Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 162 of 210
Found at i:54434270 original size:26 final size:26
Alignment explanation
Indices: 54434241--54434358 Score: 121
Period size: 26 Copynumber: 4.5 Consensus size: 26
54434231 AGTTTAGCCT
*
54434241 TGCTTTTGAAAAGTACTTTTAAAAAG
1 TGCTTTGGAAAAGTACTTTTAAAAAG
* *
54434267 TGCTGTGGAAAAGTGCTTTTAAAAAG
1 TGCTTTGGAAAAGTACTTTTAAAAAG
* * **
54434293 TGATGTGGAAAAGTGTTTTTAAAAAG
1 TGCTTTGGAAAAGTACTTTTAAAAAG
* *
54434319 TG-TTGTGGAAAAGTACTTTTGACAAG
1 TGCTT-TGGAAAAGTACTTTTAAAAAG
* *
54434345 TACTTTTGAAAAGT
1 TGCTTTGGAAAAGT
54434359 TTGGTTTACG
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.01
26 75 0.96
27 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGCTTTGGAAAAGTACTTTTAAAAAG
Found at i:54434330 original size:13 final size:13
Alignment explanation
Indices: 54434262--54434332 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
54434252 AGTACTTTTA
*
54434262 AAAAGTGCTGTGG
1 AAAAGTGTTGTGG
**
54434275 AAAAGTGCTT-TTA
1 AAAAGTG-TTGTGG
*
54434288 AAAAGTGATGTGG
1 AAAAGTGTTGTGG
* **
54434301 AAAAGTGTTTTTA
1 AAAAGTGTTGTGG
54434314 AAAAGTGTTGTGG
1 AAAAGTGTTGTGG
54434327 AAAAGT
1 AAAAGT
54434333 ACTTTTGACA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
12 1 0.02
13 41 0.95
14 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (13 bp):
AAAAGTGTTGTGG
Found at i:54434345 original size:13 final size:13
Alignment explanation
Indices: 54434326--54434358 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
54434316 AAGTGTTGTG
54434326 GAAAAGTACTTTT
1 GAAAAGTACTTTT
*
54434339 GACAAGTACTTTT
1 GAAAAGTACTTTT
54434352 GAAAAGT
1 GAAAAGT
54434359 TTGGTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (13 bp):
GAAAAGTACTTTT
Found at i:54434356 original size:52 final size:53
Alignment explanation
Indices: 54434243--54434358 Score: 146
Period size: 52 Copynumber: 2.2 Consensus size: 53
54434233 TTTAGCCTTG
*
54434243 CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTGCTTTTAAAAAGTGA
1 CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTACTTTTAAAAAGTGA
* * ** * * *
54434296 -TGTGGAAAAGTGTTTTTAAAAAGTGTTGTGGAAAAGTACTTTTGACAAGT-A
1 CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTACTTTTAAAAAGTGA
54434347 CTTTTGAAAAGT
1 CTTTTGAAAAGT
54434359 TTGGTTTACG
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
51 1 0.02
52 51 0.98
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.35
Consensus pattern (53 bp):
CTTTTGAAAAGTACTTTTAAAAAGTGCTGTGGAAAAGTACTTTTAAAAAGTGA
Found at i:54436869 original size:20 final size:20
Alignment explanation
Indices: 54436846--54436897 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
54436836 TAGTGAGCAT
*
54436846 CAAAATGCTAACAGAGGCAC
1 CAAAATGCAAACAGAGGCAC
*
54436866 CAAAGTGCAAACAGAGGCAC
1 CAAAATGCAAACAGAGGCAC
*
54436886 CAAAGTGCAAAC
1 CAAAATGCAAAC
54436898 CCGTACAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.08
Consensus pattern (20 bp):
CAAAATGCAAACAGAGGCAC
Found at i:54441313 original size:23 final size:21
Alignment explanation
Indices: 54441278--54441320 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
54441268 AGCGTTTACA
54441278 TTTTTTGTTAATTTGACCCTT
1 TTTTTTGTTAATTTGACCCTT
*
54441299 TTTTTTAGTTGAATTTGGCCCT
1 TTTTTT-GTT-AATTTGACCCT
54441321 CGAGATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (21 bp):
TTTTTTGTTAATTTGACCCTT
Found at i:54441533 original size:17 final size:16
Alignment explanation
Indices: 54441490--54441530 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
54441480 TATATTTTTG
*
54441490 AATTTTAATTTTGATT
1 AATTTTAATTTTGATA
*
54441506 AATTTTGAATTTTTATA
1 AATTTT-AATTTTGATA
54441523 AATTTTAA
1 AATTTTAA
54441531 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
AATTTTAATTTTGATA
Found at i:54441541 original size:39 final size:38
Alignment explanation
Indices: 54441469--54441543 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
54441459 TCCTAATTTT
* *
54441469 TTTTGAATTTTTATATTTTTGAATTTTAATTTTGATTAA
1 TTTTGAATTTTTATAATTTTAAATTTT-ATTTTGATTAA
54441508 TTTTGAATTTTTATAAATTTTAAATTATT-TTTTGAT
1 TTTTGAATTTTTAT-AATTTTAAATT-TTATTTTGAT
54441544 GTGACATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 21 0.66
40 9 0.28
41 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (38 bp):
TTTTGAATTTTTATAATTTTAAATTTTATTTTGATTAA
Found at i:54442494 original size:218 final size:218
Alignment explanation
Indices: 54442116--54442551 Score: 845
Period size: 218 Copynumber: 2.0 Consensus size: 218
54442106 ATTCTAATTT
** *
54442116 TCCCCAAAATGGAATTAGGCCAAAATACTAGTGTGATAAAAATTTAAAAGAATATCCATTTATTC
1 TCCCCAAAAACGAATTAGGCCAAAATACTAGTGTAATAAAAATTTAAAAGAATATCCATTTATTC
54442181 AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
66 AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
54442246 ATTTCTTTTATTATTTTTTTAAAAATATTCATTTCGTGAAATCAATGCGTCACATCCAATACGTT
131 ATTTCTTTTATTATTTTTTTAAAAATATTCATTTCGTGAAATCAATGCGTCACATCCAATACGTT
54442311 AGGACACAACGTGTTGAATTCCC
196 AGGACACAACGTGTTGAATTCCC
54442334 TCCCCAAAAACGAATTAGGCCAAAATACTAGTGTAATAAAAATTTAAAAGAATATCCATTTATTC
1 TCCCCAAAAACGAATTAGGCCAAAATACTAGTGTAATAAAAATTTAAAAGAATATCCATTTATTC
54442399 AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
66 AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
54442464 ATTTCTTTTATTATTTTTTTAAAAATATTCATTTCGTGAAATCAATGCGTCACATCCAATACGTT
131 ATTTCTTTTATTATTTTTTTAAAAATATTCATTTCGTGAAATCAATGCGTCACATCCAATACGTT
54442529 AGGACACAACGTGTTGAATTCCC
196 AGGACACAACGTGTTGAATTCCC
54442552 ATGCTACATT
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 215 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (218 bp):
TCCCCAAAAACGAATTAGGCCAAAATACTAGTGTAATAAAAATTTAAAAGAATATCCATTTATTC
AAGATTTAAGAAATCGCGGCCCAATACGTTAGGGCACAATTCCTTTAGAATCCCAAACTCGGAAT
ATTTCTTTTATTATTTTTTTAAAAATATTCATTTCGTGAAATCAATGCGTCACATCCAATACGTT
AGGACACAACGTGTTGAATTCCC
Found at i:54443040 original size:24 final size:22
Alignment explanation
Indices: 54442982--54443040 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 22
54442972 ATATGTATAC
*
54442982 TAAAATAAAT-ATATACATATAGA
1 TAAAA-AAATAAT-TACATATAAA
54443005 TAAAAAAATAATTACATATAAA
1 TAAAAAAATAATTACATATAAA
54443027 TAAATAAAAATAAT
1 T-AA-AAAAATAAT
54443041 AATTATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 14 0.44
23 9 0.28
24 9 0.28
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAAAAATAATTACATATAAA
Found at i:54443097 original size:21 final size:21
Alignment explanation
Indices: 54443058--54443098 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
54443048 TTATACTACA
* *
54443058 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
54443079 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
54443099 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:54444099 original size:21 final size:21
Alignment explanation
Indices: 54444074--54444116 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
54444064 TCCCACTACA
*
54444074 TAGTGCGAGCATAATTCTAGT
1 TAGTGCGAGCAGAATTCTAGT
54444095 TAGTGCGAGCAGAATTCTAGT
1 TAGTGCGAGCAGAATTCTAGT
54444116 T
1 T
54444117 GTATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (21 bp):
TAGTGCGAGCAGAATTCTAGT
Found at i:54448268 original size:54 final size:54
Alignment explanation
Indices: 54448111--54448256 Score: 222
Period size: 54 Copynumber: 2.7 Consensus size: 54
54448101 GTTAAGGAGT
* * *
54448111 CAAATGTCCAATGATTTCTTGAGAAGAGTTCCATATCGTTATTCTTATTCGAGC
1 CAAATGTCCAATGATTTCTTGAAAAGAGATCCATATCGTGATTCTTATTCGAGC
** *
54448165 CAAACATCCAATGATTTCTT-AAGAAGAGATCCATATCGTGATTCCTATTCGAGC
1 CAAATGTCCAATGATTTCTTGAA-AAGAGATCCATATCGTGATTCTTATTCGAGC
54448219 CAAATGTCCAATGATTTCTTGAAAAGAGATCCATATCG
1 CAAATGTCCAATGATTTCTTGAAAAGAGATCCATATCG
54448257 AGATGTTTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 79 0.96
55 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (54 bp):
CAAATGTCCAATGATTTCTTGAAAAGAGATCCATATCGTGATTCTTATTCGAGC
Found at i:54458051 original size:50 final size:50
Alignment explanation
Indices: 54457922--54458157 Score: 251
Period size: 50 Copynumber: 4.7 Consensus size: 50
54457912 GATAATAACA
* ** * *
54457922 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * * * ** *
54457971 TACCAATGTCATATCCCAGATATGGCCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * **
54458021 TGCCCATGCCATGTCCCAGAGATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
54458071 TGCCAACGCCATGTCCTAGACATGATCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
54458121 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
54458158 TCTTTTTACC
Statistics
Matches: 154, Mismatches: 31, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 116 0.75
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:54463557 original size:50 final size:50
Alignment explanation
Indices: 54463459--54463649 Score: 202
Period size: 50 Copynumber: 3.8 Consensus size: 50
54463449 TCTTGTACTA
** * * ** *
54463459 CCAATGCCATAACCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * **
54463509 CCCATGTCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * *
54463559 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGGTG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * * *
54463609 CCAACGCCATGCCCCAGACTATGATCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAAAC-ATGGTCTTACATGGGACCTCT
54463650 TTACCCAAAT
Statistics
Matches: 117, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 99 0.85
51 18 0.15
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:54469075 original size:50 final size:50
Alignment explanation
Indices: 54469005--54469127 Score: 120
Period size: 50 Copynumber: 2.5 Consensus size: 50
54468995 TACCAGATAT
* ** * * *
54469005 GGTCTTACATGGGAGTTCTCATATCGATGCCCATGTCATGTCCCAAACAC
1 GGTCTTACAGGGGACCTCTCATATCGATGCCAACGCCATGTCCCAAACAC
* * * * * * *
54469055 GGTCTTCCGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGACAT
1 GGTCTTACAGGGGACCTCTCATATCGATGCCAACGCCATGTCCCAAACAC
*
54469105 GGTCTTACATGGGACCTCTCATA
1 GGTCTTACAGGGGACCTCTCATA
54469128 ATCTCACTAA
Statistics
Matches: 56, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
GGTCTTACAGGGGACCTCTCATATCGATGCCAACGCCATGTCCCAAACAC
Found at i:54475801 original size:26 final size:26
Alignment explanation
Indices: 54475687--54475802 Score: 101
Period size: 26 Copynumber: 4.5 Consensus size: 26
54475677 ACACACCAGA
* *
54475687 AAATAGAAGCCTTTGTGGCGTATCTT
1 AAATAGAAGCCTTTGTGGCATATCTG
* *
54475713 AAATAGAAGCCTTTGTGGAAAATCTG
1 AAATAGAAGCCTTTGTGGCATATCTG
* * * ** *
54475739 AAATGGAAGCCTGTCTAACGTATCTG
1 AAATAGAAGCCTTTGTGGCATATCTG
*
54475765 -AA-AGATAGCCTTTGTGGCATATTTG
1 AAATAGA-AGCCTTTGTGGCATATCTG
*
54475790 AAATAGGAGCCTT
1 AAATAGAAGCCTT
54475803 CGCGGCATTC
Statistics
Matches: 67, Mismatches: 20, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
24 2 0.03
25 15 0.22
26 48 0.72
27 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (26 bp):
AAATAGAAGCCTTTGTGGCATATCTG
Found at i:54481237 original size:11 final size:11
Alignment explanation
Indices: 54481223--54481252 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
54481213 GCTAACGATG
54481223 TGAATATGCAA
1 TGAATATGCAA
*
54481234 TGAATATGCAG
1 TGAATATGCAA
54481245 TGAATATG
1 TGAATATG
54481253 TATGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (11 bp):
TGAATATGCAA
Found at i:54482740 original size:46 final size:46
Alignment explanation
Indices: 54482660--54482822 Score: 146
Period size: 46 Copynumber: 3.5 Consensus size: 46
54482650 GGGTGTTATA
* * * *
54482660 TTACAAACTTAAGAATACAGGAATAGGTTTCGAGCTCCTACGTATG
1 TTACGAACTCAAGAATACAAGAATAGGTTTCGAGCTCCTACATATG
* * * * *
54482706 TTGCGGACTCAAGAATACATGAATAGGTTCCGAGCTCCTGCATATG
1 TTACGAACTCAAGAATACAAGAATAGGTTTCGAGCTCCTACATATG
** * * ** *
54482752 TTACGAACTTGAGAATACAAAAATAGGTTTTGAGCTCCTGTATAAG
1 TTACGAACTCAAGAATACAAGAATAGGTTTCGAGCTCCTACATATG
** * *
54482798 TTGTGAACTCGAGAATACAATAATA
1 TTACGAACTCAAGAATACAAGAATA
54482823 TTAAGCCATG
Statistics
Matches: 95, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (46 bp):
TTACGAACTCAAGAATACAAGAATAGGTTTCGAGCTCCTACATATG
Found at i:54493955 original size:19 final size:19
Alignment explanation
Indices: 54493931--54493969 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
54493921 CCTAAGGGTA
54493931 AACAATTCAATAATCCTAT
1 AACAATTCAATAATCCTAT
54493950 AACAATTCAATAATCCTAT
1 AACAATTCAATAATCCTAT
54493969 A
1 A
54493970 CGGTTCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (19 bp):
AACAATTCAATAATCCTAT
Found at i:54495737 original size:50 final size:50
Alignment explanation
Indices: 54495642--54495737 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 50
54495632 TGTACTGCAA
* * ** *
54495642 ATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCAGTGCCC
1 ATGCCATATCCCAGACATGGTCTTACAGAGGACCTCTCAGATCAGTGCCC
* * * *
54495692 ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCAGCTCAGT
1 ATGCCATATCCCAGACATGGTCTTACAGAGGACCTCTCAGATCAGT
54495738 ACCAACACCA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 37 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGCCATATCCCAGACATGGTCTTACAGAGGACCTCTCAGATCAGTGCCC
Found at i:54499340 original size:68 final size:68
Alignment explanation
Indices: 54499196--54499371 Score: 199
Period size: 68 Copynumber: 2.6 Consensus size: 68
54499186 AGCCTATAAG
* ** * ** *
54499196 AGTGTAAGACCATAGCTAGGCTATGGCAATATATAAAGTCCTCCAGGATAGTAAACATGGCACCA
1 AGTGTAAGACCATAGCTGGGCTATGGCAACGTATGAAGTCAACCAGGATAGTAAACATGACACCA
54499261 TAT
66 TAT
* * **
54499264 AGTGTAAGACCAAAGCTGGGCTATGACAACGTATGAAGTCAACCAGGATAGTAAACATGACTTCA
1 AGTGTAAGACCATAGCTGGGCTATGGCAACGTATGAAGTCAACCAGGATAGTAAACATGACACCA
*
54499329 TCT
66 TAT
* * * **
54499332 ATTTTAAGACCATAGTTGCACTATGGCAACGTATGAAGTC
1 AGTGTAAGACCATAGCTGGGCTATGGCAACGTATGAAGTC
54499372 CTCCACGACA
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 89 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (68 bp):
AGTGTAAGACCATAGCTGGGCTATGGCAACGTATGAAGTCAACCAGGATAGTAAACATGACACCA
TAT
Found at i:54502470 original size:18 final size:18
Alignment explanation
Indices: 54502447--54502485 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
54502437 GGTATGTGAA
* *
54502447 CCACACGGGCGTGTGGGC
1 CCACACAGGCATGTGGGC
54502465 CCACACAGGCATGTGGGC
1 CCACACAGGCATGTGGGC
54502483 CCA
1 CCA
54502486 TAACTCTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.36, G:0.36, T:0.10
Consensus pattern (18 bp):
CCACACAGGCATGTGGGC
Found at i:54507178 original size:24 final size:24
Alignment explanation
Indices: 54507146--54507197 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
54507136 ATGGCACTAC
54507146 AAATGTAAAGGATGAATTGACAGA
1 AAATGTAAAGGATGAATTGACAGA
* *
54507170 AAATGTAAATGATGAATTGACGGA
1 AAATGTAAAGGATGAATTGACAGA
54507194 AAAT
1 AAAT
54507198 TACCCAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.23, T:0.23
Consensus pattern (24 bp):
AAATGTAAAGGATGAATTGACAGA
Found at i:54507290 original size:21 final size:21
Alignment explanation
Indices: 54507266--54507333 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
54507256 AGCTCTCACA
54507266 AGCTTCCATTCAGCTCTTTTG
1 AGCTTCCATTCAGCTCTTTTG
* * *
54507287 AGCTT-CAGTTTAACCCTTATTG
1 AGCTTCCA-TTCAGCTCTT-TTG
*
54507309 -GTTTCCATTCAGCTCTTTTG
1 AGCTTCCATTCAGCTCTTTTG
54507329 AGCTT
1 AGCTT
54507334 TAGTTTAACC
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (21 bp):
AGCTTCCATTCAGCTCTTTTG
Found at i:54507328 original size:42 final size:42
Alignment explanation
Indices: 54507269--54507418 Score: 174
Period size: 42 Copynumber: 3.6 Consensus size: 42
54507259 TCTCACAAGC
* *
54507269 TTCCATTCAGCTCTTTTGAGCTTCAGTTTAACCCTTATTGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * *
54507311 TTCCATTCAGCTCTTTTGAGCTTTAGTTTAACCCCTATGGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
** ** * *
54507353 TTCTGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATGGGT
1 TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * *
54507395 TTCCGTTTAGCTCTCATGAGCTTC
1 TTCCATTCAGCTCTTATGAGCTTC
54507419 TGTTCCCTTC
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (42 bp):
TTCCATTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:54508786 original size:12 final size:12
Alignment explanation
Indices: 54508769--54508797 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
54508759 AGCTTCTATT
54508769 TCTTGAATCTAA
1 TCTTGAATCTAA
54508781 TCTTGAATCTAA
1 TCTTGAATCTAA
54508793 -CTTGA
1 TCTTGA
54508798 TATTCTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (12 bp):
TCTTGAATCTAA
Found at i:54510748 original size:98 final size:98
Alignment explanation
Indices: 54510574--54510768 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
54510564 ATACAATAAA
54510574 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACATTAGGGCACAATC
1 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACATTAGGGCACAATC
* *
54510639 CCTTTAGAATCCCAAACTCGGAATATTTCCTTC
66 CCTTTAAAATCCCAAACTAGGAATATTTCCTTC
* *
54510672 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACATTAGGGCACAATC
54510737 CCTTTAAAATCCCAAACTAGGAATATTTCCTT
66 CCTTTAAAATCCCAAACTAGGAATATTTCCTT
54510769 TATGATTTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACATTAGGGCACAATC
CCTTTAAAATCCCAAACTAGGAATATTTCCTTC
Found at i:54511105 original size:13 final size:12
Alignment explanation
Indices: 54511087--54511125 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
54511077 AATGACATAA
54511087 AAATAATATAAAC
1 AAATAA-ATAAAC
54511100 AAATAAATAAAC
1 AAATAAATAAAC
54511112 GAAATAAA-AAAC
1 -AAATAAATAAAC
54511124 AA
1 AA
54511126 TAATTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:54511265 original size:18 final size:18
Alignment explanation
Indices: 54511242--54511277 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54511232 TTATGAAGAT
*
54511242 TAAAAATATAATTAAATA
1 TAAAAAAATAATTAAATA
54511260 TAAAAAAATAATTAAATA
1 TAAAAAAATAATTAAATA
54511278 AAATAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAAATAATTAAATA
Found at i:54511282 original size:13 final size:13
Alignment explanation
Indices: 54511260--54511292 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
54511250 TAATTAAATA
54511260 TAAA-AAAATAAT
1 TAAATAAAATAAT
54511272 TAAATAAAATAAT
1 TAAATAAAATAAT
54511285 TAAATAAA
1 TAAATAAA
54511293 GAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAATAAAATAAT
Found at i:54516943 original size:19 final size:19
Alignment explanation
Indices: 54516919--54516955 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
54516909 TCTATGCGGA
54516919 GGTATTTTATTTATTTTCT
1 GGTATTTTATTTATTTTCT
*
54516938 GGTATTTTATTTGTTTTC
1 GGTATTTTATTTATTTTC
54516956 CCGTCTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.68
Consensus pattern (19 bp):
GGTATTTTATTTATTTTCT
Found at i:54518347 original size:42 final size:42
Alignment explanation
Indices: 54518292--54518570 Score: 275
Period size: 42 Copynumber: 6.6 Consensus size: 42
54518282 AGATTCCCCG
* * *
54518292 AGGGGTTGCTAAGTGTTGATTCCCCGAAT-TATTGATTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATAT-TTGATTGTAAA
*
54518333 AGGTGGTTGTTAAGTGCTGATTCCACCGTATATTTGATTGTAAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGTAAA
* * * *
54518377 AGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAAA
54518418 AGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTAAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGTAAA
* * * * *
54518462 AGGGGTTGCTATGTGCTGATTCCCCGTATCA-CTAAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTAT-ATTTGATTGTAAA
* * *
54518503 AGGTGGTTGCTAAGTACT-ATTCCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATATTTGATTGTAAA
*
54518546 AGGGGTTGCTATGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
54518571 ATATCACTGA
Statistics
Matches: 196, Mismatches: 27, Indels: 29
0.78 0.11 0.12
Matches are distributed among these distances:
41 18 0.09
42 95 0.48
43 72 0.37
44 11 0.06
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATATTTGATTGTAAA
Found at i:54518531 original size:127 final size:127
Alignment explanation
Indices: 54518292--54518613 Score: 304
Period size: 127 Copynumber: 2.5 Consensus size: 127
54518282 AGATTCCCCG
* *
54518292 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGTTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
* * * * * *
54518357 ACCGTATATTTGATTGTAAAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-AA
66 ACCGTATATCTAAATATAAAAGGGGTTGCTAAGTACTGATTCCCCGTATCACTGAATATGAA
* * *
54518418 AGGTGGTTGCTAAGTGCTGATTCCACCGTA-TATTTGATTGTAAAAGG-GGTTGCTATGTGCTGA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGAATTA-TTGATTCT-AAAGGTGGTTGCTAAGTGCTGA
** * *
54518481 TTCC-CCGTATCA-CTAAATAT-AAAGGTGGTTGCTAAGTACT-ATTCCACCGTATCTTTGATTG
62 TTCCACCGTAT-ATCTAAATATAAAAGG-GGTTGCTAAGTACTGATTCC-CCGTATCACTGAATA
54518542 TGAA
124 TGAA
* * * * * *
54518546 AGGGGTTGCTATGTGCTGATTCCCC-ATATCACTGAATT-T-AAGGTGGTTGCTAAATGTTGAAT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-ATTATTG-ATTCTAAAGGTGGTTGCTAAGTGCTGATT
54518608 CCACCG
64 CCACCG
54518614 AGTAACGGAT
Statistics
Matches: 160, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
124 4 0.03
125 16 0.10
126 22 0.14
127 78 0.49
128 35 0.22
129 5 0.03
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (127 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATATCTAAATATAAAAGGGGTTGCTAAGTACTGATTCCCCGTATCACTGAATATGAA
Found at i:54518578 original size:84 final size:85
Alignment explanation
Indices: 54518292--54518613 Score: 477
Period size: 85 Copynumber: 3.8 Consensus size: 85
54518282 AGATTCCCCG
* * * * * * * *
54518292 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGTTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
54518357 ACCGTATATTTGATTGTAAA
66 ACCGTATATTTGATTGTAAA
54518377 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
54518442 ACCGTATATTTGATTGTAAA
66 ACCGTATATTTGATTGTAAA
* *
54518462 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAAGGTGGTTGCTAAGTACT-ATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
* *
54518526 ACCGTATCTTTGATTGTGAA
66 ACCGTATATTTGATTGTAAA
* * * * *
54518546 AGGGGTTGCTATGTGCTGATTCCCCATATCACTGAAT-TTAAGGTGGTTGCTAAATGTTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
54518610 ACCG
66 ACCG
54518614 AGTAACGGAT
Statistics
Matches: 217, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
83 17 0.08
84 66 0.30
85 134 0.62
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATATTTGATTGTAAA
Found at i:54528348 original size:24 final size:24
Alignment explanation
Indices: 54528321--54528367 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
54528311 CGATCATTTT
54528321 TGAACCAG-TATTCTTTCAATCTTC
1 TGAA-CAGTTATTCTTTCAATCTTC
* *
54528345 TGAATAGTTATTCTTTCATTCTT
1 TGAACAGTTATTCTTTCAATCTT
54528368 TTGGATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (24 bp):
TGAACAGTTATTCTTTCAATCTTC
Found at i:54529060 original size:13 final size:14
Alignment explanation
Indices: 54529031--54529068 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
54529021 TGATTTAATC
*
54529031 CAAAAAAAAAACAA
1 CAAAAACAAAACAA
54529045 CAAAAACAAAAC-A
1 CAAAAACAAAACAA
54529058 CAAAAACAAAA
1 CAAAAACAAAA
54529069 AAAGGGGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAACAAAACAA
Found at i:54529060 original size:16 final size:14
Alignment explanation
Indices: 54529031--54529069 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
54529021 TGATTTAATC
54529031 CAAAAAAAAAACAA
1 CAAAAAAAAAACAA
*
54529045 CAAAAACAAAAC-A
1 CAAAAAAAAAACAA
54529058 CAAAAACAAAAA
1 CAAAAA-AAAAA
54529070 AAGGGGGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (14 bp):
CAAAAAAAAAACAA
Found at i:54529102 original size:14 final size:13
Alignment explanation
Indices: 54529086--54529159 Score: 67
Period size: 14 Copynumber: 5.5 Consensus size: 13
54529076 GGGAAAGAAG
54529086 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
* *
54529099 GAAAAAAGAGAACA
1 -AAAAAAAAGAAAA
* *
54529113 AAAAAGAACAAAA
1 AAAAAAAAGAAAA
*
54529126 AATAAAAAACAAAA
1 AA-AAAAAAGAAAA
*
54529140 AACAAAAAGAAACA
1 AAAAAAAAGAAA-A
54529154 AAAAAA
1 AAAAAA
54529160 CCTCTACTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
13 19 0.40
14 29 0.60
ACGTcount: A:0.84, C:0.07, G:0.08, T:0.01
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:54529106 original size:24 final size:25
Alignment explanation
Indices: 54529079--54529151 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
54529069 AAAGGGGGGG
54529079 AAAGAAGAAAAAAAAGAAAAGAAA-
1 AAAGAAGAAAAAAAAGAAAAGAAAT
*
54529103 AAAG-AGAACAAAAAAGAACAAAAAAT
1 AAAGAAGAA-AAAAAAGAA-AAGAAAT
* * *
54529129 AAAAAACAAAAAACA-AAAAGAAA
1 AAAGAAGAAAAAAAAGAAAAGAAA
54529152 CAAAAAAACC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 4 0.10
24 18 0.45
25 7 0.17
26 8 0.20
27 3 0.08
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.01
Consensus pattern (25 bp):
AAAGAAGAAAAAAAAGAAAAGAAAT
Found at i:54529115 original size:10 final size:10
Alignment explanation
Indices: 54529095--54529158 Score: 60
Period size: 10 Copynumber: 6.4 Consensus size: 10
54529085 GAAAAAAAAG
54529095 AAAAGAA-AA
1 AAAAGAACAA
*
54529104 AAGAGAACAA
1 AAAAGAACAA
54529114 AAAAGAACAA
1 AAAAGAACAA
* *
54529124 AAAATAAAAA
1 AAAAGAACAA
*
54529134 ACAAAAAAC-A
1 A-AAAGAACAA
54529144 AAAAGAAACAA
1 AAAAG-AACAA
54529155 AAAA
1 AAAA
54529159 ACCTCTACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
9 9 0.20
10 25 0.57
11 10 0.23
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.02
Consensus pattern (10 bp):
AAAAGAACAA
Found at i:54529146 original size:12 final size:12
Alignment explanation
Indices: 54529079--54529146 Score: 61
Period size: 12 Copynumber: 5.7 Consensus size: 12
54529069 AAAGGGGGGG
54529079 AAAGAAGAA-AAA
1 AAAGAA-AACAAA
*
54529091 AAAGAAAAGAAA
1 AAAGAAAACAAA
*
54529103 AAAGAGAACAAA
1 AAAGAAAACAAA
54529115 AAAGAACAA-AAA
1 AAAGAA-AACAAA
54529127 ATAA-AAAACAAA
1 A-AAGAAAACAAA
*
54529139 AAACAAAA
1 AAAGAAAA
54529147 AGAAACAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
11 6 0.12
12 38 0.79
13 4 0.08
ACGTcount: A:0.82, C:0.06, G:0.10, T:0.01
Consensus pattern (12 bp):
AAAGAAAACAAA
Found at i:54531943 original size:100 final size:100
Alignment explanation
Indices: 54531109--54531893 Score: 1219
Period size: 100 Copynumber: 7.8 Consensus size: 100
54531099 CTTTGGTATT
** * * **
54531109 GCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTAATTCCCTGGTGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
**
54531174 GAAGTCACAACTACGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* *
54531209 GCAATTAAAAAGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGATGCAGTGGAAAAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
*
54531274 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAAC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
** * **
54531309 GCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
*
54531374 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGT
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
*
54531409 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAGTGGAAAAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
54531474 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
** **
54531509 GCAATTAAAAAGATTGAAGTTACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
* *
54531574 GAAGTCACAACGCCGGATTTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * * * *
54531609 ACAATTAAAATGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGCGGTGTAGTGGAAAAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
54531674 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* **
54531709 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
* *
54531774 GAAGTCACAACGACGGATTTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * * *
54531809 ACAATTAAAATGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAAAAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
*
54531874 GAAGTCACAACGGCAGATCT
66 GAAGTCACAACGGCGGATCT
54531894 TACTTCCCTG
Statistics
Matches: 626, Mismatches: 59, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 626 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAAAAGATT
GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
Found at i:54531951 original size:100 final size:100
Alignment explanation
Indices: 54531820--54532149 Score: 392
Period size: 100 Copynumber: 3.3 Consensus size: 100
54531810 CAATTAAAAT
* *** * * * * ** *
54531820 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAAAAGATTGAAGTCACAAC
1 GATTGAAGTCACAACGGCGGATCTGGTTTCCCCGGCAGTGCAATTAAAAAGATTGAAGCCACAAC
*
54531885 GGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCA
66 GGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCA
*
54531920 GATTGAAGTCACAACGACGGATCTGGTTTCCCCGGCAGTGCAATTAAAAAGATTGAAGCCACAAC
1 GATTGAAGTCACAACGGCGGATCTGGTTTCCCCGGCAGTGCAATTAAAAAGATTGAAGCCACAAC
*
54531985 GACAGATCTTACTTCCCTAGCGGTGCAGTGGAGCA
66 GGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCA
* ** ** * *
54532020 GATTGAAGTCACAGCGGTAGATCTGGTTTCCCCGATAGCGCAATTAAAAAGATTAAAGCCACAAC
1 GATTGAAGTCACAACGGCGGATCTGGTTTCCCCGGCAGTGCAATTAAAAAGATTGAAGCCACAAC
* * * * *
54532085 GGCGGATCTTACTTCCTTAGCAGTGCAGTTGAACA
66 GGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCA
* *
54532120 GATTGAAG-CTACGACGGCGGATCTTGTTTC
1 GATTGAAGTC-ACAACGGCGGATCTGGTTTC
54532150 TTCGACATTG
Statistics
Matches: 196, Mismatches: 33, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
99 1 0.01
100 195 0.99
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (100 bp):
GATTGAAGTCACAACGGCGGATCTGGTTTCCCCGGCAGTGCAATTAAAAAGATTGAAGCCACAAC
GGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCA
Found at i:54532042 original size:50 final size:50
Alignment explanation
Indices: 54531116--54532043 Score: 622
Period size: 50 Copynumber: 18.6 Consensus size: 50
54531106 ATTGCAATTA
* ** * *
54531116 AAAAGATTGAAGCCACAACGGTGGATCTTAATTCCCTGGTGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
** ** * *** * * * * * **
54531166 AGCAGATTGAAGTCACAACTACGGATCTGGTTTCCCCGACAGCGCAATTA
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
* * *
54531216 AAAAGATTGAAGCCACAACGGTAGATCTTACTTCCCTGGCGATGCAGTGG
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
* *** * * *** * **
54531266 AAAAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAACGCAATTA
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
* ** *
54531316 AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGATGCAGTGG
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
** * *** * * * * **
54531366 AGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGTGCAATTA
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
* *
54531416 AAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGTAGTGG
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
* *** * * * * * **
54531466 AAAAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTA
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
*
54531516 AAAAGATTGAAGTTACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
** * * ** * * * ** * *
54531566 AGCAGATTGAAGTCACAACGCCGGAT-TTGGTTTCCCCGACAGCACAAT-T
1 AAAAGATTGAAGTCACAACGGCAGATCTT-ACTTCCCTGGCGGTGCAGTGG
* * * *
54531615 AAAATGATTGAAGCCACAACGGCGGATCTTACTTCCCTAGCGGTGTAGTGG
1 AAAA-GATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
* *** * * * * * **
54531666 AAAAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGCGCAATTA
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
* *
54531716 AAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
** * * ** * * * ** * *
54531766 AGCAGATTGAAGTCACAACGACGGAT-TTGGTTTCCCCGACAGCACAAT-T
1 AAAAGATTGAAGTCACAACGGCAGATCTT-ACTTCCCTGGCGGTGCAGTGG
* * *
54531815 AAAATGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGG
1 AAAA-GATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
54531866 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
** * * *** * * * **
54531916 AGCAGATTGAAGTCACAACGACGGATCTGGTTTCCCCGGCAGTGCAATTA
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
* * *
54531966 AAAAGATTGAAGCCACAACGACAGATCTTACTTCCCTAGCGGTGCAGTGG
1 AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
** * *
54532016 AGCAGATTGAAGTCACAGCGGTAGATCT
1 AAAAGATTGAAGTCACAACGGCAGATCT
54532044 GGTTTCCCCG
Statistics
Matches: 639, Mismatches: 231, Indels: 16
0.72 0.26 0.02
Matches are distributed among these distances:
49 8 0.01
50 619 0.97
51 12 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
AAAAGATTGAAGTCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGG
Found at i:54536168 original size:4 final size:4
Alignment explanation
Indices: 54536159--54536187 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
54536149 ACCATTATTC
54536159 CTTT CTTT CTTT CTTT CTTT -TTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
54536188 AATTTTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:54543049 original size:26 final size:28
Alignment explanation
Indices: 54542998--54543051 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
54542988 ACTTTTGTCA
54542998 AATAAAAGTATCATATTAAGCAAAAAAAT
1 AATAAAAGTATCATATTAAG-AAAAAAAT
54543027 AATATAAA-TATCATATT-AGAAAAAA
1 AATA-AAAGTATCATATTAAGAAAAAA
54543052 GTATCAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.25
28 2 0.08
29 13 0.54
30 3 0.12
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (28 bp):
AATAAAAGTATCATATTAAGAAAAAAAT
Found at i:54544023 original size:61 final size:61
Alignment explanation
Indices: 54543953--54544074 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
54543943 AATCAATTAA
54543953 TTGTTACAACAACTCTAGCATATTTAGTATAAACTCTCTCATCCAATCAACATTTTCAACT
1 TTGTTACAACAACTCTAGCATATTTAGTATAAACTCTCTCATCCAATCAACATTTTCAACT
*
54544014 TTGTTACAACAACTCTAGCATATTTAGTATGAACTCTCTCATCCAATCAACATTTTCAACT
1 TTGTTACAACAACTCTAGCATATTTAGTATAAACTCTCTCATCCAATCAACATTTTCAACT
54544075 GAAGATTGTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.36
Consensus pattern (61 bp):
TTGTTACAACAACTCTAGCATATTTAGTATAAACTCTCTCATCCAATCAACATTTTCAACT
Found at i:54544742 original size:17 final size:17
Alignment explanation
Indices: 54544691--54544742 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
54544681 ATGGAAACAT
* * *
54544691 AATCTTCGAGGATATAC
1 AATCTTAGAAGATATGC
*
54544708 AATCGTAGATATGATATGC
1 AATCTTAGA-A-GATATGC
54544727 AATCTTAGAAGATATG
1 AATCTTAGAAGATATG
54544743 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (17 bp):
AATCTTAGAAGATATGC
Found at i:54544742 original size:22 final size:23
Alignment explanation
Indices: 54544714--54544758 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
54544704 ATACAATCGT
54544714 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
54544736 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
54544759 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:54549755 original size:22 final size:23
Alignment explanation
Indices: 54549727--54549771 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
54549717 ATACAATCGT
*
54549727 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATATAATCTTAGA
*
54549749 AGATATGATTTTATAATCTTAGA
1 AGATATGATTATATAATCTTAGA
54549772 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (23 bp):
AGATATGATTATATAATCTTAGA
Found at i:54549781 original size:22 final size:23
Alignment explanation
Indices: 54549739--54549781 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
54549729 ATATGATATG
*
54549739 TAATCTTAGAAGATATGATTTTA
1 TAATCTTAGAAGATATAATTTTA
*
54549762 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
54549782 GTAGATACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTA
Found at i:54556674 original size:56 final size:56
Alignment explanation
Indices: 54556566--54556723 Score: 217
Period size: 56 Copynumber: 2.8 Consensus size: 56
54556556 GTGGGGGTGT
* * * *
54556566 TAGGATATTATTATGGGATTTTATCTTTTTAGCAATTTAATTCCTAATGAGATGTTA
1 TAGGATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAACGAGATATTA
* * *
54556623 TAGGATGTTATTATGAGATATTATCTCTTAGCAATTTGATTCCTAACGAGATATTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAACGAGATATTA
* * *
54556679 TAAGATATTATTATGGGGTATTATCTTTTAACAATTTGATTCCTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
54556724 CACAACTATT
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
56 66 0.75
57 22 0.25
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAACGAGATATTA
Found at i:54558251 original size:9 final size:9
Alignment explanation
Indices: 54558237--54558313 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
54558227 GTCAGCCTAA
54558237 TAAAAATTT
1 TAAAAATTT
54558246 TAAAAATTT
1 TAAAAATTT
*
54558255 T-AAAATAT
1 TAAAAATTT
*
54558263 TCAAAA--T
1 TAAAAATTT
54558270 TAAAAATTT
1 TAAAAATTT
54558279 TAAAAATATAT
1 TAAAAAT-T-T
* *
54558290 AAAAAATTCA
1 TAAAAATT-T
54558300 TAAAAA-TT
1 TAAAAATTT
54558308 TAAAAA
1 TAAAAA
54558314 GAGAGCATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
7 6 0.11
8 13 0.23
9 23 0.41
10 7 0.12
11 7 0.12
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAATTT
Found at i:54562916 original size:44 final size:44
Alignment explanation
Indices: 54562732--54562979 Score: 200
Period size: 44 Copynumber: 5.6 Consensus size: 44
54562722 TTAATCCAAC
* * *
54562732 CCACTGCAACTTCA--GAGGTATAGAATTTGTCGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATA-AG-ATTTGTTGTTTCAATCTGCT
* * * * *
54562776 CCA-TCGTAACTTTAGGAAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACT-GCAACTTCAGGGAGATAAGATTTGTTGTTTCAATCTGCT
* * * * **
54562820 CCACTACAACTTCAGGGAGACAAGA-TTGTGGCTTTCAGTCTATT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTG-TTTCAATCTGCT
* * *
54562864 CTATTGCAACTTTAGGGAGATAAGATTTGTTGTTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTGTTTCAATCTGCT
* ** * *
54562908 CCACTGCAACTTCAGGGATATTGGATTTATATATTT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-TGTTTCAATCTGCT
*
54562952 CCACTTGCAACTTCAGAGAGATAAGATT
1 CCAC-TGCAACTTCAGGGAGATAAGATT
54562980 CGCTATGGTA
Statistics
Matches: 160, Mismatches: 36, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
43 6 0.04
44 119 0.74
45 31 0.19
46 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTTGTTTCAATCTGCT
Found at i:54566581 original size:26 final size:26
Alignment explanation
Indices: 54566528--54566588 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
54566518 ACCACTAATA
* *
54566528 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCATATAATCG
*
54566554 GGAAGCTCACGAAGAGACATATAA-CG
1 GGAAGCTCACAAAGAG-CATATAATCG
*
54566580 GGACGCTCA
1 GGAAGCTCA
54566589 TAAGAGTTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCATATAATCG
Found at i:54572242 original size:19 final size:20
Alignment explanation
Indices: 54572206--54572243 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
54572196 ATTAGAACAA
54572206 CTTTACTAGAAAATAAATAT
1 CTTTACTAGAAAATAAATAT
54572226 CTTTACATA-AAAA-AAATA
1 CTTTAC-TAGAAAATAAATA
54572244 GATTTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 10 0.59
21 2 0.12
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (20 bp):
CTTTACTAGAAAATAAATAT
Found at i:54576308 original size:5 final size:5
Alignment explanation
Indices: 54576298--54576322 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54576288 GACTAAATTG
54576298 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
54576323 GGTGCAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:54577967 original size:41 final size:41
Alignment explanation
Indices: 54577921--54578066 Score: 238
Period size: 41 Copynumber: 3.6 Consensus size: 41
54577911 ACCGACATAA
* *
54577921 AGCCTGCTAGACACAAAGCCCGATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
* *
54577962 AGCCTGCTAGGGATAAAGCCTGATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
* *
54578003 AGCATGCTAGGCATAAAGCCCAATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
54578044 AGCCTGCTAGGCATAAAGCCCGA
1 AGCCTGCTAGGCATAAAGCCCGA
54578067 ACTTACAAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (41 bp):
AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
Found at i:54578270 original size:18 final size:18
Alignment explanation
Indices: 54578247--54578284 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
54578237 TAACAATTAC
54578247 ATATACATTCAGATGTAG
1 ATATACATTCAGATGTAG
*
54578265 ATATACATTCAGCTGTAG
1 ATATACATTCAGATGTAG
54578283 AT
1 AT
54578285 TAATTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATACATTCAGATGTAG
Found at i:54578305 original size:65 final size:67
Alignment explanation
Indices: 54578200--54578323 Score: 162
Period size: 65 Copynumber: 1.9 Consensus size: 67
54578190 ACAAATATAT
* * **
54578200 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAAC-AAT-TACATATACATTCAGATGT
1 ATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAAATATACATATACATTCAGATGT
54578263 AG
66 AG
** * *
54578265 ATATACATTCAGCTGTAGATTAATTCATTTCAATGTATAACAAATATATATATACATTC
1 ATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAAATATACATATACATTC
54578324 GGCCATAGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 34 0.69
66 3 0.06
67 12 0.24
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (67 bp):
ATATACATTCAGCCATAGATTAATTCATTTCAATGCATAACAAATATACATATACATTCAGATGT
AG
Found at i:54578316 original size:47 final size:46
Alignment explanation
Indices: 54578265--54578409 Score: 173
Period size: 47 Copynumber: 3.0 Consensus size: 46
54578255 TCAGATGTAG
* *
54578265 ATATACATTCAGCTGTAGATTAATTCATTTCAATGTATAACAAATATAT
1 ATATACATTCAGCTATAGATTAATTCATTTC-ATGCATAAC-AA-ATAT
* * * * * *
54578314 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
1 ATATACATTCAGCTATAGATTAATTCATTTC-ATGCATAACAAATAT
54578361 ATATACATTCAGCTATAGATTAATTCATTTTCATGCATAACAAATAT
1 ATATACATTCAGCTATAGATTAATTCA-TTTCATGCATAACAAATAT
54578408 AT
1 AT
54578410 TTATATATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 40 0.50
48 6 0.08
49 34 0.43
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (46 bp):
ATATACATTCAGCTATAGATTAATTCATTTCATGCATAACAAATAT
Found at i:54578318 original size:49 final size:48
Alignment explanation
Indices: 54578265--54578414 Score: 187
Period size: 49 Copynumber: 3.1 Consensus size: 48
54578255 TCAGATGTAG
* *
54578265 ATATACATTCAGCTGTAGATTAATTCATTTCAATGTATAACAAATATAT
1 ATATACATTCAGCTATAGATTAATTCATTTC-ATGCATAACAAATATAT
* * * * *
54578314 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAAC-AAT-TAC
1 ATATACATTCAGCTATAGATTAATTCATTTC-ATGCATAACAAATATAT
54578361 ATATACATTCAGCTATAGATTAATTCATTTTCATGCATAACAAATATAT
1 ATATACATTCAGCTATAGATTAATTCA-TTTCATGCATAACAAATATAT
*
54578410 TTATA
1 ATATA
54578415 TATATACATT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
47 34 0.40
48 10 0.12
49 40 0.48
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.39
Consensus pattern (48 bp):
ATATACATTCAGCTATAGATTAATTCATTTCATGCATAACAAATATAT
Found at i:54578380 original size:114 final size:112
Alignment explanation
Indices: 54578171--54578387 Score: 380
Period size: 114 Copynumber: 1.9 Consensus size: 112
54578161 TAACTTCAAA
*
54578171 TAATTTATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
1 TAATTCATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
*
54578236 ATAACAATTACATATACATTCAGATGTAGATATACATTCAGCTGTAGAT
66 ATAACAATTACATATACATTCAGATATAGAT-TA-ATTCAGCTGTAGAT
*
54578285 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
1 TAATTCATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
*
54578350 ATAACAATTACATATACATTCAGCTATAGATTAATTCA
66 ATAACAATTACATATACATTCAGATATAGATTAATTCA
54578388 TTTTCATGCA
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
112 5 0.05
113 2 0.02
114 92 0.93
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.38
Consensus pattern (112 bp):
TAATTCATTTCAATGCATAACAAATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGC
ATAACAATTACATATACATTCAGATATAGATTAATTCAGCTGTAGAT
Found at i:54583757 original size:18 final size:17
Alignment explanation
Indices: 54583734--54583787 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
54583724 TGGTTATAGT
54583734 TTTTAAAACCATTAAAAA
1 TTTTAAAA-CATTAAAAA
54583752 TTTTAAATA-ATTTAAAAA
1 TTTTAAA-ACA-TTAAAAA
*
54583770 TTATAAAACA-TAAAAA
1 TTTTAAAACATTAAAAA
54583786 TT
1 TT
54583788 ATATAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.25
17 2 0.06
18 21 0.66
19 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTTAAAACATTAAAAA
Found at i:54583785 original size:17 final size:17
Alignment explanation
Indices: 54583764--54583802 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
54583754 TTAAATAATT
*
54583764 TAAAAATTATA-AAACA
1 TAAAAATTATATAAAAA
54583780 TAAAAATTATATAAAAA
1 TAAAAATTATATAAAAA
54583797 TAAAAA
1 TAAAAA
54583803 CAATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAATTATATAAAAA
Found at i:54584117 original size:17 final size:19
Alignment explanation
Indices: 54584097--54584137 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
54584087 TTTTAATAGT
54584097 TTTTAATAATT-TTTAT-A
1 TTTTAATAATTATTTATAA
54584114 TTTT-A-AATTATTTATAA
1 TTTTAATAATTATTTATAA
54584131 TTTTAAT
1 TTTTAAT
54584138 GTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 9 0.45
18 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAATAATTATTTATAA
Found at i:54585018 original size:13 final size:13
Alignment explanation
Indices: 54585000--54585025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54584990 CTTAAAAATA
54585000 ATGAAATAATAAC
1 ATGAAATAATAAC
54585013 ATGAAATAATAAC
1 ATGAAATAATAAC
54585026 GTACAACGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
ATGAAATAATAAC
Found at i:54585488 original size:49 final size:47
Alignment explanation
Indices: 54585432--54585549 Score: 128
Period size: 49 Copynumber: 2.4 Consensus size: 47
54585422 TCTTTAAGTA
54585432 ATAATACATAATAATTTTGAAATAATAACATATGATAACTTTAAAAAT
1 ATAATACATAATAA-TTTGAAATAATAACATATGATAACTTTAAAAAT
* * * * * *
54585480 ATGAATACATAATGCATCTAAAATAATAATATATGATAAGTTTAAAATT
1 AT-AATACATAAT-AATTTGAAATAATAACATATGATAACTTTAAAAAT
* *
54585529 ATAGTATATAATAAATTTGAA
1 ATAATACATAAT-AATTTGAA
54585550 GCTATAATGT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
48 15 0.27
49 40 0.71
50 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (47 bp):
ATAATACATAATAATTTGAAATAATAACATATGATAACTTTAAAAAT
Found at i:54585525 original size:24 final size:23
Alignment explanation
Indices: 54585430--54585594 Score: 77
Period size: 24 Copynumber: 7.0 Consensus size: 23
54585420 TATCTTTAAG
* * *
54585430 TAATAATACATAATAATTTTGAAA
1 TAATAATATATGATAA-TTTAAAA
*
54585454 TAATAACATATGATAACTTTAAAA
1 TAATAATATATGATAA-TTTAAAA
* * * *
54585478 -ATATGAATACATAATGCATCTAAAA
1 TA-AT-AATATATGAT-AATTTAAAA
54585503 TAATAATATATGATAAGTTTAAAA
1 TAATAATATATGATAA-TTTAAAA
* * * **
54585527 TTATAGTATATAATAAATTTGAAGC
1 TAATAATATATGAT-AATTT-AAAA
*
54585552 T-ATAATGTATGATAAATTT-AAA
1 TAATAATATATGAT-AATTTAAAA
* *
54585574 TAATACTA-ATGATGATTTAAA
1 TAATAATATATGATAATTTAAA
54585595 GTAACAGTAT
Statistics
Matches: 105, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
21 4 0.04
22 9 0.09
23 6 0.06
24 64 0.61
25 20 0.19
26 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (23 bp):
TAATAATATATGATAATTTAAAA
Found at i:54587478 original size:173 final size:173
Alignment explanation
Indices: 54587241--54587564 Score: 395
Period size: 173 Copynumber: 1.9 Consensus size: 173
54587231 TACTCCTCTG
* *
54587241 CAACTTCAGAGAGATAAGATCTATCATTTCGATCTGCTCTACTGCAACTTCAAGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATCATTTCAATCAGCTCTACTGCAACTTCAAGGAGATAGGATT
* * * ** ***
54587306 -TGGGGTTCTAATCCACTCTACTGCAACTTCAGGGAGATAGGATTAGT-TTCTTGTGTCTGCTCC
66 ATCGGCTTC-AATCCACTCCACTGCAACTTCAGGGAGATAGGATTA-TCGGCTTCAATCTGCTCC
*
54587369 ATTGCAACCTCAGGGAGACAAGACGGGTTGCAATCTGCTCTACTA
129 ACTGCAACCTCAGGGAGACAAGACGGGTTGCAATCTGCTCTACTA
* * * * * * *
54587414 CAACTTCAGAGAGATAAGATCTGT-AGTTTTAATCAGCTCCT-TTGTAATTTCAGGGAGTTAGGA
1 CAACTTCAGAGAGATAAGATCTATCA-TTTCAATCAGCT-CTACTGCAACTTCAAGGAGATAGGA
**
54587477 TTATCGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCC
64 TTATCGGCTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCC
*
54587542 ACTGCAACCTCAGGGAGATAAGA
129 ACTGCAACCTCAGGGAGACAAGA
54587565 TTTGCCATCT
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
172 2 0.02
173 116 0.92
174 8 0.06
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (173 bp):
CAACTTCAGAGAGATAAGATCTATCATTTCAATCAGCTCTACTGCAACTTCAAGGAGATAGGATT
ATCGGCTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
TGCAACCTCAGGGAGACAAGACGGGTTGCAATCTGCTCTACTA
Found at i:54587593 original size:45 final size:44
Alignment explanation
Indices: 54587228--54587757 Score: 253
Period size: 44 Copynumber: 12.2 Consensus size: 44
54587218 GTCTTATGTG
* * * * *
54587228 ATCTACTCCTCTGCAACTTCAGAGAGATAAGATCTATCA-TTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* * * ** *
54587272 ATCTGCTCTACTGCAACTTCAAGGAGATAGGATT-TGGGGTTCTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTC-A
** * * ** **
54587316 ATCCACTCTACTGCAACTTCAGGGAGATAGGATTAGT-TTCTTGT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TCAGCTTCA
* * * * * *
54587360 GTCTGCTCCATTGCAACCTCAGGGAGACAAG---A-CGGGTTGCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTT-CA
* * * * * *
54587401 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGT-AGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* ** * * * * *
54587445 ATCAGCTCCTTTGTAATTTCAGGGAGTTAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* *
54587489 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* * *
54587533 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT--CAGCTTCA
* * * ** *
54587578 ATCTGCCCCGCTGCAACTTCAGGGGGATAAGACCTCCTTA-C-TCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTATCAGCTTCA
* * * * * * *
54587622 ATCTACTCCGCTGCAACTTCAGTGAGATAAGACT-T--GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
* * * * * *
54587663 ATCTACTCTACTGCAACTTTAGAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCAGCTTCA
* * * * *
54587707 ATCCGCTCCTCTGCAACTTTAGGAAGATAGGATTATCAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
54587751 ATCTGCT
1 ATCTGCT
54587758 TCCTTACTCT
Statistics
Matches: 360, Mismatches: 102, Indels: 48
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.01
41 55 0.15
42 2 0.01
43 12 0.03
44 246 0.68
45 39 0.11
46 2 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCAGCTTCA
Found at i:54587980 original size:129 final size:129
Alignment explanation
Indices: 54587745--54589285 Score: 2516
Period size: 129 Copynumber: 12.0 Consensus size: 129
54587735 AGGATTATCA
* * * * * * * *
54587745 GCTTCAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCCTT-AATTTGTTCTGCTACTGC
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGT-CTTCGATCTGCTCCGCTATTGC
*
54587809 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATACGACTTGTG
65 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * *
54587874 GCTTAAATCTGCATCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATATGCTCCGTTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
**
54587939 TAGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
*
54588003 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTCCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
*
54588068 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATGTAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
54588132 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
54588197 TAGGGAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
** * * *
54588260 GCTTAAATCTGCTTCCAGACACTTGAAGATAAGATTTGCCATCCTCGATCTGCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
** *
54588325 TAGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGAGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * *
54588389 GTTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
* *
54588454 TAGGCAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* ** *
54588517 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTGGTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
*
54588582 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* *
54588646 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTACTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
54588711 TAGGGAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * * *
54588774 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCATCCTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
** * *
54588839 TAGGGAGACAAGAAATGTAATTTCCCAGCCTATTCCATTGCTGACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* *
54588903 GTTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
* *
54588968 TAGGCAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * *
54589031 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
*
54589096 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACTAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* *
54589160 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTGGATCTGCTCCACTATTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
* * * *
54589225 TAGGGAGACAAGATCTGTACTTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTT
54589286 ACAATCTTCA
Statistics
Matches: 1309, Mismatches: 98, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
128 479 0.37
129 830 0.63
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (129 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCT
TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
Found at i:54588366 original size:257 final size:257
Alignment explanation
Indices: 54587745--54589285 Score: 2578
Period size: 257 Copynumber: 6.0 Consensus size: 257
54587735 AGGATTATCA
* * * * ** * * *
54587745 GCTTCAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCCTTAATTTGTTCTGCTACTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCT
*
54587810 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATACGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* * *
54587875 CTTAAATCTGCATCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATATGCTCCGTTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
**
54587940 AGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
196 AGGGAGACAAGATCTGT-ATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * * *
54588003 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTCCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCT
*
54588068 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATGTAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
54588133 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
54588198 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
196 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* * * *
54588260 GCTTAAATCTGCTTCCAGACACTTGAAGATAAGATTTGCCATCCTCGATCTGCTCCGCTATTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCT
** *
54588325 TAGGGAGACAAGAAATGTAATTTCCCAACCTATTCCACTGCTGACCAGAGATATAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* * *
54588390 TTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
* *
54588455 AGGCAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
196 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
**
54588517 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTGGTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCT
*
54588582 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* *
54588647 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTACTCCGCTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
54588712 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
196 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
*
54588774 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCATCCTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCT
** * *
54588839 TAGGGAGACAAGAAATGTAATTTCCCAGCCTATTCCATTGCTGACCAGGGATATAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* *
54588904 TTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
* *
54588969 AGGCAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTG
196 AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
* *
54589031 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTATTGCT
1 GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCT
*
54589096 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACTAGGGATATAGGACTTGTGG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
* *
54589161 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTGGATCTGCTCCACTATTGCTT
131 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
* * *
54589226 AGGGAGACAAGATCTGTACTTTCCCAATCTATTCCACTACTGACTAGGGATATAGGACTT
196 AGGGAGACAAGATCTGTA-TTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTT
54589286 ACAATCTTCA
Statistics
Matches: 1201, Mismatches: 81, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
257 970 0.81
258 231 0.19
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (257 bp):
GCTTAAATCTGCTTCCTGACACTTGAAGATAAGATTCGCCGTCCTCGATCTGCTCTGCTATTGCT
TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGG
CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
AGGGAGACAAGATCTGTATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTG
Found at i:54591514 original size:6 final size:6
Alignment explanation
Indices: 54591500--54591533 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
54591490 CTTCTCTCTT
* *
54591500 TTTTCA TTTTGA TTTTGA CTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
54591534 TCTTTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:54596083 original size:49 final size:47
Alignment explanation
Indices: 54596027--54596144 Score: 128
Period size: 49 Copynumber: 2.4 Consensus size: 47
54596017 TCTTTAAGTA
54596027 ATAATACATAATAATTTTGAAATAATAACATATGATAACTTTAAAAAT
1 ATAATACATAATAA-TTTGAAATAATAACATATGATAACTTTAAAAAT
* * * * * *
54596075 ATGAATACATAATGCATCTAAAATAATAATATATGATAAGTTTAAAATT
1 AT-AATACATAAT-AATTTGAAATAATAACATATGATAACTTTAAAAAT
* *
54596124 ATAGTATATAATAAATTTGAA
1 ATAATACATAAT-AATTTGAA
54596145 GCTATAATGT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
48 15 0.27
49 40 0.71
50 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (47 bp):
ATAATACATAATAATTTGAAATAATAACATATGATAACTTTAAAAAT
Found at i:54596120 original size:24 final size:23
Alignment explanation
Indices: 54596025--54596189 Score: 77
Period size: 24 Copynumber: 7.0 Consensus size: 23
54596015 TATCTTTAAG
* * *
54596025 TAATAATACATAATAATTTTGAAA
1 TAATAATATATGATAA-TTTAAAA
*
54596049 TAATAACATATGATAACTTTAAAA
1 TAATAATATATGATAA-TTTAAAA
* * * *
54596073 -ATATGAATACATAATGCATCTAAAA
1 TA-AT-AATATATGAT-AATTTAAAA
54596098 TAATAATATATGATAAGTTTAAAA
1 TAATAATATATGATAA-TTTAAAA
* * * **
54596122 TTATAGTATATAATAAATTTGAAGC
1 TAATAATATATGAT-AATTT-AAAA
*
54596147 T-ATAATGTATGATAAATTT-AAA
1 TAATAATATATGAT-AATTTAAAA
* *
54596169 TAATACTA-ATGATGATTTAAA
1 TAATAATATATGATAATTTAAA
54596190 GTAACAGTAT
Statistics
Matches: 105, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
21 4 0.04
22 9 0.09
23 6 0.06
24 64 0.61
25 20 0.19
26 2 0.02
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (23 bp):
TAATAATATATGATAATTTAAAA
Found at i:54597789 original size:16 final size:16
Alignment explanation
Indices: 54597768--54597804 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
54597758 TTGGTTCGCT
*
54597768 GTAATGGAATAGAGGC
1 GTAATGAAATAGAGGC
54597784 GTAATGAAATAGAGGC
1 GTAATGAAATAGAGGC
54597800 GTAAT
1 GTAAT
54597805 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGAAATAGAGGC
Found at i:54599312 original size:3 final size:3
Alignment explanation
Indices: 54599304--54599357 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
54599294 TACTATGGTT
54599304 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
54599352 ATA ATA
1 ATA ATA
54599358 TGGTAATGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:54599965 original size:22 final size:22
Alignment explanation
Indices: 54599934--54599984 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
54599924 AATCACGCCT
*
54599934 ACCGCTGGTCATCGGCGTCGGC
1 ACCGCCGGTCATCGGCGTCGGC
54599956 ACCGCCGGTCATCGGCGTCGGC
1 ACCGCCGGTCATCGGCGTCGGC
*
54599978 GCCGCCG
1 ACCGCCG
54599985 TATACGACGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.08, C:0.41, G:0.37, T:0.14
Consensus pattern (22 bp):
ACCGCCGGTCATCGGCGTCGGC
Found at i:54600887 original size:90 final size:90
Alignment explanation
Indices: 54600783--54601536 Score: 1213
Period size: 90 Copynumber: 8.4 Consensus size: 90
54600773 TCTTCAATCC
* * * * * * *
54600783 ACTTCGCTGCCAGTACAGGAAGATAAGATCTGCTATCTTTGATCGACTTTGCTGCCAAT-TCAGG
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATAT-AGG
* * *
54600847 AAGACAAGATCTGCTATCTCTAATCA
65 AAGACAAGATCTGCTATCTTTGATCT
* *
54600873 ACTTTGCTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
*
54600938 AGACAAGATCTGCTATGTTTGATCT
66 AGACAAGATCTGCTATCTTTGATCT
54600963 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
*
54601028 AGACAAGATCTGCTATGTTTGATCT
66 AGACAAGATCTGCTATCTTTGATCT
54601053 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
54601118 AGACAAGATCTGCTATCTTTGATCT
66 AGACAAGATCTGCTATCTTTGATCT
* * *
54601143 ACTTCGCTGCCAATACCGGAAGAAAAGATCTGTTATCTTCGATTTACTTCGCTACCAATATAGGA
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
*
54601208 AGACAAGATCTGCTATTTTTGATCT
66 AGACAAGATCTGCTATCTTTGATCT
*
54601233 ACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
*
54601298 AGACAAGATCTCCTATCTTTGATCT
66 AGACAAGATCTGCTATCTTTGATCT
* * * *
54601323 ACTTCACTACCAATACAGGAAGACAAAATCTGTTATCCTCGATCTACTTCGCTACCAATATAGGA
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
* *
54601388 TGACAAGATCTGCTATTTTTGATCT
66 AGACAAGATCTGCTATCTTTGATCT
* * *
54601413 ACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTATCAATATAGGA
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
*
54601478 AGACAAGATCTGTTATCTTTGATCT
66 AGACAAGATCTGCTATCTTTGATCT
*
54601503 ACTTCGCTACCAATACAGGAAGACAAGATCTGTT
1 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTT
54601537 GTTTTCAACC
Statistics
Matches: 620, Mismatches: 43, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
90 619 1.00
91 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (90 bp):
ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGA
AGACAAGATCTGCTATCTTTGATCT
Found at i:54601535 original size:45 final size:45
Alignment explanation
Indices: 54600783--54601536 Score: 1004
Period size: 45 Copynumber: 16.8 Consensus size: 45
54600773 TCTTCAATCC
* * * * *
54600783 ACTTCGCTGCCAGTACAGGAAGATAAGATCTGCTATCTTTGATCG
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * * * * * *
54600828 ACTTTGCTGCCAATTCAGGAAGACAAGATCTGCTATCTCTAATCA
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * * *
54600873 ACTTTGCTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * *
54600918 ACTTCGCTACCAATATAGGAAGACAAGATCTGCTATGTTTGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* *
54600963 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * *
54601008 ACTTCGCTACCAATATAGGAAGACAAGATCTGCTATGTTTGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* *
54601053 ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* *
54601098 ACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCTTTGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * * * *
54601143 ACTTCGCTGCCAATACCGGAAGAAAAGATCTGTTATCTTCGATTT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * *
54601188 ACTTCGCTACCAATATAGGAAGACAAGATCTGCTATTTTTGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * *
54601233 ACTTCGCTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* **
54601278 ACTTCGCTACCAATATAGGAAGACAAGATCTCCTATCTTTGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * * *
54601323 ACTTCACTACCAATACAGGAAGACAAAATCTGTTATCCTCGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * * *
54601368 ACTTCGCTACCAATATAGGATGACAAGATCTGCTATTTTTGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* * * *
54601413 ACTTCACTGCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
* *
54601458 ACTTCGCTATCAATATAGGAAGACAAGATCTGTTATCTTTGATCT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
54601503 ACTTCGCTACCAATACAGGAAGACAAGATCTGTT
1 ACTTCGCTACCAATACAGGAAGACAAGATCTGTT
54601537 GTTTTCAACC
Statistics
Matches: 611, Mismatches: 98, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 611 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (45 bp):
ACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCT
Found at i:54605683 original size:14 final size:14
Alignment explanation
Indices: 54605664--54605690 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54605654 TGGTTCAATT
54605664 CTTTACTAGAAAAA
1 CTTTACTAGAAAAA
54605678 CTTTACTAGAAAA
1 CTTTACTAGAAAA
54605691 CAAATCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
CTTTACTAGAAAAA
Found at i:54609157 original size:37 final size:37
Alignment explanation
Indices: 54609114--54609321 Score: 118
Period size: 37 Copynumber: 5.4 Consensus size: 37
54609104 ATTTAATAAA
54609114 AATATATAATTTAATAAAATTCTTAATATTAAATATT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATT
** * * *
54609151 CTTATATGATTTACTAAAA-TCATAATA-TATAATACTAT
1 AATATATAATTTAATAAAATTCTTAATATTA-AATA-T-T
* * * * **
54609189 AAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 AATATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATT
54609233 AATATATAATTTAATAAAATTCTTAATATTAAATATT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATT
** * * *
54609270 CTTATATGATTTACTAAAA-TCATAATA-TATAATACTAT
1 AATATATAATTTAATAAAATTCTTAATATTA-AATA-T-T
*
54609308 AAAATATAATTTAA
1 AATATATAATTTAA
54609322 AATAATTATT
Statistics
Matches: 124, Mismatches: 32, Indels: 29
0.67 0.17 0.16
Matches are distributed among these distances:
35 4 0.03
36 22 0.18
37 39 0.31
38 21 0.17
39 1 0.01
40 4 0.03
41 6 0.05
42 7 0.06
44 12 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (37 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATT
Found at i:54609308 original size:119 final size:119
Alignment explanation
Indices: 54609097--54609433 Score: 619
Period size: 119 Copynumber: 2.9 Consensus size: 119
54609087 GGCCTGTTAC
54609097 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGATT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGATT
54609162 TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT
66 TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT
54609216 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGATT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGATT
54609281 TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT
66 TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT
*
54609335 AAATATAATTTAATAAAAATATATAATTTAATAAAATTC--AATA-TAATTATTCTTATATGAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG-AT
*
54609397 TTACTAAAATCATAACATATAATACTATAAAA-ATAAT
65 TTACTAAAATCATAATATATAATACTATAAAATATAAT
54609434 ATATAATCTA
Statistics
Matches: 215, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
116 20 0.09
117 37 0.17
119 158 0.73
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (119 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGATT
TACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT
Found at i:54609372 original size:10 final size:10
Alignment explanation
Indices: 54609310--54609382 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
54609300 AATACTATAA
54609310 AATATAATTT
1 AATATAATTT
*
54609320 AAAATAA-TT
1 AATATAATTT
*
54609329 -AT-T-ATTA
1 AATATAATTT
54609336 AATATAATTT
1 AATATAATTT
**
54609346 AATA-AAAAT
1 AATATAATTT
54609355 -ATATAATTT
1 AATATAATTT
* *
54609364 AATAAAATTC
1 AATATAATTT
54609374 AATATAATT
1 AATATAATT
54609383 ATTCTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.13
9 9 0.20
10 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATAATTT
Found at i:54609618 original size:9 final size:9
Alignment explanation
Indices: 54609604--54609631 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
54609594 CAAAAGGTTA
54609604 CATGAAATT
1 CATGAAATT
54609613 CATGAAATT
1 CATGAAATT
54609622 CATGAAATT
1 CATGAAATT
54609631 C
1 C
54609632 TATGTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
CATGAAATT
Found at i:54610903 original size:49 final size:49
Alignment explanation
Indices: 54610831--54610934 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
54610821 AGAAAAAAAC
* * *
54610831 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
54610880 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
54610929 AAATTA
1 AAATTA
54610935 TAACACATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:54613042 original size:16 final size:16
Alignment explanation
Indices: 54613023--54613053 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
54613013 TAAATTGGAA
54613023 TATTAAAAATAAAAAT
1 TATTAAAAATAAAAAT
54613039 TATTAAAAATAAAAA
1 TATTAAAAATAAAAA
54613054 AAATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAAATAAAAAT
Found at i:54614733 original size:78 final size:78
Alignment explanation
Indices: 54614580--54614734 Score: 193
Period size: 78 Copynumber: 2.0 Consensus size: 78
54614570 ATCAGCCAAG
* * * *
54614580 GGGTTAACAAGGAGTGAATTTGCAATTATGATTCTAACTTAATTGGGTTAGCTTCCATTGATAAG
1 GGGTTAACAAGGACTGAATTCGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
* **
54614645 GCAATGACACTCA
66 ACAACAACACTCA
** * * * *
54614658 GGGTTAATGAGGACTGAATTCGCAATGATGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAAG
1 GGGTTAACAAGGACTGAATTCGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
54614723 ACAACAACACTC
66 ACAACAACACTC
54614735 GAAACTTGCA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (78 bp):
GGGTTAACAAGGACTGAATTCGCAATGATGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAG
ACAACAACACTCA
Found at i:54626482 original size:132 final size:133
Alignment explanation
Indices: 54626309--54627283 Score: 1167
Period size: 132 Copynumber: 7.4 Consensus size: 133
54626299 ATAGGATTTG
* * * ** ** ** **
54626309 CCATTTTCGATCTGCTCGACTACTACTTAGGGAGATAAGATCAG-TTTCTTCGGTCTGCTCTGCT
1 CCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
** * * * *
54626373 GCAACCTC-GGGGAGATAAAATTACAGGCTTCAATGTACTCTACTGTAATCACAGGGAGGTAAAA
66 GCTTCCTCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAA
54626437 TCCA
130 TCCA
* * * * * **
54626441 CCATCTTGGATATGCTCCACTACTACTTAGGGAGATGAGATCTGAAATATTCAACCTATTCTGCT
1 CCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
*
54626506 GCTGCC-CAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAA
66 GCTTCCTCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAA
*
54626569 TCCG
130 TCCA
* *
54626573 CCATCTTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* * *
54626638 GC-TGCTCAGAGAAGTAGAATTACTGGCTTCAATGTATTCCACTGTAATCACAGGGAGGTAAAA-
66 GCTTCCTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
*
54626701 CCTG
131 CC-A
* *
54626705 CCATCTTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* * * *
54626770 G-TTCCCCAGGGAAGTAGAATGATTGGCTTTAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
66 GCTTCCTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
54626834 CCA
131 CCA
** *
54626837 CCATCTTCGATCTGCTCCACTACCGCCTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* * * *
54626902 G-TTCCCCAGGGAAGTAGAATGATTGGCTTTAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
66 GCTTCCTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
54626966 CCA
131 CCA
* * ** * *
54626969 CCATCTTC---CTGCTCCACT-GTAACTGAGGGAGGCAAGGTCTGTAATCTTCAATCTATTCCAC
1 CCATCTTCGATCTGCTCCACTACT-ACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCAC
*
54627030 TGC-TGCTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAA
65 TGCTTCCTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAA
54627094 TCCA
130 TCCA
* * ** * ** * *
54627098 CCATCTT---TCTGCTCCACTGCAACCGACGGAGGCAAGGTCTGTAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* *
54627160 GCTGCCT-AGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
66 GCTTCCTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
54627224 CCA
131 CCA
* * * * *
54627227 CCATCTTCGATCTACTCCACTACTGCCTAGGGAGATCATG-TCTGAAATATTCAATCT
1 CCATCTTCGATCTGCTCCACTACTACTTAGGGAGAT-AAGATCTGAAATCTTCAATCT
54627284 GCTTCGCTGT
Statistics
Matches: 749, Mismatches: 78, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
129 229 0.31
130 2 0.00
131 3 0.00
132 490 0.65
133 25 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (133 bp):
CCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
GCTTCCTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
CCA
Found at i:54626605 original size:44 final size:44
Alignment explanation
Indices: 54626557--54626769 Score: 162
Period size: 44 Copynumber: 4.8 Consensus size: 44
54626547 CTGTAATCAC
* * * *
54626557 AGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTACTT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTATTCCACTACTACTT
* * * * *
54626601 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
1 AGGGAGGTAAAATCTGCAATCTTCAATCTATTCCACTACTACTT
* * * * *** * *
54626645 AGAGAAGTAGAAT-TACTGGCTTCAATGTATTCCACTGTAATCAC--
1 AGGGAGGTAAAATCTGCAATCTTCAATCTATTCCAC--TACT-ACTT
* * * *
54626689 AGGGAGGTAAAACCTGCCATCTTCGATCTACTCCACTACTACTT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTATTCCACTACTACTT
* *
54626733 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTATTCCACT
54626770 GTTCCCCAGG
Statistics
Matches: 123, Mismatches: 40, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
42 2 0.02
43 19 0.15
44 84 0.68
45 17 0.14
46 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
AGGGAGGTAAAATCTGCAATCTTCAATCTATTCCACTACTACTT
Found at i:54626781 original size:44 final size:44
Alignment explanation
Indices: 54626601--54626913 Score: 128
Period size: 44 Copynumber: 7.1 Consensus size: 44
54626591 ACTACTACTT
* * *
54626601 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTC
1 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGTTCCCC
* * * * *
54626645 AGAGAAGT-AGAATTACTG---GCTTCAATGTATTCCACTGTAAT-CAC
1 AGGGAGGTAAG-A-T-CTGAAATCTTCAATCTATTCCACTGT--TCCCC
* * ** * * ** * **
54626689 AGGGAGGTAAAACCTGCCATCTTCGATCTACTCCACTACTACTT
1 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGTTCCCC
54626733 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGTTCCCC
1 AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGTTCCCC
* * * * * * *
54626777 AGGGAAGT-AGA-ATG-ATTGGCTTTAATGTACTCCACTGTAAT-CAC
1 AGGGAGGTAAGATCTGAAAT--CTTCAATCTATTCCACTGT--TCCCC
* * * * ** *
54626821 AGGGAGGTAAAATC-CACCATCTTCGATCTGCTCCAC--TACCGCC
1 AGGGAGGTAAGATCTGA-AATCTTCAATCTATTCCACTGTTCC-CC
*
54626864 TAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTCCCC
1 -AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGTTCCCC
54626909 AGGGA
1 AGGGA
54626914 AGTAGAATGA
Statistics
Matches: 189, Mismatches: 56, Indels: 48
0.65 0.19 0.16
Matches are distributed among these distances:
41 2 0.01
42 6 0.03
43 41 0.22
44 98 0.52
45 35 0.19
46 6 0.03
47 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
AGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGTTCCCC
Found at i:54629502 original size:17 final size:17
Alignment explanation
Indices: 54629457--54629509 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
54629447 TTCATTTTAA
*
54629457 TTTTGAGTTTTTTTCTT
1 TTTTGTGTTTTTTTCTT
54629474 TTTCT-T-TCTTTTTTCTT
1 TTT-TGTGT-TTTTTTCTT
*
54629491 TTTTGTGTTTTTTTGTT
1 TTTTGTGTTTTTTTCTT
54629508 TT
1 TT
54629510 ATATTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 2 0.07
17 26 0.87
18 2 0.07
ACGTcount: A:0.02, C:0.08, G:0.09, T:0.81
Consensus pattern (17 bp):
TTTTGTGTTTTTTTCTT
Found at i:54629509 original size:24 final size:24
Alignment explanation
Indices: 54629465--54629524 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
54629455 AATTTTGAGT
* * *
54629465 TTTTTTCTTTTTCTTTCTTTTTTC
1 TTTTTTGTTTTTCTTTCTTTTATA
*
54629489 TTTTTTGTGTTTT-TTTGTTTTATA
1 TTTTTTGT-TTTTCTTTCTTTTATA
*
54629513 TTTTTTGATTTT
1 TTTTTTGTTTTT
54629525 GTTTTTGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 4 0.13
24 22 0.73
25 4 0.13
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.82
Consensus pattern (24 bp):
TTTTTTGTTTTTCTTTCTTTTATA
Found at i:54629529 original size:26 final size:27
Alignment explanation
Indices: 54629500--54629582 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 27
54629490 TTTTTGTGTT
54629500 TTTTTGTTTTATATTTTTTGATTTTG-
1 TTTTTGTTTTATATTTTTTGATTTTGA
* ** *
54629526 TTTTTGATTGCTATTTTTTTATTTTGA
1 TTTTTGTTTTATATTTTTTGATTTTGA
* * *
54629553 TTTTT-CTTT-TCTTTTTTGATTGTGA
1 TTTTTGTTTTATATTTTTTGATTTTGA
54629578 TTTTT
1 TTTTT
54629583 TTGATTGAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 18 0.38
26 24 0.51
27 5 0.11
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.75
Consensus pattern (27 bp):
TTTTTGTTTTATATTTTTTGATTTTGA
Found at i:54637933 original size:12 final size:12
Alignment explanation
Indices: 54637918--54637948 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
54637908 CACAGGTGAG
*
54637918 GACACGGGCTGA
1 GACACGGCCTGA
54637930 GACACGGCCTGA
1 GACACGGCCTGA
54637942 GACACGG
1 GACACGG
54637949 ACGTGTGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.39, T:0.06
Consensus pattern (12 bp):
GACACGGCCTGA
Found at i:54652826 original size:25 final size:25
Alignment explanation
Indices: 54652732--54652826 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
54652722 GGTTTCGACC
* * *
54652732 CACAGCTCATGTGAGCATATCGATT
1 CACAGCTCGTATGAGCATACCGATT
* * * *
54652757 TATAGCTCGTGA-GAGCATATC-AAT
1 CACAGCTCGT-ATGAGCATACCGATT
*
54652781 CTACAGCTTG-AGTGAGCATACCGATT
1 C-ACAGCTCGTA-TGAGCATACCGATT
54652807 CACAGCTCGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
54652827 ATGTACATGA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 46 0.87
26 4 0.08
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:54660990 original size:48 final size:48
Alignment explanation
Indices: 54660911--54661002 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
54660901 TTTAACTGCA
* * * *
54660911 ATTATGTGGCCGTTCTCAACAATTATGTGGTGGTTTTTCCACAATGTG
1 ATTATGTGGCCGTTATCAACAACTATGTGGTGGCTTGTCCACAATGTG
** *
54660959 ATTATGTGGCCGTTATCGGCAACTATTTGGTGGCTTGTCCACAA
1 ATTATGTGGCCGTTATCAACAACTATGTGGTGGCTTGTCCACAA
54661003 ACAGTGTGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (48 bp):
ATTATGTGGCCGTTATCAACAACTATGTGGTGGCTTGTCCACAATGTG
Found at i:54687888 original size:30 final size:30
Alignment explanation
Indices: 54687853--54688069 Score: 140
Period size: 30 Copynumber: 7.2 Consensus size: 30
54687843 AAGGCGTTAC
*
54687853 AGGGATAGCTTCGACTATCGACAAATGAAA
1 AGGGATAGCTTCGACTATCGAAAAATGAAA
* * * *
54687883 GGGGATAACTTCGGCTAT-TAAATAATGAAA
1 AGGGATAGCTTCGACTATCGAAA-AATGAAA
* *
54687913 AGGGATACCTTCGGCTATC-AAAATATGAAA
1 AGGGATAGCTTCGACTATCGAAAA-ATGAAA
* * ** * *
54687943 AGGGATAGTTTCAACTATCGAATTACGGAA
1 AGGGATAGCTTCGACTATCGAAAAATGAAA
* *
54687973 AGGGATAGCTTCGGCTATC-AAATTATGAAA
1 AGGGATAGCTTCGACTATCGAAA-AATGAAA
* * * *
54688003 AGGGAT-GGTGACGACCATC-AAAATATTAAA
1 AGGGATAGCT-TCGACTATCGAAAA-ATGAAA
**
54688033 AGGGATAGCTTC-AGCTATCGAATTATGGAAA
1 AGGGATAGCTTCGA-CTATCGAAAAAT-GAAA
54688064 AGGGAT
1 AGGGAT
54688070 TGTGACGACC
Statistics
Matches: 143, Mismatches: 33, Indels: 21
0.73 0.17 0.11
Matches are distributed among these distances:
29 8 0.06
30 120 0.84
31 15 0.10
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (30 bp):
AGGGATAGCTTCGACTATCGAAAAATGAAA
Found at i:54687948 original size:60 final size:60
Alignment explanation
Indices: 54687853--54688008 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 60
54687843 AAGGCGTTAC
* * * ** * *
54687853 AGGGATAGCTTCGACTATCGACAA-ATGAAAGGGGATAACTTCGGCTATTAAATAATGAAA
1 AGGGATAGCTTCGGCTATC-AAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAA
* ** * * *
54687913 AGGGATACCTTCGGCTATCAAAATATGAAAAGGGATAGTTTCAACTATCGAATTACGGAA
1 AGGGATAGCTTCGGCTATCAAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAA
*
54687973 AGGGATAGCTTCGGCTATCAAATTATGAAAAGGGAT
1 AGGGATAGCTTCGGCTATCAAAATATGAAAAGGGAT
54688009 GGTGACGACC
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
59 3 0.04
60 77 0.96
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (60 bp):
AGGGATAGCTTCGGCTATCAAAATATGAAAAGGGATAACTTCAACTATCAAATAACGAAA
Found at i:54688006 original size:90 final size:90
Alignment explanation
Indices: 54687853--54688155 Score: 339
Period size: 90 Copynumber: 3.4 Consensus size: 90
54687843 AAGGCGTTAC
* * * *
54687853 AGGGATAGCTTC-GACTATCGACA-AAT-GAAAGGGGATAACTTCGGCTATTAAATAATGAAAAG
1 AGGGATAGCTTCAG-CTATCGA-ATTATGGAAA-GGGATAGCTTCGGCTATCAAATTATGAAAAG
** * * *
54687915 GGATACCT-TCGGCTATCAAAATATGAAA
63 GGAT-GGTGACGACCATCAAAATATGAAA
* * *
54687943 AGGGATAGTTTCAACTATCGAATTACGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGA
1 AGGGATAGCTTCAGCTATCGAATTATGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGA
*
54688008 TGGTGACGACCATCAAAATATTAAA
66 TGGTGACGACCATCAAAATATGAAA
* * * * *
54688033 AGGGATAGCTTCAGCTATCGAATTATGGAAAAGGGATTG-TGACGACCATC-AACTATGAAAAGG
1 AGGGATAGCTTCAGCTATCGAATTATGG-AAAGGGATAGCT-TCGGCTATCAAATTATGAAAAGG
54688096 GATGGTGACGACCATCAAAATATGAAA
64 GATGGTGACGACCATCAAAATATGAAA
*
54688123 ACGGATAGCTTCAGCTATCGAATTATGGAAAGG
1 AGGGATAGCTTCAGCTATCGAATTATGGAAAGG
54688156 ATGGTGACAA
Statistics
Matches: 184, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
89 7 0.04
90 158 0.86
91 19 0.10
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (90 bp):
AGGGATAGCTTCAGCTATCGAATTATGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGA
TGGTGACGACCATCAAAATATGAAA
Found at i:54688035 original size:60 final size:59
Alignment explanation
Indices: 54687902--54688098 Score: 223
Period size: 60 Copynumber: 3.3 Consensus size: 59
54687892 TTCGGCTATT
* * ** * *
54687902 AAATAATGAAAAGGGATACCTTCGGCTATCAAAATATGAAAAGGGATAGTTTCAACTATC
1 AAAT-ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACCATC
* * * *
54687962 GAATTACGGAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATC
1 -AAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACCATC
* * * *
54688022 AAAATATTAAAAGGGATAGCTTCAGCTATCGAATTATGGAAAAGGGATTGTGACGACCATC
1 -AAATATGAAAAGGGATAGCTTCGGCTATCAAATTAT-GAAAAGGGATAGTGACGACCATC
*
54688083 AACTATGAAAAGGGAT
1 AAATATGAAAAGGGAT
54688099 GGTGACGACC
Statistics
Matches: 115, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
60 90 0.78
61 25 0.22
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (59 bp):
AAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGTGACGACCATC
Found at i:54688122 original size:30 final size:30
Alignment explanation
Indices: 54687989--54688128 Score: 142
Period size: 30 Copynumber: 4.7 Consensus size: 30
54687979 AGCTTCGGCT
*
54687989 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
* * * *
54688019 ATCAAAATATTAAAAGGGATAGCT-TC-AGCT
1 ATCAAAATATGAAAAGGGAT-GGTGACGA-CC
* * *
54688049 ATCGAATTATGGAAAAGGGATTGTGACGACC
1 ATCAAAATAT-GAAAAGGGATGGTGACGACC
*
54688080 ATC-AACTATGAAAAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
*
54688109 ATCAAAATATGAAAACGGAT
1 ATCAAAATATGAAAAGGGAT
54688129 AGCTTCAGCT
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
29 23 0.26
30 48 0.55
31 16 0.18
32 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (30 bp):
ATCAAAATATGAAAAGGGATGGTGACGACC
Found at i:54688170 original size:29 final size:30
Alignment explanation
Indices: 54687927--54688171 Score: 122
Period size: 30 Copynumber: 8.2 Consensus size: 30
54687917 ATACCTTCGG
* * * **
54687927 CTATCAAAATATGAAAAGGGATAGTTTCAA
1 CTATCGAATTATGAAAAGGGATGGTGACAA
* * * * **
54687957 CTATCGAATTACGGAAAGGGATAGCT-TCGG
1 CTATCGAATTATGAAAAGGGAT-GGTGACAA
* *
54687987 CTATCAAATTATGAAAAGGGATGGTGACGA
1 CTATCGAATTATGAAAAGGGATGGTGACAA
* * * * * * *
54688017 CCATCAAAATATTAAAAGGGATAGCT-TCAG
1 CTATCGAATTATGAAAAGGGAT-GGTGACAA
* *
54688047 CTATCGAATTATGGAAAAGGGATTGTGACGA
1 CTATCGAATTAT-GAAAAGGGATGGTGACAA
* * *
54688078 CCATC-AACTATGAAAAGGGATGGTGACGA
1 CTATCGAATTATGAAAAGGGATGGTGACAA
* * * * * * *
54688107 CCATCAAAATATGAAAACGGATAGCT-TCAG
1 CTATCGAATTATGAAAAGGGAT-GGTGACAA
*
54688137 CTATCGAATTATGGAAA-GGATGGTGACAA
1 CTATCGAATTATGAAAAGGGATGGTGACAA
54688166 CTATCG
1 CTATCG
54688172 TGATTTTACT
Statistics
Matches: 161, Mismatches: 46, Indels: 17
0.72 0.21 0.08
Matches are distributed among these distances:
28 2 0.01
29 36 0.22
30 104 0.65
31 19 0.12
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (30 bp):
CTATCGAATTATGAAAAGGGATGGTGACAA
Found at i:54698069 original size:18 final size:17
Alignment explanation
Indices: 54698046--54698079 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54698036 TTTTAGCACT
54698046 TGTTTTTAATAATTTTTA
1 TGTTTTTAAT-ATTTTTA
*
54698064 TGTTTTTGATATTTTT
1 TGTTTTTAATATTTTT
54698080 GTAGCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TGTTTTTAATATTTTTA
Found at i:54703770 original size:50 final size:50
Alignment explanation
Indices: 54703695--54703890 Score: 259
Period size: 50 Copynumber: 3.9 Consensus size: 50
54703685 TCATTAAGAT
*
54703695 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
*
54703745 TATGAGAGGTCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACCT-A
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CTGA
* ** * *
54703795 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
** * * * *
54703845 TATGAGAACTCCCATGTAATACCATATTTGGGATATGGCATTGGCA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
54703891 GAACAAAAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 123 0.98
51 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:54706099 original size:23 final size:23
Alignment explanation
Indices: 54706073--54706208 Score: 123
Period size: 23 Copynumber: 6.0 Consensus size: 23
54706063 CATATTTTGC
**
54706073 AATGCCTTTTTTACGTATTCTGT
1 AATGCCTTTTTGGCGTATTCTGT
* *
54706096 AATGTCTTTTTGGCATATTCTGT
1 AATGCCTTTTTGGCGTATTCTGT
* *
54706119 AATGCCTTTCTGGCGTATTTTGT
1 AATGCCTTTTTGGCGTATTCTGT
* * *
54706142 AATGCC-TTAT-GCAGTATTTTGC
1 AATGCCTTTTTGGC-GTATTCTGT
* * *
54706164 AATGCCTTTATGGCATATTCTAT
1 AATGCCTTTTTGGCGTATTCTGT
* *
54706187 AATGCCTTTCTGGCGAATTCTG
1 AATGCCTTTTTGGCGTATTCTG
54706209 CAATATTTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.02
22 17 0.18
23 71 0.77
24 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.46
Consensus pattern (23 bp):
AATGCCTTTTTGGCGTATTCTGT
Found at i:54706178 original size:68 final size:69
Alignment explanation
Indices: 54706023--54706212 Score: 197
Period size: 68 Copynumber: 2.8 Consensus size: 69
54706013 TGTGGCATAC
* * * * * * * * **
54706023 TTTT-CAATGCCTTTGTGGCATATTTTGTAGT-ACGTTGTGGCATATTTTGCAATGCCTTTTTTA
1 TTTTGCAATGCCTTTATGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGCAATGCCTTATGCA
54706086 CGTA
66 CGTA
* * * * *
54706090 TTCTGTAATGTCTTTTTGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGTAATGCCTTATGCA
1 TTTTGCAATGCCTTTATGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGCAATGCCTTATGCA
54706155 -GTA
66 CGTA
* * *
54706158 TTTTGCAATGCCTTTATGGCATATTCTATAATGCCTTTCTGGCGAATTCTGCAAT
1 TTTTGCAATGCCTTTATGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGCAAT
54706213 ATTTTTGTTG
Statistics
Matches: 99, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
67 3 0.03
68 72 0.73
69 24 0.24
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (69 bp):
TTTTGCAATGCCTTTATGGCATATTCTGTAATGCCTTTCTGGCGTATTTTGCAATGCCTTATGCA
CGTA
Found at i:54706183 original size:91 final size:91
Alignment explanation
Indices: 54706028--54706208 Score: 213
Period size: 91 Copynumber: 2.0 Consensus size: 91
54706018 CATACTTTTC
* * * * * * *
54706028 AATGCCTTTGTGGCATATTTTGTAGTACGTTGTGGCATATTTTGCAATGCCTTTTTTACGTATTC
1 AATGCCTTTCTGGCATATTTTGTAATACCTTATGGCATATTTTGCAATGCCTTTATGACATATTC
* * *
54706093 TGTAATGTCTTTTTGGC-ATATTCTGT
66 TATAATGCCTTTCTGGCGA-ATTCTGT
* * *
54706119 AATGCCTTTCTGGCGTATTTTGTAATGCCTTAT-GCAGTATTTTGCAATGCCTTTATGGCATATT
1 AATGCCTTTCTGGCATATTTTGTAATACCTTATGGCA-TATTTTGCAATGCCTTTATGACATATT
54706183 CTATAATGCCTTTCTGGCGAATTCTG
65 CTATAATGCCTTTCTGGCGAATTCTG
54706209 CAATATTTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
90 3 0.04
91 71 0.95
92 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (91 bp):
AATGCCTTTCTGGCATATTTTGTAATACCTTATGGCATATTTTGCAATGCCTTTATGACATATTC
TATAATGCCTTTCTGGCGAATTCTGT
Found at i:54714262 original size:35 final size:35
Alignment explanation
Indices: 54714221--54714317 Score: 167
Period size: 35 Copynumber: 2.8 Consensus size: 35
54714211 ACACTCTGTT
*
54714221 TGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCAC
1 TGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCAC
*
54714256 TGGCGTGTTTCAGTCGGATTAGCTCTTATGAGCAC
1 TGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCAC
*
54714291 TGGCGTGTTTCTGTTGGATTAGCTCTT
1 TGGCGTGTTTCAGTTGGATTAGCTCTT
54714318 GTAAGCATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.13, C:0.18, G:0.30, T:0.39
Consensus pattern (35 bp):
TGGCGTGTTTCAGTTGGATTAGCTCTTATGAGCAC
Found at i:54719250 original size:14 final size:13
Alignment explanation
Indices: 54719233--54719266 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
54719223 TATTAATTTT
54719233 TATTTTTATTTGAA
1 TATTTTTATTT-AA
54719247 TATTTTTATTTAA
1 TATTTTTATTTAA
54719260 -ATTTTTA
1 TATTTTTA
54719267 CATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 2 0.10
14 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TATTTTTATTTAA
Found at i:54721887 original size:10 final size:10
Alignment explanation
Indices: 54721872--54721928 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
54721862 GAAAATTTTG
*
54721872 AATTTTAATT
1 AATTTTGATT
54721882 AATTTT-ATAT
1 AATTTTGAT-T
54721892 CAAATTTTGATT
1 --AATTTTGATT
54721904 AATTTTGATT
1 AATTTTGATT
*
54721914 ATTTTTGATT
1 AATTTTGATT
54721924 -ATTTT
1 AATTTT
54721929 CAACAGATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.15
10 26 0.63
12 7 0.17
13 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (10 bp):
AATTTTGATT
Found at i:54729419 original size:26 final size:26
Alignment explanation
Indices: 54729390--54729457 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 26
54729380 ATCTAGAATA
54729390 AATATTTTTAATTTAATTTAATAAAT
1 AATATTTTTAATTTAATTTAATAAAT
* *
54729416 AATATTTGATCATATTTTATTTAATAAAT
1 AATATTT--TTA-ATTTAATTTAATAAAT
*
54729445 ATTTATTTTTAAT
1 A-ATATTTTTAAT
54729458 AAATTAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
26 7 0.21
27 2 0.06
28 4 0.12
29 16 0.47
30 5 0.15
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (26 bp):
AATATTTTTAATTTAATTTAATAAAT
Found at i:54729448 original size:16 final size:17
Alignment explanation
Indices: 54729400--54729461 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 17
54729390 AATATTTTTA
54729400 ATTTA-ATTTAATAAAT
1 ATTTATATTTAATAAAT
* *
54729416 A---ATATTTGAT-CAT
1 ATTTATATTTAATAAAT
54729429 ATTT-TATTTAATAAAT
1 ATTTATATTTAATAAAT
*
54729445 ATTTATTTTTAATAAAT
1 ATTTATATTTAATAAAT
54729462 TAATAGCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
13 4 0.11
14 6 0.17
15 7 0.20
16 7 0.20
17 11 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTATATTTAATAAAT
Found at i:54729690 original size:129 final size:129
Alignment explanation
Indices: 54729473--54729720 Score: 496
Period size: 129 Copynumber: 1.9 Consensus size: 129
54729463 AATAGCAAAT
54729473 AATAATTTAATATGCATTAAATTAATTATTAATTGTTTTTAACTCTATGTAGAATTAGAACTTGG
1 AATAATTTAATATGCATTAAATTAATTATTAATTGTTTTTAACTCTATGTAGAATTAGAACTTGG
54729538 AATATCTTAATTATTAATTTGCTCTAAGAATTGTAATTAAACTCCTACTCCATTAATTAATAGC
66 AATATCTTAATTATTAATTTGCTCTAAGAATTGTAATTAAACTCCTACTCCATTAATTAATAGC
54729602 AATAATTTAATATGCATTAAATTAATTATTAATTGTTTTTAACTCTATGTAGAATTAGAACTTGG
1 AATAATTTAATATGCATTAAATTAATTATTAATTGTTTTTAACTCTATGTAGAATTAGAACTTGG
54729667 AATATCTTAATTATTAATTTGCTCTAAGAATTGTAATTAAACTCCTACTCCATT
66 AATATCTTAATTATTAATTTGCTCTAAGAATTGTAATTAAACTCCTACTCCATT
54729721 CACTATAAAT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (129 bp):
AATAATTTAATATGCATTAAATTAATTATTAATTGTTTTTAACTCTATGTAGAATTAGAACTTGG
AATATCTTAATTATTAATTTGCTCTAAGAATTGTAATTAAACTCCTACTCCATTAATTAATAGC
Found at i:54730306 original size:25 final size:24
Alignment explanation
Indices: 54730277--54730332 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
54730267 TTTCTCCTAA
*
54730277 ATTTTAATTTTATTTAATTATTTAAT
1 ATTTTAA-TTTATTGAATTA-TTAAT
54730303 -TTTTCAATTTATTGAATTATTAAT
1 ATTTT-AATTTATTGAATTATTAAT
54730327 ATTTTA
1 ATTTTA
54730333 TATTAAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTAATTTATTGAATTATTAAT
Found at i:54733575 original size:107 final size:107
Alignment explanation
Indices: 54733389--54733596 Score: 398
Period size: 107 Copynumber: 1.9 Consensus size: 107
54733379 CATGAAAGAA
*
54733389 AATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAGTTAT
1 AATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAATTAT
54733454 CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTGCACGAT
66 CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTGCACGAT
*
54733496 AATTTAAAGGACAAAGTTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAATTAT
1 AATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAATTAT
54733561 CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTG
66 CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTG
54733597 TTAAAACACC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 99 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (107 bp):
AATTTAAAGGACAAAGCTTTAATTTGTTAAATAAAACTTAAATAAAAATAAAATAACAAAATTAT
CATCTTCCTAAAAGGGAACCACCAAAAATTAGGGTGCACGAT
Found at i:54734357 original size:40 final size:40
Alignment explanation
Indices: 54734308--54734541 Score: 200
Period size: 40 Copynumber: 5.8 Consensus size: 40
54734298 TTATTGAATG
*
54734308 AATGAACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
** ** * * *
54734348 AATGCACATATATGCCCCTGAATATACTTCGATACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
54734388 AATGCACATACATGGCCCTTTTTGCACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * ** * * *
54734428 AATACACAT-CTGTTCCCCTAATTGTACCTCGATACCCTTA
1 AATGCACATAC-GTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
54734468 AATACACATACGTGCCCCTGTTTGTACTTTGGTTCCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
54734508 CATGCACTTACGTGCCCCTATTTATACTCCGGTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTA
54734542 ACTCTGAATC
Statistics
Matches: 149, Mismatches: 43, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
39 1 0.01
40 147 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:54734446 original size:80 final size:80
Alignment explanation
Indices: 54734306--54734534 Score: 235
Period size: 80 Copynumber: 2.9 Consensus size: 80
54734296 AATTATTGAA
* *
54734306 TGAATGAACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACATATATGCCCCTGAA-
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATACACATATATGCCCCT-AAT
*
54734370 TATACTTCGATACCCC
65 TATACCTCGATACCCC
* * * * * * * *
54734386 TGAATGCACATACATGGCCCTTTTTGCACTTCGGTACCCCTGAATACACATCTGTTCCCCTAATT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATACACATATATGCCCCTAATT
* *
54734451 GTACCTCGATACCCT
66 ATACCTCGATACCCC
* * * * * * * ** *
54734466 TAAATACACATACGTGCCCCTGTTTGTACTTTGGTTCCCCTACATGCACTTACGTGCCCCTATTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATACACATATATGCCCCTAATT
54734531 ATAC
66 ATAC
54734535 TCCGGTAACT
Statistics
Matches: 118, Mismatches: 30, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
79 2 0.02
80 116 0.98
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTAAATACACATATATGCCCCTAATT
ATACCTCGATACCCC
Done.