: 96069238--96069279 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
96069228 CTCAATTAAT
96069238 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96069280 GTAAATATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:96076506 original size:12 final size:13
Alignment explanation
Indices: 96076484--96076543 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 13
96076474 ATTTCTCCTT
96076484 TTTCTTTTCTTTTC
1 TTTC-TTTCTTTTC
96076498 -TTCTTTC-TTTC
1 TTTCTTTCTTTTC
96076509 TTTCTTTCTATTTC
1 TTTCTTTCT-TTTC
96076523 GTTTCTTCTCTGTTTC
1 -TTTCTT-TCT-TTTC
96076539 TTTCT
1 TTTCT
96076544 CTTGTTTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 4 0.10
12 11 0.28
13 3 0.08
14 4 0.10
15 11 0.28
16 7 0.17
ACGTcount: A:0.02, C:0.23, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:96076509 original size:30 final size:30
Alignment explanation
Indices: 96076484--96076543 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
96076474 ATTTCTCCTT
*
96076484 TTTCT-TTTCTTTTCTTCTTTCTTTCTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTCTTTC
* *
96076513 TTTCTATTTCGTTTCTTCTCTGTTTCTTTC
1 TTTCTATTTCGTTTCTTCTTTCTTTCTTTC
96076543 T
1 T
96076544 CTTGTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.02, C:0.23, G:0.03, T:0.72
Consensus pattern (30 bp):
TTTCTATTTCGTTTCTTCTTTCTTTCTTTC
Found at i:96076739 original size:3 final size:3
Alignment explanation
Indices: 96076727--96076759 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
96076717 CAATTAATTG
96076727 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
96076760 GTAAATATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:96077213 original size:104 final size:104
Alignment explanation
Indices: 96077031--96077233 Score: 397
Period size: 104 Copynumber: 2.0 Consensus size: 104
96077021 ATTTTTTTCT
96077031 AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
1 AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
*
96077096 GATGGGTCGTTACATTGTCACTTTCAAGATTGCTGAAAA
66 GATGGGTCATTACATTGTCACTTTCAAGATTGCTGAAAA
96077135 AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
1 AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
96077200 GATGGGTCATTACATTGTCACTTTCAAGATTGCT
66 GATGGGTCATTACATTGTCACTTTCAAGATTGCT
96077234 TGTAAGTGTA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 98 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (104 bp):
AAATATTTACGAACTCATTTTCCTAAGACGGAAGCCCTAAACTCACTTTTCCGGTGCCCGTGAAA
GATGGGTCATTACATTGTCACTTTCAAGATTGCTGAAAA
Found at i:96078047 original size:42 final size:42
Alignment explanation
Indices: 96077959--96078065 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 42
96077949 ACATTAGAGT
* **
96077959 TATGAG-TTTATGTGTAAGACCATATCTGAGATATGACATCGT
1 TATGAGATTT-TGTGTAAGACCATATCTGAGACATGACATCAA
* * **
96078001 TATGAGATTTTGTGTAAGACCATGTCTGGGACATTCCATCAA
1 TATGAGATTTTGTGTAAGACCATATCTGAGACATGACATCAA
* *
96078043 TATGAGA-ATCGTGTAAGACCATA
1 TATGAGATTTTGTGTAAGACCATA
96078066 GCTGGACTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 13 0.24
42 38 0.70
43 3 0.06
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
TATGAGATTTTGTGTAAGACCATATCTGAGACATGACATCAA
Found at i:96079934 original size:43 final size:42
Alignment explanation
Indices: 96079886--96080036 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 42
96079876 TGTAACTACA
* *
96079886 TGTAAGACCATGTCTGGGACATTGGCATTGTCTTGTGATTATG
1 TGTAAGACCATGTCTGGGACATTGACATCGT-TTGTGATTATG
*
96079929 TGTAAGACCATGTCTGGGACATTGACATCGTATTATGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGACATCGT-TTGTGATTAT-G
* * * * * **
96079972 TGTAAGACCTTGTCTGGGACAGTGACATCGATATGTGGTAACA
1 TGTAAGACCATGTCTGGGACATTGACATCG-TTTGTGATTATG
*
96080015 TGTAAGACCATATCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
96080037 GGCATTGTAA
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 88 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGACATCGTTTGTGATTATG
Found at i:96081901 original size:28 final size:28
Alignment explanation
Indices: 96081869--96081935 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
96081859 AATGAGATTG
*
96081869 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
96081897 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
96081925 GCACTAAGTGT
1 GCACTAAGTGT
96081936 ACGGACTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:96086801 original size:28 final size:28
Alignment explanation
Indices: 96086769--96086923 Score: 141
Period size: 28 Copynumber: 5.5 Consensus size: 28
96086759 TGACATCTAT
*
96086769 AGAGATAGTTCACTGGGACAGTAAACAC
1 AGAGATAGTTCACTGGGACAATAAACAC
** * * * *
96086797 AGAGATAGCCCGCGGGGATAATAAACAT
1 AGAGATAGTTCACTGGGACAATAAACAC
* * *
96086825 AGAGATAG-TCTACTGGGACAGTAAATAT
1 AGAGATAGTTC-ACTGGGACAATAAACAC
* *
96086853 AGAGATAGTCCGCTGGGACAATAAACAC
1 AGAGATAGTTCACTGGGACAATAAACAC
* *
96086881 AAAGATAGTTCACTGGGACAATACAAAAC
1 AGAGATAGTTCACTGGGACAATA-AACAC
* *
96086910 ATAGATAATTCACT
1 AGAGATAGTTCACT
96086924 AGAATAATAA
Statistics
Matches: 100, Mismatches: 24, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
27 1 0.01
28 82 0.82
29 17 0.17
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (28 bp):
AGAGATAGTTCACTGGGACAATAAACAC
Found at i:96086840 original size:56 final size:56
Alignment explanation
Indices: 96086767--96086900 Score: 189
Period size: 56 Copynumber: 2.4 Consensus size: 56
96086757 CATGACATCT
*
96086767 ATAGAGATAGTTCACTGGGACAGTAAACACAGAGATAGCCCGCGGGGATAATAAAC
1 ATAGAGATAGTTCACTGGGACAGTAAACACAGAGATAGCCCGCGGGGACAATAAAC
* * * *
96086823 ATAGAGATAG-TCTACTGGGACAGTAAATATAGAGATAGTCCGCTGGGACAATAAAC
1 ATAGAGATAGTTC-ACTGGGACAGTAAACACAGAGATAGCCCGCGGGGACAATAAAC
* *
96086879 ACAAAGATAGTTCACTGGGACA
1 ATAGAGATAGTTCACTGGGACA
96086901 ATACAAAACA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
55 2 0.03
56 65 0.94
57 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (56 bp):
ATAGAGATAGTTCACTGGGACAGTAAACACAGAGATAGCCCGCGGGGACAATAAAC
Found at i:96086923 original size:29 final size:28
Alignment explanation
Indices: 96086865--96086941 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
96086855 AGATAGTCCG
* *
96086865 CTGGGACAATAAACACAAAGATAGTTCA
1 CTGGGACAATAAAAACAAAGATAATTCA
*
96086893 CTGGGACAATACAAAACATAGATAATTCA
1 CTGGGACAATA-AAAACAAAGATAATTCA
* * *
96086922 CTAGAATAATAAAACACAAA
1 CTGGGACAATAAAA-ACAAA
96086942 ATATATAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 14 0.35
29 26 0.65
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.18
Consensus pattern (28 bp):
CTGGGACAATAAAAACAAAGATAATTCA
Found at i:96089757 original size:19 final size:17
Alignment explanation
Indices: 96089725--96089759 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
96089715 ACAAACATAT
96089725 CTCAACCAAATAAATAC
1 CTCAACCAAATAAATAC
96089742 CTCATACCATAATAAATA
1 CTCA-ACCA-AATAAATA
96089760 TTTGAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (17 bp):
CTCAACCAAATAAATAC
Found at i:96103052 original size:15 final size:16
Alignment explanation
Indices: 96103029--96103068 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
96103019 GGGATTTGGG
*
96103029 AAAAGAAAA-TAAATT
1 AAAATAAAACTAAATT
*
96103044 AAAATAAAACTAATTT
1 AAAATAAAACTAAATT
96103060 AAAATAAAA
1 AAAATAAAA
96103069 AGAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATAAAACTAAATT
Found at i:96107350 original size:23 final size:23
Alignment explanation
Indices: 96107324--96107370 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
96107314 TTGGACGTTC
*
96107324 TCCTCTTT-TCCTTTCTTTTGTTT
1 TCCT-TTTGTCCTTTCTTTTCTTT
*
96107347 TCCTTTTGTTCTTTCTTTTCTTT
1 TCCTTTTGTCCTTTCTTTTCTTT
96107370 T
1 T
96107371 TTGAAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.72
Consensus pattern (23 bp):
TCCTTTTGTCCTTTCTTTTCTTT
Found at i:96123051 original size:27 final size:27
Alignment explanation
Indices: 96123012--96123122 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
96123002 CCTGGTTTGT
* * *
96123012 AAATTATCG-AATACCCTTATGGTGTA
1 AAATTACCGAAATACCCTTGTAGTGTA
*
96123038 AAATTACCAAAATACCCTTGTAGTGTA
1 AAATTACCGAAATACCCTTGTAGTGTA
96123065 AAATTACCGAAATGA-CCTTGTAGTGTA
1 AAATTACCGAAAT-ACCCTTGTAGTGTA
*
96123092 AAATTACCGAAATACCAC-TGTAGGGTA
1 AAATTACCGAAATACC-CTTGTAGTGTA
96123119 AAAT
1 AAAT
96123123 GACTGTGCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 8 0.11
27 65 0.87
28 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGTAGTGTA
Found at i:96123324 original size:32 final size:32
Alignment explanation
Indices: 96123261--96123324 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
96123251 CTAATGGATA
* *
96123261 TGTGCCAAACATAATACAGTTACCGATGGCTT
1 TGTGCCAAACATAATACAGCTACCGAAGGCTT
** * *
96123293 TGTGCCAATTATAATACCGCTACTGAAGGCTT
1 TGTGCCAAACATAATACAGCTACCGAAGGCTT
96123325 AGAGCCGCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (32 bp):
TGTGCCAAACATAATACAGCTACCGAAGGCTT
Found at i:96126944 original size:104 final size:104
Alignment explanation
Indices: 96126764--96126987 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
96126754 TGTATATAAA
** * *
96126764 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
96126829 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
96126868 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
96126932 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
96126972 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
96126988 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:96127039 original size:71 final size:72
Alignment explanation
Indices: 96126906--96127057 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
96126896 TCATTGGTGG
* *
96126906 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
96126971 GAGGGGT
66 GAGGGGT
***
96126978 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
96127042 GAGGGGT
66 GAGGGGT
96127049 TGCTAAGTG
1 TGCTAAGTG
96127058 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:96131113 original size:22 final size:24
Alignment explanation
Indices: 96131088--96131139 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
96131078 TCAACTTGAA
96131088 AGAGCTTC-CCATT-CAGCTCAAT
1 AGAGCTTCTCCATTCCAGCTCAAT
*
96131110 AGAGCTTCTCGATTCCAGCTCAAT
1 AGAGCTTCTCCATTCCAGCTCAAT
*
96131134 CGAGCT
1 AGAGCT
96131140 CACTATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 8 0.31
23 4 0.15
24 14 0.54
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (24 bp):
AGAGCTTCTCCATTCCAGCTCAAT
Found at i:96138623 original size:24 final size:22
Alignment explanation
Indices: 96138552--96138624 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
96138542 TAGCTCGTAT
* *
96138552 GAGCTTCTCGTTCAACTCGAA-A
1 GAGCTTCCCGTTCAGCTC-AATA
96138574 GAGCTTCCCGTTCAGCTCAATA
1 GAGCTTCCCGTTCAGCTCAATA
*
96138596 GAGCTTCCCGATTCTAGCTCAATC
1 GAGCTTCCCG-TTC-AGCTCAATA
96138620 GAGCT
1 GAGCT
96138625 CACTGTTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
21 2 0.04
22 27 0.60
23 3 0.07
24 13 0.29
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (22 bp):
GAGCTTCCCGTTCAGCTCAATA
Found at i:96140590 original size:43 final size:42
Alignment explanation
Indices: 96140518--96140600 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 42
96140508 GGTTATCGAG
* *
96140518 ATGTGATTACATGTATGAACATTTCTGGGACAGTGGCATTGAT
1 ATGTGATAACATGTAAGAACATTTCTGGGACA-TGGCATTGAT
* *
96140561 ATGTGATAACATGTAAGACCATATT-TGGGATATGGCATTG
1 ATGTGATAACATGTAAGAACAT-TTCTGGGACATGGCATTG
96140601 TACGAAGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 8 0.23
43 25 0.71
44 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (42 bp):
ATGTGATAACATGTAAGAACATTTCTGGGACATGGCATTGAT
Found at i:96141720 original size:27 final size:27
Alignment explanation
Indices: 96141682--96141743 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
96141672 TCTACTAGTC
96141682 GTGTGTGGCACACGAGCAGGCACATGG
1 GTGTGTGGCACACGAGCAGGCACATGG
*
96141709 GTGTGTGGCACACGAGCAGGCTCATGG
1 GTGTGTGGCACACGAGCAGGCACATGG
*
96141736 GCGTGTGG
1 GTGTGTGG
96141744 TCGGCCGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.21, G:0.44, T:0.18
Consensus pattern (27 bp):
GTGTGTGGCACACGAGCAGGCACATGG
Found at i:96144561 original size:28 final size:28
Alignment explanation
Indices: 96144513--96144687 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 28
96144503 TAAGGCAATC
* *
96144513 CTTTCATAATTT-TCCACAAAGGTTTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
* *
96144540 CATTCATGATTTTTCCACAAAGGCTTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
* * *
96144568 CTTTCATGA-TTCACCACAAAAGATTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
96144595 CTTTCATGA-TTCGT-CACAAAGGCTTTT
1 CTTTCATGATTTC-TCCACAAAGGCTTTT
*
96144622 CTTTCATGATTTCGCCACAAAGGCTTTT
1 CTTTCATGATTTCTCCACAAAGGCTTTT
* *
96144650 CTTTTCATGATTTCGCCACAAAGGTTTTT
1 C-TTTCATGATTTCTCCACAAAGGCTTTT
96144679 CTTTCATGA
1 CTTTCATGA
96144688 CTCGCCACAA
Statistics
Matches: 130, Mismatches: 13, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
27 56 0.43
28 47 0.36
29 27 0.21
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (28 bp):
CTTTCATGATTTCTCCACAAAGGCTTTT
Found at i:96144710 original size:27 final size:27
Alignment explanation
Indices: 96144554--96144740 Score: 103
Period size: 27 Copynumber: 6.8 Consensus size: 27
96144544 CATGATTTTT
* * *
96144554 CCACAAAGGCTTTTCTTTCATGATTCA
1 CCACAATGTCTTTTCTTTCATGACTCA
* * * *
96144581 CCACAAAAG-ATTTTCTTTCATGATTCG
1 CCAC-AATGTCTTTTCTTTCATGACTCA
* * * * *
96144608 TCACAAAGGCTTTTCTTTCATGATTTCG
1 CCACAATGTCTTTTCTTTCATGA-CTCA
* * * *
96144636 CCACAAAGGCTTTTCTTTTCATGATTTCG
1 CCACAATGTCTTTTC-TTTCATGA-CTCA
* *
96144665 CCACAAAGGT-TTTTCTTTCATGACTCG
1 CCAC-AATGTCTTTTCTTTCATGACTCA
* *
96144692 CCACAA-GTTCTTTAT-TTTCTTGATTCA
1 CCACAATG-TCTTT-TCTTTCATGACTCA
96144719 CCACAATGTCTTTTCTTTCATG
1 CCACAATGTCTTTTCTTTCATG
96144741 GCGTGTTTAT
Statistics
Matches: 138, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
25 1 0.01
26 8 0.06
27 72 0.52
28 32 0.23
29 22 0.16
30 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (27 bp):
CCACAATGTCTTTTCTTTCATGACTCA
Found at i:96144734 original size:111 final size:108
Alignment explanation
Indices: 96144513--96144740 Score: 260
Period size: 111 Copynumber: 2.1 Consensus size: 108
96144503 TAAGGCAATC
* * * ** *
96144513 CTTTCATAATTTTCCACAAAGGTTTTTCATTCATGATTTTTCCACAAAGGCTTTTCTTTCATGAT
1 CTTTCATGATTTGCCACAAAGGCTTTTCATTCATGATTTCGCCACAAAGGCTTTTCTTTCATGAC
**
96144578 TCACCACAAAAGATTTTCTTTCATGATTCGTCACAAAGGCTTTT
66 TCACCAC-AAAGATTTTCTTTCATGATTCACCACAAAGGCTTTT
* *
96144622 CTTTCATGATTTCGCCACAAAGGCTTTTCTTTTCATGATTTCGCCACAAAGGTTTTTCTTTCATG
1 CTTTCATGATTT-GCCACAAAGGCTTTTC-ATTCATGATTTCGCCACAAAGGCTTTTCTTTCATG
* * * * * *
96144687 ACTCGCCAC-AAGTTCTTTATTTTCTTGATTCACCACAATGTCTTTT
64 ACTCACCACAAAGAT-TTT-CTTTCATGATTCACCACAAAGGCTTTT
96144733 CTTTCATG
1 CTTTCATG
96144741 GCGTGTTTAT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
109 15 0.15
110 17 0.17
111 67 0.68
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (108 bp):
CTTTCATGATTTGCCACAAAGGCTTTTCATTCATGATTTCGCCACAAAGGCTTTTCTTTCATGAC
TCACCACAAAGATTTTCTTTCATGATTCACCACAAAGGCTTTT
Found at i:96149135 original size:28 final size:28
Alignment explanation
Indices: 96149091--96149161 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
96149081 TGGCCCCTTT
*
96149091 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
96149119 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
96149147 AGGCCCAATCACATT
1 AGGCCCAATCACATT
96149162 TATAGTCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:96158504 original size:20 final size:20
Alignment explanation
Indices: 96158476--96158516 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
96158466 TTCATTTATC
*
96158476 AAATGTCATCTCAT-TTCAAT
1 AAATATCAT-TCATATTCAAT
96158496 AAATATCATTCATATTCAAT
1 AAATATCATTCATATTCAAT
96158516 A
1 A
96158517 TGTACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATATCATTCATATTCAAT
Found at i:96158508 original size:19 final size:19
Alignment explanation
Indices: 96158464--96158516 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
96158454 CAATTCAGAA
*
96158464 CATTCATTT--ATCAAATGT
1 CATTCATTTCAAT-AAATAT
96158482 CATCTCATTTCAATAAATAT
1 CAT-TCATTTCAATAAATAT
96158502 CATTCATATTCAATA
1 CATTCAT-TTCAATA
96158517 TGTACTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 15 0.50
21 2 0.07
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (19 bp):
CATTCATTTCAATAAATAT
Found at i:96159964 original size:22 final size:22
Alignment explanation
Indices: 96159908--96159964 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
96159898 TGAACTGATA
*
96159908 AACAATAAGCTCTATTAAGCTG
1 AACAATAAGCTCTATCAAGCTG
* *
96159930 AA-ATGGTAAGCTCTATCGAGCTG
1 AACA--ATAAGCTCTATCAAGCTG
96159953 AACAATAAGCTC
1 AACAATAAGCTC
96159965 CAATGAGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
23 17 0.61
24 1 0.04
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (22 bp):
AACAATAAGCTCTATCAAGCTG
Found at i:96167566 original size:32 final size:32
Alignment explanation
Indices: 96167507--96167570 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
96167497 CCGACATCGG
* **
96167507 AACAGGGTATGAGGCATTTTCAAACTTAAACA
1 AACAGGGTACGAGGCATTGCCAAACTTAAACA
**
96167539 AACAGGGTACGAGGCATTGCCGGACTTAAACA
1 AACAGGGTACGAGGCATTGCCAAACTTAAACA
96167571 TACACATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (32 bp):
AACAGGGTACGAGGCATTGCCAAACTTAAACA
Found at i:96169794 original size:50 final size:49
Alignment explanation
Indices: 96169677--96169801 Score: 148
Period size: 49 Copynumber: 2.5 Consensus size: 49
96169667 GTATAATGCT
*
96169677 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGCC
* * *
96169726 GACGCCATGTCCTAGACATGGTCTTACACT-AGCTCTC-ACATATTCG-TGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGA-CTATCGA-A-A-TCGAGGCC
*
96169776 GATGCCTTGTCCTAGACATGGTCTTA
1 GATGCCATGTCCTAGACATGGTCTTA
96169802 TATTGACACA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
48 2 0.03
49 33 0.50
50 28 0.42
51 3 0.05
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGCC
Found at i:96173991 original size:16 final size:16
Alignment explanation
Indices: 96173972--96174014 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
96173962 AAAAAATCTT
96173972 ATTTTTTGAAAAATTA
1 ATTTTTTGAAAAATTA
* *
96173988 ATTTTTT-TAAATTTA
1 ATTTTTTGAAAAATTA
*
96174003 AATTTTTGAAAA
1 ATTTTTTGAAAA
96174015 GAATATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
ATTTTTTGAAAAATTA
Found at i:96175474 original size:65 final size:65
Alignment explanation
Indices: 96175370--96175499 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
96175360 GCTCTTAATT
96175370 TGCAACTCAAACACAACAATTTCAACTACATTCCACCAAAATCAGGTTAATAGAAAAAAAAAAAA
1 TGCAACTCAAACACAACAATTTCAACTACATTCCACCAAAATCAGGTTAATAGAAAAAAAAAAAA
*
96175435 TGCAACTCAAACACAACAATTTCAACTACATTCCACCAAAATCAGGTTAATAGAAAAAAAGAAAA
1 TGCAACTCAAACACAACAATTTCAACTACATTCCACCAAAATCAGGTTAATAGAAAAAAAAAAAA
96175500 GAAAAAGAAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.53, C:0.22, G:0.07, T:0.18
Consensus pattern (65 bp):
TGCAACTCAAACACAACAATTTCAACTACATTCCACCAAAATCAGGTTAATAGAAAAAAAAAAAA
Found at i:96179049 original size:64 final size:64
Alignment explanation
Indices: 96178943--96179071 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
96178933 TTGATACTTA
* *
96178943 ATTTTTTTTTCCCGTGAGCTAATTTAGTTTTTTTCTAGCATAAGTCTTATGTACGTAATCGCAT
1 ATTTTTTTTTCCCGTGAGCTAATTTAGTTTTTTCCTAACATAAGTCTTATGTACGTAATCGCAT
96179007 ATTTTTTTTTCCCCGTGAGCTAATTTA-TTTTTTCCTAACATAAGTCTTATGTACGTAATCGCAT
1 ATTTTTTTTT-CCCGTGAGCTAATTTAGTTTTTTCCTAACATAAGTCTTATGTACGTAATCGCAT
96179071 A
1 A
96179072 ATTTAAAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 46 0.74
65 16 0.26
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (64 bp):
ATTTTTTTTTCCCGTGAGCTAATTTAGTTTTTTCCTAACATAAGTCTTATGTACGTAATCGCAT
Found at i:96181445 original size:23 final size:22
Alignment explanation
Indices: 96181419--96181463 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
96181409 ACAATTCAAT
* *
96181419 CATTATCTGCAATCTCATAAACA
1 CATTATATGCAATATCA-AAACA
*
96181442 CATTTTATGCAATATCAAAACA
1 CATTATATGCAATATCAAAACA
96181464 TATAACATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.31
Consensus pattern (22 bp):
CATTATATGCAATATCAAAACA
Found at i:96185380 original size:38 final size:38
Alignment explanation
Indices: 96185328--96185422 Score: 154
Period size: 38 Copynumber: 2.5 Consensus size: 38
96185318 TCTACATGCA
** *
96185328 TGGTGTGTAGGGTTGGATGGGCCTTTTGAGGTCCTATG
1 TGGTGTGTTTGGTTGGATGGGCCTTTCGAGGTCCTATG
96185366 TGGTGTGTTTGGTTGGATGGGCCTTTCGAGGTCCTATG
1 TGGTGTGTTTGGTTGGATGGGCCTTTCGAGGTCCTATG
*
96185404 TGGTATGTTTGGTTGGATG
1 TGGTGTGTTTGGTTGGATG
96185423 AGCTTAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.09, C:0.09, G:0.41, T:0.40
Consensus pattern (38 bp):
TGGTGTGTTTGGTTGGATGGGCCTTTCGAGGTCCTATG
Found at i:96186460 original size:29 final size:31
Alignment explanation
Indices: 96186410--96186468 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
96186400 GATTTATGAA
96186410 CCTAGGGGTAAAATCGTAATTTTG-CAAAAG
1 CCTAGGGGTAAAATCGTAATTTTGCCAAAAG
* * *
96186440 CCTAGGGG-CAAATGGTCATTTTGCCAAAA
1 CCTAGGGGTAAAATCGTAATTTTGCCAAAA
96186469 TGTGGTCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (31 bp):
CCTAGGGGTAAAATCGTAATTTTGCCAAAAG
Found at i:96189492 original size:40 final size:40
Alignment explanation
Indices: 96189181--96189490 Score: 489
Period size: 40 Copynumber: 7.8 Consensus size: 40
96189171 GGATATAGCC
* *
96189181 ACTCGCTCAAATGCCTTCGGGACTTAACCC-GAATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAAT-TAGTA
** * **
96189221 GTTCGCACAAATGCCTTCAGGACTTAGCCC-GGGTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAAT-TAGTA
*
96189261 ACTCACACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
96189301 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
96189341 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
96189381 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
* *
96189421 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
*
96189461 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
96189491 GGTTATCATC
Statistics
Matches: 252, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 250 0.99
41 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
Found at i:96206080 original size:29 final size:29
Alignment explanation
Indices: 96205999--96206150 Score: 132
Period size: 29 Copynumber: 5.3 Consensus size: 29
96205989 GTGAGCGTGA
* * *
96205999 ATAT-AATGTGATTTGGGCCGGATAGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * *
96206027 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
*
96206055 ATATGAATGTGAATTGGGTCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * * *
96206084 ATATGGACGTGAATTGGGTCGGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * *
96206113 ATATAAATGAG-ATTGGG-CTTAGTGGGCC
1 ATATGAATGTGAATTGGGCCTGA-TGGGCC
*
96206141 ATATGCATGT
1 ATATGAATGT
96206151 ATGTAGGGGT
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
27 2 0.02
28 45 0.45
29 53 0.53
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:96212521 original size:28 final size:28
Alignment explanation
Indices: 96212490--96212608 Score: 89
Period size: 29 Copynumber: 4.2 Consensus size: 28
96212480 TCCGGATAGA
*
96212490 CCATATAAATGAGACTGGGCCTAATGGG
1 CCATATAAATGAGATTGGGCCTAATGGG
* * * * *
96212518 CCATATGAATGTGAATAGGGCTTGATGGG
1 CCATATAAATGAG-ATTGGGCCTAATGGG
** ** *
96212547 CCATATGGACGTGA-ATTGGGCCGGATGAG
1 CCATAT--AAATGAGATTGGGCCTAATGGG
*
96212576 -CATATAAATGAGATTGGGCCTAGTGGG
1 CCATATAAATGAGATTGGGCCTAATGGG
96212603 CCATAT
1 CCATAT
96212609 GCATGTACGT
Statistics
Matches: 66, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
26 4 0.06
27 11 0.17
28 21 0.32
29 28 0.42
31 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (28 bp):
CCATATAAATGAGATTGGGCCTAATGGG
Found at i:96217589 original size:40 final size:40
Alignment explanation
Indices: 96217536--96217736 Score: 271
Period size: 40 Copynumber: 5.0 Consensus size: 40
96217526 GATTGAACCA
* * * *
96217536 GATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGCCCG
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG
96217576 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
96217616 GATATAGTATCTCGTACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
96217656 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * * * *
96217696 GA-ACTAGTCATTAGCGCAAATACCTTCGGGACTTAGCCCG
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
96217736 G
1 G
96217737 TTATCATTAA
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 144 0.99
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:96220753 original size:34 final size:34
Alignment explanation
Indices: 96220710--96220778 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
96220700 AGATGTTATG
* *
96220710 ACATCAATCCTTTAGCTTAGATTCTCTCTTGTAA
1 ACATCAATCCTTTAGCCTAGATTCTCTCATGTAA
96220744 ACATCAATCCTTTAGCCTAGATTCTCTCATGTAA
1 ACATCAATCCTTTAGCCTAGATTCTCTCATGTAA
96220778 A
1 A
96220779 TTCAGTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (34 bp):
ACATCAATCCTTTAGCCTAGATTCTCTCATGTAA
Found at i:96234011 original size:29 final size:29
Alignment explanation
Indices: 96233936--96234026 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
96233926 GTCCACTTGA
* * *
96233936 CCCAA-TCTCATTCATAT-AGCCTATCAGG
1 CCCAATTCACATTCATATGA-CCCATTAGG
* * *
96233964 CCCAATTCACATTTATATGGCCCCTTAGG
1 CCCAATTCACATTCATATGACCCATTAGG
* *
96233993 CCCAATTCATATTCATATGACCCATTAGT
1 CCCAATTCACATTCATATGACCCATTAGG
96234022 CCCAA
1 CCCAA
96234027 ATCGCCTTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 5 0.10
29 45 0.90
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.30
Consensus pattern (29 bp):
CCCAATTCACATTCATATGACCCATTAGG
Found at i:96239119 original size:13 final size:13
Alignment explanation
Indices: 96239101--96239125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96239091 AGGCCGTGTG
96239101 AGGGACACGGGCC
1 AGGGACACGGGCC
96239114 AGGGACACGGGC
1 AGGGACACGGGC
96239126 GTGTGTTTGG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:96250102 original size:18 final size:18
Alignment explanation
Indices: 96250081--96250124 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
96250071 ATTCTGGTGA
96250081 TTCTAATAAAAGCAACAG
1 TTCTAATAAAAGCAACAG
**
96250099 TTCTGAAT-TGAGCAACAG
1 TTCT-AATAAAAGCAACAG
96250117 TTCTAATA
1 TTCTAATA
96250125 GAATCCCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (18 bp):
TTCTAATAAAAGCAACAG
Found at i:96252328 original size:292 final size:292
Alignment explanation
Indices: 96251804--96252352 Score: 1098
Period size: 292 Copynumber: 1.9 Consensus size: 292
96251794 CAGTCTGCTG
96251804 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
1 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
96251869 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
66 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
96251934 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
131 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
96251999 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGTAGA
196 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGTAGA
96252064 CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
261 CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
96252096 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
1 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
96252161 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
66 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
96252226 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
131 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
96252291 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGT
196 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGT
96252353 TCGAACCGCT
Statistics
Matches: 257, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
292 257 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (292 bp):
CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTACAGTAGA
CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
Found at i:96256325 original size:33 final size:31
Alignment explanation
Indices: 96256294--96256355 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
96256284 TCGGATTTAA
96256294 AATTTTGTAATAATT-TAATAATT-TTTTATTT
1 AATTTT-TAAT-ATTATAATAATTATTTTATTT
*
96256325 AATTTTTTATATTATAATAATTATTTTATTT
1 AATTTTTAATATTATAATAATTATTTTATTT
96256356 TAATCAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 11 0.39
31 14 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (31 bp):
AATTTTTAATATTATAATAATTATTTTATTT
Found at i:96256855 original size:21 final size:22
Alignment explanation
Indices: 96256811--96256855 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
96256801 ATGCTTTAAT
***
96256811 TAATATTTGAAAATTTTTATTA
1 TAATATTTGAAAATTAAAATTA
96256833 TAATATTTGAAAA-TAAAATTA
1 TAATATTTGAAAATTAAAATTA
96256854 TA
1 TA
96256856 CACAATGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAATATTTGAAAATTAAAATTA
Found at i:96263623 original size:40 final size:40
Alignment explanation
Indices: 96263555--96263630 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
96263545 TTAGTTCCAC
**
96263555 ATATAGCCGAAGCTATTCGAATTTGCACACTAAGTGTTAT
1 ATATAGCCGAAGCTATTCGAATACGCACACTAAGTGTTAT
*
96263595 ATATAGCCGAAGCTATCTTGAA-ACGCACACTAAGTG
1 ATATAGCCGAAGCTAT-TCGAATACGCACACTAAGTG
96263631 CCAAACATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (40 bp):
ATATAGCCGAAGCTATTCGAATACGCACACTAAGTGTTAT
Found at i:96270028 original size:79 final size:79
Alignment explanation
Indices: 96269935--96270087 Score: 272
Period size: 79 Copynumber: 1.9 Consensus size: 79
96269925 CTAGGAACCC
96269935 ATGTGTATATGCAATTATATAATCCGGGTACTAGTC-CTGTACGTCTTACCAGTGGCTGGGTAAT
1 ATGTGTATATGCAATTATATAATCCGGGTACTAGTCTC-GTACGTCTTACCAGTGGCTGGGTAAT
*
96269999 CTGACATGTGTTGCT
65 CCGACATGTGTTGCT
96270014 ATGTGTATATGCAATTATATAATCCGGGTACTAGTCTCGTACGTCTTACCAGTGGCTGGGTAATC
1 ATGTGTATATGCAATTATATAATCCGGGTACTAGTCTCGTACGTCTTACCAGTGGCTGGGTAATC
*
96270079 CGTCATGTG
66 CGACATGTG
96270088 ATACGGATAC
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
79 70 0.99
80 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (79 bp):
ATGTGTATATGCAATTATATAATCCGGGTACTAGTCTCGTACGTCTTACCAGTGGCTGGGTAATC
CGACATGTGTTGCT
Found at i:96272619 original size:27 final size:27
Alignment explanation
Indices: 96272573--96272625 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
96272563 CAATAACAGT
*
96272573 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAGAATCAGG
*
96272600 TGGGCCTAAGCCCAGT-ACAGATTCAG
1 TGGGCCT-AGCCCAGTAACAGAATCAG
96272626 TATTAGATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAGAATCAGG
Found at i:96272752 original size:59 final size:59
Alignment explanation
Indices: 96272680--96272796 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
96272670 TATTATATTT
96272680 CTATGGTCTACAGTTTCATGGAATTGTTTCATGAAAATTTCGTTCAAAAATTTTATCGG
1 CTATGGTCTACAGTTTCATGGAATTGTTTCATGAAAATTTCGTTCAAAAATTTTATCGG
*
96272739 CTATGGTCTACAGTTTCATGGAATTGTTTCATGAAAATTTCGTTCGAAAATTTTATCG
1 CTATGGTCTACAGTTTCATGGAATTGTTTCATGAAAATTTCGTTCAAAAATTTTATCG
96272797 ATTGGGCACT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (59 bp):
CTATGGTCTACAGTTTCATGGAATTGTTTCATGAAAATTTCGTTCAAAAATTTTATCGG
Found at i:96279308 original size:28 final size:28
Alignment explanation
Indices: 96279265--96279367 Score: 134
Period size: 28 Copynumber: 3.7 Consensus size: 28
96279255 TGGCCCCTTT
**
96279265 AGGCCCAATCTGATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCTATC
* * *
96279293 GGGCCCAATCACATTCATATAGCCCATC
1 AGGCCCAATCACATTCATATGGCCTATC
* * *
96279321 AGGCCCAATCACTTTCATATGGCCTGTT
1 AGGCCCAATCACATTCATATGGCCTATC
96279349 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
96279368 GTCATGCAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCTATC
Found at i:96283979 original size:28 final size:28
Alignment explanation
Indices: 96283920--96284040 Score: 134
Period size: 28 Copynumber: 4.3 Consensus size: 28
96283910 ATCCATACTT
* * * *
96283920 ATTCATTTGGCCCCTTCAGGCCGAATCTC
1 ATTCATATGG-CCCATCAGGCCCAATCAC
* *
96283949 ATTCATATGGCCTATCGGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
* *
96283977 ATTCATATGGCCCATCAGGCCTAGTCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
* * *
96284005 TTTCATATGGCCCGTCAAGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
96284033 ATTCATAT
1 ATTCATAT
96284041 TCATGCAATC
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 67 0.88
29 9 0.12
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:96284275 original size:16 final size:16
Alignment explanation
Indices: 96284254--96284285 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
96284244 GCCAAACTTC
96284254 TGGCTTTTTGGCATTT
1 TGGCTTTTTGGCATTT
96284270 TGGCTTTTTGGCATTT
1 TGGCTTTTTGGCATTT
96284286 CAAGATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGGCTTTTTGGCATTT
Found at i:96286786 original size:28 final size:27
Alignment explanation
Indices: 96286729--96286880 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
96286719 TAAATTGTGC
* *
96286729 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
96286756 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
96286784 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
96286811 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
96286839 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
96286866 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
96286881 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:96286794 original size:55 final size:55
Alignment explanation
Indices: 96286729--96286880 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
96286719 TAAATTGTGC
* *
96286729 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
96286784 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
96286839 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
96286881 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:96299472 original size:27 final size:27
Alignment explanation
Indices: 96299442--96299619 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
96299432 ATATTGAGCC
* *
96299442 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
96299469 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
96299496 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
96299524 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
96299551 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
96299578 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
96299605 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
96299620 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:96299581 original size:82 final size:81
Alignment explanation
Indices: 96299463--96299618 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
96299453 TGCTATATAA
* *
96299463 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
96299528 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
96299545 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
96299609 CCCTTAGTGC
65 CACTTAGTGC
96299619 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:96299602 original size:54 final size:54
Alignment explanation
Indices: 96299442--96299618 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
96299432 ATATTGAGCC
* * * *
96299442 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
96299496 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
96299551 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
96299605 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
96299619 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:96301174 original size:65 final size:65
Alignment explanation
Indices: 96301101--96301231 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
96301091 TTAAAATTTT
96301101 CTCATATAAGTCCTATTGACTAAATTCACATGCAATCGACTAAATCGAAGCTTGAAATTTTCACA
1 CTCATATAAGTCCTATTGACTAAATTCACATGCAATCGACTAAATCGAAGCTTGAAATTTTCACA
*
96301166 CTCATATAAGTCCTATTGACTAAATTCACATGCAATCGACTAAATCGAAGCTTGAAATTTTTACA
1 CTCATATAAGTCCTATTGACTAAATTCACATGCAATCGACTAAATCGAAGCTTGAAATTTTCACA
96301231 C
1 C
96301232 ATTCATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (65 bp):
CTCATATAAGTCCTATTGACTAAATTCACATGCAATCGACTAAATCGAAGCTTGAAATTTTCACA
Found at i:96312016 original size:27 final size:27
Alignment explanation
Indices: 96311986--96312163 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
96311976 ATATTGAGTC
* *
96311986 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
96312013 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
96312040 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
96312068 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
96312095 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
96312122 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
96312149 CGTACACTTAGTGCT
1 CGCACACTTAGTGCT
96312164 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:96312125 original size:82 final size:81
Alignment explanation
Indices: 96312007--96312162 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
96311997 TGCTATATAA
* *
96312007 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
96312072 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
96312089 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGTA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
96312153 CACTTAGTGC
65 CACTTAGTGC
96312163 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:96312146 original size:54 final size:54
Alignment explanation
Indices: 96311986--96312162 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
96311976 ATATTGAGTC
* * * *
96311986 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
96312040 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
96312095 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
96312149 CGTACACTTAGTGC
1 CGCACACTTAGTGC
96312163 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:96315240 original size:18 final size:18
Alignment explanation
Indices: 96315217--96315260 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
96315207 GCCACACGGA
*
96315217 GTGTGGGCCCACATGGGC
1 GTGTGGGACCACATGGGC
*
96315235 GTGTGGGACCACATGTGC
1 GTGTGGGACCACATGGGC
*
96315253 GTGCGGGA
1 GTGTGGGA
96315261 TTTTGGGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (18 bp):
GTGTGGGACCACATGGGC
Found at i:96334718 original size:50 final size:49
Alignment explanation
Indices: 96334655--96335528 Score: 1367
Period size: 50 Copynumber: 17.5 Consensus size: 49
96334645 TGAGGTCGCA
* **** * *
96334655 TGTGTAGTACTAAGTGCAGGCTACATGCGTACCCGAAAATTGTGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTAC-TACGTA-TATTAGATGGTGAGTCACG
96334705 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
* * * * *
96334755 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGACTGTTG-GTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGA-TGGTGAGTCACG
* ** **
96334804 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96334854 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96334904 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96334954 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335004 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335054 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335104 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335154 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335204 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335254 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335304 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335354 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
96335404 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA-GTCACG
* * * * *
96335454 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGACTGTTG-GTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGA-TGGTGAGTCACG
96335503 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
96335529 TGCGTACCAG
Statistics
Matches: 790, Mismatches: 28, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
48 11 0.01
49 73 0.09
50 698 0.88
51 8 0.01
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGTCACG
Found at i:96340824 original size:26 final size:26
Alignment explanation
Indices: 96340795--96340875 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
96340785 GTGATCACGT
96340795 GTGTAGTACTAAGTGCAGGCTACTAG
1 GTGTAGTACTAAGTGCAGGCTACTAG
* * *
96340821 GTGTATTA-GATGGTG-AGG-T-C-ACG
1 GTGTAGTACTA-AGTGCAGGCTACTA-G
*
96340844 TGTGTAGTACTAAGTGCAGGCTACTAC
1 -GTGTAGTACTAAGTGCAGGCTACTAG
96340871 GTGTA
1 GTGTA
96340876 CCAGACTGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 16
0.63 0.11 0.25
Matches are distributed among these distances:
22 1 0.03
23 2 0.05
24 11 0.28
25 8 0.20
26 16 0.40
27 1 0.03
28 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAG
Found at i:96340864 original size:50 final size:50
Alignment explanation
Indices: 96340732--96341667 Score: 1571
Period size: 50 Copynumber: 18.7 Consensus size: 50
96340722 ATGATCTATT
* * * * **
96340732 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAGAACT-
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTA--TTAG-A-TG
96340785 GTGA--TCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
* **
96340833 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGA-TG
* * * * * **
96340884 CT--GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96340932 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96340982 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341032 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341082 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341132 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341182 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341232 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341282 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341332 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341382 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341432 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341482 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
96341532 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
* **
96341582 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGA-TG
* * *
96341633 CT--GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
96341668 TGCGTACCAG
Statistics
Matches: 849, Mismatches: 27, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
47 1 0.00
48 8 0.01
49 73 0.09
50 724 0.85
51 39 0.05
53 4 0.00
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (50 bp):
GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATTAGATG
Found at i:96345550 original size:23 final size:23
Alignment explanation
Indices: 96345494--96345551 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
96345484 AGGGTATACT
96345494 TGGTTGTGTTCGAAGGTTACATA
1 TGGTTGTGTTCGAAGGTTACATA
* *
96345517 TAGGGTTGTGTTCGGTAGG-TGCATA
1 T--GGTTGTGTTC-GAAGGTTACATA
96345542 TGGTTGTGTT
1 TGGTTGTGTT
96345552 TGGAGGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 10 0.33
25 16 0.53
26 4 0.13
ACGTcount: A:0.16, C:0.07, G:0.36, T:0.41
Consensus pattern (23 bp):
TGGTTGTGTTCGAAGGTTACATA
Found at i:96345598 original size:23 final size:22
Alignment explanation
Indices: 96345542--96345599 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
96345532 TAGGTGCATA
96345542 TGGTTGTGTTTGGAGGGTAAAT
1 TGGTTGTGTTTGGAGGGTAAAT
* * * **
96345564 TAGTTGTCTTTGTAGGGTATGTT
1 TGGTTGTGTTTGGAGGGTA-AAT
96345587 TGGTTGTGTTTGG
1 TGGTTGTGTTTGG
96345600 TGGGCTATAG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.12, C:0.02, G:0.38, T:0.48
Consensus pattern (22 bp):
TGGTTGTGTTTGGAGGGTAAAT
Found at i:96346420 original size:12 final size:13
Alignment explanation
Indices: 96346400--96346440 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
96346390 GATAAAACGG
*
96346400 TTTCCAATAT-CC
1 TTTCAAATATACC
96346412 TTTCAAATATAGCC
1 TTTCAAATATA-CC
96346426 TTTCAAA-ATACC
1 TTTCAAATATACC
96346438 TTT
1 TTT
96346441 TTGCATGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.54
13 3 0.12
14 9 0.35
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.41
Consensus pattern (13 bp):
TTTCAAATATACC
Found at i:96352190 original size:46 final size:44
Alignment explanation
Indices: 96352128--96352251 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 44
96352118 ATCTCGAGGC
*
96352128 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT-
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTG
* *
96352174 CGATGCATGTCCCAGACATGTCTTAGACTGGCTCTCATAATGTGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGT-G
96352219 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 -CGATGCATGTCCCAGACATGTCTTACACTAGC
96352252 ACACATATCA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
43 5 0.07
44 1 0.01
46 64 0.91
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTG
Found at i:96355472 original size:28 final size:29
Alignment explanation
Indices: 96355399--96355486 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
96355389 AGCATGGCTG
* * * *
96355399 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
96355426 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
96355455 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
96355483 CCAG
1 CCAG
96355487 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:96355639 original size:28 final size:28
Alignment explanation
Indices: 96355592--96355656 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
96355582 AAATTAACCC
*
96355592 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
96355620 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
96355648 TAGGGGTAT
1 TAGGGGTAT
96355657 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:96363810 original size:49 final size:49
Alignment explanation
Indices: 96363738--96363986 Score: 175
Period size: 49 Copynumber: 5.3 Consensus size: 49
96363728 ATCAAAGTCA
* *
96363738 ATGCCATG-CCCAGACAGGTCTTACTCTGACTTTCATATATCGAG-GCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGTGCCG
* * * * * *
96363786 ATGCCGTGTCCGAGACAGGCCTTACACTGGCTCTCATCTATCAGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCG
* * * *
96363835 ATGCCATGTCCCAGACAGGTCTTACACTGA--CACACA-A-CAAT-CTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCG
* * * * *
96363879 ACGCCATGTCCCAGACAGGTCTTACACT-AGTTTCTATAATCTCGAG-GCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTC-AT-ATATC-AGTGCCG
* * *
96363929 ATG-CATGTCCCAGACATGTCTTAGACTGGCTCTCATA-ATC--TAGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGT-GCCG
96363975 ATG-CATGTCCCA
1 ATGCCATGTCCCA
96363987 ATGTCATGGC
Statistics
Matches: 156, Mismatches: 32, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
43 1 0.01
44 28 0.18
45 4 0.03
46 17 0.11
47 6 0.04
48 10 0.06
49 81 0.52
50 9 0.06
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCG
Found at i:96366003 original size:27 final size:27
Alignment explanation
Indices: 96365972--96366149 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
96365962 TAAATTGTAC
96365972 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
96365999 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
96366025 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
96366053 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
96366081 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
96366108 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
96366135 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
96366150 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:96366086 original size:82 final size:81
Alignment explanation
Indices: 96365973--96366128 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
96365963 AAATTGTACA
* *
96365973 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
96366037 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
96366054 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
96366119 TGCGAGTTGA
65 TGCGAATTGA
96366129 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:96366140 original size:82 final size:81
Alignment explanation
Indices: 96365969--96366149 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
96365959 GATTAAATTG
* *
96365969 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
96366034 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
96366050 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
96366114 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
96366132 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
96366150 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:96369817 original size:79 final size:79
Alignment explanation
Indices: 96369727--96369884 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
96369717 TATTGATGTT
96369727 TTATTTTATAATCCACATCCACAGTTCAAAACCCAATTAAAATCCAAAATCACATCAACCCTCAA
1 TTATTTTATAATCCACATCCACAGTTCAAAACCCAATTAAAATCCAAAATCACATCAACCCTCAA
96369792 TAAATAATAAATAA
66 TAAATAATAAATAA
*
96369806 TTATTTTATAATCCACATCCATAGTTCAAAACCCAATTAAAATCCAAAATCACATCAACCCTCAA
1 TTATTTTATAATCCACATCCACAGTTCAAAACCCAATTAAAATCCAAAATCACATCAACCCTCAA
96369871 TAAATAATAAATAA
66 TAAATAATAAATAA
96369885 ACCAAAGTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.27
Consensus pattern (79 bp):
TTATTTTATAATCCACATCCACAGTTCAAAACCCAATTAAAATCCAAAATCACATCAACCCTCAA
TAAATAATAAATAA
Found at i:96370266 original size:40 final size:40
Alignment explanation
Indices: 96370219--96370296 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
96370209 ACACACCATG
*
96370219 TGGGGATAAAATCGACCCA-CCGATCCCTGCACACCATATA
1 TGGGGATAAAATCGACCCATCC-ATCCCTACACACCATATA
* * *
96370259 TGGGGATACAATCGTCCCATCCATCCCTACACATCATA
1 TGGGGATAAAATCGACCCATCCATCCCTACACACCATA
96370297 AGGTACCGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCATCCATCCCTACACACCATATA
Found at i:96375538 original size:39 final size:39
Alignment explanation
Indices: 96375483--96375667 Score: 289
Period size: 39 Copynumber: 4.7 Consensus size: 39
96375473 TTCCAACCCA
* * * * *
96375483 AATGCCTTCGGAACTTAGCCCGGATATAACATCAACATG
1 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
96375522 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
* * *
96375561 AATGCCTTCGGGACTTAACCCGGATAAAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
96375600 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
*
96375639 AATGCCTTCAGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
96375668 ATCTCACACA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 134 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
Found at i:96380285 original size:43 final size:44
Alignment explanation
Indices: 96380214--96380348 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
96380204 TATCGAAATG
* *
96380214 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
96380258 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
96380301 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
96380346 TGA
1 TGA
96380349 AATGTTATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.46
44 8 0.10
45 32 0.41
46 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:96380330 original size:45 final size:43
Alignment explanation
Indices: 96380231--96380348 Score: 166
Period size: 45 Copynumber: 2.7 Consensus size: 43
96380221 CGGGCTTCGG
*
96380231 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * *
96380274 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
96380319 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
96380349 AATGTTATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.42
44 3 0.05
45 32 0.50
46 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:96380675 original size:38 final size:38
Alignment explanation
Indices: 96380645--96381120 Score: 729
Period size: 38 Copynumber: 12.5 Consensus size: 38
96380635 GCAGGCTATA
96380645 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
*
96380683 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGTTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
96380721 TGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* **
96380759 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
96380797 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGTTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
96380835 TGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* **
96380873 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
96380911 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGTTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
96380949 TGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* **
96380987 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* *
96381025 TGCTGGTAATATATCCGGGTTTAATTCCAGCAGGCTTCG
1 TGCTGGTAATATATCCGGG-TTAAATCCCGCAGGCTTCG
* * *
96381064 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* *
96381102 TGCTGGTATTATATTCGGG
1 TGCTGGTAATATATCCGGG
96381121 CCTTTGAGCC
Statistics
Matches: 398, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
38 361 0.91
39 37 0.09
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:96380833 original size:114 final size:114
Alignment explanation
Indices: 96380645--96381115 Score: 843
Period size: 114 Copynumber: 4.1 Consensus size: 114
96380635 GCAGGCTATA
* **
96380645 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
1 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
96380710 CGCAGGTTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
66 CGCAGGTTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
96380759 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
1 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
96380824 CGCAGGTTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
66 CGCAGGTTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
96380873 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
1 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
96380938 CGCAGGTTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
66 CGCAGGTTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
*
96380987 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTTAATTC
1 TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGG-TTAAATC
* * * * * *
96381052 CAGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
65 CCGCAGGTTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
96381102 TGCTGGTATTATAT
1 TGCTGGTATTATAT
96381116 TCGGGCCTTT
Statistics
Matches: 346, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
114 282 0.82
115 64 0.18
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (114 bp):
TGCTGGTATTATATCTTGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
CGCAGGTTTCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
Found at i:96381255 original size:45 final size:45
Alignment explanation
Indices: 96381113--96381285 Score: 201
Period size: 45 Copynumber: 3.9 Consensus size: 45
96381103 GCTGGTATTA
* *
96381113 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
96381158 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
96381203 TATTCGGG-CTTTCGAGCCTAGTAGGCTATAATGCCGATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* * * * *
96381248 TAATCGGGCC-TCGATCCTAGCAGGCGA-AATGCCAGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
96381286 TTTGAGAAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
43 9 0.08
44 16 0.14
45 84 0.76
46 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:96388594 original size:29 final size:24
Alignment explanation
Indices: 96388543--96388589 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
96388533 CTCCCTTCTT
96388543 TTCATCAAACCTACCCCGATGCAC
1 TTCATCAAACCTACCCCGATGCAC
96388567 TTCATCAAACCTACCCCGATGCA
1 TTCATCAAACCTACCCCGATGCA
96388590 ATGCATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (24 bp):
TTCATCAAACCTACCCCGATGCAC
Found at i:96388596 original size:24 final size:24
Alignment explanation
Indices: 96388545--96388597 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
96388535 CCCTTCTTTT
* *
96388545 CATCAAACCTACCCCGATGCACTT
1 CATCAAACCTACCCCGATGCAATG
96388569 CATCAAACCTACCCCGATGCAATG
1 CATCAAACCTACCCCGATGCAATG
96388593 CATCA
1 CATCA
96388598 TACAAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.32, C:0.40, G:0.09, T:0.19
Consensus pattern (24 bp):
CATCAAACCTACCCCGATGCAATG
Found at i:96389760 original size:28 final size:30
Alignment explanation
Indices: 96389696--96389764 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
96389686 GGGTGTTACA
96389696 CCGTGTGTCACACATGGCCTAGACACATAC
1 CCGTGTGTCACACATGGCCTAGACACATAC
* *
96389726 CCGTGTGTTACACATGGCCTAGACATATAC
1 CCGTGTGTCACACATGGCCTAGACACATAC
*
96389756 CTGTGTGTC
1 CCGTGTGTC
96389765 TATCCATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (30 bp):
CCGTGTGTCACACATGGCCTAGACACATAC
Found at i:96393969 original size:13 final size:13
Alignment explanation
Indices: 96393934--96393973 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
96393924 CAAGCGTGAC
**
96393934 TTCTTTTCTCCCT
1 TTCTTTTCTTTCT
96393947 TTCTTTTCTTTCT
1 TTCTTTTCTTTCT
96393960 TTCTTTTCTTTCT
1 TTCTTTTCTTTCT
96393973 T
1 T
96393974 AATTTGCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCTTTTCTTTCT
Done.