Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 119 of 186
Found at i:39488149 original size:54 final size:53
Alignment explanation
Indices: 39488064--39488227 Score: 195
Period size: 54 Copynumber: 3.0 Consensus size: 53
39488054 ACACGATAAC
* *
39488064 AAAGAATATCCTTTGTGGTGAACTCTAAAAGAATAGCCTTTGTGGAGAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTCTGAAAGAATAGCCTTTGTGGA-AACTCTG
* * * *
39488118 AAAGAATAGCCTTTGCGGTGAACTCTGAAAGAATAGCCTTTATGGAAAAATCTA
1 AAAGAATAGCCTTTGTGGTGAACTCTGAAAGAATAGCCTTTGTGG-AAACTCTG
* * * *
39488172 AAAGAATAGCCTTTATGGTGAACTTTGAAATAATCA-TCTTTGTGGCAAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTCTGAAAGAAT-AGCCTTTGTGG-AAACTCTG
39488226 AA
1 AA
39488228 TGGACTACCT
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 91 0.98
55 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (53 bp):
AAAGAATAGCCTTTGTGGTGAACTCTGAAAGAATAGCCTTTGTGGAAACTCTG
Found at i:39488243 original size:81 final size:81
Alignment explanation
Indices: 39488064--39488227 Score: 195
Period size: 81 Copynumber: 2.0 Consensus size: 81
39488054 ACACGATAAC
* * ** * *
39488064 AAAGAATATCCTTTGTGGTGAACTCTAAAAGAATAGCCTTTGTGGAGAACTCTGAAAGAATAGCC
1 AAAGAATAGCCTTTATGGAAAAATCTAAAAGAATAGCCTTTATGGAGAACTCTGAAAGAATAGCC
**
39488129 TTTGCGGTGAACTCTG
66 TTTGCGGCAAACTCTG
* * * *
39488145 AAAGAATAGCCTTTATGGAAAAATCTAAAAGAATAGCCTTTATGGTGAACTTTGAAATAATCA-T
1 AAAGAATAGCCTTTATGGAAAAATCTAAAAGAATAGCCTTTATGGAGAACTCTGAAAGAAT-AGC
*
39488209 CTTTGTGGCAAACTCTG
65 CTTTGCGGCAAACTCTG
39488226 AA
1 AA
39488228 TGGACTACCT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
81 68 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (81 bp):
AAAGAATAGCCTTTATGGAAAAATCTAAAAGAATAGCCTTTATGGAGAACTCTGAAAGAATAGCC
TTTGCGGCAAACTCTG
Found at i:39497518 original size:41 final size:40
Alignment explanation
Indices: 39497461--39497541 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 40
39497451 TAATATAAGC
*
39497461 CTGCTGACTAGAAGTTAAGGCTTAAATTAGGAAAAAGCCA
1 CTGCTGACTAGAAGTTAAGGCTTAAATCAGGAAAAAGCCA
* *
39497501 CTGCTGAACTAGTAGTTAAGGCTTAACTCAGGAAAAAGCCA
1 CTGCTG-ACTAGAAGTTAAGGCTTAAATCAGGAAAAAGCCA
39497542 AAATTTTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 6 0.16
41 31 0.84
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (40 bp):
CTGCTGACTAGAAGTTAAGGCTTAAATCAGGAAAAAGCCA
Found at i:39507461 original size:21 final size:22
Alignment explanation
Indices: 39507421--39507462 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
39507411 GCCTAAATGG
*
39507421 TCACACGGGCATGTTGCCCCTT
1 TCACACGAGCATGTTGCCCCTT
39507443 TCACACGAGCATG-TGCCCCT
1 TCACACGAGCATGTTGCCCCT
39507463 GTGTTAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.17, C:0.38, G:0.21, T:0.24
Consensus pattern (22 bp):
TCACACGAGCATGTTGCCCCTT
Found at i:39520891 original size:26 final size:26
Alignment explanation
Indices: 39520830--39520891 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
39520820 ATTGTTGTCT
* * *
39520830 TCATCTTTTATGGTTTAGTTTTCTTC
1 TCATATTTTAGGGTTTAGATTTCTTC
39520856 TCCATATTTTAGGGTTTA-ATTTCTTGC
1 T-CATATTTTAGGGTTTAGATTTCTT-C
*
39520883 TCATTTTTT
1 TCATATTTT
39520892 GGTGTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.60
Consensus pattern (26 bp):
TCATATTTTAGGGTTTAGATTTCTTC
Found at i:39525026 original size:20 final size:20
Alignment explanation
Indices: 39524996--39525053 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
39524986 TTTGTTGTGC
*
39524996 TAAAATGATTTTAACTTGGT
1 TAAAATCATTTTAACTTGGT
* **
39525016 TGAAATCATTTTGTCTTGGT
1 TAAAATCATTTTAACTTGGT
39525036 TAAAATCATTTTAACTTG
1 TAAAATCATTTTAACTTG
39525054 ACTTTAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (20 bp):
TAAAATCATTTTAACTTGGT
Found at i:39525040 original size:40 final size:40
Alignment explanation
Indices: 39524969--39525053 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
39524959 AGAAATTGTG
* *
39524969 ACTTGTTTGAAAATCATTTTGTTGTGCTAAAATGATTTTA
1 ACTTGGTTGAAAATCATTTTGTTGTGCTAAAATCATTTTA
*
39525009 ACTTGGTTG-AAATCATTTTGTCT-TGGTTAAAATCATTTTA
1 ACTTGGTTGAAAATCATTTTGT-TGT-GCTAAAATCATTTTA
39525049 ACTTG
1 ACTTG
39525054 ACTTTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 13 0.32
40 27 0.68
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (40 bp):
ACTTGGTTGAAAATCATTTTGTTGTGCTAAAATCATTTTA
Found at i:39530942 original size:15 final size:15
Alignment explanation
Indices: 39530918--39530950 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
39530908 CTGTTTAGAC
39530918 ATGATCTCTAATGAA
1 ATGATCTCTAATGAA
*
39530933 ATGATGTCTAATGAA
1 ATGATCTCTAATGAA
39530948 ATG
1 ATG
39530951 TATTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (15 bp):
ATGATCTCTAATGAA
Found at i:39543608 original size:30 final size:30
Alignment explanation
Indices: 39543572--39543632 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
39543562 GAGCCTAATA
39543572 AGCCCAAAACATCCATTGGAACCCATTCAG
1 AGCCCAAAACATCCATTGGAACCCATTCAG
39543602 AGCCCAAAACATCCATTGGAACCCATTCAG
1 AGCCCAAAACATCCATTGGAACCCATTCAG
39543632 A
1 A
39543633 AACAATCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.33, G:0.13, T:0.16
Consensus pattern (30 bp):
AGCCCAAAACATCCATTGGAACCCATTCAG
Found at i:39548020 original size:39 final size:39
Alignment explanation
Indices: 39547928--39548022 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 39
39547918 ACTATTCTAA
*
39547928 AAAATATATTATTTTAATAGATTTAATATTAAATTTAATTT
1 AAAATA-ATTATCTTAATAGATTT-ATATTAAATTTAATTT
* *
39547969 --AATACTTATCTTAATACTATTT-TATT-AATTTAATATT
1 AAAATAATTATCTTAATA-GATTTATATTAAATTTAAT-TT
39548006 AAAATAATTATCTTAAT
1 AAAATAATTATCTTAAT
39548023 TTTAATTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
36 8 0.17
37 6 0.13
38 10 0.22
39 22 0.48
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (39 bp):
AAAATAATTATCTTAATAGATTTATATTAAATTTAATTT
Found at i:39551337 original size:228 final size:227
Alignment explanation
Indices: 39550940--39552049 Score: 1123
Period size: 228 Copynumber: 4.9 Consensus size: 227
39550930 AAGATGCAGA
* * *
39550940 GTAGACTCCTTTTGGATATTATAATCAGCCAATGTCCTGCCATCTTCAAGTTGCTTGCCAGCAAA
1 GTAGACTCCTTTTGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAAA
* * * * *
39551005 TATGAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGAATCTTTGCCTTAACATTGTCAA
66 GATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCAA
* * * *
39551070 TGGTGTCTGAACTTTCAACCT-CTAGAGTGATAGTCTTTCCAGTAAGAGTCTTAACAAAGATCTG
131 TGGTGTCTGAACTTTCAACCTCCAAG-GTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTG
* * *
39551134 CATCCCACCACGCAGCCGCAACACCAAGTGAAGG
195 CATCCCACCACGAAGACG-AAGACCAAGTGAAGG
* * *
39551168 GTAGACTCCTTTTGGATATTGTAGTCGGCCAATGTCCTACCATCTTCGAGCTGCTTGCCAGCAAA
1 GTAGACTCCTTTTGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAAA
* * *
39551233 GATGAGCCTTTGCTGGTCTGGGGGGATACCC-TCCTTGTCTTGGATCTTTGCCTTCACATTGTCA
66 GATAAGCCTTTGCTGGTCTGGTGGGAT-CCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCA
* * * * * * *
39551297 ATGGTATCGGAACTTTCAACCTCCAAAGTGATGGTCTTTCCGGTAAGAGTCTTTACAAAGATCTG
130 ATGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTG
* * * * * *
39551362 CATACCACCACGAAGGCGGAGAACCAAATGGAGA
195 CATCCCACCACGAAGACGAAG-ACCAAGTGAAGG
* * * * * *
39551396 GTAGACTCCTTCTGGATATTATAATCGG-CAAGAGTCCTTCCATCTTCAAGTTGTTTTCCAGCAA
1 GTAGACTCCTTTTGGATATTGTAATCGGCCAA-TGTCCTACCATCTTCAAGTTGCTTGCCAGCAA
* * * * * * * * *
39551460 AAATCAA-TCTTTGTTGGTCTGGTGGGATTCCTTCTTTGTCCTGAATCTTGGCTTTCACATTATC
65 AGAT-AAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATC
* * * * * * * *
39551524 AATGGTATCCGAACTCTCCACCTCCAAGGTAATTGTCTTTCCAGTGAGAGTTTTGACAAAGATTT
129 AATGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTT
* * * * *
39551589 GCATGCCACCTCGAAGACGAAGTACTAGGTGGAGG
194 GCATCCCACCACGAAGACGAAG-ACCAAGTGAAGG
* * * * * * * * *
39551624 GTGGACTCTTTTTGGATATTGTAATCAGCTAAGGTGCGACCATCTTCAAGCTGCTTTCCAGCAAA
1 GTAGACTCCTTTTGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAAA
* * * *
39551689 GATAAGCCTCTGCTGATCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTTACATTATCTA
66 GATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCAA
* * * * * *
39551754 TTGTGTCAGAGCTTTCAACCTCCAAGGTAATTGTCTTTCCAGTGAGAGTCTTGACAAAGATTTGC
131 TGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTGC
* * *
39551819 ATGCCGCCACGAAGTCGAAGAACCAAGTGAAGG
196 ATCCCACCACGAAGACGAAG-ACCAAGTGAAGG
* * * * * * ** * ** * *
39551852 GTGGA-TTCTTTCTGAATGTTGTAGTCGGCTAGCGTGCGGCCATCCTCAAGTTGTTTGCCAGCAA
1 GTAGACTCCTTT-TGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAA
* * * * *
39551916 AGATAAGCCTCTGCTGATCCGGTGGGATCCCTTCCTTATCTTGGATCTTAGCCTTCACATTATCA
65 AGATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCA
* * * * * * *
39551981 ATGGTGTCTGAACTCTCCACCTCGAGGGTGATGGTCTTGCCAGTGAGGGTTTTAACAAAGATTTG
130 ATGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTG
39552046 CATC
195 CATC
39552050 TATTGAATCA
Statistics
Matches: 736, Mismatches: 137, Indels: 18
0.83 0.15 0.02
Matches are distributed among these distances:
227 12 0.02
228 716 0.97
229 8 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (227 bp):
GTAGACTCCTTTTGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAAA
GATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCAA
TGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTGC
ATCCCACCACGAAGACGAAGACCAAGTGAAGG
Found at i:39551771 original size:456 final size:455
Alignment explanation
Indices: 39550909--39552049 Score: 1293
Period size: 456 Copynumber: 2.5 Consensus size: 455
39550899 TTACTTAGAA
* * * * *
39550909 ACCACCGCGAAGGCGAAGGA-CAAGATGCAGAGTAGACTCCTTTTGGATATTATAATCAGCCAA-
1 ACCACCACGAAGGCGAAGAACCAA-ATGAAGAGTAGACTCCTTCTGGATATTATAATC-GGCAAG
* * * *
39550972 TGTCCTGCCATCTTCAAGTTGCTTGCCAGCAAATATGAGCCTTTGCTGGTCTGGTGGGATCCCTT
64 AGTCCTGCCATCTTCAAGTTGTTTGCCAGCAAAAAT-AACCTTTGCTGGTCTGGTGGGATCCCTT
* * * * * *
39551037 CCTTGTCTTGAATCTTTGCCTTAACATTGTCAATGGTGTCTGAACTTTCAACCT-CTAGAGTGAT
128 CCTTGTCTTGAATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCCAAG-GTGAT
* * * * *
39551101 AGTCTTTCCAGTAAGAGTCTTAACAAAGATCTGCATCCCACCACGCAGCCGCAACACCAAGTGAA
192 AGTCTTTCCAGTGAGAGTTTTAACAAAGATTTGCATCCCACCACGAAGACGCAACACCAAGTGAA
* * * * *
39551166 GGGTAGACTCCTTTTGGATATTGTAGTCGGCCAATGTCCTACCATCTTCGAGCTGCTTGCCAGCA
257 GGGTAGACTCCTTTTGGATATTGTAATCAGCCAAGGTCCGACCATCTTCAAGCTGCTTGCCAGCA
* * * *
39551231 AAGATGAGCCTTTGCTGGTCTGGGGGGATACCCTCCTTGTCTTGGATCTTTGCCTTCACATTGTC
322 AAGATAAGCCTCTGCTGATCTGGGGGGATACCCTCCTTGTCTTGGATCTTTGCCTTCACATTATC
* * * *
39551296 AATGGTATCGGAACTTTCAACCTCCAAAGTGATGGTCTTTCCGGTAAGAGTCTTTACAAAGATCT
387 AATGGTATCAGAACTTTCAACCTCCAAAGTAATGGTCTTTCCAGTAAGAGTCTTGACAAAGATCT
39551361 GCAT
452 GCAT
* *
39551365 ACCACCACGAAGGCGGAGAACCAAATGGAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAG
1 ACCACCACGAAGGCGAAGAACCAAATGAAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAG
* * * * * *
39551430 TCCTTCCATCTTCAAGTTGTTTTCCAGCAAAAATCAATCTTTGTTGGTCTGGTGGGATTCCTTCT
66 TCCTGCCATCTTCAAGTTGTTTGCCAGCAAAAAT-AACCTTTGCTGGTCTGGTGGGATCCCTTCC
* * * * * * *
39551495 TTGTCCTGAATCTTGGCTTTCACATTATCAATGGTATCCGAACTCTCCACCTCCAAGGTAATTGT
130 TTGTCTTGAATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCCAAGGTGATAGT
* * * * * * *
39551560 CTTTCCAGTGAGAGTTTTGACAAAGATTTGCATGCCACCTCGAAGACG-AAGTACTAGGTGGAGG
195 CTTTCCAGTGAGAGTTTTAACAAAGATTTGCATCCCACCACGAAGACGCAA-CACCAAGTGAAGG
* * * * *
39551624 GTGGACTCTTTTTGGATATTGTAATCAGCTAAGGTGCGACCATCTTCAAGCTGCTTTCCAGCAAA
259 GTAGACTCCTTTTGGATATTGTAATCAGCCAAGGTCCGACCATCTTCAAGCTGCTTGCCAGCAAA
* * *
39551689 GATAAGCCTCTGCTGATCTGGTGGGAT-CCCTTCCTTGTCTTGGATCTTTGCCTTTACATTATCT
324 GATAAGCCTCTGCTGATCTGGGGGGATACCC-TCCTTGTCTTGGATCTTTGCCTTCACATTATCA
* * * * * * *
39551753 ATTGTGTCAGAGCTTTCAACCTCCAAGGTAATTGTCTTTCCAGTGAGAGTCTTGACAAAGATTTG
388 ATGGTATCAGAACTTTCAACCTCCAAAGTAATGGTCTTTCCAGTAAGAGTCTTGACAAAGATCTG
39551818 CAT
453 CAT
* * * * * * * * * * * * * *
39551821 GCCGCCACGAAGTCGAAGAACCAAGTGAAGGGTGGATTCTTTCTGAATGTTGTAGTCGGCTAGCG
1 ACCACCACGAAGGCGAAGAACCAAATGAAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAG
* * * * * * *
39551886 TGCGGCCATCCTCAAGTTGTTTGCCAGCAAAGATAAGCCTCTGCTGATCCGGTGGGATCCCTTCC
66 TCCTGCCATCTTCAAGTTGTTTGCCAGCAAAAATAA-CCTTTGCTGGTCTGGTGGGATCCCTTCC
* * * * *
39551951 TTATCTTGGATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCGAGGGTGATGGT
130 TTGTCTTGAATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCCAAGGTGATAGT
* *
39552016 CTTGCCAGTGAGGGTTTTAACAAAGATTTGCATC
195 CTTTCCAGTGAGAGTTTTAACAAAGATTTGCATC
39552050 TATTGAATCA
Statistics
Matches: 566, Mismatches: 113, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
455 11 0.02
456 549 0.97
457 6 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (455 bp):
ACCACCACGAAGGCGAAGAACCAAATGAAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAG
TCCTGCCATCTTCAAGTTGTTTGCCAGCAAAAATAACCTTTGCTGGTCTGGTGGGATCCCTTCCT
TGTCTTGAATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCCAAGGTGATAGTC
TTTCCAGTGAGAGTTTTAACAAAGATTTGCATCCCACCACGAAGACGCAACACCAAGTGAAGGGT
AGACTCCTTTTGGATATTGTAATCAGCCAAGGTCCGACCATCTTCAAGCTGCTTGCCAGCAAAGA
TAAGCCTCTGCTGATCTGGGGGGATACCCTCCTTGTCTTGGATCTTTGCCTTCACATTATCAATG
GTATCAGAACTTTCAACCTCCAAAGTAATGGTCTTTCCAGTAAGAGTCTTGACAAAGATCTGCAT
Found at i:39553503 original size:12 final size:12
Alignment explanation
Indices: 39553486--39553511 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39553476 CATTAAAGTT
39553486 AATTTTTTATTC
1 AATTTTTTATTC
39553498 AATTTTTTATTC
1 AATTTTTTATTC
39553510 AA
1 AA
39553512 AATAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTTTTTATTC
Found at i:39553602 original size:16 final size:15
Alignment explanation
Indices: 39553565--39553595 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
39553555 AATATTTAAA
39553565 AATATAAATTAATAT
1 AATATAAATTAATAT
39553580 AATATAATATTAATAT
1 AATATAA-ATTAATAT
39553596 TAAATAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATAAATTAATAT
Found at i:39553639 original size:26 final size:26
Alignment explanation
Indices: 39553608--39553664 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
39553598 AATAAAAGTT
* * *
39553608 AAATTAGTTTTAGCTATAAAAATAAA
1 AAATTAGATTTACCTACAAAAATAAA
39553634 AAATTAGATTTACCTACAAAAATAAA
1 AAATTAGATTTACCTACAAAAATAAA
39553660 AAATT
1 AAATT
39553665 TGAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (26 bp):
AAATTAGATTTACCTACAAAAATAAA
Found at i:39573796 original size:40 final size:40
Alignment explanation
Indices: 39573713--39574015 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
39573703 TTGAATGCTG
* * * * * *
39573713 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
39573753 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
39573793 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
39573833 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
39573873 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
39573913 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
39573953 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
39573992 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39574016 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:39576869 original size:21 final size:21
Alignment explanation
Indices: 39576842--39576901 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
39576832 ATCAGCACAC
39576842 TCAGATGCATCCACAACA-AA
1 TCAGATGCATCCACAACAGAA
* *
39576862 TCCAGATGCATCTACACCAGAA
1 T-CAGATGCATCCACAACAGAA
39576884 TCAGATGC-TGCCACAACA
1 TCAGATGCAT-CCACAACA
39576902 CTCTTCAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 2 0.06
21 28 0.85
22 3 0.09
ACGTcount: A:0.38, C:0.32, G:0.13, T:0.17
Consensus pattern (21 bp):
TCAGATGCATCCACAACAGAA
Found at i:39578287 original size:20 final size:20
Alignment explanation
Indices: 39578262--39578304 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
39578252 TTCAAGCCAA
39578262 CTATTGACGAAGCTCTTACT
1 CTATTGACGAAGCTCTTACT
39578282 CTATTGACGAAGCTCTTACT
1 CTATTGACGAAGCTCTTACT
39578302 CTA
1 CTA
39578305 GAATTAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (20 bp):
CTATTGACGAAGCTCTTACT
Found at i:39597147 original size:35 final size:35
Alignment explanation
Indices: 39597108--39597174 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
39597098 CAAAAAGCTC
39597108 CGAACCTCAGTAATATTTCTCGGAGGCTTCCAGTT
1 CGAACCTCAGTAATATTTCTCGGAGGCTTCCAGTT
39597143 CGAACCTCAGTAATATTTCTCGGAGGCTTCCA
1 CGAACCTCAGTAATATTTCTCGGAGGCTTCCA
39597175 CTTAAGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (35 bp):
CGAACCTCAGTAATATTTCTCGGAGGCTTCCAGTT
Found at i:39601354 original size:40 final size:40
Alignment explanation
Indices: 39601310--39601386 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
39601300 CTCGTTCAAA
39601310 TGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAAT
1 TGCCTTCGGGACATAGCCCGGATT-GAGTAACTCGCACAAT
* *
39601350 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
1 TGCCTTCGGGACATAGCCCGGATTGAGTAACTCGCAC
39601387 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACATAGCCCGGATTGAGTAACTCGCACAAT
Found at i:39605643 original size:17 final size:18
Alignment explanation
Indices: 39605621--39605654 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39605611 CACATTGAAG
39605621 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
39605638 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
39605655 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:39606949 original size:28 final size:28
Alignment explanation
Indices: 39606907--39607003 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
39606897 TGGCCCCTTT
*
39606907 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
39606935 GGGCCCAATCACATTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
* * **
39606963 AGGCCCAATCAC-TTCCCTATGGCTCGCC
1 AGGCCCAATCACATT-CATATGGCCCATC
39606991 AGGCCCAATCACA
1 AGGCCCAATCACA
39607004 CTCGTAGTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 2 0.03
28 58 0.97
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:39612997 original size:145 final size:145
Alignment explanation
Indices: 39612734--39613315 Score: 1137
Period size: 145 Copynumber: 4.0 Consensus size: 145
39612724 TTTTACAATT
39612734 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
1 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
39612799 TTAAATATCTCATAAAATATAACTCATTTACCTATCTCGTTTCTTCCATATGAAAATACACTCAT
66 TTAAATATCTCATAAAATATAACTCATTTACCTATCTCGTTTCTTCCATATGAAAATACACTCAT
39612864 CAAGATTTGATTCCA
131 CAAGATTTGATTCCA
39612879 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
1 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
39612944 TTAAATATCTCATAAAATATAACTCATTTACCTATCTCGTTTCTTCCATATGAAAATACACTCAT
66 TTAAATATCTCATAAAATATAACTCATTTACCTATCTCGTTTCTTCCATATGAAAATACACTCAT
39613009 CAAGATTTGATTCCA
131 CAAGATTTGATTCCA
39613024 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
1 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
39613089 TTAAATATCTCATAAAATATAACTCATTTACCTATCTCGTTTCTTCCATATGAAAATACACTCAT
66 TTAAATATCTCATAAAATATAACTCATTTACCTATCTCGTTTCTTCCATATGAAAATACACTCAT
39613154 CAAGATTTGATTCCA
131 CAAGATTTGATTCCA
39613169 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
1 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
* * *
39613234 TTAAATATCTCATAAAATATAACTCATTTACCTGTTTCGTTTCTTCCATATGAAAATAGACTCAT
66 TTAAATATCTCATAAAATATAACTCATTTACCTATCTCGTTTCTTCCATATGAAAATACACTCAT
39613299 CAAGATTTGATTCCA
131 CAAGATTTGATTCCA
39613314 TA
1 TA
39613316 ACTCTTTAAT
Statistics
Matches: 434, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 434 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (145 bp):
TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
TTAAATATCTCATAAAATATAACTCATTTACCTATCTCGTTTCTTCCATATGAAAATACACTCAT
CAAGATTTGATTCCA
Found at i:39614171 original size:46 final size:46
Alignment explanation
Indices: 39614042--39614172 Score: 192
Period size: 46 Copynumber: 2.8 Consensus size: 46
39614032 TGTAACCCAC
* ** *
39614042 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGTTCACAT
*
39614088 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACAT
*
39614134 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
39614173 CCCAAATATC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACAT
Found at i:39614353 original size:62 final size:62
Alignment explanation
Indices: 39614270--39614392 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
39614260 TACTTTGGTA
39614270 GTCTTTCACATTTTTCACATAATTCATAAAATTTTGCATGTTGTCCAACAATGACCACAAAG
1 GTCTTTCACATTTTTCACATAATTCATAAAATTTTGCATGTTGTCCAACAATGACCACAAAG
*
39614332 GTCTTTCACATTTTTCACATAATTCATAAAATTTTGCGTGTTGTCCAACAATGACCACAAA
1 GTCTTTCACATTTTTCACATAATTCATAAAATTTTGCATGTTGTCCAACAATGACCACAAA
39614393 ACATAGAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (62 bp):
GTCTTTCACATTTTTCACATAATTCATAAAATTTTGCATGTTGTCCAACAATGACCACAAAG
Found at i:39619425 original size:46 final size:46
Alignment explanation
Indices: 39619358--39620317 Score: 1663
Period size: 46 Copynumber: 20.8 Consensus size: 46
39619348 TGTAACCCGC
* * * * *** *
39619358 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
* * * * *
39619404 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATG-TTCGCAT
* * * * **
39619450 ACATTTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619497 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619543 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619589 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619635 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619681 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619727 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619773 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619819 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619865 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619911 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39619957 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39620003 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39620049 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39620095 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39620141 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
* **
39620187 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
39620233 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
* *
39620279 CCATAAGTGAACTTGGACTCAAATCAACGAGTTCGGATG
1 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATG
39620318 CCCAAATATC
Statistics
Matches: 877, Mismatches: 32, Indels: 10
0.95 0.03 0.01
Matches are distributed among these distances:
45 2 0.00
46 841 0.96
47 32 0.04
48 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (46 bp):
CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
Found at i:39624472 original size:42 final size:42
Alignment explanation
Indices: 39624417--39624540 Score: 176
Period size: 42 Copynumber: 3.0 Consensus size: 42
39624407 TCTACATACT
* *
39624417 GATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATATC
1 GATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATC
* *
39624459 GATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATC
1 GATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATC
* * * *
39624501 AACGCCATATCCCAGATATGGTCTTACATGAAATCACATA
1 GATGCCATATCCCAGATATGGTCTTACACGAAATCTCATA
39624541 CCGAGGCTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (42 bp):
GATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATC
Found at i:39624610 original size:48 final size:48
Alignment explanation
Indices: 39624460--39624672 Score: 147
Period size: 48 Copynumber: 4.6 Consensus size: 48
39624450 TCTCATATCG
* * *
39624460 ATGCCATGTCCCAGACATGGTCTTACACGA-AATCTCATATCAACGCC-
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAACGCCA
* * * * * *
39624507 AT---A--TCCCAGATATGGTCTTACA-T-GAAATCACATACCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CA-CACATATCAACGCCA
* * * * * * * *
39624550 ATGTCATATCCCATATATGGTCTTATACTAGCACACGTATCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCA
* * *
39624598 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCA
*
39624646 ATGCCATGTCCCAGACATGCTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
39624673 TGGGATCTCA
Statistics
Matches: 128, Mismatches: 28, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
42 30 0.23
43 2 0.02
44 1 0.01
46 1 0.01
47 2 0.02
48 89 0.70
49 2 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCA
Found at i:39624682 original size:48 final size:48
Alignment explanation
Indices: 39624587--39624684 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 48
39624577 CTAGCACACG
* * * *
39624587 TATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
1 TATCAACGCCAATGCCATGTCCCAGACATGCTCTTACACTGGATCTCA
39624635 TATCAACGCCAATGCCATGTCCCAGACATGCTCTTACA-TGGGATCTCA
1 TATCAACGCCAATGCCATGTCCCAGACATGCTCTTACACT-GGATCTCA
39624683 TA
1 TA
39624685 AATCGTGGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.02
48 44 0.98
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
TATCAACGCCAATGCCATGTCCCAGACATGCTCTTACACTGGATCTCA
Found at i:39629049 original size:35 final size:35
Alignment explanation
Indices: 39629010--39629568 Score: 367
Period size: 35 Copynumber: 15.7 Consensus size: 35
39629000 CCAATCCTTT
** *
39629010 TTCAATTAACATTTCACCACAACATCGATACTTCT
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * *
39629045 TTCAATTAACATCTCGCCACAACACCGATACTTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * * *
39629080 TTCATTTAACATCCCACCATAACA-CTATTACTTTA
1 TTCAATTAACATCCCACCACAACATCGA-TACTTCA
* * *
39629115 TTCAATTAATAACCCACCACAACATCGATACTTTA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * * *
39629150 TTCATTTAACATCCCACCACTATACCGATACTTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * * *
39629185 TTCAATTAATATCCCGCCACAACATCGTTACTACA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* *
39629220 TTC-ATGTAGCATCCTACCACAACA-CTGATACTTCA
1 TTCAAT-TAACATCCCACCACAACATC-GATACTTCA
* * * *
39629255 TTCAATTAATATCCCGCCACAACATCGTTACTACA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* *
39629290 TTC-ATGTAGCATCCTACCACAACA-CTGATACTTCA
1 TTCAAT-TAACATCCCACCACAACATC-GATACTTCA
* * * *
39629325 TTCAATTAATATCCCGCCACAACAGT-GTTACTACA
1 TTCAATTAACATCCCACCACAACA-TCGATACTTCA
* * ** * *
39629360 TTCATTTAACATCCTATTACAACACCAATACTTCTTCA
1 TTCAATTAACATCCCACCACAACATCGATA---CTTCA
* * ** * *
39629398 TTCATTTAACATTCTGCCACAACACCAATACTTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* ** * * * *
39629433 TTCATTTAACATCTTACCATAACACCGTTAATTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * * *
39629468 TTCATTTAATATCCTACCACAACACCGATACTTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* *
39629503 TTCTTCATTCATTTAACATCCCAGCACAACA-CTTATACTTCA
1 ---TTCA---A-TTAACATCCCACCACAACATC-GATACTTCA
* * *
39629545 CTCAATTAATATCTCACCACAACA
1 TTCAATTAACATCCCACCACAACA
39629569 CTGCTAATTC
Statistics
Matches: 412, Mismatches: 89, Indels: 46
0.75 0.16 0.08
Matches are distributed among these distances:
34 8 0.02
35 334 0.81
36 8 0.02
38 34 0.08
39 3 0.01
41 1 0.00
42 24 0.06
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (35 bp):
TTCAATTAACATCCCACCACAACATCGATACTTCA
Found at i:39629135 original size:70 final size:69
Alignment explanation
Indices: 39629025--39629585 Score: 487
Period size: 70 Copynumber: 7.9 Consensus size: 69
39629015 TTAACATTTC
* * * *
39629025 ACCACAACATCGATACTTCTTTCAATTAACATCTCGCCACAACACCGATACTTCATTCATTTAAC
1 ACCACAACA-CTATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAAC
*
39629090 ATCCC
65 ATCCT
* * * * * *
39629095 ACCATAACACTATTACTTTATTCAATTAATAACCCACCACAACATCGATACTTTATTCATTTAAC
1 ACCACAACACTA-TACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAAC
*
39629160 ATCCC
65 ATCCT
* * * * * *
39629165 ACCACTATAC-CGATACTTCATTCAATTAATATCCCGCCACAACATCGTTACTACATTCATGTAG
1 ACCAC-A-ACACTATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAA
39629229 CATCCT
64 CATCCT
* * * * *
39629235 ACCACAACACTGATACTTCATTCAATTAATATCCCGCCACAACATCGTTACTACATTCATGTAGC
1 ACCACAACACT-ATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAAC
39629300 ATCCT
65 ATCCT
** * *
39629305 ACCACAACACTGATACTTCATTCAATTAATATCCCGCCACAACAGTGTTACTACATTCATTTAAC
1 ACCACAACACT-ATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAAC
39629370 ATCCT
65 ATCCT
** * * * * * *
39629375 ATTACAACACCAATACTTCTTCATTCATTTAACATTCTGCCACAACACCAATACTTCATTCATTT
1 ACCACAACA-C--TA-TACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTT
*
39629440 AACATCTT
62 AACATCCT
* * * **
39629448 ACCATAACACCGT-TAATTCATTCATTTAATATCCTACCACAACACCGATACTTCATTCTTCATT
1 ACCACAACA-C-TATACTTCATTCAATTAATATCCCGCCACAACACCG--A--T-A--CTTCATT
*
39629512 CATTTAACATCCC
57 CATTTAACATCCT
* * * * * * *
39629525 AGCACAACACTTATACTTCACTCAATTAATATCTCACCACAACACTGCTAATTCATTCATT
1 ACCACAACAC-TATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATT
39629586 AGCCATAGAC
Statistics
Matches: 412, Mismatches: 62, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
68 2 0.00
69 4 0.01
70 283 0.69
71 4 0.01
72 6 0.01
73 56 0.14
74 1 0.00
75 1 0.00
76 2 0.00
77 53 0.13
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (69 bp):
ACCACAACACTATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAACA
TCCT
Found at i:39629433 original size:108 final size:112
Alignment explanation
Indices: 39629288--39629585 Score: 318
Period size: 108 Copynumber: 2.7 Consensus size: 112
39629278 ATCGTTACTA
* * * * * * **
39629288 CATTCATGTAGCATCCTACCACAACACTGATACTTCATTCAATTAATATCCCGCCACAACAGTGT
1 CATTCATTTAACATCCTGCCACAACACTAATACTTCATTCAATTAATATCTCACCACAACACCGT
* **
39629353 TACTACATTCATTTAACATCCTATTACAACACC-A-A-TAC-TTCTT
66 TAATACATTCATTTAACATCCTACCACAACACCGATACTACATTCTT
* * * * * *
39629396 CATTCATTTAACATTCTGCCACAACACCAATACTTCATTCATTTAACATCTTACCATAACACCGT
1 CATTCATTTAACATCCTGCCACAACACTAATACTTCATTCAATTAATATCTCACCACAACACCGT
* * *
39629461 TAATTCATTCATTTAATATCCTACCACAACACCGATACTTCATTCTT
66 TAATACATTCATTTAACATCCTACCACAACACCGATACTACATTCTT
* * * *
39629508 CATTCATTTAACATCCCAG-CACAACACTTATACTTCACTCAATTAATATCTCACCACAACACTG
1 CATTCATTTAACAT-CCTGCCACAACACTAATACTTCATTCAATTAATATCTCACCACAACACCG
* *
39629572 CTAATTCATTCATT
65 TTAATACATTCATT
39629586 AGCCATAGAC
Statistics
Matches: 154, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
108 79 0.51
109 1 0.01
110 1 0.01
111 2 0.01
112 69 0.45
113 2 0.01
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.33
Consensus pattern (112 bp):
CATTCATTTAACATCCTGCCACAACACTAATACTTCATTCAATTAATATCTCACCACAACACCGT
TAATACATTCATTTAACATCCTACCACAACACCGATACTACATTCTT
Found at i:39629511 original size:42 final size:42
Alignment explanation
Indices: 39629464--39629544 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
39629454 ACACCGTTAA
* *
39629464 TTCATTCATTTAATATCCTACCACAACACCGATACTTCATTC
1 TTCATTCATTTAACATCCCACCACAACACCGATACTTCATTC
* **
39629506 TTCATTCATTTAACATCCCAGCACAACACTTATACTTCA
1 TTCATTCATTTAACATCCCACCACAACACCGATACTTCA
39629545 CTCAATTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.35
Consensus pattern (42 bp):
TTCATTCATTTAACATCCCACCACAACACCGATACTTCATTC
Found at i:39629569 original size:35 final size:35
Alignment explanation
Indices: 39629505--39629583 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 35
39629495 ATACTTCATT
* * *
39629505 CTTCATTCATTTAACATCCCAGCACAACACTTATA
1 CTTCATTCAATTAACATCCCACCACAACACTGATA
* * * *
39629540 CTTCACTCAATTAATATCTCACCACAACACTGCTA
1 CTTCATTCAATTAACATCCCACCACAACACTGATA
*
39629575 ATTCATTCA
1 CTTCATTCA
39629584 TTAGCCATAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.32
Consensus pattern (35 bp):
CTTCATTCAATTAACATCCCACCACAACACTGATA
Found at i:39629580 original size:77 final size:77
Alignment explanation
Indices: 39629428--39629582 Score: 181
Period size: 77 Copynumber: 2.0 Consensus size: 77
39629418 AACACCAATA
** * * *
39629428 CTTCATTCATTTAACATCTTACCATAACACCGTTAATTCATTCATTTAATATCCTACCACAACAC
1 CTTCATTCATTTAACATCCCACCACAACACCGTTAATTCACTCAATTAATATCCTACCACAACAC
*
39629493 CGATACTTCATT
66 CGATAATTCATT
*
39629505 CTTCATTCATTTAACATCCCAGCACAACA-C-TTATACTTCACTCAATTAATAT-CTCACCACAA
1 CTTCATTCATTTAACATCCCACCACAACACCGTTA-A-TTCACTCAATTAATATCCT-ACCACAA
* *
39629567 CACTGCTAATTCATT
63 CACCGATAATTCATT
39629582 C
1 C
39629583 ATTAGCCATA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
75 3 0.05
76 4 0.06
77 59 0.89
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (77 bp):
CTTCATTCATTTAACATCCCACCACAACACCGTTAATTCACTCAATTAATATCCTACCACAACAC
CGATAATTCATT
Found at i:39630098 original size:43 final size:43
Alignment explanation
Indices: 39630040--39630139 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
39630030 CACGCCAATA
* *
39630040 TGAACAGACCATGTGCCTCACATGGCCATTAGACACGCCTGTG
1 TGAACAGACCATGTGCCTCACATGGCCATCAGACACGCCCGTG
* * *
39630083 TGAACAGGCCGTGTGCCTCACATGGCCATCAGACATGCCCGTG
1 TGAACAGACCATGTGCCTCACATGGCCATCAGACACGCCCGTG
*
39630126 T-TACAGACCATGTG
1 TGAACAGACCATGTG
39630140 AAAACAGAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 10 0.20
43 39 0.80
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (43 bp):
TGAACAGACCATGTGCCTCACATGGCCATCAGACACGCCCGTG
Found at i:39631950 original size:45 final size:45
Alignment explanation
Indices: 39631899--39631989 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
39631889 CCATGCTTAG
39631899 CTGATTTATACTTAAGTCCCTAGCAGCCCAAAATTTTATTTATTT
1 CTGATTTATACTTAAGTCCCTAGCAGCCCAAAATTTTATTTATTT
* * *
39631944 CTGATTTATACTTGAGTCTCTAGTAGCCCAAAATTTTATTTATTT
1 CTGATTTATACTTAAGTCCCTAGCAGCCCAAAATTTTATTTATTT
39631989 C
1 C
39631990 ACATTTCAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (45 bp):
CTGATTTATACTTAAGTCCCTAGCAGCCCAAAATTTTATTTATTT
Found at i:39634585 original size:163 final size:164
Alignment explanation
Indices: 39634372--39634682 Score: 457
Period size: 163 Copynumber: 1.9 Consensus size: 164
39634362 TTTAGGAAAC
* *
39634372 TTGTCCAAATAATGAAACAAAGCTTTTTTTTTAGATTTTATAAGAATGGTCCAATTTCAATTTTA
1 TTGTCCAAATAATAAAACAAA-CTTTTGTTTTAGATTTTATAAGAATGGTCCAATTTCAATTTTA
** * * * * *
39634437 GTCTTTATAATATGCTCAAATTTTAGATTTAA-TTTTATACTTTAATTTTTTAACATAATTTGGT
65 GTCCCTAAAATATGCTCAAATTTCAAATTTAATTTTTATACCTTAATTTTTT-ACATAATTTAGT
39634501 ACCACAACTTTTAT-TTGGACATTCTTTTTTTATAT
129 ACCACAACTTTTATATTGGACATTCTTTTTTTATAT
*
39634536 TTGTCCAAATAATAAAACAAA-TATTTGTTTTAGATTTTATAATAATGGTCCAATTTCAATTTTA
1 TTGTCCAAATAATAAAACAAACT-TTTGTTTTAGATTTTATAAGAATGGTCCAATTTCAATTTTA
* *
39634600 GTCCCTAAAATATGCTTAAATTTCAAATTTAATTTTTATACCTTAATTTTTTACTTAATTTAGTA
65 GTCCCTAAAATATGCTCAAATTTCAAATTTAATTTTTATACCTTAATTTTTTACATAATTTAGTA
*
39634665 CCTCAACTTTTATATTGG
130 CCACAACTTTTATATTGG
39634683 CAAAGTTAGT
Statistics
Matches: 131, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
162 1 0.01
163 88 0.67
164 42 0.32
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.48
Consensus pattern (164 bp):
TTGTCCAAATAATAAAACAAACTTTTGTTTTAGATTTTATAAGAATGGTCCAATTTCAATTTTAG
TCCCTAAAATATGCTCAAATTTCAAATTTAATTTTTATACCTTAATTTTTTACATAATTTAGTAC
CACAACTTTTATATTGGACATTCTTTTTTTATAT
Found at i:39634658 original size:12 final size:14
Alignment explanation
Indices: 39634628--39634660 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
39634618 AATTTCAAAT
39634628 TTAATTTTTATACC
1 TTAATTTTTATACC
39634642 TTAATTTTT-TA-C
1 TTAATTTTTATACC
39634654 TTAATTT
1 TTAATTT
39634661 AGTACCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 2 0.11
14 9 0.47
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTTTTATACC
Found at i:39636535 original size:13 final size:13
Alignment explanation
Indices: 39636517--39636541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39636507 GTATAATAAA
39636517 ATATTTTAAAAAT
1 ATATTTTAAAAAT
39636530 ATATTTTAAAAA
1 ATATTTTAAAAA
39636542 AAAGACACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTTAAAAAT
Found at i:39638517 original size:3 final size:3
Alignment explanation
Indices: 39638511--39638538 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
39638501 CTATTATTTT
39638511 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
39638539 GTTCCTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:39643694 original size:46 final size:45
Alignment explanation
Indices: 39643644--39643909 Score: 225
Period size: 46 Copynumber: 5.8 Consensus size: 45
39643634 TTGGGCATCC
39643644 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCT
* *** * * *
39643690 GAACTCGTTAAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCT
* *
39643737 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCT
* *** * * *
39643783 GAACTCGTTAAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCT
* * *
39643830 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AAGTCT
*
39643876 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39643910 GCGAGTTACA
Statistics
Matches: 170, Mismatches: 36, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 5 0.03
45 3 0.02
46 92 0.54
47 58 0.34
48 2 0.01
49 6 0.04
50 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCT
Found at i:39643796 original size:93 final size:93
Alignment explanation
Indices: 39643637--39643901 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
39643627 AGGATGTTTG
* *
39643637 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTAAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTAAG
39643702 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
39643730 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTAAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTAAG
39643795 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
39643823 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCTGAGCTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTAAG
39643888 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
39643902 ACTTATGGGC
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTAAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:39643846 original size:47 final size:47
Alignment explanation
Indices: 39643700--39643855 Score: 176
Period size: 47 Copynumber: 3.3 Consensus size: 47
39643690 GAACTCGTTA
39643700 AGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCATTG
1 AGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCATTG
*** * * * * * *
39643747 AGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCTGAACTCGTTA
1 AGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCCGAGCTCATTG
39643793 AGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCATTG
1 AGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCATTG
39643840 AGTTGAGTCCGAGTTC
1 AGTTGAGTCCGAGTTC
39643856 ACTTATGGAT
Statistics
Matches: 84, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
45 1 0.01
46 29 0.35
47 45 0.54
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (47 bp):
AGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCATTG
Found at i:39644608 original size:9 final size:10
Alignment explanation
Indices: 39644585--39644610 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
39644575 CGTGAGTTTA
39644585 AAAAATCATT
1 AAAAATCATT
39644595 AAAAATCATT
1 AAAAATCATT
39644605 AAAAAT
1 AAAAAT
39644611 ATGGAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATCATT
Found at i:39647095 original size:11 final size:10
Alignment explanation
Indices: 39647075--39647202 Score: 59
Period size: 10 Copynumber: 13.8 Consensus size: 10
39647065 CGCCATTTTG
39647075 ATAATTTTAT
1 ATAATTTTAT
39647085 ATAATTTT-T
1 ATAATTTTAT
* *
39647094 AT-TTTTTTT
1 ATAATTTTAT
39647103 ATAA-TTTAT
1 ATAATTTTAT
*
39647112 A-ACTTTT-T
1 ATAATTTTAT
39647120 ATAATTCTT-T
1 ATAATT-TTAT
*
39647130 A-ACTTTTAT
1 ATAATTTTAT
*
39647139 AATACA-TTAAT
1 -ATA-ATTTTAT
39647150 AT-A-TTTA-
1 ATAATTTTAT
39647157 ATAATATTTAT
1 ATAAT-TTTAT
*
39647168 AT--TTTTCT
1 ATAATTTTAT
*
39647176 ATAATTTTTT
1 ATAATTTTAT
39647186 ATAATTTT-T
1 ATAATTTTAT
39647195 ATAATTTT
1 ATAATTTT
39647203 TAATATTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
7 2 0.02
8 20 0.22
9 31 0.34
10 32 0.35
11 7 0.08
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (10 bp):
ATAATTTTAT
Found at i:39647118 original size:17 final size:18
Alignment explanation
Indices: 39647098--39647141 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
39647088 ATTTTTATTT
39647098 TTTTTATAATT-TATAAC
1 TTTTTATAATTCTATAAC
*
39647115 TTTTTATAATTCTTTAAC
1 TTTTTATAATTCTATAAC
39647133 -TTTTATAAT
1 TTTTTATAAT
39647142 ACATTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTCTATAAC
Found at i:39647148 original size:17 final size:18
Alignment explanation
Indices: 39647098--39647148 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
39647088 ATTTTTATTT
**
39647098 TTTTTATAATTTA-TAAC
1 TTTTTATAATACATTAAC
* *
39647115 TTTTTATAATTCTTTAAC
1 TTTTTATAATACATTAAC
39647133 -TTTTATAATACATTAA
1 TTTTTATAATACATTAA
39647149 TATATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTATAATACATTAAC
Found at i:39647195 original size:9 final size:9
Alignment explanation
Indices: 39647069--39647220 Score: 98
Period size: 9 Copynumber: 16.6 Consensus size: 9
39647059 AATTTTCGCC
*
39647069 ATTTTGATA
1 ATTTTTATA
39647078 ATTTTATATA
1 ATTTT-TATA
*
39647088 ATTTTTATT
1 ATTTTTATA
*
39647097 TTTTTTATA
1 ATTTTTATA
39647106 A--TTTATA
1 ATTTTTATA
39647113 ACTTTTTATA
1 A-TTTTTATA
*
39647123 ATTCTT-TA
1 ATTTTTATA
*
39647131 ACTTTTATA
1 ATTTTTATA
**
39647140 ATACATTA-A
1 AT-TTTTATA
*
39647149 TATATTTAATA
1 -AT-TTTTATA
*
39647160 ATATTTATA
1 ATTTTTATA
*
39647169 TTTTTCTATA
1 ATTTT-TATA
39647179 ATTTTTTATA
1 A-TTTTTATA
39647189 ATTTTTATA
1 ATTTTTATA
39647198 ATTTTTA-A
1 ATTTTTATA
*
39647206 TATTTTTACA
1 -ATTTTTATA
39647216 ATTTT
1 ATTTT
39647221 CTAATATTTT
Statistics
Matches: 112, Mismatches: 19, Indels: 24
0.72 0.12 0.15
Matches are distributed among these distances:
7 7 0.06
8 7 0.06
9 58 0.52
10 35 0.31
11 5 0.04
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:39647210 original size:18 final size:18
Alignment explanation
Indices: 39647078--39647230 Score: 107
Period size: 19 Copynumber: 8.3 Consensus size: 18
39647068 CATTTTGATA
*
39647078 ATTTTATATAATTTTTATT
1 ATTTT-TATAATTTTTAAT
* *
39647097 TTTTTTATAATTTATAA-
1 ATTTTTATAATTTTTAAT
*
39647114 CTTTTTATAATTCTTT-A-
1 ATTTTTATAATT-TTTAAT
* **
39647131 ACTTTTATAATACATTAAT
1 ATTTTTATAAT-TTTTAAT
* *
39647150 ATATTTAATAATATTT-AT
1 AT-TTTTATAATTTTTAAT
*
39647168 ATTTTTCTATAATTTTTTAT
1 A-TTTT-TATAATTTTTAAT
39647188 AATTTTTATAATTTTTAAT
1 -ATTTTTATAATTTTTAAT
*
39647207 ATTTTTACAATTTTCTAAT
1 ATTTTTATAATTTT-TAAT
39647226 ATTTT
1 ATTTT
39647231 CTAATACTTA
Statistics
Matches: 107, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
17 23 0.21
18 32 0.30
19 37 0.35
20 14 0.13
21 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTATAATTTTTAAT
Found at i:39647229 original size:10 final size:9
Alignment explanation
Indices: 39647145--39647236 Score: 55
Period size: 10 Copynumber: 9.7 Consensus size: 9
39647135 TTATAATACA
*
39647145 TTAATATAT
1 TTAATATTT
*
39647154 TTAATAATAT
1 TTAAT-ATTT
39647164 TT-ATATTT
1 TTAATATTT
*
39647172 TTCTATAATTT
1 TT-AAT-ATTT
*
39647183 TTTATAATTT
1 TTAAT-ATTT
39647193 TT-ATAATTT
1 TTAAT-ATTT
39647202 TTAATATTT
1 TTAATATTT
39647211 TTACA-ATTT
1 TTA-ATATTT
39647220 TCTAATATTT
1 T-TAATATTT
39647230 TCTAATA
1 T-TAATA
39647237 CTTAAATAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 15
0.82 0.01 0.17
Matches are distributed among these distances:
8 5 0.07
9 29 0.39
10 34 0.46
11 6 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (9 bp):
TTAATATTT
Found at i:39647290 original size:32 final size:32
Alignment explanation
Indices: 39647253--39647325 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
39647243 TAAAAAAAGT
* *
39647253 AATTAAATTTTTGTAAAATAA-TTAGAAATATC
1 AATTAAACTATTGTAAAATAATTTAGAAA-ATC
*
39647285 AATTAAACTATTGTAAAATAATTTATAAAATC
1 AATTAAACTATTGTAAAATAATTTAGAAAATC
39647317 AATTAAACT
1 AATTAAACT
39647326 CTATACAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 31 0.84
33 6 0.16
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.38
Consensus pattern (32 bp):
AATTAAACTATTGTAAAATAATTTAGAAAATC
Found at i:39650934 original size:26 final size:26
Alignment explanation
Indices: 39650897--39650980 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
39650887 TGATACAAAT
* *
39650897 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
39650923 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
39650949 TGATAATGGGTTAGATAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
39650975 TGATAA
1 TGATAA
39650981 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:39655610 original size:29 final size:30
Alignment explanation
Indices: 39655578--39655634 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
39655568 ACTTAACAAG
39655578 CAAATGCCTCTAAAATAATAA-AAAATTGA
1 CAAATGCCTCTAAAATAATAACAAAATTGA
*
39655607 CAAATGCCTTTAAAATAATAACAAAATT
1 CAAATGCCTCTAAAATAATAACAAAATT
39655635 AACGATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.26
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTGA
Found at i:39655694 original size:22 final size:22
Alignment explanation
Indices: 39655669--39655711 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
39655659 TATCCAAACA
39655669 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
39655691 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
39655712 AATAGGGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:39656921 original size:19 final size:19
Alignment explanation
Indices: 39656893--39656932 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
39656883 TAAGTTTGGT
*
39656893 AGAATGAATAAATTAACTA
1 AGAATAAATAAATTAACTA
39656912 AGAATAAATAAATTAACTA
1 AGAATAAATAAATTAACTA
39656931 AG
1 AG
39656933 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.25
Consensus pattern (19 bp):
AGAATAAATAAATTAACTA
Found at i:39665699 original size:42 final size:42
Alignment explanation
Indices: 39665662--39665741 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
39665652 TATTTTATTT
39665662 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCTG
1 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCTG
* *
39665704 TATGTTTTAGTAGTTTATTAGAATAAGGAAATTATTTT
1 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTT
39665742 CCCAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (42 bp):
TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCTG
Found at i:39668538 original size:23 final size:24
Alignment explanation
Indices: 39668500--39668545 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
39668490 AAGTTTTATC
* *
39668500 GAAAATGAAGAGAAGAATATATAT
1 GAAAATGAAGAAAAGAAAATATAT
39668524 GAAAAT-AAGAAAAGAAAATATA
1 GAAAATGAAGAAAAGAAAATATA
39668546 CTAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (24 bp):
GAAAATGAAGAAAAGAAAATATAT
Found at i:39669382 original size:21 final size:22
Alignment explanation
Indices: 39669345--39669387 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39669335 TGTCCTGTGG
*
39669345 CCATTCTGCAGT-TTTTTTCAT
1 CCATTCTGCAGTCTTTTCTCAT
39669366 CCATTCTGTCA-TCTTTTCTCAT
1 CCATTCTG-CAGTCTTTTCTCAT
39669388 TGTCAACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.14, C:0.28, G:0.07, T:0.51
Consensus pattern (22 bp):
CCATTCTGCAGTCTTTTCTCAT
Found at i:39670732 original size:19 final size:19
Alignment explanation
Indices: 39670708--39670744 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
39670698 ATTTATTCTG
*
39670708 AGATTTATCTATCTAAATC
1 AGATTTATCTACCTAAATC
39670727 AGATTTATCTACCTAAAT
1 AGATTTATCTACCTAAAT
39670745 AACTTTAAAA
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:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (19 bp):
AGATTTATCTACCTAAATC
Found at i:39672818 original size:17 final size:17
Alignment explanation
Indices: 39672796--39672830 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
39672786 TTGTCTGTGA
39672796 TTTGATGTGTTGTATCT
1 TTTGATGTGTTGTATCT
39672813 TTTGATGTGTTGTATCT
1 TTTGATGTGTTGTATCT
39672830 T
1 T
39672831 ACTTATTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.23, T:0.60
Consensus pattern (17 bp):
TTTGATGTGTTGTATCT
Found at i:39676178 original size:31 final size:31
Alignment explanation
Indices: 39676140--39676202 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
39676130 TATCTTATGG
39676140 TTAATTTCATTTGTATCATGGACAAATATAC
1 TTAATTTCATTTGTATCATGGACAAATATAC
*
39676171 TTAATTTCATTTGTATCATGGACAAGTATAC
1 TTAATTTCATTTGTATCATGGACAAATATAC
39676202 T
1 T
39676203 AACTTATGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (31 bp):
TTAATTTCATTTGTATCATGGACAAATATAC
Found at i:39684889 original size:23 final size:23
Alignment explanation
Indices: 39684863--39684909 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
39684853 TAGAATTTCC
* *
39684863 TTTTATATGATATTGTTTTCAAA
1 TTTTATATGATATTATGTTCAAA
*
39684886 TTTTGTATGATATTATGTTCAAA
1 TTTTATATGATATTATGTTCAAA
39684909 T
1 T
39684910 ACTTTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (23 bp):
TTTTATATGATATTATGTTCAAA
Found at i:39685128 original size:17 final size:17
Alignment explanation
Indices: 39685106--39685138 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39685096 TTTCATATAT
*
39685106 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
39685123 TATTATCTATATGTAT
1 TATTATCTATATGTAT
39685139 CATTAATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:39685547 original size:13 final size:13
Alignment explanation
Indices: 39685529--39685553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39685519 TTTATTGTAT
39685529 ATATTTTTAACAA
1 ATATTTTTAACAA
39685542 ATATTTTTAACA
1 ATATTTTTAACA
39685554 CTTTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTTTTAACAA
Found at i:39689698 original size:29 final size:29
Alignment explanation
Indices: 39689643--39689757 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
39689633 GTGAGCATGA
* * *
39689643 ATATGAATGTGA-CTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
39689671 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
39689700 ATATACATGTGATTTGGGCCAAATGGGTC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
39689729 ATATGAATAT-AATTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
39689757 A
1 A
39689758 AATACAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.36
29 47 0.64
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:39696494 original size:48 final size:48
Alignment explanation
Indices: 39695105--39696493 Score: 2283
Period size: 48 Copynumber: 28.9 Consensus size: 48
39695095 TATATGTGTG
*
39695105 TGGTAAAGCGGAATGACTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695153 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695201 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695249 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695297 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695345 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695393 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695441 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695489 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695537 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695585 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695633 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695681 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695729 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695777 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695825 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
39695873 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
*
39695921 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * *
39695969 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATGTGTATATG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * * * * *
39696017 TGGTAAAACCGAATGGCTAATGTGAAATATGTATGGGATGTGTATATG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * * * *
39696065 TGGTAAAGCTGAATGGCTAATGTGAAATATGTATGGGATGTGTATATG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * * * *
39696113 TGGTAAAGCTGAATGGCTAATGTGAAATATGTATGGGATGTGTATATG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * * * *
39696161 TGGTAAAGCTGAATGGCTAATGTGAAATATGTATGGGATGTGTATATG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * * * *
39696209 TGGTAAAGCTGAATGGCTAATGTGAAATATGTATGGGATGTGTATATG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * * * *
39696257 TGGTAAAGCTGAATGGCTAATGTGAAATATGTATGGGATGTGTATATG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * * * *
39696305 TGGTAAAGCTGAATGGCTAATGTGAAATATGTATGGGATGTGTATATG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * ***
39696353 TGGTAAAGCTGAATGGCTAATGTGAAATATGTATGGGATATGTATACG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * ***
39696401 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACG
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
* * * *
39696449 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATGTGTAT
1 TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTAT
39696494 ATTGTGGCCG
Statistics
Matches: 1325, Mismatches: 16, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 1325 1.00
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.32
Consensus pattern (48 bp):
TGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAGATATGTATGTA
Found at i:39696680 original size:37 final size:37
Alignment explanation
Indices: 39696626--39696802 Score: 291
Period size: 37 Copynumber: 4.8 Consensus size: 37
39696616 GGAAATATAT
*
39696626 TCCGGGTAAGACCCGATGACTACGTGTGCAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
**
39696663 TCTAGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39696700 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
39696737 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39696774 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
39696803 GGACTATTCG
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 129 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:39701230 original size:40 final size:39
Alignment explanation
Indices: 39701132--39701394 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
39701122 TCCTCGTTCA
* * * *
39701132 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
39701171 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
39701210 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
39701250 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
39701290 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
39701330 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
39701371 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39701395 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:39701354 original size:120 final size:119
Alignment explanation
Indices: 39701132--39701394 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
39701122 TCCTCGTTCA
* * *
39701132 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
39701197 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
39701250 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
39701315 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
39701371 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39701395 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:39701403 original size:41 final size:41
Alignment explanation
Indices: 39701326--39701403 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39701316 TTTGTATCTC
* * *
39701326 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39701367 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39701404 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39709213 original size:40 final size:40
Alignment explanation
Indices: 39709115--39709377 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
39709105 TCCTCGTTCA
* * * ** *
39709115 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
39709154 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39709194 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39709234 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
39709274 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
39709314 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
39709354 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39709378 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:39713026 original size:8 final size:8
Alignment explanation
Indices: 39713008--39713041 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
39712998 CAAAATCCAA
*
39713008 AAATCTCG
1 AAATCCCG
*
39713016 AAATCCTG
1 AAATCCCG
39713024 AAATCCCG
1 AAATCCCG
39713032 AAATCCCG
1 AAATCCCG
39713040 AA
1 AA
39713042 TTTTATTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (8 bp):
AAATCCCG
Found at i:39713027 original size:16 final size:16
Alignment explanation
Indices: 39712989--39713037 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
39712979 TGTAACGCCT
*
39712989 CAAAAATCTCAAAATC
1 CAAAAATCTCGAAATC
39713005 CAAAAATCTCGAAATC
1 CAAAAATCTCGAAATC
** *
39713021 CTGAAATCCCGAAATC
1 CAAAAATCTCGAAATC
39713037 C
1 C
39713038 CGAATTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.47, C:0.29, G:0.06, T:0.18
Consensus pattern (16 bp):
CAAAAATCTCGAAATC
Found at i:39713217 original size:16 final size:16
Alignment explanation
Indices: 39713196--39713238 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
39713186 ATGTATCGGC
39713196 AAAAGCCGAAATG-CA
1 AAAAGCCGAAATGCCA
39713211 GAAAAGCCGAAATGCCA
1 -AAAAGCCGAAATGCCA
39713228 AAAAGCCGAAA
1 AAAAGCCGAAA
39713239 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 24 0.92
17 2 0.08
ACGTcount: A:0.53, C:0.21, G:0.21, T:0.05
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:39713222 original size:8 final size:8
Alignment explanation
Indices: 39713196--39713238 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
39713186 ATGTATCGGC
39713196 AAAAGCCG
1 AAAAGCCG
* *
39713204 AAATGCAG
1 AAAAGCCG
39713212 AAAAGCCG
1 AAAAGCCG
* *
39713220 AAATGCCA
1 AAAAGCCG
39713228 AAAAGCCG
1 AAAAGCCG
39713236 AAA
1 AAA
39713239 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.53, C:0.21, G:0.21, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:39713369 original size:19 final size:19
Alignment explanation
Indices: 39713347--39713389 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
39713337 ATTTGGCCAT
*
39713347 ATGGGCCGAAATGGGCCTG
1 ATGGGCCGAAATGGGCCCG
*
39713366 ATGGG-CTAAATGGGCCCG
1 ATGGGCCGAAATGGGCCCG
39713384 ATGGGC
1 ATGGGC
39713390 TGTTGGTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.21, C:0.21, G:0.42, T:0.16
Consensus pattern (19 bp):
ATGGGCCGAAATGGGCCCG
Found at i:39713378 original size:18 final size:18
Alignment explanation
Indices: 39713355--39713390 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
39713345 ATATGGGCCG
*
39713355 AAATGGGCCTGATGGGCT
1 AAATGGGCCCGATGGGCT
39713373 AAATGGGCCCGATGGGCT
1 AAATGGGCCCGATGGGCT
39713391 GTTGGTCCCA
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:0.22, C:0.19, G:0.39, T:0.19
Consensus pattern (18 bp):
AAATGGGCCCGATGGGCT
Found at i:39713537 original size:28 final size:29
Alignment explanation
Indices: 39713476--39713543 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
39713466 GTGACTCGGT
* *
39713476 CTAACGGGCCATATAAATGTCATTTGGGC
1 CTAATGGGCCATATAAATATCATTTGGGC
* *
39713505 CTAATGGGCCATATGAATATGA-TTGGGC
1 CTAATGGGCCATATAAATATCATTTGGGC
*
39713533 TTAATGGGCCA
1 CTAATGGGCCA
39713544 GATACAGGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (29 bp):
CTAATGGGCCATATAAATATCATTTGGGC
Found at i:39716512 original size:38 final size:38
Alignment explanation
Indices: 39716443--39716518 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
39716433 TGCTTATTTA
* *
39716443 TAGTCTAAGCTCCACTTACCTCTCAATTGAATGGTCAT
1 TAGTCTAAGCTCCACTTACCTCTCAACTGAATAGTCAT
* * *
39716481 TAGTCTAAGCTCGACTTACCTTTCCACTGAATAGTCAT
1 TAGTCTAAGCTCCACTTACCTCTCAACTGAATAGTCAT
39716519 GGTGGTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (38 bp):
TAGTCTAAGCTCCACTTACCTCTCAACTGAATAGTCAT
Found at i:39719237 original size:10 final size:10
Alignment explanation
Indices: 39719224--39719256 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
39719214 TATACATGTA
39719224 TATATATATC
1 TATATATATC
*
39719234 TATATATAAC
1 TATATATATC
39719244 TATATATATC
1 TATATATATC
39719254 TAT
1 TAT
39719257 TCATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (10 bp):
TATATATATC
Found at i:39719382 original size:14 final size:14
Alignment explanation
Indices: 39719340--39719382 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
39719330 AAGGTTCATT
39719340 TTATTTTATACATA
1 TTATTTTATACATA
* *
39719354 TTA-TTAATAATATA
1 TTATTTTAT-ACATA
39719368 TTATTTTATACATA
1 TTATTTTATACATA
39719382 T
1 T
39719383 GTTTTCCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTTTATACATA
Found at i:39720596 original size:131 final size:131
Alignment explanation
Indices: 39720278--39720633 Score: 439
Period size: 131 Copynumber: 2.7 Consensus size: 131
39720268 TCATTCATTC
* *
39720278 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACAAGATTCGATGTTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * *
39720343 TTGGATTGCAATTTCGTGTTTGCTCAAAATAATCGAATACCACTTCAAAATTTCACTCATTTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATACCACTTCAAAATTTCACTCATATCTT
39720408 T
131 T
* * * * *
39720409 TAAAATTCTTGAAAACGGAGACAAGATTCGATATTT-AGCAATTCGCGGAATCGTGCCCTAACAT
1 AAAAATTCTTCAAAACGAAGACAAGATTCGATGTTTGA-CAATTCGCGGAATCGTGCCCTAACGT
* *
39720473 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCC-CTTCAAAATTTCATTCATATC
65 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATA-CCACTTCAAAATTTCACTCATATC
39720537 TTCT
129 TT-T
* * * * * * * * *
39720541 AAAAATTATTTAAAACGAAGGCAATATTCGGTGTTTGACAATTTG-AGAATAGTGCCCTATCGTG
1 AAAAATTCTTCAAAACGAAGACAAGATTCGATGTTTGACAATTCGCGGAATCGTGCCCTAACGTG
** * *
39720605 TTGGGTTGTGATTTCTCATTTGCTCAAAA
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAA
39720634 CGATTGAACA
Statistics
Matches: 192, Mismatches: 29, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
131 154 0.80
132 37 0.19
133 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (131 bp):
AAAAATTCTTCAAAACGAAGACAAGATTCGATGTTTGACAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATACCACTTCAAAATTTCACTCATATCTT
T
Found at i:39731228 original size:14 final size:13
Alignment explanation
Indices: 39731199--39731243 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
39731189 AGTGGGTGGA
39731199 AATAATATT-A-T
1 AATAATATTAAGT
39731210 AATAATATTAAAGT
1 AATAATATT-AAGT
*
39731224 TATAATA-TAAGT
1 AATAATATTAAGT
39731236 AATAATAT
1 AATAATAT
39731244 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:39731631 original size:9 final size:9
Alignment explanation
Indices: 39731617--39731645 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
39731607 GACTAAAATG
39731617 TGAAATAAA
1 TGAAATAAA
39731626 TGAAATAAA
1 TGAAATAAA
39731635 TGAAATAAA
1 TGAAATAAA
39731644 TG
1 TG
39731646 GACTAGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (9 bp):
TGAAATAAA
Found at i:39734837 original size:39 final size:39
Alignment explanation
Indices: 39734768--39734987 Score: 352
Period size: 39 Copynumber: 5.6 Consensus size: 39
39734758 CCACAAAGCA
* *
39734768 TTCGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCC
1 TTCGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCC
*
39734808 TGCGGGACTTTAGCCCGGATATAACACCAGCACGAATGCC
1 TTCGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCC
39734848 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
1 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
* * *
39734887 TTTGGGACGTAGCCCGGATATAATACCAGCACGAATGCC
1 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
39734926 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
1 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
39734965 TTCGGGACTTAGCCCGGATATAA
1 TTCGGGACTTAGCCCGGATATAA
39734988 TTCTCCATTA
Statistics
Matches: 169, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 147 0.87
40 22 0.13
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
Found at i:39741336 original size:39 final size:39
Alignment explanation
Indices: 39741252--39741486 Score: 287
Period size: 39 Copynumber: 6.0 Consensus size: 39
39741242 CAAATCCAAT
* * *
39741252 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCAGATATAA
1 CACCAGCACGAAAGCCTTCGGGAC-TT-AGCCCAGATATAA
* * *
39741292 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGAC-TTAGCCCAGATATAA
* *
39741331 CACCAGCAC-AAATGCCTTCGGGACTTAACCCGGATATAA
1 CACCAGCACGAAA-GCCTTCGGGACTTAGCCCAGATATAA
* * *
39741370 CACTAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCAGATATAA
* *
39741409 CACCAGCACGAATGCCTTCGGGACATAGCCCAGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCAGATATAA
*
39741448 CACCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCAGATATAA
39741487 TTCTCCATTA
Statistics
Matches: 179, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 144 0.80
40 35 0.20
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.17
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTTCGGGACTTAGCCCAGATATAA
Found at i:39741400 original size:78 final size:78
Alignment explanation
Indices: 39741252--39741486 Score: 321
Period size: 78 Copynumber: 3.0 Consensus size: 78
39741242 CAAATCCAAT
* * * * * *
39741252 CACCACCACAAA-GCATGCGGGACTTTAAGCCCAGATATAATACCAGCAC-AAAGCCTGCGGGAC
1 CACCAGCACAAATGCCTTCGGGAC-TTAA-CCCAGATATAACACCAGCACGAATGCCTTCGGGAC
39741315 TTTAGCCCGGATATAA
64 -TTAGCCCGGATATAA
* *
39741331 CACCAGCACAAATGCCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCCTTCGGGACTT
1 CACCAGCACAAATGCCTTCGGGACTTAACCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
39741396 AGCCCGGATATAA
66 AGCCCGGATATAA
* * *
39741409 CACCAGCACGAATGCCTTCGGGACATAGCCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
1 CACCAGCACAAATGCCTTCGGGACTTAACCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
*
39741474 AGCCCAGATATAA
66 AGCCCGGATATAA
39741487 TTCTCCATTA
Statistics
Matches: 140, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
78 104 0.74
79 27 0.19
80 9 0.06
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.17
Consensus pattern (78 bp):
CACCAGCACAAATGCCTTCGGGACTTAACCCAGATATAACACCAGCACGAATGCCTTCGGGACTT
AGCCCGGATATAA
Found at i:39741446 original size:117 final size:119
Alignment explanation
Indices: 39741269--39741486 Score: 325
Period size: 117 Copynumber: 1.8 Consensus size: 119
39741259 ACAAAGCATG
* * *
39741269 CGGGACTTTAAGCCCAGATATAATACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACAC
1 CGGGACTTTAAGCCCAGATATAACACCAGCACAAAGCCTGCGGGACTATAGCCCAGATATAACAC
*
39741334 CAGCACAAATGCCTTCGGGACTTAACCCGGATATAACACTAGCACGAATGCCTT
66 CAGCACAAATGCCTTCGGGACTTAACCCAGATATAACACTAGCACGAATGCCTT
* * *
39741388 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-ATAGCCCAGATATAACA
1 CGGGACTTTAAGCCCAGATATAACACCAGCAC-AAAGCCTGCGGGACTATAGCCCAGATATAACA
* *
39741450 CCAGCACGAATGCCTTCGGGACTTAGCCCAGATATAA
65 CCAGCACAAATGCCTTCGGGACTTAACCCAGATATAA
39741487 TTCTCCATTA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
117 69 0.78
118 14 0.16
119 6 0.07
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (119 bp):
CGGGACTTTAAGCCCAGATATAACACCAGCACAAAGCCTGCGGGACTATAGCCCAGATATAACAC
CAGCACAAATGCCTTCGGGACTTAACCCAGATATAACACTAGCACGAATGCCTT
Found at i:39747940 original size:74 final size:74
Alignment explanation
Indices: 39747802--39747940 Score: 208
Period size: 74 Copynumber: 1.9 Consensus size: 74
39747792 GATTTTCTCC
*** * **
39747802 AAAAAAAAATGGGCCAAAGTGAAAACCCGCAAAGGGTGTTTTGAGACCTAATAAAAATGGAAAAG
1 AAAAAAAAATGGGCCAAAGTGAAAACCCGCAAAGGGCACTTTCAGACCTAATAAAAATAAAAAAG
39747867 GACCAAAGT
66 GACCAAAGT
39747876 AAAAAAAAATGGGCCAAAGTGAAAACCCGCAAAGGGCACTTTCAGA-CTCAATAAAAATAAAAAA
1 AAAAAAAAATGGGCCAAAGTGAAAACCCGCAAAGGGCACTTTCAGACCT-AATAAAAATAAAAAA
39747940 G
65 G
39747941 AAAAAAGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 2 0.03
74 56 0.97
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.14
Consensus pattern (74 bp):
AAAAAAAAATGGGCCAAAGTGAAAACCCGCAAAGGGCACTTTCAGACCTAATAAAAATAAAAAAG
GACCAAAGT
Found at i:39749375 original size:89 final size:89
Alignment explanation
Indices: 39749211--39749376 Score: 210
Period size: 89 Copynumber: 1.9 Consensus size: 89
39749201 CGAAAGAGGT
* * * *
39749211 GAATCTTATCTCCATGTATCAGTAATGGAGCAGATTTAAGCCCCAAGATTTATTTCCCTGAAGTT
1 GAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCCCAAGACTTATCTCCCTGAAGTA
*
39749276 GCAGTGGAGCAGATAAAAAATGGC
66 GCAGTAGAGCAGATAAAAAATGGC
* * * * *
39749300 GAATCTTATCTCTATGTATCAGCAATGGAGTAGATTTAAGCCACC-AGCCTTATCTCTCTGAGGT
1 GAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCC-CCAAGACTTATCTCCCTGAAGT
39749364 AGCAAG-AGAGCAG
65 AGC-AGTAGAGCAG
39749377 GTTGAAGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 61 0.94
90 4 0.06
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (89 bp):
GAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCCCAAGACTTATCTCCCTGAAGTA
GCAGTAGAGCAGATAAAAAATGGC
Found at i:39749524 original size:265 final size:264
Alignment explanation
Indices: 39748999--39749780 Score: 998
Period size: 263 Copynumber: 3.0 Consensus size: 264
39748989 TGGTGAAATC
* * * *
39748999 AGATCTTATCTCCCTAAAGTTGCAATGGAGCAGATCGAAGATGACAAATCTTATCTCCATGTATC
1 AGAT-TTATATCCCT-AAGTTGCAGTGGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATC
* * * *
39749064 AGCAATAGAGTGGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGTAGGTT---GA
64 AGCAATGGAGTAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * *
39749126 A-GA-----ATCTTCCTGAGGTAGCAAGGAAGCAGACTGGATG-TTAAAGATCTTATCTCCCTAA
129 ATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACT-GAAGATTGAAGATCTTATCTCCCTAA
* * *
39749184 GCAGTAGCGGAGCAGATCGAAAGAGGTGAATCTTATCTCCATGTATC-AGTAATGGAGCAGATTT
193 GCAGTAGCGGAGCAGATCGAAAGAGGCGAATCCTATCTCCATGTATCGA-CAATGGAGCAGATTT
39749248 AAGCCCCA
257 AAGCCCCA
* * * * *
39749256 AGATTTATTTCCCTGAAGTTGCAGTGGAGCAGATAAAAAATGGCGAATCTTATCTCTATGTATCA
1 AGATTTATATCCCT-AAGTTGCAGTGGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCA
39749321 GCAATGGAGTAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAA
65 GCAATGGAGTAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAA
*
39749386 TGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAGATTGAAGATCTTACCTCCCTAAGC
130 TGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGC
* * *
39749451 AGTAGCGGAGAAGATCGAAAGAGGCGAATCCTATCTCCATGTATCGACAATAGAGCAAATTTAAG
195 AGTAGCGGAGCAGATCGAAAGAGGCGAATCCTATCTCCATGTATCGACAATGGAGCAGATTTAAG
39749516 CCCCA
260 CCCCA
** * * * **
39749521 AGATTTATATCCCTAAGCAGTAGGGGAGCAGATTGAAGATGGTTAATCTTATCTCCATGTATC-G
1 AGATTTATATCCCTAAGTTGCAGTGGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCAG
* ** * * *
39749585 ACAATGGAGCAGAATTT-A-CCACTGGCCTTATCTCTCTGAGGTAGAAAAAGAACAGGTTGAAGA
66 -CAATGGAGTAG-ATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * * * *
39749648 TTGAGTCTTATCTTTCTGAAGTAGCAAGAAAGTAGACTGAAGATTGAAGATCTTATCTCCCAAAG
129 ATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAG
* * * *
39749713 CAGTAGTGGAGCAGATCGAAAGAGGCGAATCGTATCTCCATATATCGACAATGGAGCAGATTTTA
194 CAGTAGCGGAGCAGATCGAAAGAGGCGAATCCTATCTCCATGTATCGACAATGGAGCAGATTTAA
39749778 GCC
259 GCC
39749781 ACTAGCTTTA
Statistics
Matches: 459, Mismatches: 53, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
256 107 0.23
257 4 0.01
259 3 0.01
260 2 0.00
263 161 0.35
264 53 0.12
265 128 0.28
266 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (264 bp):
AGATTTATATCCCTAAGTTGCAGTGGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCAG
CAATGGAGTAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT
GAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGCA
GTAGCGGAGCAGATCGAAAGAGGCGAATCCTATCTCCATGTATCGACAATGGAGCAGATTTAAGC
CCCA
Found at i:39751654 original size:25 final size:24
Alignment explanation
Indices: 39751593--39751654 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
39751583 TTTTATGCAA
*
39751593 ATATTTCTTTTTAAATCTATTATAT
1 ATATTT-TTTCTAAATCTATTATAT
*
39751618 ATATTTTCTTCTAAATTTACTTATAT
1 ATATTTT-TTCTAAATCTA-TTATAT
39751644 A-ATTTGTTTCT
1 ATATTT-TTTCT
39751655 TTAAGGATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 1 0.03
25 23 0.72
26 8 0.25
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (24 bp):
ATATTTTTTCTAAATCTATTATAT
Found at i:39751731 original size:17 final size:17
Alignment explanation
Indices: 39751709--39751741 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39751699 TTTCATATAT
*
39751709 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
39751726 TATTATCTATATGTAT
1 TATTATCTATATGTAT
39751742 CATTAATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:39758021 original size:27 final size:27
Alignment explanation
Indices: 39757991--39758167 Score: 169
Period size: 27 Copynumber: 6.5 Consensus size: 27
39757981 ATATTGAGCC
* *
39757991 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
39758018 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39758045 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
39758073 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
39758100 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
39758127 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
39758154 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39758168 CGCACAATTT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39758130 original size:82 final size:81
Alignment explanation
Indices: 39758012--39758171 Score: 232
Period size: 82 Copynumber: 2.0 Consensus size: 81
39758002 TGCTATATAA
* * *
39758012 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
39758077 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39758094 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
39758158 CACTTAGTGCCGCA
65 CACTTAGTGCCGCA
39758172 CAATTTAATC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
81 23 0.33
82 47 0.67
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39766288 original size:42 final size:42
Alignment explanation
Indices: 39766213--39766361 Score: 165
Period size: 42 Copynumber: 3.5 Consensus size: 42
39766203 TAAGATTATG
* * *
39766213 TGTAAGACCATATCTGGGATATGGAATCTATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATTGCATCGATATGAGACTTCA
** * *
39766255 TGTAAGACCATATCTACGATCTTGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATTGCATCGATATGAGACTTCA
* * * *
39766297 TGTCAGACCATAACTGGGCTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATATCTGGGATATT-GCATCGATATGAGACT-TCA
*
39766340 TGTGAGACCATATCTGGGATAT
1 TGTAAGACCATATCTGGGATAT
39766362 GGCTTTGGTA
Statistics
Matches: 87, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
42 53 0.61
43 34 0.39
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATTGCATCGATATGAGACTTCA
Found at i:39767138 original size:38 final size:38
Alignment explanation
Indices: 39767096--39767174 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
39767086 TCACATGGCC
39767096 TGGCCCAAATTCCCACACGTCCGTGTAGACTACCCGTG
1 TGGCCCAAATTCCCACACGTCCGTGTAGACTACCCGTG
* *
39767134 TGGCCCAAATTCCCACACGTTCGTGTGGACTACCCGTG
1 TGGCCCAAATTCCCACACGTCCGTGTAGACTACCCGTG
39767172 TGG
1 TGG
39767175 TACCACACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.19, C:0.34, G:0.24, T:0.23
Consensus pattern (38 bp):
TGGCCCAAATTCCCACACGTCCGTGTAGACTACCCGTG
Found at i:39779676 original size:26 final size:25
Alignment explanation
Indices: 39779640--39779691 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
39779630 TGAGGCGTTA
*
39779640 CCTACCTTGAATTCATGCATTCCTG
1 CCTACCTTGAACTCATGCATTCCTG
*
39779665 NCCTATCTTGAACTCATGCATTCCTG
1 -CCTACCTTGAACTCATGCATTCCTG
39779691 C
1 C
39779692 GTTTCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (25 bp):
CCTACCTTGAACTCATGCATTCCTG
Found at i:39781352 original size:47 final size:48
Alignment explanation
Indices: 39781298--39781565 Score: 198
Period size: 47 Copynumber: 5.7 Consensus size: 48
39781288 TCTTGTGTGT
39781298 CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGAGATGAGTA-C
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGAGATGAGTAGC
* * * * *
39781345 CAGTGTAAGACATGTTTGGGACAT-GCGTCGGCCTCGATGATGA-TATC
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGA-GATGAGTAGC
* * *
39781392 CAGTGTAAGACGTGTCTGGGACA-CGCATCGG-ATA-AGA-GTTGT-GC
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGAGATG-AGTAGC
* * * * *
39781436 TAGTGTAAGACATGTCTGGGACAT-GCATCAGCACGTATATACGAG-AGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCA--TAGAGATGAGTAGC
* * * * * * *
39781484 TAGTATAAGACCATGTTTGGGACATGGCATTGGCCTCGATGAT-ACTAGC
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATAGA-GATGAGTAGC
* *
39781533 TAGTGTAAGACCATGTCTGGGATATGGCATCGG
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGG
39781566 TAACTTATCC
Statistics
Matches: 175, Mismatches: 30, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 30 0.17
45 3 0.02
46 13 0.07
47 58 0.33
48 17 0.10
49 47 0.27
50 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCGGCATAGAGATGAGTAGC
Found at i:39784364 original size:50 final size:51
Alignment explanation
Indices: 39784286--39784414 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
39784276 GACCATGGCA
* *
39784286 ACAAGTGATAAGTGATAGCTTCGCCTACAGTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
39784337 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
39784387 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
39784415 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:39784428 original size:31 final size:31
Alignment explanation
Indices: 39784390--39784538 Score: 192
Period size: 31 Copynumber: 4.8 Consensus size: 31
39784380 ACAAATGACA
*
39784390 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
39784421 AGTGAAAAGTGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
39784452 AATGAAATGTGGTAG-TTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* * *
39784483 AGTGAAAAATGGTATCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
39784514 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
39784539 AAGTGACAAG
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
30 2 0.02
31 96 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:39784642 original size:47 final size:46
Alignment explanation
Indices: 39784556--39784721 Score: 153
Period size: 47 Copynumber: 3.7 Consensus size: 46
39784546 AAGTGATTTC
* ** *
39784556 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTAAGATATATGATA
* * *
39784602 CTGTATAAGACCATATCTGAGATATGGCATCAGTAAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTAAGATATATGATA
* * *
39784649 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTAAGATATATG-ATA
* * * *
39784691 TGTGTAAGACCATAGCTGGGTTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
39784722 TTATGTGAAG
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 7 0.07
42 30 0.29
46 26 0.25
47 39 0.38
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTAAGATATATGATA
Found at i:39784708 original size:42 final size:43
Alignment explanation
Indices: 39784650--39784764 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
39784640 TATGTGATTC
*
39784650 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
39784692 GTGTAAGACCATAGCTGGGTTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
39784734 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
39784765 GAAAATGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:39787046 original size:47 final size:47
Alignment explanation
Indices: 39786977--39787196 Score: 209
Period size: 46 Copynumber: 4.7 Consensus size: 47
39786967 GTATAATGCT
* *
39786977 GATGCCATGTCCCGGACATGGTCTTACACTGGCTCACATGTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGCC
** * * *
39787024 GATGCCATGTCCCAGACATGGTCTTACACTAACACATCTTGT--AGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATGTCAAGCC
* * *
39787070 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTC-AAGCC
* * * * *
39787116 GATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCGTTTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAA-GCC
* * *
39787162 GATTCCATGTCCCAGACATGGTATTACATTGGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC
39787197 TCATAATGTG
Statistics
Matches: 139, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
43 3 0.02
44 12 0.09
45 15 0.11
46 48 0.35
47 45 0.32
48 16 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGCC
Found at i:39787124 original size:46 final size:47
Alignment explanation
Indices: 39786977--39787237 Score: 191
Period size: 46 Copynumber: 5.6 Consensus size: 47
39786967 GTATAATGCT
* * * * *
39786977 GATGCCATGTCCCGGACATGGTCTTACACTGGCTCACATGTC-AAGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCC
** * *
39787024 GATGCCATGTCCCAGACATGGTCTTACACTAAC--ACATCTTGTA-GCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCG-AGGCC
39787070 GATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCC
* * * * * *
39787116 GATGCATGTCCTAGACAT-GTCTTACACTAGCTCT-CGTTTCAATGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGCC
* * * * * *
39787162 GATTCCATGTCCCAGACATGGTATTACATTGGCTCT-CATAAT-GTGGCT
1 GA-TGCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAGGCC
*
39787210 GATGCATGTCCCAGATAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGTCTTACACT
39787238 AGCACACAAT
Statistics
Matches: 173, Mismatches: 32, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
44 11 0.06
45 20 0.12
46 62 0.36
47 60 0.35
48 19 0.11
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCC
Found at i:39790054 original size:18 final size:18
Alignment explanation
Indices: 39790031--39790068 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
39790021 GTAAAGAAAA
39790031 CAAAATTTAAAGAATGCT
1 CAAAATTTAAAGAATGCT
39790049 CAAAATTTAAAGAATGCT
1 CAAAATTTAAAGAATGCT
39790067 CA
1 CA
39790069 TCTTTCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (18 bp):
CAAAATTTAAAGAATGCT
Found at i:39792114 original size:39 final size:39
Alignment explanation
Indices: 39792060--39792221 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
39792050 ATTTGATGTG
*
39792060 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATA
*
39792099 TATCCGGACTTAGGGTTCGCAGGCTAT-TGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATA
* *
39792137 TATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATA
* * * *
39792176 TATTCGGACTTAAGGTCCGCACGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATA
*
39792215 TGTCCGG
1 TATCCGG
39792222 GCTAAAGTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 35 0.32
39 74 0.68
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATA
Found at i:39792187 original size:77 final size:78
Alignment explanation
Indices: 39792060--39792221 Score: 254
Period size: 77 Copynumber: 2.1 Consensus size: 78
39792050 ATTTGATGTG
* * *
39792060 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTTCGCAGGCTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCACGCTA
*
39792125 -TTGCTGGAAATA
66 CGTGCTGGAAATA
* *
39792137 TATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAATTATATTCGGACTTAAGGTCCGCACGCTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCACGCTA
39792202 CGTGCTGGAAATA
66 CGTGCTGGAAATA
*
39792215 TGTCCGG
1 TATCCGG
39792222 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 60 0.78
78 17 0.22
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (78 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCACGCTA
CGTGCTGGAAATA
Found at i:39792248 original size:39 final size:39
Alignment explanation
Indices: 39792205--39792279 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
39792195 CACGCTACGT
*
39792205 GCTGGAAATATGTCCGGG-CTAAAGTCCCGCAGGCTTCGA
1 GCTGGAAATATAT-CGGGTCTAAAGTCCCGCAGGCTTCGA
* * * *
39792244 GCTGGTATTATATCGGGTTTAAATTCCCGCAGGCTT
1 GCTGGAAATATATCGGGTCTAAAGTCCCGCAGGCTT
39792280 GTGCTAGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 4 0.13
39 26 0.87
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (39 bp):
GCTGGAAATATATCGGGTCTAAAGTCCCGCAGGCTTCGA
Found at i:39795820 original size:42 final size:42
Alignment explanation
Indices: 39795773--39795855 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
39795763 AGACTATGTG
* * *
39795773 TAAGACCATATATGGGATATGGCATCTATATGAGACTTCGTA
1 TAAGACCATATATGGAATATGACATCGATATGAGACTTCGTA
39795815 TAAGACCATATATGGAATATGACATCGATATGAGACTTCGT
1 TAAGACCATATATGGAATATGACATCGATATGAGACTTCGT
39795856 GTAAAACCGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (42 bp):
TAAGACCATATATGGAATATGACATCGATATGAGACTTCGTA
Found at i:39801486 original size:27 final size:26
Alignment explanation
Indices: 39801442--39801493 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
39801432 TTCGCTGCAA
*
39801442 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
39801469 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
39801494 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:39805354 original size:79 final size:82
Alignment explanation
Indices: 39805243--39805426 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
39805233 GCTCCTCGTT
* * *
39805243 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
39805305 CGGAT-TTAGTAAC-TCGCA
64 CGGATATT-GTAACTTAGCA
**
39805323 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
*
39805386 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
39805403 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39805427 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
GATATTGTAACTTAGCA
Found at i:39805360 original size:39 final size:41
Alignment explanation
Indices: 39805243--39805426 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
39805233 GCTCCTCGTT
* * *
39805243 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
39805283 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
39805323 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
39805362 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
39805403 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39805427 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:39808230 original size:69 final size:69
Alignment explanation
Indices: 39808119--39808326 Score: 416
Period size: 69 Copynumber: 3.0 Consensus size: 69
39808109 GATTTATTTG
39808119 ACCAACTTAGAGGAGCTTCAGTACTTTCCAAGATTGACCTTTAATCTGGGTATCATCAGTTGAGG
1 ACCAACTTAGAGGAGCTTCAGTACTTTCCAAGATTGACCTTTAATCTGGGTATCATCAGTTGAGG
39808184 GTTA
66 GTTA
39808188 ACCAACTTAGAGGAGCTTCAGTACTTTCCAAGATTGACCTTTAATCTGGGTATCATCAGTTGAGG
1 ACCAACTTAGAGGAGCTTCAGTACTTTCCAAGATTGACCTTTAATCTGGGTATCATCAGTTGAGG
39808253 GTTA
66 GTTA
39808257 ACCAACTTAGAGGAGCTTCAGTACTTTCCAAGATTGACCTTTAATCTGGGTATCATCAGTTGAGG
1 ACCAACTTAGAGGAGCTTCAGTACTTTCCAAGATTGACCTTTAATCTGGGTATCATCAGTTGAGG
39808322 GTTA
66 GTTA
39808326 A
1 A
39808327 GGAGGTGGAT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 139 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (69 bp):
ACCAACTTAGAGGAGCTTCAGTACTTTCCAAGATTGACCTTTAATCTGGGTATCATCAGTTGAGG
GTTA
Found at i:39814491 original size:39 final size:40
Alignment explanation
Indices: 39814391--39814575 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
39814381 TCGAAGAATG
* * *
39814391 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
39814430 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
39814471 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
39814510 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
39814549 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
39814576 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:39814597 original size:79 final size:79
Alignment explanation
Indices: 39814444--39814608 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
39814434 GGACTAAGAT
* **
39814444 CCGAAGGCATTTGTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
39814509 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
39814523 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
39814586 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
39814602 CCGAAGG
1 CCGAAGG
39814609 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39820061 original size:13 final size:13
Alignment explanation
Indices: 39820029--39820063 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
39820019 CTGACTTGCA
*
39820029 CACACGACCCTGC
1 CACACGCCCCTGC
39820042 CACACGCCCCTGC
1 CACACGCCCCTGC
39820055 CACACGCCC
1 CACACGCCC
39820064 GTGTGCTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.60, G:0.14, T:0.06
Consensus pattern (13 bp):
CACACGCCCCTGC
Found at i:39829716 original size:80 final size:82
Alignment explanation
Indices: 39829597--39829782 Score: 281
Period size: 80 Copynumber: 2.3 Consensus size: 82
39829587 GCTACTCGTT
*
39829597 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
* *
39829661 GTTATAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
* *
39829677 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
* *
39829741 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
39829758 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39829783 CATCATTCGA
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
80 86 0.90
81 10 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
GATATAGTAACTTAGCA
Found at i:39829782 original size:40 final size:40
Alignment explanation
Indices: 39829578--39829782 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
39829568 CGGAATTTAA
** *
39829578 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39829618 CCGGTTATAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
39829658 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
39829698 CCGGATTTAGTAACTCGCACCAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39829738 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39829778 CCGGA
1 CCGGA
39829783 CATCATTCGA
Statistics
Matches: 141, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 7 0.05
40 121 0.86
41 13 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.