Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 95 of 433
Found at i:28805524 original size:120 final size:121
Alignment explanation
Indices: 28805310--28805528 Score: 325
Period size: 120 Copynumber: 1.8 Consensus size: 121
28805300 CGAATGGTAT
* *
28805310 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
28805375 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
28805431 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
28805494 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
28805529 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 1 0.01
120 60 0.69
121 26 0.30
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:28805553 original size:80 final size:80
Alignment explanation
Indices: 28805308--28805554 Score: 208
Period size: 80 Copynumber: 3.1 Consensus size: 80
28805298 TTCGAATGGT
** * * * * * *
28805308 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGG-TCAATTCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAA-TTACCAAAACCGGGCT-AAGTCCCGAAGACA
* * * * *
28805372 TTTGTGCGAGTTACCAA
64 ATCGAGCGAGTCACTAA
* * * * * * *
28805389 AACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAAT
* * *
28805454 TGTGCGAGTTACTAA
66 CGAGCGAGTCACTAA
* * * *
28805469 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAAT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAAT
* *
28805534 CGAGCGAGTCGCTAT
66 CGAGCGAGTCACTAA
28805549 ATCCGG
1 ATCCGG
28805555 TTAAATTCAG
Statistics
Matches: 139, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
80 110 0.79
81 29 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAAT
CGAGCGAGTCACTAA
Found at i:28810480 original size:17 final size:17
Alignment explanation
Indices: 28810460--28810494 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
28810450 AAAGAAAAAG
28810460 AAAAGAAAAAGCTTGCT
1 AAAAGAAAAAGCTTGCT
28810477 AAAAGAAAAAGCTTGCT
1 AAAAGAAAAAGCTTGCT
28810494 A
1 A
28810495 GGGTTTCGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (17 bp):
AAAAGAAAAAGCTTGCT
Found at i:28811389 original size:42 final size:43
Alignment explanation
Indices: 28811343--28811424 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
28811333 TAAGACGATG
* *
28811343 TCTGGGACA-TCGGCATCG-TATTTGATTTCGTGTAAGACCCTA
1 TCTGGGACAGT-GGCATCGATATTTGATTACATGTAAGACCCTA
* *
28811385 TCTGGGATAGTGGTATCGATATTTGATTACATGTAAGACC
1 TCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACC
28811425 ACGTTTGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 14 0.41
43 20 0.59
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCCTA
Found at i:28819003 original size:37 final size:37
Alignment explanation
Indices: 28818962--28819044 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 37
28818952 ACCTGTTTGG
28818962 GCTAAACCTTTAAAA-TGACATCAGGTTA-TCAGTCCAA
1 GCTAAACCTTTAAAACTG-CATCAGGTTACT-AGTCCAA
* *
28818999 GCTAAACCTTTAAAACTGCATTAGGTTACTAGTCCAG
1 GCTAAACCTTTAAAACTGCATCAGGTTACTAGTCCAA
28819036 GCTAAACCT
1 GCTAAACCT
28819045 AAGTCCCGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
37 39 0.93
38 3 0.07
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (37 bp):
GCTAAACCTTTAAAACTGCATCAGGTTACTAGTCCAA
Found at i:28819330 original size:120 final size:120
Alignment explanation
Indices: 28819047--28819390 Score: 311
Period size: 120 Copynumber: 2.9 Consensus size: 120
28819037 CTAAACCTAA
* * * * * * * *
28819047 GTCCCGAGTATCCTCAATACATCAATTGCTTGTCTGAGCTAAAAATATATACATTTTAAGTTACC
1 GTCCCAAGTATCATCGATACATCAATTGCTCGTCAGAGCTGAAAATATATACATGTTAAGTTACT
** * * * * * * * *
28819112 CGTAGGGGATAAACCTTTAAATTAACAT-TAGATTGCTC-ATTCGAGCTAAACCTGG
66 C-TCCGAGCTAAACCTTTAAATTGACATCAAG-TTACTCAACTCGAGCAAAACATGG
* * ** * *
28819167 GTCCCAAGTATAATTGATACATCAATTGCTCGTCATTGTTGAAAATATATACATGTCAAGTTACT
1 GTCCCAAGTATCATCGATACATCAATTGCTCGTCAGAGCTGAAAATATATACATGTTAAGTTACT
* * *
28819232 CATCTGAGCTAAACCTTTAAAATGACATCAAGTTACTCAACT-GAGCAAAACATGT
66 C-TCCGAGCTAAACCTTTAAATTGACATCAAGTTACTCAACTCGAGCAAAACATGG
* * *
28819287 GTCCCAAGTATCATCGATACATCAATTGCTCATCCGAGCTGAAAATATAT-CAATGTTAGGTTAG
1 GTCCCAAGTATCATCGATACATCAATTGCTCGTCAGAGCTGAAAATATATAC-ATGTTAAGTTA-
* *
28819351 CTGC-CCAAGCTAAACCTTTAAATTGACATCACGTTACTCA
64 CT-CTCCGAGCTAAACCTTTAAATTGACATCAAGTTACTCA
28819391 TCATTTCTAA
Statistics
Matches: 179, Mismatches: 40, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
119 1 0.01
120 171 0.96
121 6 0.03
122 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (120 bp):
GTCCCAAGTATCATCGATACATCAATTGCTCGTCAGAGCTGAAAATATATACATGTTAAGTTACT
CTCCGAGCTAAACCTTTAAATTGACATCAAGTTACTCAACTCGAGCAAAACATGG
Found at i:28829032 original size:50 final size:47
Alignment explanation
Indices: 28828911--28829040 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 47
28828901 GTATAATGCT
* * * *
28828911 GATGTCATACCCCAGACATGGTCTTACACTGGCTCTCACGCTAAGTC
1 GATGCCATATCCCAGACATGGTCTTACACTGACTCCCACGCTAAGTC
*
28828958 GATGCCATATCCCAGACATGGTCTTACACTGACTCCCACG-TATCTGTGC
1 GATGCCATATCCCAGACATGGTCTTACACTGACTCCCACGCTA--AGT-C
* * *
28829007 TGATGCTATTTCCCAGACATGGTCTTATACTGAC
1 -GATGCCATATCCCAGACATGGTCTTACACTGAC
28829041 ACATCATGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
46 2 0.03
47 36 0.51
48 2 0.03
49 1 0.01
50 30 0.42
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCCATATCCCAGACATGGTCTTACACTGACTCCCACGCTAAGTC
Found at i:28829202 original size:47 final size:47
Alignment explanation
Indices: 28828921--28829220 Score: 151
Period size: 46 Copynumber: 6.4 Consensus size: 47
28828911 GATGTCATAC
* *
28828921 CCCAGACATGGTCTTACACTGGCTCTCACGCTAA-GT--C-GATGCCATAT
1 CCCAGACATGGTCTTACACTGG--CTCAC-ATAATGTGGCTGATG-CATGT
* * * *
28828968 CCCAGACATGGTCTTACACTGACTCCCACGT-ATCTGTGCTGATGCTATTT
1 CCCAGACATGGTCTTACACTGGCT--CACATAATGTG-GCTGATGC-ATGT
* * * * **
28829018 CCCAGACATGGTCTTATACT-G-ACACATCATGTAGCCAATGCATGT
1 CCCAGACATGGTCTTACACTGGCTCACATAATGTGGCTGATGCATGT
* * * * * *
28829063 CCCAGACAT-GTCTTACACTGGCTTACAT-CTCGAGACCGATGTATGT
1 CCCAGACATGGTCTTACACTGGCTCACATAAT-GTGGCTGATGCATGT
* * * *
28829109 CCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA--T-GCTAATGCCATGT
1 CCCAGACATGGTCTTACACTGGCTCAC--AT-AATGTGGCTGATG-CATGT
*
28829156 CCCAGACATGGTCTTGCACTGGCTCACATAATGTGGCTGATGCATGT
1 CCCAGACATGGTCTTACACTGGCTCACATAATGTGGCTGATGCATGT
** *
28829203 CTTAGATAT-GTCTTACAC
1 CCCAGACATGGTCTTACAC
28829221 GAGTACACAA
Statistics
Matches: 191, Mismatches: 41, Indels: 43
0.69 0.15 0.16
Matches are distributed among these distances:
44 9 0.05
45 19 0.10
46 62 0.32
47 52 0.27
48 21 0.11
49 2 0.01
50 26 0.14
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CCCAGACATGGTCTTACACTGGCTCACATAATGTGGCTGATGCATGT
Found at i:28831050 original size:46 final size:46
Alignment explanation
Indices: 28830990--28831301 Score: 394
Period size: 46 Copynumber: 7.0 Consensus size: 46
28830980 TTTGACATGA
* * * * * *
28830990 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*** **
28831036 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
28831082 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
* *
28831128 TGCCATGGTATATTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
28831174 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
28831220 TGCCATGGTATCTTTCAACCATGGTCTT--ACA----C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
28831258 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
28831302 AGAGCACACT
Statistics
Matches: 239, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
38 34 0.14
40 3 0.01
43 1 0.00
44 3 0.01
45 4 0.02
46 191 0.80
47 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:28831265 original size:38 final size:38
Alignment explanation
Indices: 28831214--28831289 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
28831204 ACATTTTATA
28831214 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
28831252 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
28831290 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:28833448 original size:11 final size:11
Alignment explanation
Indices: 28833432--28833483 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
28833422 TATACTAAAT
28833432 AAATAATAATA
1 AAATAATAATA
*
28833443 AAATAAT-ATT
1 AAATAATAATA
* *
28833453 AAATATCTCATA
1 AAATA-ATAATA
*
28833465 AAATATTAATA
1 AAATAATAATA
28833476 AAATAATA
1 AAATAATA
28833484 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:28834748 original size:10 final size:10
Alignment explanation
Indices: 28834733--28834770 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
28834723 TAGTTAGTAA
28834733 TTAATTAATC
1 TTAATTAATC
*
28834743 TTAATTAA-A
1 TTAATTAATC
*
28834752 TTAATTAAAC
1 TTAATTAATC
28834762 TTAATTAAT
1 TTAATTAAT
28834771 TAAAACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (10 bp):
TTAATTAATC
Found at i:28834755 original size:19 final size:18
Alignment explanation
Indices: 28834730--28834773 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
28834720 CTTTAGTTAG
*
28834730 TAATTAATTAATCTTAAT
1 TAATTAATTAAACTTAAT
28834748 TAAATTAATTAAACTTAAT
1 T-AATTAATTAAACTTAAT
28834767 TAATTAA
1 TAATTAA
28834774 AACTAAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATTAATTAAACTTAAT
Found at i:28847235 original size:2 final size:2
Alignment explanation
Indices: 28847228--28847267 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
28847218 AGCATAGTTG
*
28847228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28847268 TCGACCATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:28847985 original size:27 final size:27
Alignment explanation
Indices: 28847901--28848054 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
28847891 GACGAGAATG
* * *
28847901 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
28847930 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
28847959 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
28847986 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
28848014 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
28848041 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
28848055 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:28848022 original size:55 final size:55
Alignment explanation
Indices: 28847951--28848054 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
28847941 GCGAGCTCAA
28847951 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
28848006 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
28848055 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:28855110 original size:2 final size:2
Alignment explanation
Indices: 28855103--28855134 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
28855093 AGCATAGTTG
*
28855103 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28855135 TCGACCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:28855852 original size:27 final size:27
Alignment explanation
Indices: 28855768--28855921 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
28855758 GACGAGAATG
* * *
28855768 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
28855797 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
28855826 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
28855853 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
28855881 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
28855908 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
28855922 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:28855889 original size:55 final size:55
Alignment explanation
Indices: 28855818--28855921 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
28855808 GCGAGCTCAA
28855818 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
28855873 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
28855922 GATTCACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:28858164 original size:43 final size:43
Alignment explanation
Indices: 28858103--28858194 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
28858093 CCATAGCTCA
28858103 TGTGAGCAACATCGTGTAGCTTAACATCCTGACCCAAAACTCG
1 TGTGAGCAACATCGTGTAGCTTAACATCCTGACCCAAAACTCG
* * *
28858146 TGTGAGCAATATCGTGTAGCTTAATATCCTGACCCACAACTCG
1 TGTGAGCAACATCGTGTAGCTTAACATCCTGACCCAAAACTCG
28858189 TGTGAG
1 TGTGAG
28858195 AAAACTCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (43 bp):
TGTGAGCAACATCGTGTAGCTTAACATCCTGACCCAAAACTCG
Found at i:28860231 original size:21 final size:21
Alignment explanation
Indices: 28860207--28860248 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
28860197 TATTTAGGTA
*
28860207 TGTTTT-AAGCTTATTTGAATG
1 TGTTTTGAAGC-TATGTGAATG
28860228 TGTTTTGAAGCTATGTGAATG
1 TGTTTTGAAGCTATGTGAATG
28860249 GTTGATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.48
Consensus pattern (21 bp):
TGTTTTGAAGCTATGTGAATG
Found at i:28863048 original size:15 final size:15
Alignment explanation
Indices: 28863028--28863069 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
28863018 ACGATAACAA
28863028 AATAATAATATAAAT
1 AATAATAATATAAAT
**
28863043 AATAATAGCATAAAT
1 AATAATAATATAAAT
*
28863058 GATAATAATATA
1 AATAATAATATA
28863070 TATGGTATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (15 bp):
AATAATAATATAAAT
Found at i:28863255 original size:19 final size:20
Alignment explanation
Indices: 28863214--28863255 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
28863204 AAATGATGTG
* *
28863214 CATGATATAATATTAATATA
1 CATGATATAATATTAAAAAA
*
28863234 CATGATATAGT-TTAAAAAA
1 CATGATATAATATTAAAAAA
28863253 CAT
1 CAT
28863256 AAACATAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (20 bp):
CATGATATAATATTAAAAAA
Found at i:28863579 original size:30 final size:29
Alignment explanation
Indices: 28863513--28863579 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
28863503 TGAATACATG
28863513 ATAATATTAAAAGTATGTACACAATATATA
1 ATAATATTAAAAG-ATGTACACAATATATA
* *
28863543 AT-ATATTAAAA-ATGTATATATATATATA
1 ATAATATTAAAAGATGTACACA-ATATATA
28863571 TATAATATT
1 -ATAATATT
28863580 TATAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 7 0.22
28 7 0.22
29 11 0.34
30 7 0.22
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (29 bp):
ATAATATTAAAAGATGTACACAATATATA
Found at i:28866248 original size:22 final size:22
Alignment explanation
Indices: 28866223--28866266 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
28866213 GATCTTAACA
*
28866223 TGATTCAAATTAAATTTTATTT
1 TGATTCAAATTAAATGTTATTT
28866245 TGATTCAAATTAAATGTTATTT
1 TGATTCAAATTAAATGTTATTT
28866267 CAATTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
TGATTCAAATTAAATGTTATTT
Found at i:28868002 original size:9 final size:10
Alignment explanation
Indices: 28867977--28868009 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
28867967 ATGTTGTTTA
*
28867977 ATTTGATATT
1 ATTTGTTATT
28867987 ATTTGTTATT
1 ATTTGTTATT
28867997 -TTTGTTATT
1 ATTTGTTATT
28868006 ATTT
1 ATTT
28868010 ATGTTATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (10 bp):
ATTTGTTATT
Found at i:28868400 original size:2 final size:2
Alignment explanation
Indices: 28868395--28868424 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28868385 CTTAAAAAAC
28868395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28868425 TAACCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28871024 original size:26 final size:26
Alignment explanation
Indices: 28870995--28871095 Score: 107
Period size: 26 Copynumber: 3.8 Consensus size: 26
28870985 TATTATTAAA
28870995 ATCAAATAATAATAAAACTATCAAAT
1 ATCAAATAATAATAAAACTATCAAAT
* *
28871021 ATCAAATAATATTGAAAGTACTATTAAA-
1 ATCAAATAATAAT-AAA--ACTATCAAAT
* * *
28871049 ATCAAATAATATTAAGACTATCTAAT
1 ATCAAATAATAATAAAACTATCAAAT
*
28871075 ATCAAATAATAATTAAA-TATC
1 ATCAAATAATAATAAAACTATC
28871096 TCAAATACTA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
25 11 0.17
26 26 0.41
27 5 0.08
28 13 0.21
29 8 0.13
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (26 bp):
ATCAAATAATAATAAAACTATCAAAT
Found at i:28871461 original size:5 final size:5
Alignment explanation
Indices: 28871437--28871480 Score: 67
Period size: 5 Copynumber: 9.4 Consensus size: 5
28871427 TTCCTAATAA
28871437 ATATT ATATT -TATT -TA-T ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
28871481 TGATTTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 1 0.03
4 8 0.22
5 28 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:28874950 original size:23 final size:23
Alignment explanation
Indices: 28874884--28874950 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
28874874 GTGAGGAACG
28874884 AAATAAAAACT-AAACTAAAATTAC
1 AAATAAAAA-TAAAACT-AAATTAC
* * *
28874908 AACTAAAAAGAAACCTAAATTAC
1 AAATAAAAATAAAACTAAATTAC
28874931 AAATAAAAATAAAACTAAAT
1 AAATAAAAATAAAACTAAAT
28874951 AGGAGACGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 24 0.67
24 12 0.33
ACGTcount: A:0.67, C:0.12, G:0.01, T:0.19
Consensus pattern (23 bp):
AAATAAAAATAAAACTAAATTAC
Found at i:28877238 original size:11 final size:11
Alignment explanation
Indices: 28877193--28877234 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
28877183 GCAAAAAAAA
28877193 AAAACTAAGAT
1 AAAACTAAGAT
* *
28877204 AAAACTTAGAG
1 AAAACTAAGAT
28877215 AAAA-TAAGACT
1 AAAACTAAGA-T
28877226 AAAACTAAG
1 AAAACTAAG
28877235 CTAATGTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.17
Consensus pattern (11 bp):
AAAACTAAGAT
Found at i:28886773 original size:12 final size:12
Alignment explanation
Indices: 28886756--28886790 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
28886746 TTCTAATAAA
28886756 AATTATTATATT
1 AATTATTATATT
28886768 AATTA-TATTATT
1 AATTATTA-TATT
28886780 AATTATTATAT
1 AATTATTATAT
28886791 GTAGCTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTATTATATT
Found at i:28886774 original size:9 final size:8
Alignment explanation
Indices: 28886757--28886790 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
28886747 TCTAATAAAA
28886757 ATTATTAT
1 ATTATTAT
28886765 ATTAATTAT
1 ATT-ATTAT
28886774 ATTATTA-
1 ATTATTAT
28886781 ATTATTAT
1 ATTATTAT
28886789 AT
1 AT
28886791 GTAGCTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
8 9 0.38
9 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTATTAT
Found at i:28888318 original size:2 final size:2
Alignment explanation
Indices: 28888313--28888356 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
28888303 TCTCCTTCCT
28888313 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
28888355 TC
1 TC
28888357 AAACAAAACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:28894899 original size:6 final size:6
Alignment explanation
Indices: 28894876--28894908 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
28894866 CAAAGAATCT
*
28894876 AAAGG- AAAGGA AAGGGA AAAGGA AAAGGA AAAG
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAG
28894909 TGGAGTTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:28898567 original size:44 final size:44
Alignment explanation
Indices: 28898415--28898580 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 44
28898405 TTTGTGTGCT
* * * *
28898415 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGATT-TG-TA-CC
* * ** *
28898461 AGTATAAGACCATGTCTGGGACATGGCATCGGCGTAGAGGTGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TA-AGATTTGTACC
* *
28898509 AGTGTAAGACATGTCTGGGACATGCATTGGCTAAGATTTGTACT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGATTTGTACC
28898553 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
28898581 AGCACGCCCA
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
44 33 0.34
45 2 0.02
46 15 0.15
47 28 0.29
48 17 0.17
50 1 0.01
51 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGATTTGTACC
Found at i:28901321 original size:19 final size:20
Alignment explanation
Indices: 28901287--28901324 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
28901277 GGAAAATAAC
*
28901287 AAAAGAGAAGAGAAAACTTG
1 AAAAAAGAAGAGAAAACTTG
28901307 AAAAAAGAA-AGAAAACTT
1 AAAAAAGAAGAGAAAACTT
28901325 AAGAAGCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.05, G:0.18, T:0.11
Consensus pattern (20 bp):
AAAAAAGAAGAGAAAACTTG
Found at i:28902433 original size:35 final size:35
Alignment explanation
Indices: 28902392--28902461 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
28902382 GGCTTGAGCA
*
28902392 ACACGAACCAAGTCGCAAAATGAAAATAATTTATT
1 ACACGAACCAAGTCGCAAAACGAAAATAATTTATT
*
28902427 ACACGAACCAAGTCGCAGAACGAAAATAATTTATT
1 ACACGAACCAAGTCGCAAAACGAAAATAATTTATT
28902462 TAATTTTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (35 bp):
ACACGAACCAAGTCGCAAAACGAAAATAATTTATT
Found at i:28908519 original size:55 final size:55
Alignment explanation
Indices: 28908435--28908538 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
28908425 GCAGACGCAT
* * * *
28908435 GCCCGTGTTATTTTGACAGGCTCGACCACGGTC-TGTGGGCACGGTCGTGTCACAC
1 GCCCGTGTTAATTTGACAGGATCGACCACGGCCATGT-CGCACGGTCGTGTCACAC
* * *
28908490 GCCCGTGTTAATTTGGCAGGATTGCCCACGGCCATGTCGCACGGTCGTG
1 GCCCGTGTTAATTTGACAGGATCGACCACGGCCATGTCGCACGGTCGTG
28908539 GCAACTTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 38 0.93
56 3 0.07
ACGTcount: A:0.14, C:0.29, G:0.32, T:0.25
Consensus pattern (55 bp):
GCCCGTGTTAATTTGACAGGATCGACCACGGCCATGTCGCACGGTCGTGTCACAC
Found at i:28912844 original size:16 final size:16
Alignment explanation
Indices: 28912802--28912832 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
28912792 GTAGATCGGC
28912802 AAAAGCTGAAATGCCA
1 AAAAGCTGAAATGCCA
28912818 AAAAGCTGAAATGCC
1 AAAAGCTGAAATGCC
28912833 GAAATGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (16 bp):
AAAAGCTGAAATGCCA
Found at i:28923893 original size:35 final size:35
Alignment explanation
Indices: 28923854--28923977 Score: 169
Period size: 35 Copynumber: 3.6 Consensus size: 35
28923844 CATGAAAAAA
28923854 TTGTGAAACGTAGGTATGGTATTAACCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTAACCATACTGAG
*
28923889 TTGTGAAACGTAGGTATGGTATTATCCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTAACCATACTGAG
** * * *
28923924 TTAAGAAACGTAGGTATGGCATT-CCCATACCGAG
1 TTGTGAAACGTAGGTATGGTATTAACCATACTGAG
* *
28923958 TTGTAAAATGTAGGTATGGT
1 TTGTGAAACGTAGGTATGGT
28923978 TTTTTATATG
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
34 24 0.31
35 54 0.69
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (35 bp):
TTGTGAAACGTAGGTATGGTATTAACCATACTGAG
Found at i:28931307 original size:35 final size:35
Alignment explanation
Indices: 28931268--28931433 Score: 215
Period size: 35 Copynumber: 4.7 Consensus size: 35
28931258 ATCCATGGCG
* * *
28931268 GAGTTGTGAAACATATGTATGGTATCATCCATACT
1 GAGTTGTGAAACGTAGGTATGGTATTATCCATACT
*
28931303 GAGTTGTGAAACGTAGGTATGGTATTAACCATACT
1 GAGTTGTGAAACGTAGGTATGGTATTATCCATACT
*
28931338 GAGTTGTGAAATGTAGGTATGGTATTATCCATACT
1 GAGTTGTGAAACGTAGGTATGGTATTATCCATACT
** * * * *
28931373 GAGTTAAGAAACGTAAGTATGGCATTTTCCATACC
1 GAGTTGTGAAACGTAGGTATGGTATTATCCATACT
* *
28931408 GAGTTGTAAAATGTAGGTATGGTATT
1 GAGTTGTGAAACGTAGGTATGGTATT
28931434 TCAATGAGGA
Statistics
Matches: 112, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 112 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
GAGTTGTGAAACGTAGGTATGGTATTATCCATACT
Found at i:28937451 original size:13 final size:13
Alignment explanation
Indices: 28937433--28937457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28937423 ATAAAGAATA
28937433 AAATTAACTAACT
1 AAATTAACTAACT
28937446 AAATTAACTAAC
1 AAATTAACTAAC
28937458 GAATGCGTGA
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:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTAACTAACT
Found at i:28939431 original size:44 final size:42
Alignment explanation
Indices: 28939376--28939533 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
28939366 CGAGATGTGT
*
28939376 TTTCATGTAAGACCATGTCTAGGACGTTGACATCG-ACTTATGA
1 TTTCGTGTAAGACCATGTCTAGGACGTTGACATCGTA-TT-TGA
* * *
28939419 TTTACGTGTAAGACCATGTTTGGGACGTTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTCTAGGACGTTGACATCGTATTTGA
* * * **
28939462 TTTTGTGTAAGACCCTGTCT-GGCACAG-TGGCATTAATATTTGA
1 TTTCGTGTAAGACCATGTCTAGG-AC-GTTGACA-TCGTATTTGA
* * * *
28939505 TTGCATGTAAGACCACGTCTGGGACGTTG
1 TTTCGTGTAAGACCATGTCTAGGACGTTG
28939534 GCACTGTACG
Statistics
Matches: 94, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 22 0.23
43 37 0.39
44 32 0.34
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTAGGACGTTGACATCGTATTTGA
Found at i:28948905 original size:55 final size:55
Alignment explanation
Indices: 28948785--28948906 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
28948775 CTGCCAAAAC
* **
28948785 AACACAGGCATGCGACACGCCCGTGCCTTGAAACCGTGGCCAAACCTGTCAAATT
1 AACACAGGCGTGCGACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATT
** * * * * * * *
28948840 AACATGGGCGTGTGACACGTCCGTGCCAAGCAACCGTGGTCGAACCTGTTAGATT
1 AACACAGGCGTGCGACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATT
28948895 AACACAGGCGTG
1 AACACAGGCGTG
28948907 GGACTACATA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.18
Consensus pattern (55 bp):
AACACAGGCGTGCGACACGCCCGTGCCAAGAAACCGTGGCCAAACCTGTCAAATT
Found at i:28949288 original size:15 final size:15
Alignment explanation
Indices: 28949268--28949298 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
28949258 TTTCTAATGC
28949268 TTATTATCAAAATAA
1 TTATTATCAAAATAA
28949283 TTATTATCAAAATAA
1 TTATTATCAAAATAA
28949298 T
1 T
28949299 CTTCATTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
TTATTATCAAAATAA
Found at i:28949439 original size:23 final size:23
Alignment explanation
Indices: 28949413--28949459 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
28949403 CATTCTATTG
*
28949413 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* *
28949436 TCATTCCCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
28949459 T
1 T
28949460 AATGTCACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.34, G:0.09, T:0.34
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:28949447 original size:12 final size:12
Alignment explanation
Indices: 28949419--28949459 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
28949409 ATTGTCATAC
28949419 CCATGC-CATTA
1 CCATGCTCATTA
* *
28949430 CTATGCTCATTC
1 CCATGCTCATTA
28949442 CCATGCT-ATTA
1 CCATGCTCATTA
28949453 CCATGCT
1 CCATGCT
28949460 AATGTCACGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.22, C:0.34, G:0.10, T:0.34
Consensus pattern (12 bp):
CCATGCTCATTA
Found at i:28950829 original size:17 final size:17
Alignment explanation
Indices: 28950807--28950850 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
28950797 ATGATGATGA
*
28950807 TTAATTTTTTTTTAATT
1 TTAATTTTATTTTAATT
*
28950824 TTAATTTTATTTTCATT
1 TTAATTTTATTTTAATT
*
28950841 TTCATTTTAT
1 TTAATTTTAT
28950851 GTTTTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (17 bp):
TTAATTTTATTTTAATT
Found at i:28959991 original size:40 final size:40
Alignment explanation
Indices: 28959892--28960149 Score: 364
Period size: 40 Copynumber: 6.5 Consensus size: 40
28959882 TGGATGATAA
*
28959892 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
*
28959933 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
28959973 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
28960013 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
28960053 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
28960093 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
28960132 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
28960150 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
38 15 0.08
39 16 0.08
40 142 0.71
41 23 0.12
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:28970938 original size:22 final size:22
Alignment explanation
Indices: 28970903--28970944 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
28970893 TAAATATGTA
*
28970903 TAAATGATCTTTTGGTATGTTG
1 TAAATGATCTTTTGATATGTTG
28970925 TAAAGTGATC-TTTGATATGT
1 TAAA-TGATCTTTTGATATGT
28970945 GTTTATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.48
Consensus pattern (22 bp):
TAAATGATCTTTTGATATGTTG
Found at i:28973663 original size:107 final size:108
Alignment explanation
Indices: 28973541--28973754 Score: 394
Period size: 107 Copynumber: 2.0 Consensus size: 108
28973531 AAACAAAAAA
28973541 TTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCAAACAAA
1 TTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCAAACAAA
*
28973606 ATTGTATTAAATTTTTTGTTAATTACTCT-ATAAAATTTTTGC
66 ATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTGC
* *
28973648 TTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAAA
1 TTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCAAACAAA
28973713 ATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
66 ATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
28973755 ACGTGTTTTT
Statistics
Matches: 103, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 91 0.88
108 12 0.12
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (108 bp):
TTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCAAACAAA
ATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTGC
Found at i:28987081 original size:40 final size:40
Alignment explanation
Indices: 28987026--28987250 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
28987016 TATTCGGATG
*
28987026 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
28987066 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
28987109 ATA-CTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
28987149 ATTTTCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
28987189 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
28987229 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
28987251 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 14 0.09
40 108 0.68
41 1 0.01
42 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:28987180 original size:83 final size:80
Alignment explanation
Indices: 28987026--28987250 Score: 269
Period size: 83 Copynumber: 2.8 Consensus size: 80
28987016 TATTCGGATG
* *
28987026 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
28987091 TTTGTGCGAGTAGTTGCT
66 TGTGTGC--G-AGTTACT
* * * *
28987109 ATA-CTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTTCGGGCTAAGACCCGAAGGC
1 ATATC-CGGGATAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGC
28987173 ATGTGTGCGAGTTACT
65 ATGTGTGCGAGTTACT
* * *
28987189 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
28987251 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 42 0.34
81 4 0.03
82 1 0.01
83 63 0.50
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGATAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TGTGTGCGAGTTACT
Found at i:28989742 original size:2 final size:2
Alignment explanation
Indices: 28989737--28989771 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
28989727 TTCTTTGATT
28989737 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
28989772 TGTTTTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:28993148 original size:21 final size:21
Alignment explanation
Indices: 28993092--28993141 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
28993082 GCACGGTTTG
*
28993092 CTCACATGGCCATTTGACCCA
1 CTCACATGGCCATGTGACCCA
*
28993113 CTCACACGGCCATGTGACCCA
1 CTCACATGGCCATGTGACCCA
28993134 CTCACATG
1 CTCACATG
28993142 AACATGTAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (21 bp):
CTCACATGGCCATGTGACCCA
Found at i:28998549 original size:5 final size:5
Alignment explanation
Indices: 28998539--28998568 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
28998529 TCTACTTTTA
28998539 TTAAT TTAAT TTAAT TTAAT TTAAT ATTAA
1 TTAAT TTAAT TTAAT TTAAT TTAAT -TTAA
28998569 ACCTTGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTAAT
Found at i:29008264 original size:2 final size:2
Alignment explanation
Indices: 29008257--29008298 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
29008247 TACATGAATG
29008257 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29008299 AGCTTACAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29018097 original size:68 final size:68
Alignment explanation
Indices: 29018024--29018175 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 68
29018014 CATCATGTGT
* * * * *
29018024 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
29018087 TGTAG
64 TGTAG
* * *
29018092 ACAAGAGAGCTAC-AG-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
29018155 GTAG
65 GTAG
29018159 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
29018176 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 3 0.04
67 27 0.38
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:29023879 original size:30 final size:30
Alignment explanation
Indices: 29023845--29023905 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29023835 TCCTTAACTC
29023845 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
29023875 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
29023905 A
1 A
29023906 GCTCGGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:29026659 original size:78 final size:81
Alignment explanation
Indices: 29026539--29026720 Score: 248
Period size: 78 Copynumber: 2.3 Consensus size: 81
29026529 TACTCGTTCA
* *
29026539 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
29026602 ATTTAATAAC-TCGCAC
65 ATTTAATAACTTAGCAC
**
29026618 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
29026681 TTTAGTCACTTAGCAC
66 TTTAATAACTTAGCAC
*
29026697 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29026721 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.53
79 29 0.32
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAATAACTTAGCAC
Found at i:29026720 original size:40 final size:40
Alignment explanation
Indices: 29026537--29026720 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
29026527 GCTACTCGTT
*
29026537 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
29026577 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
29026617 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
29026655 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
29026696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29026721 CATCATTCGA
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 25 0.20
39 21 0.17
40 68 0.54
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29034784 original size:78 final size:80
Alignment explanation
Indices: 29034664--29034844 Score: 246
Period size: 78 Copynumber: 2.3 Consensus size: 80
29034654 TACTCGTTCA
* *
29034664 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
29034727 ATTTAGTAAC-TCGCAC
65 A-TTAGTAACTTAGCAC
**
29034743 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
29034806 TTAGTCACTTAGCAC
66 TTAGTAACTTAGCAC
*
29034821 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29034845 CATCATTCGA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
77 10 0.11
78 57 0.63
79 24 0.26
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTAGTAACTTAGCAC
Found at i:29034786 original size:39 final size:40
Alignment explanation
Indices: 29034662--29034844 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
29034652 GCTACTCGTT
* *
29034662 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
29034702 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
29034742 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
29034780 CAAATGCCTTC-GGATCTTAGTCCGG-ATTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAAC-TCGCA
29034820 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29034845 CATCATTCGA
Statistics
Matches: 128, Mismatches: 8, Indels: 14
0.85 0.05 0.09
Matches are distributed among these distances:
38 26 0.20
39 44 0.34
40 56 0.44
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:29040880 original size:25 final size:25
Alignment explanation
Indices: 29040850--29040897 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29040840 CTTATATATG
* * *
29040850 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29040875 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29040898 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29040966 original size:20 final size:20
Alignment explanation
Indices: 29040941--29040999 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
29040931 TAAATATGGT
29040941 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
29040961 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
29040981 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
29041000 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:29040981 original size:11 final size:11
Alignment explanation
Indices: 29040945--29040999 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29040935 TATGGTATGT
29040945 ATGATATGCAC
1 ATGATATGCAC
* *
29040956 ATGAAATG--T
1 ATGATATGCAC
29040965 ATGATATGCAC
1 ATGATATGCAC
*
29040976 ATGATATG--T
1 ATGATATGCAC
29040985 ATGATATGCAC
1 ATGATATGCAC
29040996 ATGA
1 ATGA
29041000 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29041077 original size:24 final size:24
Alignment explanation
Indices: 29041050--29041216 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
29041040 GAGGAAGTGA
29041050 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
29041074 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
29041098 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
29041122 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
29041145 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
29041169 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
29041193 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29041217 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 101 0.75
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:29041167 original size:71 final size:71
Alignment explanation
Indices: 29041050--29041217 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
29041040 GAGGAAGTGA
29041050 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
29041115 AGTTATC
65 AGTTATC
** *
29041122 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
29041187 GTTATT
66 GTTATC
*
29041193 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
29041218 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.61
72 35 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:29041443 original size:31 final size:31
Alignment explanation
Indices: 29041408--29041471 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
29041398 CGTTTACAGT
29041408 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
29041439 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29041470 AA
1 AA
29041472 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29049020 original size:25 final size:25
Alignment explanation
Indices: 29048992--29049039 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29048982 TTATACCATG
* * *
29048992 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29049017 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29049040 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29049108 original size:20 final size:20
Alignment explanation
Indices: 29049083--29049141 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
29049073 TAAATATGGT
29049083 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
29049103 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
29049123 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
29049142 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:29049123 original size:11 final size:11
Alignment explanation
Indices: 29049087--29049141 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29049077 TATGGTATGT
29049087 ATGATATGCAC
1 ATGATATGCAC
* *
29049098 ATGAAATG--T
1 ATGATATGCAC
29049107 ATGATATGCAC
1 ATGATATGCAC
*
29049118 ATGATATG--T
1 ATGATATGCAC
29049127 ATGATATGCAC
1 ATGATATGCAC
29049138 ATGA
1 ATGA
29049142 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29049219 original size:24 final size:24
Alignment explanation
Indices: 29049191--29049356 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
29049181 GAGGAAGTGA
29049191 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
29049215 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
29049239 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
29049263 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
29049286 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
29049310 GAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
29049333 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29049357 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
23 41 0.30
24 86 0.64
25 8 0.06
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:29049583 original size:31 final size:31
Alignment explanation
Indices: 29049548--29049611 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
29049538 CGTTTACAGT
29049548 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
29049579 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29049610 AA
1 AA
29049612 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:29054243 original size:31 final size:31
Alignment explanation
Indices: 29054205--29054296 Score: 89
Period size: 36 Copynumber: 2.8 Consensus size: 31
29054195 TACCAAAACA
29054205 AGTTACCAAAACGAGCCAAATTTTGGCAACG
1 AGTTACCAAAACGAGCCAAATTTTGGCAACG
* *
29054236 AGTTACCAAAACAATGGGTTGCTATAA--TTGGCAACG
1 AGTTACCAAAAC-----G-AGCCA-AATTTTGGCAACG
29054272 AGTTACCAAAACGAGCCAAATTTTG
1 AGTTACCAAAACGAGCCAAATTTTG
29054297 AATGAATTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
29 2 0.04
30 3 0.06
31 16 0.33
36 22 0.46
37 3 0.06
38 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (31 bp):
AGTTACCAAAACGAGCCAAATTTTGGCAACG
Found at i:29058275 original size:13 final size:13
Alignment explanation
Indices: 29058257--29058281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29058247 GCAAATGTTG
29058257 TCTTGATATATAA
1 TCTTGATATATAA
29058270 TCTTGATATATA
1 TCTTGATATATA
29058282 GTAGGCATAT
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
TCTTGATATATAA
Found at i:29072431 original size:23 final size:23
Alignment explanation
Indices: 29072405--29072451 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
29072395 CATTCTATTA
* *
29072405 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCAATTACCATGC
* *
29072428 TCATTCTCATGCAATTACCATGC
1 TCATACCCATGCAATTACCATGC
29072451 T
1 T
29072452 AATGTCACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.34
Consensus pattern (23 bp):
TCATACCCATGCAATTACCATGC
Found at i:29073806 original size:6 final size:6
Alignment explanation
Indices: 29073797--29073845 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
29073787 GATGATGATG
* * *
29073797 TTTAAT TTTATT TTTATT TTTATT TTTATT TTCATT TTATGTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TTTATT
29073846 AATTTCACCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:29082409 original size:23 final size:23
Alignment explanation
Indices: 29082383--29082446 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
29082373 CATTCTATTG
* *
29082383 TCATACCCATGCCATTACTATGC
1 TCATTCCCATGCCATTACTATGA
29082406 TCATTCCCATGCCATTACTATGA
1 TCATTCCCATGCCATTACTATGA
* *
29082429 TCATTCTCATGCTATTAC
1 TCATTCCCATGCCATTAC
29082447 CATACTAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.25, C:0.31, G:0.08, T:0.36
Consensus pattern (23 bp):
TCATTCCCATGCCATTACTATGA
Found at i:29083815 original size:6 final size:6
Alignment explanation
Indices: 29083801--29083904 Score: 82
Period size: 6 Copynumber: 17.0 Consensus size: 6
29083791 TGATGTTTAA
* * *
29083801 TTTAAT TTTATTT TTTATT TTTATT TTTATT TTTATT TTTATT TTTCTA
1 TTTATT TTTA-TT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * * * * * *
29083850 TTTCTA TTTCTT TTTCTA TTTCTT TTCATT TTTATT TTCATT TTATGTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT
29083899 TTTATT
1 TTTATT
29083905 AATTTTGCCT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
6 74 0.89
7 9 0.11
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:29083826 original size:18 final size:18
Alignment explanation
Indices: 29083806--29083904 Score: 71
Period size: 19 Copynumber: 5.4 Consensus size: 18
29083796 TTTAATTTAA
29083806 TTTTATTTTTTATTTT-TAT
1 TTTTA-TTTTTATTTTAT-T
29083825 TTTTATTTTTATTTTTATT
1 TTTTATTTTTA-TTTTATT
*
29083844 TTTCTATTTCTATTTCT-TT
1 TTT-TATTTTTATTT-TATT
* * *
29083863 TTCTATTTCT-TTTCA-T
1 TTTTATTTTTATTTTATT
*
29083879 TTTTATTTTCATTTTATGT
1 TTTTATTTTTATTTTAT-T
29083898 TTTTATT
1 TTTTATT
29083905 AATTTTGCCT
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
16 8 0.12
17 7 0.11
18 13 0.20
19 28 0.43
20 9 0.14
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (18 bp):
TTTTATTTTTATTTTATT
Found at i:29090878 original size:20 final size:21
Alignment explanation
Indices: 29090843--29090881 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
29090833 TAAGGGACAA
*
29090843 ATTGTTTGAGATTGATTGATG
1 ATTGTATGAGATTGATTGATG
29090864 ATTGTATGA-ATTGATTGA
1 ATTGTATGAGATTGATTGA
29090882 ATAAGTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (21 bp):
ATTGTATGAGATTGATTGATG
Found at i:29092177 original size:14 final size:14
Alignment explanation
Indices: 29092158--29092185 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29092148 ATTATCTCCT
29092158 AGACTATCCAGAAA
1 AGACTATCCAGAAA
29092172 AGACTATCCAGAAA
1 AGACTATCCAGAAA
29092186 TATGAGTGGT
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:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
AGACTATCCAGAAA
Found at i:29102159 original size:7 final size:7
Alignment explanation
Indices: 29102147--29102210 Score: 110
Period size: 7 Copynumber: 9.0 Consensus size: 7
29102137 TAAGAATAAG
29102147 GGGTTTA
1 GGGTTTA
29102154 GGGTTTA
1 GGGTTTA
29102161 GGGTTTA
1 GGGTTTA
29102168 GGGTTTA
1 GGGTTTA
29102175 GGGTTTA
1 GGGTTTA
29102182 GGGTTTA
1 GGGTTTA
*
29102189 GGTTTTA
1 GGGTTTA
29102196 GGGTTTTA
1 GGG-TTTA
29102204 GGGTTTA
1 GGGTTTA
29102211 AAACATTAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
7 47 0.87
8 7 0.13
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (7 bp):
GGGTTTA
Found at i:29112953 original size:40 final size:40
Alignment explanation
Indices: 29112897--29112976 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
29112887 AGACTCAAAA
29112897 GAATCAGAATAAGAAGTATCTGACTCATAAGTTTTATATG
1 GAATCAGAATAAGAAGTATCTGACTCATAAGTTTTATATG
*
29112937 GAATCAGAATATGAAGTATCTGACTCATAAGTTTTATATG
1 GAATCAGAATAAGAAGTATCTGACTCATAAGTTTTATATG
29112977 AACTATCATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (40 bp):
GAATCAGAATAAGAAGTATCTGACTCATAAGTTTTATATG
Found at i:29119122 original size:42 final size:42
Alignment explanation
Indices: 29119075--29119158 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
29119065 AAATATTGGG
*
29119075 GTGAATGCAATTTGTTGATCTCTGTTGTTACTATACTAGATC
1 GTGAATGCAATTTGTTGATCTCTATTGTTACTATACTAGATC
29119117 GTGAATGCAATTTGTTGATCTCTATTGTTACTATACTAGATC
1 GTGAATGCAATTTGTTGATCTCTATTGTTACTATACTAGATC
29119159 CTAGAAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (42 bp):
GTGAATGCAATTTGTTGATCTCTATTGTTACTATACTAGATC
Found at i:29122053 original size:22 final size:22
Alignment explanation
Indices: 29122025--29122070 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
29122015 GAGTTTCCCA
29122025 TGGTTTATACTCAAATAAAACT
1 TGGTTTATACTCAAATAAAACT
29122047 TGGTTTATACTCAAATAAAACT
1 TGGTTTATACTCAAATAAAACT
29122069 TG
1 TG
29122071 AACATACAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (22 bp):
TGGTTTATACTCAAATAAAACT
Found at i:29122342 original size:14 final size:14
Alignment explanation
Indices: 29122325--29122432 Score: 83
Period size: 14 Copynumber: 7.7 Consensus size: 14
29122315 GCAAATGTGA
*
29122325 ATTCATAGATATGC
1 ATTCATAGATATGG
***
29122339 ATTCATAGATACAT
1 ATTCATAGATATGG
***
29122353 ATTCATAGATGCAG
1 ATTCATAGATATGG
*
29122367 ATTCATAGGT-TAGG
1 ATTCATAGATAT-GG
***
29122381 ATTCATAGATACAT
1 ATTCATAGATATGG
*
29122395 ATTCATAAATATGG
1 ATTCATAGATATGG
29122409 ATTCATAGATATGG
1 ATTCATAGATATGG
*
29122423 ACTCATAGAT
1 ATTCATAGAT
29122433 GCAGATTTAT
Statistics
Matches: 74, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
14 74 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (14 bp):
ATTCATAGATATGG
Found at i:29122372 original size:42 final size:42
Alignment explanation
Indices: 29122325--29122432 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
29122315 GCAAATGTGA
* * *
29122325 ATTCATAGATATGCATTCATAGATACATATTCATAGATGCAG
1 ATTCATAGATATGGATTCATAGATACATATTCATAAATACAG
* **
29122367 ATTCATAGGT-TAGGATTCATAGATACATATTCATAAATATGG
1 ATTCATAGATAT-GGATTCATAGATACATATTCATAAATACAG
*
29122409 ATTCATAGATATGGACTCATAGAT
1 ATTCATAGATATGGATTCATAGAT
29122433 GCAGATTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 54 0.96
43 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (42 bp):
ATTCATAGATATGGATTCATAGATACATATTCATAAATACAG
Found at i:29122559 original size:2 final size:2
Alignment explanation
Indices: 29122552--29122598 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
29122542 TATGACTTGC
29122552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29122594 AT AT A
1 AT AT A
29122599 CACGTAAGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29124285 original size:50 final size:50
Alignment explanation
Indices: 29124231--29124330 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
29124221 CGTTTGATGA
*
29124231 ATCTCGGGCTTAGCTTGCCCTTCAGCTCAAAATGAGTAATTCTTTTCCAT
1 ATCTCGGGCTTAGCTTGCCCTTCAGCACAAAATGAGTAATTCTTTTCCAT
29124281 ATCTCGGGCTTAGCTTGCCCTTCAGCACAAAATGAGTAATTCTTTTCCAT
1 ATCTCGGGCTTAGCTTGCCCTTCAGCACAAAATGAGTAATTCTTTTCCAT
29124331 GATGAGACCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (50 bp):
ATCTCGGGCTTAGCTTGCCCTTCAGCACAAAATGAGTAATTCTTTTCCAT
Found at i:29128958 original size:46 final size:46
Alignment explanation
Indices: 29128847--29129210 Score: 314
Period size: 46 Copynumber: 7.8 Consensus size: 46
29128837 ACATTATGAG
*
29128847 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAG--ATGA
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACAT-A
* * * * *
29128894 GTGCTAGTGTAAGACATGTTTGGGACATGCATTGGCCTTGAGACATA
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATA
* *
29128941 AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGAT-
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA-CATA
* *
29128987 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGT-
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAC-A-TA
*
29129036 -GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATA
* * * *
29129081 AGCCAGTGGAAGACATGTCTGGTACATGCATC-GACTACGAGATGAT-
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA-CATA
* * * * *
29129127 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-GAGATATG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACATA
* * *
29129174 ATCTAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
29129211 ACCTTACCCG
Statistics
Matches: 262, Mismatches: 37, Indels: 35
0.78 0.11 0.10
Matches are distributed among these distances:
44 1 0.00
45 6 0.02
46 117 0.45
47 95 0.36
48 40 0.15
49 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATA
Found at i:29129060 original size:140 final size:139
Alignment explanation
Indices: 29128808--29129210 Score: 576
Period size: 140 Copynumber: 2.9 Consensus size: 139
29128798 GTGGGCTAGG
* * * * ** * *
29128808 GTAAGACGTGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAGTCAGTGTAAGACCATGTCTGGGAC
* * *
29128873 ATGGCATCGGCATCGAGATGAGTGCTAGTGTAAGACATGTTTGGGACATGCATTGGCCTTGAGAC
66 ATGGCATCGGCATCGAGA-GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
29128938 ATAAGCCAGT
130 ATAAGCCAGT
29128948 GTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAGTCAGTGTAAGACCATGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAGTCAGTGTAAGACCATGTCTGGGAC
29129013 ATGGCATCGGCATCGAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
66 ATGGCATCGGCATCGAGA-GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
29129078 ATAAGCCAGT
130 ATAAGCCAGT
* * * *
29129088 GGAAGACATGTCTGGTACATGCATCGACTACGAGATGATAGTCAGTGTAAGACCATGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAGTCAGTGTAAGACCATGTCTGGGAC
* * *
29129153 ATGGCATCGACAT-GAGATA-TGATCTAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
66 ATGGCATCGGCATCGAGAGAGTG--CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
29129211 ACCTTACCCG
Statistics
Matches: 240, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
137 2 0.01
138 1 0.00
139 15 0.06
140 214 0.89
141 8 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (139 bp):
GTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAGTCAGTGTAAGACCATGTCTGGGAC
ATGGCATCGGCATCGAGAGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACA
TAAGCCAGT
Found at i:29131336 original size:46 final size:47
Alignment explanation
Indices: 29131286--29131413 Score: 127
Period size: 46 Copynumber: 2.7 Consensus size: 47
29131276 CATCTTGTAT
*
29131286 TTGATGCATGTCCTA-ACCATGTCTTACACTGGCTT-ACGTCTCGAGG
1 TTGATGCATGTCCTAGA-CATGTCTTACACTGGCTTCACGTCTCAAGG
* * * * * * *
29131332 TTGATGCACGTCCCATACATGTCTTACACTAG-TTCTCTTCTCAATG
1 TTGATGCATGTCCTAGACATGTCTTACACTGGCTTCACGTCTCAAGG
*
29131378 TCGATGCCATGTCCTAGACATGGTCTTACACTGGCT
1 TTGATG-CATGTCCTAGACAT-GTCTTACACTGGCT
29131414 CTCATAATGT
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
45 2 0.03
46 39 0.60
47 12 0.18
48 11 0.17
49 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (47 bp):
TTGATGCATGTCCTAGACATGTCTTACACTGGCTTCACGTCTCAAGG
Found at i:29134907 original size:48 final size:48
Alignment explanation
Indices: 29134832--29135170 Score: 547
Period size: 48 Copynumber: 7.0 Consensus size: 48
29134822 CAAGATAAAT
29134832 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29134880 ATATGTATATGTGGTAAAGCCGGATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
29134928 ATATGTATATGTGGTAAAGTCAAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
29134978 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29135026 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATA-ATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29135073 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29135121 ATATG-ATTATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTA-TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
29135169 AT
1 AT
29135171 GTGTGTATAT
Statistics
Matches: 271, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 45 0.17
48 180 0.66
49 4 0.01
50 42 0.15
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:29135013 original size:98 final size:96
Alignment explanation
Indices: 29134832--29135170 Score: 556
Period size: 95 Copynumber: 3.5 Consensus size: 96
29134822 CAAGATAAAT
*
29134832 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
* *
29134897 AGCCGGATGGCTAATGTGAAATATGTATGAG
66 AGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
29134928 ATATGTATATGTGGTAAAGTCAAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAGATATGTATATGTGGT
29134993 AAAGCCGAATGGCTAGTGTGAAATATGTATGAG
64 AAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29135026 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATA-ATATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
29135090 AGCCGAATGGCTAGTGTGAAATATGTATGAG
66 AGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
29135121 ATATG-ATTATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 ATATGTA-TATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
29135171 GTGTGTATAT
Statistics
Matches: 229, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
94 1 0.00
95 91 0.40
96 43 0.19
97 4 0.02
98 90 0.39
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (96 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:29135361 original size:37 final size:37
Alignment explanation
Indices: 29135311--29135401 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
29135301 GGAAATATAT
29135311 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
29135348 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
29135385 TCCGGGTAAGACCCGAT
1 TCCGGGTAAGACCCGAT
29135402 AACTTTTGTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:29137658 original size:40 final size:39
Alignment explanation
Indices: 29137588--29137803 Score: 249
Period size: 40 Copynumber: 5.5 Consensus size: 39
29137578 AAACCAAGTA
* * * *
29137588 CCTTTGGGATTTAGCCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGATATAG-TAACTCGCACAAATG
* *
29137627 TCTTCGGGACTTAGCCCGATTATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGA-TATAGTAACTCGCACAAATG
* *
29137667 CCTTTGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
*
29137707 CCTTCGGGACTTAGCTCGGATATAGTAACTC-CACAAATG
1 CCTTCGGGACTTAGC-CCGATATAGTAACTCGCACAAATG
* * *
29137746 CCTTTGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-GATA-TAGTAACTCGCACAAATG
29137786 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
29137804 GTTATCATCC
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 48 0.32
40 99 0.65
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATG
Found at i:29137752 original size:79 final size:79
Alignment explanation
Indices: 29137588--29137808 Score: 288
Period size: 79 Copynumber: 2.8 Consensus size: 79
29137578 AAACCAAGTA
* * *
29137588 CCTTTGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGTCTTCGGGACTTAGCCCGATTATAG
1 CCTTTGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAG
*
29137652 TAACTCGGACAAATG
65 TAACTCGCACAAATG
* *
29137667 CCTTTGGGACCTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCTCGGA-TATA
1 CCTTTGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC-CCGATTATA
29137731 GTAACTC-CACAAATG
64 GTAACTCGCACAAATG
* * *
29137746 CCTTTGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTTGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTAT
29137809 CATCCGGATA
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 3 0.02
79 72 0.58
80 47 0.38
81 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (79 bp):
CCTTTGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGT
AACTCGCACAAATG
Found at i:29144140 original size:40 final size:39
Alignment explanation
Indices: 29143972--29144142 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
29143962 AGAAATTGAA
* *
29143972 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
29144012 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
29144052 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
29144092 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
29144132 TGATATCCGGG
1 TGATATCCGGG
29144143 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:29151359 original size:39 final size:40
Alignment explanation
Indices: 29151301--29151401 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
29151291 AAATTGAATG
* *
29151301 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
29151340 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
29151380 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
29151402 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:29151394 original size:40 final size:40
Alignment explanation
Indices: 29151301--29151451 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
29151291 AAATTGAATG
* * * * *
29151301 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
29151340 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
29151380 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
29151420 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
29151452 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:29151466 original size:40 final size:38
Alignment explanation
Indices: 29151297--29151468 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
29151287 TGAGAAATTG
* *
29151297 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
29151336 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
29151373 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
29151413 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
29151453 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
29151469 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:29156404 original size:40 final size:40
Alignment explanation
Indices: 29156291--29156505 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
29156281 AAACCAAGTA
* *
29156291 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
29156330 CCTTCGGGACTTAG-CCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29156369 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29156409 CCTTCGGGACTTAGCCCGGATATAGTAACT--CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
29156447 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
29156487 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
29156506 TTATCATCCG
Statistics
Matches: 163, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
37 1 0.01
38 35 0.21
39 48 0.29
40 79 0.48
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:29156451 original size:78 final size:78
Alignment explanation
Indices: 29156291--29156505 Score: 303
Period size: 78 Copynumber: 2.7 Consensus size: 78
29156281 AAACCAAGTA
* * *
29156291 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAG-CCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
29156354 TAACTCGCACAAATG
65 TAACTC-CACAAATG
29156369 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
29156434 TAACT-CACAAATG
65 TAACTCCACAAATG
* * *
29156447 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
29156506 TTATCATCCG
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
77 1 0.01
78 75 0.60
79 36 0.29
80 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCCACAAATG
Found at i:29164093 original size:40 final size:40
Alignment explanation
Indices: 29164045--29164346 Score: 451
Period size: 40 Copynumber: 7.5 Consensus size: 40
29164035 AGTTATATAG
* *
29164045 CCGGGCTAAGTCCCGGAGAGCATTCGTGCTAGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
29164085 CTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
29164125 CTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* *
29164165 CCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
29164205 CCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* * * * * *
29164245 CCGGGCTAAGTCTCGGAGAGCATTCGTGTTAGAGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* * *
29164285 CAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
29164325 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
29164347 ATCATACTGG
Statistics
Matches: 238, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 238 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
Found at i:29164572 original size:25 final size:25
Alignment explanation
Indices: 29164522--29164572 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
29164512 TGTGTAACAA
* *
29164522 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
29164547 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
29164572 C
1 C
29164573 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:29167284 original size:48 final size:48
Alignment explanation
Indices: 29167213--29167565 Score: 472
Period size: 48 Copynumber: 7.0 Consensus size: 48
29167203 CAAGATAAAT
*
29167213 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
29167261 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29167309 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
29167357 ATATGTATATGTGGTAAAGCCGAATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATG-GCTAATG-TGAA-----A-TATG---TATG----AG
* *
29167420 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29167468 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29167516 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
29167564 AT
1 AT
29167566 GTGTGTATAT
Statistics
Matches: 275, Mismatches: 15, Indels: 30
0.86 0.05 0.09
Matches are distributed among these distances:
48 218 0.79
49 5 0.02
50 3 0.01
52 4 0.01
55 3 0.01
56 4 0.01
59 3 0.01
61 3 0.01
62 4 0.01
63 28 0.10
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:29167385 original size:15 final size:15
Alignment explanation
Indices: 29167365--29167397 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
29167355 AGATATGTAT
29167365 ATGTGGTAAAGCCGA
1 ATGTGGTAAAGCCGA
29167380 ATGTGGTAAAGCCGA
1 ATGTGGTAAAGCCGA
29167395 ATG
1 ATG
29167398 GCTAGTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (15 bp):
ATGTGGTAAAGCCGA
Found at i:29167393 original size:63 final size:63
Alignment explanation
Indices: 29167317--29167445 Score: 240
Period size: 63 Copynumber: 2.0 Consensus size: 63
29167307 AGATATGTAT
29167317 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATGTATATGTGGTAAAGCCGA
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATGTATATGTGGTAAAGCCGA
* *
29167380 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATGTATATGTGGTAAAGCCGA
29167443 ATG
1 ATG
29167446 GCTAGTGTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (63 bp):
ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATGTATATGTGGTAAAGCCGA
Found at i:29167470 original size:111 final size:111
Alignment explanation
Indices: 29167269--29167493 Score: 414
Period size: 111 Copynumber: 2.0 Consensus size: 111
29167259 AGATATGTAT
29167269 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
*
29167334 GGCTAATGTGAAATATGTATAAGATATGTATATGTGGTAAAGCCGA
66 GGCTAATGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGA
*
29167380 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
* *
29167445 GGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
66 GGCTAATGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGA
29167491 ATG
1 ATG
29167494 GCTAGTGTGA
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (111 bp):
ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
GGCTAATGTGAAATATATATAAGATATGTATATGTGGTAAAGCCGA
Found at i:29167510 original size:159 final size:159
Alignment explanation
Indices: 29167221--29167541 Score: 588
Period size: 159 Copynumber: 2.0 Consensus size: 159
29167211 ATATATGTAT
29167221 ATGTGGTAAAGCCGAATGGCTAATGTGAAATACGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATACGTATGAGATATGTATATGTGGTAAAGCCGAAT
*
29167286 GGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
66 GGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
29167351 TATAAGATATGTATATGTGGTAAAGCCGA
131 TATAAGATATGTATATGTGGTAAAGCCGA
* *
29167380 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATACGTATGAGATATGTATATGTGGTAAAGCCGAAT
* *
29167445 GGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
66 GGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
29167510 TATGAGATATGTATATGTGGTAAAGCCGA
131 TATAAGATATGTATATGTGGTAAAGCCGA
29167539 ATG
1 ATG
29167542 GCTAGTGTGA
Statistics
Matches: 156, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
159 156 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (159 bp):
ATGTGGTAAAGCCGAATGGCTAATGTGAAATACGTATGAGATATGTATATGTGGTAAAGCCGAAT
GGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
TATAAGATATGTATATGTGGTAAAGCCGA
Found at i:29167765 original size:37 final size:37
Alignment explanation
Indices: 29167706--29167800 Score: 154
Period size: 37 Copynumber: 2.6 Consensus size: 37
29167696 GGAAATATAT
29167706 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* * *
29167743 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
29167780 TCTGGGTAAGACCCGATAACT
1 TCCGGGTAAGACCCGATAACT
29167801 TTTGTGGGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:29176764 original size:18 final size:18
Alignment explanation
Indices: 29176733--29176767 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29176723 AATAGATCAG
*
29176733 AAGAGTAAGAAAGTGAAA
1 AAGAGGAAGAAAGTGAAA
*
29176751 AAGAGGAAGGAAGTGAA
1 AAGAGGAAGAAAGTGAA
29176768 GACTAGGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.34, T:0.09
Consensus pattern (18 bp):
AAGAGGAAGAAAGTGAAA
Found at i:29182401 original size:48 final size:48
Alignment explanation
Indices: 29182291--29182437 Score: 177
Period size: 48 Copynumber: 3.1 Consensus size: 48
29182281 GGCTATCGGT
* *
29182291 ATCGATATGTGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGC
1 ATCGATATGTGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGC
** ** *
29182339 ATCGACCTACGATCCTACGTAAGACCATGTCTGGGACATGGCATTGGC
1 ATCGATATGTGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGC
* * ** * *
29182387 ATCGATATGTGATCCCACATAAGACCATATCCAGGATATGGTATTGGC
1 ATCGATATGTGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGC
29182435 ATC
1 ATC
29182438 CTACCATGTG
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (48 bp):
ATCGATATGTGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGC
Found at i:29183346 original size:34 final size:34
Alignment explanation
Indices: 29183302--29183374 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
29183292 ATGTAAGTTT
*
29183302 AAGTGCTCAATTATGCCATGTTTAATTGCCTTTG
1 AAGTTCTCAATTATGCCATGTTTAATTGCCTTTG
29183336 AAGTTCTCAATTATGCCATGTTTAATTGCCTTTG
1 AAGTTCTCAATTATGCCATGTTTAATTGCCTTTG
29183370 AAGTT
1 AAGTT
29183375 ATGTATGTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (34 bp):
AAGTTCTCAATTATGCCATGTTTAATTGCCTTTG
Found at i:29186191 original size:18 final size:19
Alignment explanation
Indices: 29186152--29186204 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
29186142 GAGTGCCGAA
29186152 TTCTTCCTTCTTTTCTCCT
1 TTCTTCCTTCTTTTCTCCT
*
29186171 TTCTT-CTTCTATTT-TCTT
1 TTCTTCCTTCT-TTTCTCCT
* *
29186189 TTCCTACTTCTTTTCT
1 TTCTTCCTTCTTTTCT
29186205 TCTCTAGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (19 bp):
TTCTTCCTTCTTTTCTCCT
Found at i:29187764 original size:28 final size:27
Alignment explanation
Indices: 29187732--29187833 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
29187722 ACTTGTAATA
29187732 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
* *
29187760 GGGCTAGGCCCAATATACTCTGATACTG-TAAG
1 GGGCTAGGCCC---AGA-T-TGATACTGAT-AT
* *
29187792 GGGCTATGGCCCAGATTGTTATTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
29187820 GGGCTAAGGCCCAG
1 GGGCT-AGGCCCAG
29187834 TTAACTCTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
27 5 0.08
28 25 0.42
29 3 0.05
30 4 0.07
31 2 0.03
32 15 0.25
33 5 0.08
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTGATACTGATAT
Found at i:29187772 original size:60 final size:59
Alignment explanation
Indices: 29187696--29187832 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 59
29187686 AACTGTGTTA
*
29187696 ATATGGGCAAGGCCCAATATA-TCTTGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTC-TGA-TATGTAA-AGGGCTACGGCCCAGATTGATACTG
* * * *
29187756 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTGTTATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTGATACTG
29187816 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
29187833 GTTAACTCTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.01
60 53 0.78
61 14 0.21
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTGATACTG
Done.