Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 96 of 349
Found at i:29603177 original size:31 final size:31
Alignment explanation
Indices: 29603142--29603211 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
29603132 TGAGGACACG
29603142 GGCGTGTGTGACCACACGGCCTACCCGCACA
1 GGCGTGTGTGACCACACGGCCTACCCGCACA
* *
29603173 GGCGTGTGTGACCACACGGCCTACCTGCACG
1 GGCGTGTGTGACCACACGGCCTACCCGCACA
29603204 GGCGTGTG
1 GGCGTGTG
29603212 ACCCTGTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (31 bp):
GGCGTGTGTGACCACACGGCCTACCCGCACA
Found at i:29604581 original size:32 final size:33
Alignment explanation
Indices: 29604538--29604615 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
29604528 CAAAATAAAT
** *
29604538 TATGAAAAGTTACA-AATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACATAATGCAAAGAGACTTGAA
*
29604570 TATGAAGAGTTA-ATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACATAATGCAAAGAGACTTGAA
*
29604602 GATGAAAAGTTACA
1 TATGAAAAGTTACA
29604616 CACATGCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.03
32 36 0.95
33 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.24
Consensus pattern (33 bp):
TATGAAAAGTTACATAATGCAAAGAGACTTGAA
Found at i:29609086 original size:32 final size:32
Alignment explanation
Indices: 29609043--29609119 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
29609033 CAAAATAAAT
** *
29609043 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
29609075 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
29609107 GATGAAAAGTTAC
1 TATGAAAAGTTAC
29609120 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:29611014 original size:20 final size:20
Alignment explanation
Indices: 29610989--29611027 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
29610979 CCGTGTATTC
*
29610989 ATTTGTTTCAATGTAAAAAT
1 ATTTGTTGCAATGTAAAAAT
29611009 ATTTGTTGCAATGTAAAAA
1 ATTTGTTGCAATGTAAAAA
29611028 CTTGAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
ATTTGTTGCAATGTAAAAAT
Found at i:29616180 original size:29 final size:29
Alignment explanation
Indices: 29616109--29616255 Score: 135
Period size: 29 Copynumber: 5.1 Consensus size: 29
29616099 ACCCCTAGAT
* *
29616109 ACATGCATATGGCCCACT-GGGCCCAA-TC
1 ACATTCATATGGCCCA-TATGGCCCAATTC
*
29616137 TCATTCATATGGCCCATATGGCCCAATTC
1 ACATTCATATGGCCCATATGGCCCAATTC
* * *
29616166 ATATTCTTATGGCCCACTA-GGCCAAATTC
1 ACATTCATATGGCCCA-TATGGCCCAATTC
*
29616195 ACATTCATATGGCCCAT-TAGGCCCAAATC
1 ACATTCATATGGCCCATAT-GGCCCAATTC
* *
29616224 ACATTTATATGGCCCGT-TAGGCCCAA-TC
1 ACATTCATATGGCCCATAT-GGCCCAATTC
29616252 ACAT
1 ACAT
29616256 ACAAATTCCT
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
27 1 0.01
28 28 0.28
29 70 0.69
30 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATATGGCCCAATTC
Found at i:29616206 original size:58 final size:57
Alignment explanation
Indices: 29616115--29616255 Score: 178
Period size: 58 Copynumber: 2.5 Consensus size: 57
29616105 AGATACATGC
* * * *
29616115 ATATGGCCCACTGGGCCCAATCTCATTCATATGGCCCA-TATGGCCCAATTCATATTCT
1 ATATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTA-GGCCCAAATCACATT-T
*
29616173 -TATGGCCCACTAGGCCAAATTCACATTCATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATTAGGCCCAAATCACATTT
**
29616230 ATATGGCCCGTTAGGCCCAATCACAT
1 ATATGGCCCACTAGGCCCAATCACAT
29616256 ACAAATTCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
57 24 0.33
58 46 0.64
59 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (57 bp):
ATATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTT
Found at i:29619212 original size:40 final size:39
Alignment explanation
Indices: 29619148--29619357 Score: 237
Period size: 40 Copynumber: 5.3 Consensus size: 39
29619138 TCTTCGGAAT
* *
29619148 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
* *
29619187 TTAGCCTGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
29619227 TTAGCCCGGATAAAATCACTAGCACAATTG-CTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * *
29619266 TTAACCCGG-TATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
29619305 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTTGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
29619345 TTAGCCCGGATAT
1 TTAGCCCGGATAT
29619358 CATTCAAATG
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
37 3 0.02
38 12 0.08
39 41 0.29
40 80 0.56
41 7 0.05
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:29619302 original size:78 final size:80
Alignment explanation
Indices: 29619148--29619357 Score: 318
Period size: 78 Copynumber: 2.7 Consensus size: 80
29619138 TCTTCGGAAT
* * * * * *
29619148 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCTGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
29619212 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
29619227 TTAGCCCGGATAAAATCACTAGCACAATTG-CTTCGGGTCTTAACCCGG-TATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
29619290 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
29619305 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTTGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
29619358 CATTCAAATG
Statistics
Matches: 118, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
78 59 0.50
79 35 0.30
80 24 0.20
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:29624656 original size:44 final size:44
Alignment explanation
Indices: 29624593--29624681 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
29624583 TTTTCAATTT
29624593 CTATCTTAAAGTCCCTTATATGGGCCTACGAGGCCCAAAACATA
1 CTATCTTAAAGTCCCTTATATGGGCCTACGAGGCCCAAAACATA
29624637 CTATCTTAAAGTCCCTTATATGGGCCTACGAGGCCCAAAACATA
1 CTATCTTAAAGTCCCTTATATGGGCCTACGAGGCCCAAAACATA
29624681 C
1 C
29624682 ATTGGAGGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (44 bp):
CTATCTTAAAGTCCCTTATATGGGCCTACGAGGCCCAAAACATA
Found at i:29633385 original size:68 final size:67
Alignment explanation
Indices: 29633313--29633462 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
29633303 CATCATGTGT
* * * *
29633313 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
29633375 ATGTAG
62 ATGTAG
** * *
29633381 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
29633446 AG
66 AG
29633448 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
29633463 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:29633418 original size:64 final size:64
Alignment explanation
Indices: 29633337--29633520 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
29633327 AGACATTATG
* *
29633337 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
29633401 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
29633466 AA
63 AA
* * * *
29633468 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
29633521 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:29637833 original size:68 final size:67
Alignment explanation
Indices: 29637761--29637910 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
29637751 CATCATGTGT
* * * *
29637761 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
29637823 ATGTAG
62 ATGTAG
** * *
29637829 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
29637894 AG
66 AG
29637896 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
29637911 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:29637866 original size:64 final size:64
Alignment explanation
Indices: 29637785--29637968 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
29637775 AGACATTATG
* *
29637785 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
29637849 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
29637914 AA
63 AA
* * * *
29637916 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
29637969 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:29640543 original size:15 final size:15
Alignment explanation
Indices: 29640523--29640557 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
29640513 ACTGTTTTTC
*
29640523 ATAAAACAGTCGTTA
1 ATAAAACAGTCATTA
*
29640538 ATAAAACATTCATTA
1 ATAAAACAGTCATTA
29640553 ATAAA
1 ATAAA
29640558 CACTGGAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAAAACAGTCATTA
Found at i:29644527 original size:47 final size:48
Alignment explanation
Indices: 29644458--29644685 Score: 397
Period size: 49 Copynumber: 4.7 Consensus size: 48
29644448 GAAAAGATAG
29644458 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
29644505 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
29644552 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
*
29644601 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
*
29644650 TAGGGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGT
29644686 CCCGAAGGGC
Statistics
Matches: 177, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
47 83 0.47
49 90 0.51
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (48 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
Found at i:29644633 original size:96 final size:95
Alignment explanation
Indices: 29644458--29644685 Score: 395
Period size: 96 Copynumber: 2.4 Consensus size: 95
29644448 GAAAAGATAG
29644458 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
29644523 GTGATGAATGTGAAAGTG-TATATATGTGA
66 GTGATGAATGTGAAAGTGATATATATGTGA
*
29644552 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29644617 ATGTGATGAATGTGAAAGTGTATATATATGTGA
64 ATGTGATGAATGTGAAAGTG-ATATATATGTGA
*
29644650 TAGGGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGT
29644686 CCCGAAGGGC
Statistics
Matches: 127, Mismatches: 2, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
94 36 0.28
96 46 0.36
98 41 0.32
99 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (95 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGATATATATGTGA
Found at i:29644859 original size:37 final size:37
Alignment explanation
Indices: 29644803--29644881 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29644793 CCGAGCTCTA
* *
29644803 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
29644840 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29644877 AAGAC
1 AAGAC
29644882 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29660559 original size:46 final size:45
Alignment explanation
Indices: 29660509--29660774 Score: 146
Period size: 46 Copynumber: 5.8 Consensus size: 45
29660499 TTGGGCATCC
*
29660509 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCT
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACGTCT
* * * * * * * *
29660555 GAACTCGTTGAGTTGAGTCCAAGTTC-GTGAGTTG-TAACTAGGCATCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTA-TGGAT-AC-A-ACGTCT
* * * *
29660602 GAGCTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACGTCT
* * ** * * * *
29660648 GAACTCGTTGAGTTGAGTCTGAGTT-TGTGAGATGTA-ACTAGGCATCT
1 GAACTCATTGAGTTGAGTCCGAGTTCACT--TATGGATAC-A-ACGTCT
* * * *
29660695 GAGCTCATTGAGTTGACTTCGAGTTCACTTATGGATGCAAACG-CT
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATAC-AACGTCT
* *
29660740 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
29660775 GCGGGTTACA
Statistics
Matches: 159, Mismatches: 50, Indels: 22
0.69 0.22 0.10
Matches are distributed among these distances:
45 6 0.04
46 92 0.58
47 57 0.36
48 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAACGTCT
Found at i:29660661 original size:93 final size:93
Alignment explanation
Indices: 29660502--29660766 Score: 388
Period size: 93 Copynumber: 2.8 Consensus size: 93
29660492 CGGATATTTG
* * * *
29660502 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
29660567 TTGAGTCCAAGTTCGTGAGTTGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
29660595 GGCATCCGAGCTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
29660660 TTGAGTCTGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * *
29660688 GGCATCTGAGCTCATTGAGTTGACTTCGAGTTCACTTATGGATGCAAACG-CTCGAGCTCGTTGA
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
29660752 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
29660767 ACTTATGGGC
Statistics
Matches: 154, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
92 1 0.01
93 153 0.99
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:29669105 original size:45 final size:45
Alignment explanation
Indices: 29668912--29669097 Score: 141
Period size: 46 Copynumber: 4.1 Consensus size: 45
29668902 TGTAACCCGC
* * ** * * *
29668912 CCATAAGTGAGCTCGGACTCAACTCAACGAGCTTGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGAATGCGCAA
*
29668958 CCATAAGTGAACTCGGACTCAGCTCAACGAGTTCGG-ATGC-CTAGTTA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGC-A---A
* * * *
29669005 -CATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAA
*
29669051 CCATAAGTGAACTCGGA-TCAACTCAACGAGTTCGG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
29669094 CCAT
1 CCAT
29669098 CCTAGTGACA
Statistics
Matches: 112, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
43 9 0.08
44 3 0.03
45 24 0.21
46 40 0.36
47 29 0.26
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
Found at i:29669543 original size:30 final size:30
Alignment explanation
Indices: 29669509--29669568 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
29669499 ATTTAATACG
29669509 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
29669539 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
29669569 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:29671543 original size:42 final size:41
Alignment explanation
Indices: 29671484--29671635 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 41
29671474 TTTTATCAAA
*
29671484 TCACCGGCA-TTCAGCCTGCTAGGTTTAAAAACCCAAATTCAT
1 TCACCGGCATTTC-GCCTGCTAGG-TTAAAAGCCCAAATTCAT
* **
29671526 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCC-AATATCATT
1 TCACCGGCATTTCGCCTGCTAGGTTAAAAGCCCAAAT-TCA-T
* * ** *
29671568 TCACCAGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGT-AT
1 TCACCGGCATT-TCGCCTGCTAGG-TTAAAAGCCC-AA-ATTCAT
29671612 CTCACCGGCATTTCGCCTGCTAGG
1 -TCACCGGCATTTCGCCTGCTAGG
29671636 CTCGAAGCCC
Statistics
Matches: 88, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
40 3 0.03
41 9 0.10
42 30 0.34
43 14 0.16
44 18 0.20
45 11 0.12
46 2 0.02
47 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (41 bp):
TCACCGGCATTTCGCCTGCTAGGTTAAAAGCCCAAATTCAT
Found at i:29671592 original size:43 final size:44
Alignment explanation
Indices: 29671526--29671743 Score: 302
Period size: 45 Copynumber: 5.0 Consensus size: 44
29671516 CCAAATTCAT
* *
29671526 TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCC-AATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAATAGT-ATC
*
29671568 TCACCAGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCG-AAGCCCGAATAGTATC
*
29671613 TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAATAGTATC
*
29671656 T-ACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGAATAGTATC
* *
29671700 TCACCGGCATTATAGCCTGCTATGCTCAGAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTC-GAAGCCCGAATAGTAT
29671744 TGTGCGATAT
Statistics
Matches: 158, Mismatches: 10, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
42 19 0.12
43 48 0.30
44 36 0.23
45 53 0.34
46 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAATAGTATC
Found at i:29671627 original size:87 final size:87
Alignment explanation
Indices: 29671526--29671743 Score: 325
Period size: 87 Copynumber: 2.5 Consensus size: 87
29671516 CCAAATTCAT
*
29671526 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCC-AATA-TCATTTCACCAGCATTATAGCCTGCT
1 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGT-ATCT-ACCAGCATTATAGCCTGCT
29671589 AGGCTCGAAA-GCCCGAATAGTATC
64 AGGCTC-AAAGGCCCGAATAGTATC
*
29671613 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTACCGGCATTATAGCCTGCTAG
1 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTACCAGCATTATAGCCTGCTAG
29671678 GCTCAAAGGCCCGAATAGTATC
66 GCTCAAAGGCCCGAATAGTATC
* * *
29671700 TCACCGGCATTATAGCCTGCTATGCTCAGAGGCCCGAATAGTAT
1 TCACCGGCATT-TCGCCTGCTAGGCTC-GAAGCCCGAATAGTAT
29671744 TGTGCGATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
86 3 0.02
87 82 0.68
88 20 0.17
89 16 0.13
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (87 bp):
TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTACCAGCATTATAGCCTGCTAG
GCTCAAAGGCCCGAATAGTATC
Found at i:29681069 original size:18 final size:18
Alignment explanation
Indices: 29681025--29681069 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
29681015 AAATAGTATC
* *
29681025 GTAACAATAATCAGTGCA
1 GTAACAGTAATCAATGCA
* *
29681043 GTAATAGTAATCAATGTA
1 GTAACAGTAATCAATGCA
29681061 GTAACAGTA
1 GTAACAGTA
29681070 TACAAGTCCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (18 bp):
GTAACAGTAATCAATGCA
Found at i:29681440 original size:27 final size:27
Alignment explanation
Indices: 29681410--29681604 Score: 264
Period size: 27 Copynumber: 7.2 Consensus size: 27
29681400 GGCATATTAT
* *
29681410 TCATCTTACCATATAAGGGCAAAACAA
1 TCATTTTACCATATAAGGGCAAAACAG
*
29681437 TCATTTTACCATATAAGGGCAAAATAG
1 TCATTTTACCATATAAGGGCAAAACAG
* *
29681464 TCATTTTACCACATAAGGGCAAAATAG
1 TCATTTTACCATATAAGGGCAAAACAG
* *
29681491 TCATTTTACCACATAAAGGCAAAACAG
1 TCATTTTACCATATAAGGGCAAAACAG
*
29681518 TCATTTTACCACATAAGGGCAAAACAG
1 TCATTTTACCATATAAGGGCAAAACAG
* *
29681545 TCATTTTACCTTATAAGGGCAAAATAG
1 TCATTTTACCATATAAGGGCAAAACAG
* * *
29681572 TCATTTTACCCTATAAGGGGAAAATAG
1 TCATTTTACCATATAAGGGCAAAACAG
*
29681599 TGATTT
1 TCATTT
29681605 CATCGAATTG
Statistics
Matches: 155, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGCAAAACAG
Found at i:29684612 original size:18 final size:18
Alignment explanation
Indices: 29684588--29684634 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
29684578 GGCCCATTGT
29684588 AGTAACAATAAACAGTGC
1 AGTAACAATAAACAGTGC
* * **
29684606 CGTAACAGTAATTAGTGC
1 AGTAACAATAAACAGTGC
29684624 AGTAACAATAA
1 AGTAACAATAA
29684635 CCAATGTAGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (18 bp):
AGTAACAATAAACAGTGC
Found at i:29685003 original size:27 final size:26
Alignment explanation
Indices: 29684969--29685284 Score: 339
Period size: 27 Copynumber: 11.8 Consensus size: 26
29684959 CATACATCAC
* * *
29684969 ATAAGGGCATATCAGTCATCTTACCAT
1 ATAAGGGCAAAACAGTCATTTTACC-T
29684996 ATAAGGGCAAAACAGTCATTTTACCT
1 ATAAGGGCAAAACAGTCATTTTACCT
* *
29685022 CATAAGGGCAAAAATAGTCATTTTACCAC
1 -ATAAGGGC-AAAACAGTCATTTTACC-T
* *
29685051 ATAAGGGCAAAATAATCATTTTACCT
1 ATAAGGGCAAAACAGTCATTTTACCT
* *
29685077 ATAAGGGCAAAACAATCATTTTACCCC
1 ATAAGGGCAAAACAGTCATTTTA-CCT
*
29685104 ATAAGGGC-AAACAGTCATTTTACCCC
1 ATAAGGGCAAAACAGTCATTTTA-CCT
* *
29685130 ATAAGGGAAAAACAATCATTTTACCTT
1 ATAAGGGCAAAACAGTCATTTTACC-T
* *
29685157 ATAAGGGCAAAACAGTCATTTCAACCC
1 ATAAGGGCAAAACAGTCATTT-TACCT
*
29685184 ATAAGGGCAAAACAGTCATTTTACCC
1 ATAAGGGCAAAACAGTCATTTTACCT
* * *
29685210 ATAAGGACAAAACAATCATTTCACCTT
1 ATAAGGGCAAAACAGTCATTTTACC-T
*
29685237 ATAAGGG-AAACACAGTCATTTTACCCC
1 ATAAGGGCAAA-ACAGTCATTTTA-CCT
*
29685264 ATAAGGGCAAAATAGTCATTT
1 ATAAGGGCAAAACAGTCATTT
29685285 CATTAAATTA
Statistics
Matches: 251, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
26 78 0.31
27 141 0.56
28 32 0.13
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (26 bp):
ATAAGGGCAAAACAGTCATTTTACCT
Found at i:29685192 original size:80 final size:81
Alignment explanation
Indices: 29684984--29685284 Score: 416
Period size: 80 Copynumber: 3.7 Consensus size: 81
29684974 GGCATATCAG
* * *
29684984 TCATCTTACCATATAAGGGCAAAACAGTCATTTT-ACCTCATAAGGGCAAAAATAGTCATTTTAC
1 TCATTTTACCTTATAAGGGCAAAACAGTCATTTTAACC-CATAAGGGC-AAAACAGTCATTTTAC
* * *
29685048 CACATAAGGGCAAAATAA
64 CCCATAAGGGAAAAACAA
* *
29685066 TCATTTTACC-TATAAGGGCAAAACAATCATTTTACCCCATAAGGGC-AAACAGTCATTTTACCC
1 TCATTTTACCTTATAAGGGCAAAACAGTCATTTTAACCCATAAGGGCAAAACAGTCATTTTACCC
29685129 CATAAGGGAAAAACAA
66 CATAAGGGAAAAACAA
*
29685145 TCATTTTACCTTATAAGGGCAAAACAGTCATTTCAACCCATAAGGGCAAAACAGTCATTTTA-CC
1 TCATTTTACCTTATAAGGGCAAAACAGTCATTTTAACCCATAAGGGCAAAACAGTCATTTTACCC
29685209 CATAA-GGACAAAACAA
66 CATAAGGGA-AAAACAA
* * *
29685225 TCATTTCACCTTATAAGGG-AAACACAGTCATTTTACCCCATAAGGGCAAAATAGTCATTT
1 TCATTTTACCTTATAAGGGCAAA-ACAGTCATTTTAACCCATAAGGGCAAAACAGTCATTT
29685285 CATTAAATTA
Statistics
Matches: 200, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
79 45 0.22
80 99 0.50
81 45 0.22
82 11 0.05
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.26
Consensus pattern (81 bp):
TCATTTTACCTTATAAGGGCAAAACAGTCATTTTAACCCATAAGGGCAAAACAGTCATTTTACCC
CATAAGGGAAAAACAA
Found at i:29685192 original size:107 final size:108
Alignment explanation
Indices: 29684968--29685286 Score: 419
Period size: 107 Copynumber: 3.0 Consensus size: 108
29684958 ACATACATCA
* * * **
29684968 CATAAGGGCATATCAGTCATCTTACCATATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAA
1 CATAAGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCATAAGGG-AA
* * *
29685033 AAATAGTCATTTTACCACATAAGGGCAAAATAATCATTT-TACC
65 AAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTCAACC
* * *
29685076 TATAAGGGCAAAACAATCATTTTACCCCATAAGGGC-AAACAGTCATTTTACCCCATAAGGGAAA
1 CATAAGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGAAA
* ** *
29685140 AACAATCATTTTACCTTATAAGGGCAAAACAGTCATTTCAACC
66 AACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTCAACC
* * * *
29685183 CATAAGGGCAAAACAGTCATTTTA-CCCATAAGGACAAAACAATCATTTCACCTTATAAGGGAAA
1 CATAAGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGAAA
* *
29685247 CACAGTCATTTTACCCCATAAGGGCAAAATAGTCATTTCA
66 AACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTCA
29685287 TTAAATTAGG
Statistics
Matches: 182, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
106 45 0.25
107 108 0.59
108 29 0.16
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (108 bp):
CATAAGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGAAA
AACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTCAACC
Found at i:29686159 original size:13 final size:13
Alignment explanation
Indices: 29686141--29686165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29686131 CCAAAAATCG
29686141 AAAGAGGAGAAGC
1 AAAGAGGAGAAGC
29686154 AAAGAGGAGAAG
1 AAAGAGGAGAAG
29686166 AAGTATACAA
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:0.04, G:0.40, T:0.00
Consensus pattern (13 bp):
AAAGAGGAGAAGC
Found at i:29688151 original size:16 final size:16
Alignment explanation
Indices: 29688126--29688157 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29688116 CAACAGTCAT
*
29688126 ATAAATAGATAAACAG
1 ATAAAAAGATAAACAG
29688142 ATAAAAAGATAAACAG
1 ATAAAAAGATAAACAG
29688158 CCATATAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.12, T:0.16
Consensus pattern (16 bp):
ATAAAAAGATAAACAG
Found at i:29688401 original size:18 final size:18
Alignment explanation
Indices: 29688380--29688429 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
29688370 AAACAGTTCT
* *
29688380 GTAACAGTAATCATTGTA
1 GTAACAGTAAACAATGTA
*
29688398 GTAATAGTAAACAATGTA
1 GTAACAGTAAACAATGTA
*
29688416 GTAACAGTATACAA
1 GTAACAGTAAACAA
29688430 GTCTACCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (18 bp):
GTAACAGTAAACAATGTA
Found at i:29688792 original size:27 final size:27
Alignment explanation
Indices: 29688754--29689030 Score: 284
Period size: 27 Copynumber: 10.3 Consensus size: 27
29688744 ATCACATACA
* * **
29688754 GGCAAATCAGTCATCTTACCTTATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* *
29688781 GGCAAAACAGTCATTTTACCTCATTAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* * **
29688808 GGGAAAACAATCATTTTACCATATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* *
29688835 GGCAAAACATTCATTTTACCCCATAAT
1 GGCAAAACAGTCATTTTACCCCATAAG
* *
29688862 GGCAAAACAATCATTTTACCCCATAAT
1 GGCAAAACAGTCATTTTACCCCATAAG
** *
29688889 GAAAAAATAGTCATTTTACCCCATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* *
29688916 AGCAAAACAGTCATTTTACCACATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* * **
29688943 GGCAAAATAGTCATTTTAACTTATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
*
29688970 GGCAAAACAGTCATTTCACCCCATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* * * * *
29688997 GGAAAAAGAATCATTTAACCCCGTAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
*
29689024 GGAAAAA
1 GGCAAAA
29689031 TAATTACTTC
Statistics
Matches: 210, Mismatches: 40, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 210 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (27 bp):
GGCAAAACAGTCATTTTACCCCATAAG
Found at i:29692547 original size:26 final size:26
Alignment explanation
Indices: 29692518--29692684 Score: 101
Period size: 27 Copynumber: 6.3 Consensus size: 26
29692508 GGGCATATCG
* **
29692518 GTCATCTTACCATATAAGGTTAAAAA
1 GTCATTTTACCATATAAGGCAAAAAA
29692544 GTCATTTTACC-TCATAAGGGCAAAAAA
1 GTCATTTTACCAT-ATAA-GGCAAAAAA
*
29692571 ATCATTTTACCATATAAGGGCAAAACAA
1 GTCATTTTACCATATAA-GGCAAAA-AA
* *
29692599 -TCATTTTACC-TCACCT-GGGC-AAACA
1 GTCATTTTACCAT-A--TAAGGCAAAAAA
** *
29692624 GTCATTTTACCCCATAAGGACAAAACA
1 GTCATTTTACCATATAAGG-CAAAAAA
** * *
29692651 GTCATTTTACCCCATAAGGGTAAAATA
1 GTCATTTTACCATATAA-GGCAAAAAA
29692678 GTCATTT
1 GTCATTT
29692685 CATCAAATTA
Statistics
Matches: 118, Mismatches: 10, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
24 1 0.01
25 4 0.03
26 30 0.25
27 77 0.65
28 5 0.04
29 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (26 bp):
GTCATTTTACCATATAAGGCAAAAAA
Found at i:29692577 original size:27 final size:27
Alignment explanation
Indices: 29692539--29692684 Score: 163
Period size: 27 Copynumber: 5.5 Consensus size: 27
29692529 ATATAAGGTT
29692539 AAAA-AGTCATTTTACCTCATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
* *
29692565 AAAAAAATCATTTTACCAT-ATAAGGGC
1 AAAACAGTCATTTTACC-TCATAAGGGC
* ***
29692592 AAAACAATCATTTTACCTCACCTGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
* *
29692619 -AAACAGTCATTTTACCCCATAAGGAC
1 AAAACAGTCATTTTACCTCATAAGGGC
* *
29692645 AAAACAGTCATTTTACCCCATAAGGGT
1 AAAACAGTCATTTTACCTCATAAGGGC
*
29692672 AAAATAGTCATTT
1 AAAACAGTCATTT
29692685 CATCAAATTA
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
26 25 0.25
27 76 0.75
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (27 bp):
AAAACAGTCATTTTACCTCATAAGGGC
Found at i:29692588 original size:53 final size:54
Alignment explanation
Indices: 29692518--29692684 Score: 185
Period size: 53 Copynumber: 3.1 Consensus size: 54
29692508 GGGCATATCG
* **
29692518 GTCATCTTACCATATAAGGTTAAAA-AGTCATTTTACCTCATAAGGGCAAAAAA
1 GTCATTTTACCATATAAGGACAAAACAGTCATTTTACCTCATAAGGGCAAAAAA
* * * *** *
29692571 ATCATTTTACCATATAAGGGCAAAACAATCATTTTACCTCACCTGGGC-AAACA
1 GTCATTTTACCATATAAGGACAAAACAGTCATTTTACCTCATAAGGGCAAAAAA
** * * *
29692624 GTCATTTTACCCCATAAGGACAAAACAGTCATTTTACCCCATAAGGGTAAAATA
1 GTCATTTTACCATATAAGGACAAAACAGTCATTTTACCTCATAAGGGCAAAAAA
29692678 GTCATTT
1 GTCATTT
29692685 CATCAAATTA
Statistics
Matches: 92, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
53 63 0.68
54 29 0.32
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (54 bp):
GTCATTTTACCATATAAGGACAAAACAGTCATTTTACCTCATAAGGGCAAAAAA
Found at i:29692832 original size:17 final size:18
Alignment explanation
Indices: 29692800--29692834 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
29692790 CCCATAGTAC
29692800 GGCCCATGTAGGCCTACA
1 GGCCCATGTAGGCCTACA
*
29692818 GGCCCGTGT-GGCCTACA
1 GGCCCATGTAGGCCTACA
29692835 AAGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.17
Consensus pattern (18 bp):
GGCCCATGTAGGCCTACA
Found at i:29700562 original size:59 final size:59
Alignment explanation
Indices: 29700470--29700594 Score: 214
Period size: 59 Copynumber: 2.1 Consensus size: 59
29700460 CTTAGGTTAG
*
29700470 TTATCATACATTCCGTGTTAAATCAAGATTAGGAAAACCTTATACCCATTACATAACTA
1 TTATCATACATTCCGTGTTAAATCAAGATTAGGAAAACCTCATACCCATTACATAACTA
* *
29700529 TTATCATACATTCCGTGTTAAATCAATATTAGGAAAACCTCATACCCATTACATTACTA
1 TTATCATACATTCCGTGTTAAATCAAGATTAGGAAAACCTCATACCCATTACATAACTA
*
29700588 TTCTCAT
1 TTATCAT
29700595 TCTCATGGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (59 bp):
TTATCATACATTCCGTGTTAAATCAAGATTAGGAAAACCTCATACCCATTACATAACTA
Found at i:29702569 original size:27 final size:27
Alignment explanation
Indices: 29702539--29702716 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29702529 ATATTGAGTC
* * * *
29702539 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29702566 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29702593 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29702621 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29702648 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29702675 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29702702 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29702717 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29702678 original size:82 final size:81
Alignment explanation
Indices: 29702560--29702715 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29702550 TGCTATATAA
* *
29702560 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29702625 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29702642 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29702706 CACTTAGTGC
65 CACTTAGTGC
29702716 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29710102 original size:27 final size:27
Alignment explanation
Indices: 29710072--29710249 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29710062 ATATTGAGTC
* * * *
29710072 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29710099 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29710126 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29710154 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29710181 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29710208 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29710235 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29710250 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29710211 original size:82 final size:81
Alignment explanation
Indices: 29710093--29710248 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29710083 TGCTATATAA
* *
29710093 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29710158 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29710175 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29710239 CACTTAGTGC
65 CACTTAGTGC
29710249 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29714856 original size:15 final size:15
Alignment explanation
Indices: 29714838--29714867 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29714828 ATAGAATAGG
29714838 GAGTAAGGAATTACT
1 GAGTAAGGAATTACT
29714853 GAGTAAGGAATTACT
1 GAGTAAGGAATTACT
29714868 CCAAGGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
GAGTAAGGAATTACT
Found at i:29716026 original size:18 final size:18
Alignment explanation
Indices: 29716003--29716051 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
29715993 CAATAAATAG
29716003 TGCAGTAATAGTAATCAA
1 TGCAGTAATAGTAATCAA
*
29716021 TGCAGTAATAGTGATCAA
1 TGCAGTAATAGTAATCAA
*
29716039 TGAAGTAATAGTA
1 TGCAGTAATAGTA
29716052 TACAAGTCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (18 bp):
TGCAGTAATAGTAATCAA
Found at i:29716465 original size:54 final size:54
Alignment explanation
Indices: 29716388--29716678 Score: 379
Period size: 54 Copynumber: 5.4 Consensus size: 54
29716378 AGGGGCATAT
* * *
29716388 CAATCATCTTACCATATAGGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
* * * *
29716442 TAATCATTTTACCACAAAAGGGCAAGACAGTCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
* * * *
29716496 TAGTCATTTTACCCCATAAGGGAAAAACAATCATTTT-CCTCCATAAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCT-CAT-AAGGGCAAAA
* *
29716551 CAATCATTTTACTACATAAGAGCAAAACAATCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
* * * *
29716605 CAGTCATTTTACC-CTATAAAGGCAAAATAGTCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCAC-ATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
*
29716659 CAATCATTTTACCCCATAAG
1 CAATCATTTTACCACATAAG
29716679 CGAAAAATAG
Statistics
Matches: 205, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.02
54 153 0.75
55 45 0.22
56 3 0.01
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (54 bp):
CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
Found at i:29716651 original size:136 final size:136
Alignment explanation
Indices: 29716407--29716677 Score: 422
Period size: 136 Copynumber: 2.0 Consensus size: 136
29716397 TACCATATAG
* * *
29716407 GGGCAAAACAATCATTTTACCTCATAAGGGCAAAATAATCATTTTACCACAAAAGGGCAAGACAG
1 GGGCAAAACAATCATTTTACCTCATAAGAGCAAAACAATCATTTTACCACAAAAGGGCAAAACAG
*
29716472 TCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCCCATAAGGGAAAAACAATCATTTT-CCT
66 TCATTTTACCTCATAAAGGCAAAATAGTCATTTTACCCCATAAGGGAAAAACAATCATTTTACC-
29716536 CCATAAA
130 CCATAAA
* *
29716543 GGGCAAAACAATCATTTTA-CTACATAAGAGCAAAACAATCATTTTACCTCATAAGGGCAAAACA
1 GGGCAAAACAATCATTTTACCT-CATAAGAGCAAAACAATCATTTTACCACAAAAGGGCAAAACA
* *
29716607 GTCATTTTACC-CTATAAAGGCAAAATAGTCATTTTACCTCATAAGGGCAAAACAATCATTTTAC
65 GTCATTTTACCTC-ATAAAGGCAAAATAGTCATTTTACCCCATAAGGGAAAAACAATCATTTTAC
29716671 CCCATAA
129 CCCATAA
29716678 GCGAAAAATA
Statistics
Matches: 124, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
135 3 0.02
136 119 0.96
137 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (136 bp):
GGGCAAAACAATCATTTTACCTCATAAGAGCAAAACAATCATTTTACCACAAAAGGGCAAAACAG
TCATTTTACCTCATAAAGGCAAAATAGTCATTTTACCCCATAAGGGAAAAACAATCATTTTACCC
CATAAA
Found at i:29716694 original size:27 final size:27
Alignment explanation
Indices: 29716388--29716678 Score: 341
Period size: 27 Copynumber: 10.7 Consensus size: 27
29716378 AGGGGCATAT
* ** *
29716388 CAATCATCTTACCATATAGGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
*
29716415 CAATCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * * *
29716442 TAATCATTTTACCACAAAAGGGCAAGA
1 CAATCATTTTACCCCATAAGGGCAAAA
* *
29716469 CAGTCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * *
29716496 TAGTCATTTTACCCCATAAGGGAAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
29716523 CAATCATTTT-CCTCCATAAAGGGCAAAA
1 CAATCATTTTACC-CCAT-AAGGGCAAAA
** *
29716551 CAATCATTTTACTACATAAGAGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
*
29716578 CAATCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * *
29716605 CAGTCATTTTACCCTATAAAGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * *
29716632 TAGTCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
29716659 CAATCATTTTACCCCATAAG
1 CAATCATTTTACCCCATAAG
29716679 CGAAAAATAG
Statistics
Matches: 225, Mismatches: 36, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
26 2 0.01
27 200 0.89
28 22 0.10
29 1 0.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (27 bp):
CAATCATTTTACCCCATAAGGGCAAAA
Found at i:29727688 original size:21 final size:21
Alignment explanation
Indices: 29727663--29727705 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
29727653 TGCCTTCCCA
29727663 AAAACCAACCGATAAGGAGTC
1 AAAACCAACCGATAAGGAGTC
29727684 AAAACCAACCGATAAGGAGTC
1 AAAACCAACCGATAAGGAGTC
29727705 A
1 A
29727706 TTCCTTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.23, G:0.19, T:0.09
Consensus pattern (21 bp):
AAAACCAACCGATAAGGAGTC
Found at i:29733192 original size:22 final size:23
Alignment explanation
Indices: 29733162--29733216 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
29733152 ATAAGAGAAT
29733162 TGAGAGAGGAGA-GAATGAAAAA-
1 TGAGAGAGG-GATGAATGAAAAAG
* *
29733184 TGAGTGAGGGATGATTGAAAAAG
1 TGAGAGAGGGATGAATGAAAAAG
*
29733207 TGAGAAAGGG
1 TGAGAGAGGG
29733217 GCTTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.07
22 17 0.63
23 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.15
Consensus pattern (23 bp):
TGAGAGAGGGATGAATGAAAAAG
Found at i:29735243 original size:13 final size:13
Alignment explanation
Indices: 29735225--29735251 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29735215 GCTTGGCAGG
29735225 GACACGCCCGTGT
1 GACACGCCCGTGT
29735238 GACACGCCCGTGT
1 GACACGCCCGTGT
29735251 G
1 G
29735252 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:29744650 original size:46 final size:47
Alignment explanation
Indices: 29744585--29744674 Score: 114
Period size: 46 Copynumber: 1.9 Consensus size: 47
29744575 TAAGCTGATG
* *
29744585 ACAGTAAGCTCTATTGAGCTGA-AACGGTAAGC-TCTAACAAGCTAGA
1 ACAGTAAGCTCTATCGAGCTGAGAACAGTAA-CTTCTAACAAGCTAGA
*
29744631 ACAGTAAGCTC-ATACGAGCTGAGAACAGTAACTTCTTACAAGCT
1 ACAGTAAGCTCTAT-CGAGCTGAGAACAGTAACTTCTAACAAGCT
29744675 GATATATCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
45 2 0.05
46 19 0.50
47 17 0.45
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (47 bp):
ACAGTAAGCTCTATCGAGCTGAGAACAGTAACTTCTAACAAGCTAGA
Found at i:29744696 original size:26 final size:24
Alignment explanation
Indices: 29744558--29744698 Score: 96
Period size: 23 Copynumber: 5.8 Consensus size: 24
29744548 TTCGAGCTAT
* *
29744558 GAACAGTAAGCTCCTCCTAAGCTGA
1 GAACAGTAAGCTCATAC-AAGCTGA
**
29744583 TG-ACAGTAAGCTC-TATTGAGCTGA
1 -GAACAGTAAGCTCATA-CAAGCTGA
*
29744607 -AACGGTAAGCTC-TAACAAGCT-A
1 GAACAGTAAGCTCAT-ACAAGCTGA
*
29744629 GAACAGTAAGCTCATACGAGCTGA
1 GAACAGTAAGCTCATACAAGCTGA
*
29744653 GAACAGTAA-CTTCTTACAAGCTGA
1 GAACAGTAAGC-TCATACAAGCTGA
* *
29744677 TATATCGGTAAGCTCATACAAG
1 GA-A-CAGTAAGCTCATACAAG
29744699 ATGCGGTGAG
Statistics
Matches: 92, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
22 1 0.01
23 33 0.36
24 31 0.34
25 12 0.13
26 14 0.15
27 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (24 bp):
GAACAGTAAGCTCATACAAGCTGA
Found at i:29752923 original size:43 final size:43
Alignment explanation
Indices: 29752875--29753036 Score: 155
Period size: 43 Copynumber: 3.8 Consensus size: 43
29752865 ACACAATGCC
* * **
29752875 ATATCCCAGATATGGTCTTACACGTTATCACATATTGATACCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATAACGATACCA
* * * ** * *
29752918 CTATCCCAAACAGGGTCTTACACAAAATCATATAACGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATAACGATACCA
* * *
29752961 ATGTCCCAGACATGGTCTTACACGTAATCACA-ATACAATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATA-ACGATACCA
* * *
29753004 ATGTCCCAGACATGGCCTTACATGTAATCACAT
1 ATATCCCAGACATGGTCTTACACGTAATCACAT
29753037 CTCGATAACC
Statistics
Matches: 96, Mismatches: 21, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.01
43 95 0.99
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.26
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACACGTAATCACATAACGATACCA
Found at i:29754773 original size:31 final size:31
Alignment explanation
Indices: 29754738--29754811 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
29754728 TATAATGGGT
29754738 CGAAGCCTTTACATTATTCATATCACTAGGC
1 CGAAGCCTTTACATTATTCATATCACTAGGC
* *
29754769 CGAAGCCTTTTCATTATTCATATCACTGGGC
1 CGAAGCCTTTACATTATTCATATCACTAGGC
29754800 CGAAGCCTTTAC
1 CGAAGCCTTTAC
29754812 TGTAACAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (31 bp):
CGAAGCCTTTACATTATTCATATCACTAGGC
Found at i:29755044 original size:25 final size:25
Alignment explanation
Indices: 29755016--29755100 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 25
29755006 CTGGAGGCCT
29755016 AGCCTCTTTTAAT-AACT-AGGGCAAA
1 AGCC-CTTTTAATAAACTGA-GGCAAA
*
29755041 AGCCCTTTTTGATAAACTGAGGCAAA
1 AGCCC-TTTTAATAAACTGAGGCAAA
** *
29755067 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-AATAAACTGAGGCAAA
29755092 AGCCCTTTT
1 AGCCCTTTT
29755101 CGGTAACTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
24 1 0.02
25 25 0.47
26 26 0.49
27 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGAGGCAAA
Found at i:29755113 original size:24 final size:26
Alignment explanation
Indices: 29755029--29755124 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
29755019 CTCTTTTAAT
* * *
29755029 AACTAGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
29755055 AACTGAGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
29755081 AACTGGGGC-AAAGCCCTTTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
29755105 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
29755125 ACACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 19 0.30
25 15 0.23
26 30 0.47
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:29762214 original size:47 final size:48
Alignment explanation
Indices: 29762140--29762244 Score: 149
Period size: 47 Copynumber: 2.2 Consensus size: 48
29762130 GCTAAGAACT
* *
29762140 GATTGAGAGAGGGAAAAAGAACAAGAAGCAATCAGT-TAAGGGAAACA
1 GATTGAGAAAGGGAAAAAGAACAAGAAGCAATCAGTCAAAGGGAAACA
* * * *
29762187 GATTGAGAAAGGGAAAAAGAACTAGAAGTAATCTGTCAAAGGGAAACC
1 GATTGAGAAAGGGAAAAAGAACAAGAAGCAATCAGTCAAAGGGAAACA
29762235 GATTGAGAAA
1 GATTGAGAAA
29762245 AAGAGAAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 32 0.63
48 19 0.37
ACGTcount: A:0.50, C:0.09, G:0.29, T:0.13
Consensus pattern (48 bp):
GATTGAGAAAGGGAAAAAGAACAAGAAGCAATCAGTCAAAGGGAAACA
Found at i:29763737 original size:40 final size:38
Alignment explanation
Indices: 29763681--29763812 Score: 158
Period size: 38 Copynumber: 3.4 Consensus size: 38
29763671 GAATCCAGTC
* * * *
29763681 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
29763721 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
29763759 AACAGCACGAAGCCTGTGGGATTTAACCCGGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
*
29763797 TCCAGCA-TATAGCCTG
1 ACCAGCACTA-AGCCTG
29763813 TGGATCTTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 56 0.69
39 5 0.06
40 19 0.23
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:29763813 original size:38 final size:38
Alignment explanation
Indices: 29763681--29763832 Score: 155
Period size: 38 Copynumber: 3.9 Consensus size: 38
29763671 GAATCCAGTC
* * * * *
29763681 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACTAAGCCTGTGGGA-TTTAA-CCCGGATATAAT
*
29763721 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACTAAGCCTGTGGGATTTAACCCGGATATAAT
* *
29763759 AACAGCACGAAGCCTGTGGGATTTAACCCGGATATAAT
1 ACCAGCACTAAGCCTGTGGGATTTAACCCGGATATAAT
*
29763797 TCCAGCA-TATAGCCTGT-GGATCTTTAAGCCCGGATA
1 ACCAGCACTA-AGCCTGTGGGA--TTTAA-CCCGGATA
29763833 CACATCAAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
37 4 0.04
38 57 0.58
39 10 0.10
40 27 0.28
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGTGGGATTTAACCCGGATATAAT
Found at i:29766086 original size:79 final size:81
Alignment explanation
Indices: 29765950--29766134 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
29765940 TTGAATGATG
* *
29765950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
29766014 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29766029 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29766091 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
29766109 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29766135 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:29766148 original size:40 final size:40
Alignment explanation
Indices: 29765951--29766134 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
29765941 TGAATGATGT
* * * *
29765951 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
29765991 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
29766031 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
29766069 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29766110 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29766135 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29766156 original size:79 final size:79
Alignment explanation
Indices: 29766003--29766167 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29765993 GGACTAAGAT
* * **
29766003 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
29766068 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29766082 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
29766145 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29766161 CCGAAGG
1 CCGAAGG
29766168 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29774039 original size:79 final size:81
Alignment explanation
Indices: 29773903--29774087 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
29773893 TTGAATGATG
* *
29773903 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
29773967 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29773982 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29774044 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
29774062 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29774088 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:29774101 original size:40 final size:40
Alignment explanation
Indices: 29773904--29774087 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
29773894 TGAATGATGT
* * * *
29773904 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
29773944 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
29773984 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
29774022 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29774063 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29774088 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29774109 original size:79 final size:79
Alignment explanation
Indices: 29773956--29774120 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29773946 GGACTAAGAT
* * **
29773956 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
29774021 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29774035 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
29774098 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29774114 CCGAAGG
1 CCGAAGG
29774121 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29793210 original size:27 final size:27
Alignment explanation
Indices: 29793173--29793290 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
29793163 GGGGCAAAAT
* *
29793173 GGTAATT-TACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
29793199 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
29793226 GGTATTTATACACTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
29793253 GGTAAATCTACCTTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
29793280 GGTAATTCTAC
1 GGTAATTCTAC
29793291 AACTTATCCA
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 7 0.09
27 68 0.91
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:29798173 original size:26 final size:27
Alignment explanation
Indices: 29798144--29798197 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
29798134 TCACACAAGT
*
29798144 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
29798170 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
29798197 T
1 T
29798198 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:29798228 original size:27 final size:27
Alignment explanation
Indices: 29798198--29798341 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 27
29798188 GGGGCAAAAT
* *
29798198 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
29798225 GGTAATTTTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
29798252 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
29798279 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
29798306 AGTAATTCTACCTTAC-TGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
29798332 GGTAATTTTA
1 GGTAATTTTA
29798342 TAACTTATCC
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.21
27 74 0.76
28 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:29798271 original size:54 final size:54
Alignment explanation
Indices: 29798202--29798342 Score: 198
Period size: 54 Copynumber: 2.6 Consensus size: 54
29798192 CAAAATGGTA
* *
29798202 ATTT-TACCCCACAAGGGTATCTCGGTAATTTTATCCTACAGGGGTATTTC-GAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTATCCTACAGGGGTATTTCAG-T
*
29798255 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTATCCTACAGGGGTATTTCAGT
* * *
29798309 AATTCTACCTTAC-TGGGTATTTCGGTAATTTTAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTAT
29798343 AACTTATCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 23 0.29
54 55 0.70
55 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTTTATCCTACAGGGGTATTTCAGT
Found at i:29799526 original size:26 final size:26
Alignment explanation
Indices: 29799494--29799544 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
29799484 TACAACCTGA
29799494 GTAAGTTAAAGAATTTTTGATTTATT
1 GTAAGTTAAAGAATTTTTGATTTATT
*
29799520 GTAAGTTAAAGAATTTTTTATTTAT
1 GTAAGTTAAAGAATTTTTGATTTAT
29799545 AGTGATGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (26 bp):
GTAAGTTAAAGAATTTTTGATTTATT
Found at i:29807403 original size:15 final size:15
Alignment explanation
Indices: 29807383--29807451 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
29807373 GTATCTTGGG
29807383 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
29807398 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
29807413 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
29807428 TTTCTCTATCGTGGA
1 TTTCTTTATCCTGGA
29807443 TTTCTTTAT
1 TTTCTTTAT
29807452 TCGGTTTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:29807429 original size:45 final size:42
Alignment explanation
Indices: 29807379--29807464 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 42
29807369 TATCGTATCT
*
29807379 TGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCCTGGATCTCTTTATTC-GG-TTT-TTTATTC
* *
29807424 TGGGTTTCTCTATCGTGGATTTCTTTATTCGGTTTTTTATT
1 TGGGTTTCTCTATCCTGGATCTCTTTATTCGGTTTTTTATT
29807465 ATCTTTGTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 6 0.16
43 3 0.08
44 2 0.05
45 27 0.71
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.57
Consensus pattern (42 bp):
TGGGTTTCTCTATCCTGGATCTCTTTATTCGGTTTTTTATTC
Found at i:29807452 original size:30 final size:29
Alignment explanation
Indices: 29807374--29807453 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
29807364 CATAATATCG
* * *
29807374 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATC-TGGATTTCTTTATTCTGGATCTCTC
* *
29807404 TATTCTGGATTTCTTTATTCTGGGTTTCTC
1 TA-TCTGGATTTCTTTATTCTGGATCTCTC
29807434 TATCGTGGATTTCTTTATTC
1 TATC-TGGATTTCTTTATTC
29807454 GGTTTTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.55
Consensus pattern (29 bp):
TATCTGGATTTCTTTATTCTGGATCTCTC
Found at i:29819798 original size:44 final size:44
Alignment explanation
Indices: 29819739--29819847 Score: 200
Period size: 44 Copynumber: 2.5 Consensus size: 44
29819729 GCTATAATTA
* *
29819739 TATCACACACTTAGTGCCATTACCTTAAACTAAACTTATATTGG
1 TATCGCACACATAGTGCCATTACCTTAAACTAAACTTATATTGG
29819783 TATCGCACACATAGTGCCATTACCTTAAACTAAACTTATATTGG
1 TATCGCACACATAGTGCCATTACCTTAAACTAAACTTATATTGG
29819827 TATCGCACACATAGTGCCATT
1 TATCGCACACATAGTGCCATT
29819848 TACTCAGCCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (44 bp):
TATCGCACACATAGTGCCATTACCTTAAACTAAACTTATATTGG
Found at i:29823180 original size:43 final size:44
Alignment explanation
Indices: 29823057--29823183 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 44
29823047 TAAAGCTCGA
*
29823057 ACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATAT
1 ACAATGCCAATATCCCAGATATGGTCTTACATGTAATCACATAT
* * * * *
29823100 A-GATGCCACTATCCCAGACAGGGTCTTACACGTAATCACA-AT
1 ACAATGCCAATATCCCAGATATGGTCTTACATGTAATCACATAT
* * *
29823142 ACAATGCCAATGTCCCAGATATGGTCTTATATGAAATCACAT
1 ACAATGCCAATATCCCAGATATGGTCTTACATGTAATCACAT
29823184 CTTGATAACC
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
42 8 0.12
43 59 0.88
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (44 bp):
ACAATGCCAATATCCCAGATATGGTCTTACATGTAATCACATAT
Found at i:29832697 original size:23 final size:26
Alignment explanation
Indices: 29832670--29832722 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 26
29832660 ACTTCATACC
*
29832670 CATGATTTTACCATG-CAA-AT-TCT
1 CATGATATTACCATGCCAATATCTCT
*
29832693 CATGATATTCCCATGCCAATATCTCT
1 CATGATATTACCATGCCAATATCTCT
29832719 CATG
1 CATG
29832723 TAATTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.52
24 3 0.12
25 2 0.08
26 7 0.28
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (26 bp):
CATGATATTACCATGCCAATATCTCT
Found at i:29840259 original size:50 final size:49
Alignment explanation
Indices: 29840149--29840326 Score: 194
Period size: 50 Copynumber: 3.6 Consensus size: 49
29840139 CTGGTACGCA
* *** *
29840149 TAGTAGCCTGCACATAGTACTACACATACAACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ***
29840198 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
29840248 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
*
29840299 TAGTAGCTTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
29840327 CAACCTCACA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 29 0.27
50 43 0.40
51 35 0.33
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:29846288 original size:40 final size:37
Alignment explanation
Indices: 29846231--29846514 Score: 221
Period size: 40 Copynumber: 7.1 Consensus size: 37
29846221 TTGAATGATG
* * *
29846231 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTA-A
29846271 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACTAA
* * *
29846310 TTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
29846350 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACT-AA
**
29846390 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACT-AA
*
29846430 TCCAGG-TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCC-GGACTAAGT-CCGAAGGCATTTGTGCGAG-TACTA-A
* * * * **
29846470 ACCGGGCTATGTCCCGAAGCCATTTGAACGAGTAGCTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTA-CTA-A
29846510 TCCGG
1 TCCGG
29846515 TTAAATTCCG
Statistics
Matches: 214, Mismatches: 19, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
39 39 0.18
40 164 0.77
41 11 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (37 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTACTAA
Found at i:29846336 original size:80 final size:80
Alignment explanation
Indices: 29846231--29846495 Score: 351
Period size: 80 Copynumber: 3.3 Consensus size: 80
29846221 TTGAATGATG
* * * *
29846231 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
29846295 TGTGCGAGATACTAAT
65 TGTGCGAGTTACTAAT
*
29846311 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
*
29846375 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAT
* *
29846390 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGG-TTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC-GGACTAAGAT-CCGAAGGCAT
29846453 TTGTGCGAGTTACT-AT
64 TTGTGCGAGTTACTAAT
* * *
29846469 AACCGGGCTATGTCCCGAAGCCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29846496 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
79 66 0.40
80 97 0.59
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAT
Found at i:29846502 original size:80 final size:77
Alignment explanation
Indices: 29846232--29846528 Score: 321
Period size: 80 Copynumber: 3.7 Consensus size: 77
29846222 TGAATGATGT
* * * * * *
29846232 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGG-TTAAG-TCCGAAGGCATTT
* *
29846296 GTGCGAGATACTAATT
63 GTGCGAGTTACTAA-A
*
29846312 CCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGG-TTAAG-TCCGAAGGCATTTG
29846376 TGCGAGTTACTAAA
64 TGCGAGTTACTAAA
* *
29846390 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCC-GGTTAAGT-CCGAAGGCATTT
29846455 GTGCGAGTTACTATAA
63 GTGCGAGTTACTA-AA
* * * * *
29846471 CCGGGCTATGTCCCGAAGCCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGTT-AAGTCCGAAGG
29846529 TACGTGATTT
Statistics
Matches: 192, Mismatches: 17, Indels: 17
0.85 0.08 0.08
Matches are distributed among these distances:
79 77 0.40
80 111 0.58
81 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAAA
Found at i:29846502 original size:120 final size:118
Alignment explanation
Indices: 29846284--29846528 Score: 307
Period size: 120 Copynumber: 2.1 Consensus size: 118
29846274 GGACTAAGAT
* *
29846284 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
* ** *
29846349 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGCCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * *
29846403 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * * *
29846468 TAA-CCGGGCTATG-TCCCGAAGCCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGAT-CCGAAGCCATTTGAACGAGTAGCTAAATCCGGTTAAATC
29846522 CCGAAGG
1 CCGAAGG
29846529 TACGTGATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
119 51 0.47
120 56 0.51
121 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGCCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:29854686 original size:18 final size:18
Alignment explanation
Indices: 29854659--29854693 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
29854649 AAGCAAAAGA
29854659 ATTTAA-TTTTATGAGAT
1 ATTTAATTTTTATGAGAT
29854676 ATTTAAATTTTTATGAGA
1 ATTT-AATTTTTATGAGA
29854694 CAAGGTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 2 0.12
19 10 0.62
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
ATTTAATTTTTATGAGAT
Found at i:29863776 original size:45 final size:45
Alignment explanation
Indices: 29863599--29863776 Score: 211
Period size: 45 Copynumber: 4.0 Consensus size: 45
29863589 ATGCTATCTC
* * * *
29863599 ATATCGATGCCACTATCCCAGACAGGGTCTTACATG-AATCA-A-
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAT
* * * * *
29863641 ATA-CGATGCCGATGTCCCATACATGGTCTTACACGTAACCATAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAT
* * *
29863685 ACATCGATGTCAATGTCCCAGACGTGGTCTTACACGAAATCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAT
*
29863730 ATATCAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAT
29863775 AT
1 AT
29863777 CGGAATCCTA
Statistics
Matches: 113, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
41 26 0.23
42 7 0.06
43 1 0.01
44 2 0.02
45 77 0.68
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAT
Found at i:29866343 original size:50 final size:50
Alignment explanation
Indices: 29866268--29866362 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
29866258 AGTGTGATTA
29866268 TTTCAAATTCTCACAATCATCTTTTCTTTGAAAGTATGTCCTTCAAATTG
1 TTTCAAATTCTCACAATCATCTTTTCTTTGAAAGTATGTCCTTCAAATTG
** *
29866318 TTTCAAATTCTCACAATTGTCTTTTCTTTGAAAGTATGTCTTTCA
1 TTTCAAATTCTCACAATCATCTTTTCTTTGAAAGTATGTCCTTCA
29866363 TAAACTTGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.46
Consensus pattern (50 bp):
TTTCAAATTCTCACAATCATCTTTTCTTTGAAAGTATGTCCTTCAAATTG
Found at i:29868410 original size:47 final size:47
Alignment explanation
Indices: 29868341--29868433 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
29868331 TGATGAGTGG
* * *
29868341 GTATCGTTCCTATGAGGATTGGATGAGTGCTTTTTGTCTAAGTTATA
1 GTATCATTCCTATGAGGATTGGATGAATGCTCTTTGTCTAAGTTATA
*
29868388 GTATCATTCGTATGAGGATTGGATGAATGCTCTTTGTCTAAGTTAT
1 GTATCATTCCTATGAGGATTGGATGAATGCTCTTTGTCTAAGTTAT
29868434 CATAATTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.42
Consensus pattern (47 bp):
GTATCATTCCTATGAGGATTGGATGAATGCTCTTTGTCTAAGTTATA
Found at i:29871790 original size:14 final size:14
Alignment explanation
Indices: 29871771--29871797 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29871761 ATATTTGATT
29871771 TGTTCTTAATTATG
1 TGTTCTTAATTATG
29871785 TGTTCTTAATTAT
1 TGTTCTTAATTAT
29871798 TGCTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:29875154 original size:34 final size:34
Alignment explanation
Indices: 29875116--29875185 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
29875106 TATTGCATCT
29875116 AACTTGCAACCCAAGGAGAAAGAAG-AATTACTCC
1 AACTTGCAACCCAAGGAGAAA-AAGAAATTACTCC
29875150 AACTTGCAACCCAAGGAGAAAAAGAAATTACTCC
1 AACTTGCAACCCAAGGAGAAAAAGAAATTACTCC
29875184 AA
1 AA
29875186 GTATTAAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 3 0.09
34 32 0.91
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (34 bp):
AACTTGCAACCCAAGGAGAAAAAGAAATTACTCC
Found at i:29877226 original size:40 final size:39
Alignment explanation
Indices: 29877036--29877219 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
29877026 CGAATGATGT
* * *
29877036 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
29877076 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
29877116 CCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29877154 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29877195 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29877220 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29877241 original size:79 final size:78
Alignment explanation
Indices: 29877036--29877252 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
29877026 CGAATGATGT
* *
29877036 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
29877099 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* * *
29877116 CCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
29877179 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
29877195 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
29877253 TACGTGATTC
Statistics
Matches: 115, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
78 3 0.03
79 67 0.58
80 45 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:29885300 original size:40 final size:40
Alignment explanation
Indices: 29885103--29885286 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
29885093 CGAATGATGT
* * * *
29885103 CCGGGCTAATTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
29885143 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
29885183 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
29885221 TCCGGGTTAAGTCCCTAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29885262 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29885287 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29885308 original size:79 final size:79
Alignment explanation
Indices: 29885158--29885309 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
29885148 CTAAGATCCG
* **
29885158 AAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
29885223 CGGGTTAAGTCCCT
66 CGGGTTAAGTCCCT
* * *
29885237 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
29885300 ATCC-GGTTAA
63 ATCCGGGTTAA
29885310 ATTCTGAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGGGTTAAGTCCCT
Found at i:29892476 original size:14 final size:14
Alignment explanation
Indices: 29892457--29892484 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29892447 TCGAGAGAGA
29892457 TAATAATATAAATT
1 TAATAATATAAATT
29892471 TAATAATATAAATT
1 TAATAATATAAATT
29892485 AGGGATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATAATATAAATT
Found at i:29896266 original size:47 final size:47
Alignment explanation
Indices: 29896188--29896676 Score: 825
Period size: 47 Copynumber: 10.4 Consensus size: 47
29896178 CCCTTCGGGA
* * * * * * *
29896188 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29896235 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29896282 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29896329 CTTATTACATATATACACTCTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29896376 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29896423 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29896470 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29896517 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29896564 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29896611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29896658 CTTATCACATATATACACT
1 CTTATCACATATATACACT
29896677 GTCTTGGCTG
Statistics
Matches: 421, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 421 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29900740 original size:40 final size:40
Alignment explanation
Indices: 29900685--29900929 Score: 347
Period size: 40 Copynumber: 6.2 Consensus size: 40
29900675 CAGATGATAA
*
29900685 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
*
29900725 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
*
29900765 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
*
29900805 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
*
29900845 CGAAGGCATTTGTGCGAGCT-ACTATATCTGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
* * *
29900885 CGAAGGCATTTGAGCGAGT-AGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTGA-CTATATCCGGGCTAAGTCC
29900924 CGAAGG
1 CGAAGG
29900930 TACTTGGTTT
Statistics
Matches: 195, Mismatches: 7, Indels: 7
0.93 0.03 0.03
Matches are distributed among these distances:
39 16 0.08
40 177 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
Found at i:29911673 original size:21 final size:21
Alignment explanation
Indices: 29911649--29911691 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
29911639 GCCAAAATAA
*
29911649 AACAAGAGAAATTGAAAGCTT
1 AACAAGAGAAATAGAAAGCTT
29911670 AACAAGAGAAATAGAAAGCTT
1 AACAAGAGAAATAGAAAGCTT
29911691 A
1 A
29911692 CACTCAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.19, T:0.16
Consensus pattern (21 bp):
AACAAGAGAAATAGAAAGCTT
Found at i:29915131 original size:43 final size:44
Alignment explanation
Indices: 29915084--29915204 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 44
29915074 CATGTAAGAC
*
29915084 CATTGGCAT-TATATTGTGATTACATGTAAAACCATGTCCGGGA
1 CATTGGCATCTATATTGTGATTACATGTAAAACCATGTCAGGGA
* * * *
29915127 CATTGGCATCGT-TATT-CGATTTCGTGTAAAACCTTGTCAGGGA
1 CATTGGCATC-TATATTGTGATTACATGTAAAACCATGTCAGGGA
* * * * *
29915170 CAGTGGCATCGATA-TGTGATAACATGGAAGACCAT
1 CATTGGCATCTATATTGTGATTACATGTAAAACCAT
29915205 ATCTGGGGTA
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
42 1 0.02
43 54 0.90
44 4 0.07
45 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (44 bp):
CATTGGCATCTATATTGTGATTACATGTAAAACCATGTCAGGGA
Found at i:29922235 original size:43 final size:43
Alignment explanation
Indices: 29922170--29922340 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 43
29922160 ATTATCAATA
* * * *
29922170 TGTGCTTACATGTAAAATCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
29922213 TGTGATTACGTGTAAGACCATGTCTGGGAAACTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * * *
29922257 T-CGATTTCATGTAAGACCCTGTCTAGGACAGTGACATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * *
29922298 ATGTGATAACATGTAAGGCCATATCTGGGA-TTTGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
29922341 GAGCTTTATG
Statistics
Matches: 98, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 85 0.87
44 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:29923279 original size:15 final size:15
Alignment explanation
Indices: 29923247--29923275 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29923237 ATTTTCATTG
29923247 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
29923262 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
29923276 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:29930581 original size:49 final size:49
Alignment explanation
Indices: 29930506--29930650 Score: 173
Period size: 51 Copynumber: 2.9 Consensus size: 49
29930496 AGCCGAAGCT
* * *
29930506 ATCTGGTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCAATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATA
* * * * *
29930555 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATA
* * *
29930606 TTCGGGTACTCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
29930651 TCACAACATT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 38 0.47
50 2 0.03
51 40 0.50
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (49 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAATA
Found at i:29934099 original size:46 final size:46
Alignment explanation
Indices: 29934046--29934192 Score: 181
Period size: 46 Copynumber: 3.2 Consensus size: 46
29934036 CCCATATATG
* *
29934046 GTCTTACACTGGCTATCATCTCGAGGCCGATGCATGTCACAGACAT
1 GTCTTACACTGGCTATCATCTCGAGGTCGATGCATGTCCCAGACAT
* *
29934092 GTCTTACACTGGCT-TACGTCTCGAGGTCGATGCATGTCCCGGACAT
1 GTCTTACACTGGCTAT-CATCTCGAGGTCGATGCATGTCCCAGACAT
* * **
29934138 GTCTTACACTAGC-ACTCATCTTGATTTCGATGCCATGTCCCAGACAT
1 GTCTTACACTGGCTA-TCATCTCGAGGTCGATG-CATGTCCCAGACAT
29934185 GTCTTACA
1 GTCTTACA
29934193 TAATGTAGCC
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 64 0.74
47 22 0.25
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
GTCTTACACTGGCTATCATCTCGAGGTCGATGCATGTCCCAGACAT
Found at i:29936961 original size:20 final size:20
Alignment explanation
Indices: 29936936--29936976 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29936926 AGCAGTCAGT
29936936 CTTTAGTACTTTCATTTACC
1 CTTTAGTACTTTCATTTACC
29936956 CTTTAGTACTTTCATTTACC
1 CTTTAGTACTTTCATTTACC
29936976 C
1 C
29936977 CTATTCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (20 bp):
CTTTAGTACTTTCATTTACC
Found at i:29944205 original size:18 final size:17
Alignment explanation
Indices: 29944175--29944208 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
29944165 CATCAATCGT
*
29944175 ATAACAATCACAGTCAC
1 ATAACAATAACAGTCAC
29944192 ATAATCAATAACAGTCA
1 ATAA-CAATAACAGTCA
29944209 GTCTTCAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.24, G:0.06, T:0.21
Consensus pattern (17 bp):
ATAACAATAACAGTCAC
Found at i:29947107 original size:21 final size:21
Alignment explanation
Indices: 29947066--29947108 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29947056 TCAATTCAAA
29947066 TAATAATTTAAATAATATTTT
1 TAATAATTTAAATAATATTTT
*
29947087 TAATTATTCTAAAT-AT-TTTT
1 TAATAATT-TAAATAATATTTT
29947107 TA
1 TA
29947109 CTATCTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATAATTTAAATAATATTTT
Found at i:29948172 original size:10 final size:9
Alignment explanation
Indices: 29948157--29948219 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
29948147 AGATACAATT
29948157 TTTTTTATTA
1 TTTTTTA-TA
29948167 TTTTTTATAA
1 TTTTTTAT-A
* *
29948177 TTTCTAATA
1 TTTTTTATA
*
29948186 ATTTTTATA
1 TTTTTTATA
29948195 TTTTTTATA
1 TTTTTTATA
* *
29948204 CTTTTCAGTA
1 TTTTTTA-TA
29948214 TTTTTT
1 TTTTTT
29948220 CACAATTTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
9 21 0.51
10 20 0.49
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTTTATA
Found at i:29950976 original size:22 final size:21
Alignment explanation
Indices: 29950951--29950999 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
29950941 GTTAATATGT
*
29950951 TATAGAAT-ATATGAAAATATTA
1 TATA-AATAATATAAAAAT-TTA
29950973 TATAAATAATATAAAAATTTA
1 TATAAATAATATAAAAATTTA
29950994 TA-AAAT
1 TATAAAT
29951000 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 8 0.32
22 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
TATAAATAATATAAAAATTTA
Found at i:29951010 original size:22 final size:21
Alignment explanation
Indices: 29950984--29951030 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
29950974 ATAAATAATA
*
29950984 TAAAAATTTATAAAAT-TTATT
1 TAAAAAGTTATAAAATCTTA-T
29951005 TAAAAAGTTATAAAATCTTAT
1 TAAAAAGTTATAAAATCTTAT
29951026 TAAAA
1 TAAAA
29951031 GTATCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAAAAGTTATAAAATCTTAT
Found at i:29951491 original size:31 final size:30
Alignment explanation
Indices: 29951454--29951534 Score: 99
Period size: 31 Copynumber: 2.7 Consensus size: 30
29951444 ATATAATCTC
* **
29951454 TAAAAATCAATTAAGCCCTTTTAAAATAAT
1 TAAAAATTAATTAAGCCCTCGTAAAATAAT
* * *
29951484 TAAAAAATTAATTGAGCTCTCGTACAATAAT
1 T-AAAAATTAATTAAGCCCTCGTAAAATAAT
29951515 TAAAAATTAATTAAGCCCTC
1 TAAAAATTAATTAAGCCCTC
29951535 CATTTTAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 18 0.43
31 24 0.57
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (30 bp):
TAAAAATTAATTAAGCCCTCGTAAAATAAT
Found at i:29955056 original size:42 final size:42
Alignment explanation
Indices: 29954954--29955112 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
29954944 ATTTGTGACA
* * *
29954954 TCGTGTAAGACCGTGTCTGGGACA-CAAGCCTCG-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATC-GGCATCGTATTGA-ATT
*
29954996 TACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT-AATT
1 T-CGTGTAAGACCATGTCTGGGACATCGGCATCGTAT-TGAATT
* * * **
29955039 TCGTGTAAGACCTTGTCTAGGATAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTGAATT
* * **
29955082 ACATGTAAGACCATGTCTGGGATGTCGGCAT
1 TCGTGTAAGACCATGTCTGGGACATCGGCAT
29955113 TGTACTTAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 28 0.30
43 61 0.65
44 4 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATCGGCATCGTATTGAATT
Found at i:29959691 original size:6 final size:6
Alignment explanation
Indices: 29959680--29959704 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29959670 ACTCAGTGTA
29959680 ATTCTG ATTCTG ATTCTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATTCTG A
29959705 ATAGATGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:29965006 original size:40 final size:40
Alignment explanation
Indices: 29964957--29965060 Score: 165
Period size: 40 Copynumber: 2.6 Consensus size: 40
29964947 ATCTAAAATG
*
29964957 TATCAAATGAAAAGTTTGAAAAGGATATATCCGAAA-TGGA
1 TATCAAATGAAAAGGTTGAAAAGGATATATCCGAAACT-GA
* *
29964997 TATCAAATGAAAAGGTTGAAAATGATATATCTGAAACTGA
1 TATCAAATGAAAAGGTTGAAAAGGATATATCCGAAACTGA
29965037 TATCAAATGAAAAGGTTGAAAAGG
1 TATCAAATGAAAAGGTTGAAAAGG
29965061 TTGTTACACT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 58 0.98
41 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (40 bp):
TATCAAATGAAAAGGTTGAAAAGGATATATCCGAAACTGA
Found at i:29968948 original size:20 final size:20
Alignment explanation
Indices: 29968925--29968965 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
29968915 CTGTTTTCCC
* *
29968925 AAATTTTCATGTTTTTTTGA
1 AAATTTTCATATTTGTTTGA
29968945 AAATTTTCATATTTGTTTGA
1 AAATTTTCATATTTGTTTGA
29968965 A
1 A
29968966 TTGATCCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (20 bp):
AAATTTTCATATTTGTTTGA
Found at i:29972987 original size:46 final size:46
Alignment explanation
Indices: 29972910--29973083 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
29972900 TGTAACCCGC
29972910 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
29972955 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
29973005 CTC-T-A--GAACTCGGACTCAACTCAACGAGTTCAGACATTCGTAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
29973048 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
29973084 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 14 0.13
46 46 0.43
47 25 0.24
48 1 0.01
49 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:29973029 original size:93 final size:92
Alignment explanation
Indices: 29972918--29973088 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 92
29972908 GCCCATAAGT
* * * * *
29972918 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 GAACTCGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
29972983 GAGCTCGGATGCCTAGTTACATCTCTA
66 GAGCTCGGATGCCTAGTTACATCTCTA
* *
29973010 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGTATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
29973075 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
29973089 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 6 0.09
93 64 0.91
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTA
Found at i:29978535 original size:93 final size:93
Alignment explanation
Indices: 29978422--29978593 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
29978412 GCCCATAAGT
* * *
29978422 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGAACTCAACTCAA
*
29978487 TGAGCTCGGATGCCTAGTTACATCTCTG
66 CGAGCTCGGATGCCTAGTTACATCTCTG
* * *
29978515 GAACTC-GAACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGAACTCAACTCA
1 GAACTCAG-ACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGAACTCAACTCA
*
29978579 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
29978594 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTG
Found at i:29978589 original size:46 final size:46
Alignment explanation
Indices: 29978414--29978589 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
29978404 TGTAACCCGC
* * *
29978414 CCATAAGTGAACTC-AGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGA-ACTCAACTCAACGAGCTCGGACATTCGTAT
* * * * *
29978460 CCATAAGTGAAATCGGACTCAACTCAATGAGCTCGG--ATGCCTAGTT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACATTCGTA--T
* *** *
29978506 ACATCTCTGGAACTCGAACTCAACTCAACGAGTTCGGACATTCGTAT
1 CCATAAGT-GAACTCGAACTCAACTCAACGAGCTCGGACATTCGTAT
*
29978553 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGA
29978590 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
44 3 0.03
46 66 0.64
47 29 0.28
49 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACATTCGTAT
Found at i:29989635 original size:26 final size:25
Alignment explanation
Indices: 29989605--29989662 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
29989595 TTACTTGAGT
* * *
29989605 AAAATTTTGACACTTTTATCCTAAAG
1 AAAATTTAGACAATTTTACCCT-AAG
*
29989631 AAAATTTAGACAATTTTACCCTAAT
1 AAAATTTAGACAATTTTACCCTAAG
29989656 AAAATTT
1 AAAATTT
29989663 CGAGAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (25 bp):
AAAATTTAGACAATTTTACCCTAAG
Found at i:29993009 original size:46 final size:46
Alignment explanation
Indices: 29992942--29993163 Score: 279
Period size: 46 Copynumber: 4.8 Consensus size: 46
29992932 TGTAACCGGC
* * *
29992942 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
29992988 CCATAAGTGAACTCGGACTCAACTCAATGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** *
29993034 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
29993081 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
29993127 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29993164 TGCCCAAACA
Statistics
Matches: 151, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
46 112 0.74
47 29 0.19
49 5 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30000598 original size:54 final size:54
Alignment explanation
Indices: 30000557--30000961 Score: 503
Period size: 54 Copynumber: 7.5 Consensus size: 54
30000547 AAAGTACTCC
30000557 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
* * ** *
30000611 CGATTTACAGAATTATCGTTTTACCCTCAATTTACAGAATTACTATTTTACCCA
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
*
30000665 CGATTTACAGAATTACCGTTTTACCCTCGATTTGTA-A-AATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACCGTTTTACCCT
* * * * * *
30000719 TGATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
* *
30000773 CGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
* ** * * *
30000827 TGATTTGTAAAATTACCGTTTTACCCTCGATTTGTA-A-AATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACCGTTTTACCCT
** * * * *
30000881 TAATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
*
30000935 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
30000962 TGATTGTGAA
Statistics
Matches: 299, Mismatches: 44, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
52 4 0.01
53 8 0.03
54 275 0.92
55 8 0.03
56 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (54 bp):
CGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
Found at i:30000962 original size:81 final size:81
Alignment explanation
Indices: 30000559--30000962 Score: 533
Period size: 81 Copynumber: 5.0 Consensus size: 81
30000549 AGTACTCCCG
* *
30000559 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
* *
30000624 TATCGTTTTACCCTCA
66 TACCGTTTTACCCTTA
* * * ** *
30000640 ATTTACAGAATTACTATTTTACCCAC-GATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAA
1 ATTTACAGAATTACTGTTTTACCCTCAG-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAA
*
30000704 TTACCGTTTTACCCTTG
65 TTACCGTTTTACCCTTA
* * *
30000721 ATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCTTCGATTTACAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
* *
30000786 TACCATTTTACCCTCA
66 TACCGTTTTACCCTTA
* * ** ** *
30000802 GTTTACAGAATTACTGTTTTACCCT-TGATTTGTAAAATTACCGTTTTACCCTCGATTTGTAAAA
1 ATTTACAGAATTACTGTTTTACCCTCAG-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAA
*
30000866 TTACTGTTTTACCCTTA
65 TTACCGTTTTACCCTTA
* *
30000883 ATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
*
30000948 TACCATTTTACCCTT
66 TACCGTTTTACCCTT
30000963 GATTGTGAAA
Statistics
Matches: 274, Mismatches: 45, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
80 2 0.01
81 270 0.99
82 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (81 bp):
ATTTACAGAATTACTGTTTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
TACCGTTTTACCCTTA
Done.