Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 279 of 362
Found at i:94299280 original size:24 final size:24
Alignment explanation
Indices: 94299226--94299288 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
94299216 GAGACATGGT
* *
94299226 CGGTAAGCTCT-TCATAAGCTAATAA
1 CGGTAAGCTCTAT--TAAACTAAAAA
*
94299251 CAGTAAGCTCTATTAAACTAAAAA
1 CGGTAAGCTCTATTAAACTAAAAA
94299275 CGGTAAGCTCTATT
1 CGGTAAGCTCTATT
94299289 GAGCTGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 22 0.67
25 10 0.30
26 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (24 bp):
CGGTAAGCTCTATTAAACTAAAAA
Found at i:94299337 original size:23 final size:23
Alignment explanation
Indices: 94299277--94299375 Score: 105
Period size: 23 Copynumber: 4.3 Consensus size: 23
94299267 ACTAAAAACG
* *
94299277 GTAAGCTCTATTGAGCTGAAT-A
1 GTAAGCTCCAATGAGCTGAATCA
* **
94299299 GTAATCT-CTTTCGAGCTGAATCA
1 GTAAGCTCCAAT-GAGCTGAATCA
94299322 GTAAGCTCCAATGAGCTGAATCA
1 GTAAGCTCCAATGAGCTGAATCA
*
94299345 GT-AGACTCCAATGAGCTGAAACA
1 GTAAG-CTCCAATGAGCTGAATCA
94299368 GTAAGCTC
1 GTAAGCTC
94299376 TTACGAGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.03
22 17 0.26
23 42 0.65
24 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (23 bp):
GTAAGCTCCAATGAGCTGAATCA
Found at i:94304384 original size:586 final size:586
Alignment explanation
Indices: 94303272--94304446 Score: 2260
Period size: 586 Copynumber: 2.0 Consensus size: 586
94303262 AAAAAGCTAT
94303272 CAAAATATACCAAATGAAAATCATCCTAAGCATCTAACCAATATGCCACGATTAGCACCACAATT
1 CAAAATATACCAAATGAAAATCATCCTAAGCATCTAACCAATATGCCACGATTAGCACCACAATT
94303337 CAAGCATATTGCTGTTAGCATTCAATACCATTCATACCATAAATCAATACCAAATCAATCACATT
66 CAAGCATATTGCTGTTAGCATTCAATACCATTCATACCATAAATCAATACCAAATCAATCACATT
* *
94303402 ATATCTTTTATTCCATGGCTATCATAATACCAACCAAAGTTCACTAAGTTACCTAAAACATATAT
131 ATATCTTTTATTCCACGGCAATCATAATACCAACCAAAGTTCACTAAGTTACCTAAAACATATAT
*
94303467 ACAGATTCAACAATCCAAAATGCATTTAGGTACCGAAACACATCTATGTCATCACACACCACAAC
196 ACAGATTCAACAATCCAAAATGCATTTAGGTACCAAAACACATCTATGTCATCACACACCACAAC
94303532 CAACCAAAATAACCATTAAAGATTTACATCTAATTACATATCTCTTTCTCAAATGGAACAAAACA
261 CAACCAAAATAACCATTAAAGATTTACATCTAATTACATATCTCTTTCTCAAATGGAACAAAACA
94303597 TGACTAAAGTGCTTATAAACATACATAGATAATGCCCTATTTACATGCCACTTATAACCGGGCCA
326 TGACTAAAGTGCTTATAAACATACATAGATAATGCCCTATTTACATGCCACTTATAACCGGGCCA
94303662 AAATAAGTGAATAGCTACAAAATGTATTGACGGATAGTGTGATCTCCAATGATGGTCCAATCGAT
391 AAATAAGTGAATAGCTACAAAATGTATTGACGGATAGTGTGATCTCCAATGATGGTCCAATCGAT
94303727 AGTTCAAATCTGACAATCTACAAGGAAATAAAACAAAACGAGGTAAGCTTTCTTAAAGCTTAGTA
456 AGTTCAAATCTGACAATCTACAAGGAAATAAAACAAAACGAGGTAAGCTTTCTTAAAGCTTAGTA
94303792 AGTTTGTAAAAATTAAACATTACATACCTATCATTTAAAGCATTAATCTAATTTAACATATAGCA
521 AGTTTGTAAAAATTAAACATTACATACCTATCATTTAAAGCATTAATCTAATTTAACATATAGCA
94303857 A
586 A
* *
94303858 CAAAATATACCAAATGAAAATCATCCTAAGCGTCTAACCAATATGCCACGATTGGCACCACAATT
1 CAAAATATACCAAATGAAAATCATCCTAAGCATCTAACCAATATGCCACGATTAGCACCACAATT
94303923 CAAGCATATTGCTGTTAGCATTCAATACCATTCATACCATAAATCAATACCAAATCAATCACATT
66 CAAGCATATTGCTGTTAGCATTCAATACCATTCATACCATAAATCAATACCAAATCAATCACATT
94303988 ATATCTTTTATTCCACGGCAATCATAATACCAACCAAAGTTCACTAAGTTACCTAAAACATATAT
131 ATATCTTTTATTCCACGGCAATCATAATACCAACCAAAGTTCACTAAGTTACCTAAAACATATAT
94304053 ACAGATTCAACAATCCAAAATGCATTTAGGTACCAAAACACATCTATGTCATCACACACCACAAC
196 ACAGATTCAACAATCCAAAATGCATTTAGGTACCAAAACACATCTATGTCATCACACACCACAAC
*
94304118 CAACCAAAATAACCATTAAAGATTTACATCTAATTACATATCTCTTTCTCAAATGGAACAAATCA
261 CAACCAAAATAACCATTAAAGATTTACATCTAATTACATATCTCTTTCTCAAATGGAACAAAACA
* *
94304183 TGACTAAAGTGCTTATAAACATACATAGCTAATGCCCTATTTACATGCCACTTATAACTGGGCCA
326 TGACTAAAGTGCTTATAAACATACATAGATAATGCCCTATTTACATGCCACTTATAACCGGGCCA
*
94304248 AAATAAGTGAATAGCTACAAAATGTATTGACGGATAGTGTGATCTCCAATGATGGTCCAATTGAT
391 AAATAAGTGAATAGCTACAAAATGTATTGACGGATAGTGTGATCTCCAATGATGGTCCAATCGAT
*
94304313 AGTTCAAATCTGACAATCTACAAGGAAATCAAACAAAACGAGGTAAGCTTTCTTAAAGCTTAGTA
456 AGTTCAAATCTGACAATCTACAAGGAAATAAAACAAAACGAGGTAAGCTTTCTTAAAGCTTAGTA
94304378 AGTTTGTAAAAATTAAACATTACATACCTATCATTTAAAGCATTAATCTAATTTAACATATAGCA
521 AGTTTGTAAAAATTAAACATTACATACCTATCATTTAAAGCATTAATCTAATTTAACATATAGCA
94304443 A
586 A
94304444 CAA
1 CAA
94304447 TTCTTTCCAT
Statistics
Matches: 579, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
586 579 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.27
Consensus pattern (586 bp):
CAAAATATACCAAATGAAAATCATCCTAAGCATCTAACCAATATGCCACGATTAGCACCACAATT
CAAGCATATTGCTGTTAGCATTCAATACCATTCATACCATAAATCAATACCAAATCAATCACATT
ATATCTTTTATTCCACGGCAATCATAATACCAACCAAAGTTCACTAAGTTACCTAAAACATATAT
ACAGATTCAACAATCCAAAATGCATTTAGGTACCAAAACACATCTATGTCATCACACACCACAAC
CAACCAAAATAACCATTAAAGATTTACATCTAATTACATATCTCTTTCTCAAATGGAACAAAACA
TGACTAAAGTGCTTATAAACATACATAGATAATGCCCTATTTACATGCCACTTATAACCGGGCCA
AAATAAGTGAATAGCTACAAAATGTATTGACGGATAGTGTGATCTCCAATGATGGTCCAATCGAT
AGTTCAAATCTGACAATCTACAAGGAAATAAAACAAAACGAGGTAAGCTTTCTTAAAGCTTAGTA
AGTTTGTAAAAATTAAACATTACATACCTATCATTTAAAGCATTAATCTAATTTAACATATAGCA
A
Found at i:94309102 original size:96 final size:96
Alignment explanation
Indices: 94308938--94309118 Score: 335
Period size: 96 Copynumber: 1.9 Consensus size: 96
94308928 GAAAACTAAC
* *
94308938 ATAAAATCAAGAAAAATAGAACACATAATACTATGTGCAACCTCACATTTAGACTACACATTTTC
1 ATAAAAGCAAGAAAAATAGAACACATAATACTATGTGCAACCTCACACTTAGACTACACATTTTC
94309003 CCCAATGTGTCCCAAGAAAATAAAAATAAAA
66 CCCAATGTGTCCCAAGAAAATAAAAATAAAA
*
94309034 ATAAAAGCAAGAAAAATAGAACACATAATACTATGTGCACCCTCACACTTAGACTACACATTTTC
1 ATAAAAGCAAGAAAAATAGAACACATAATACTATGTGCAACCTCACACTTAGACTACACATTTTC
94309099 CCCAATGTGTCCCAAGAAAA
66 CCCAATGTGTCCCAAGAAAA
94309119 AAGATCGGAG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.22
Consensus pattern (96 bp):
ATAAAAGCAAGAAAAATAGAACACATAATACTATGTGCAACCTCACACTTAGACTACACATTTTC
CCCAATGTGTCCCAAGAAAATAAAAATAAAA
Found at i:94314705 original size:58 final size:59
Alignment explanation
Indices: 94314633--94314745 Score: 194
Period size: 58 Copynumber: 1.9 Consensus size: 59
94314623 TATGACACCC
*
94314633 TGTTAGAGGGGTCTAGATCTCAA-ATTTAGGGGAGAAGAGATTTTTGTTTAAGTTTACCA
1 TGTTAGAGGGGTCTAGATCT-AAGATCTAGGGGAGAAGAGATTTTTGTTTAAGTTTACCA
94314692 TGTT-GAGGGGTCTAGATCTAAGATCTAGGGGAGAAGAGATTTTTGTTTAAGTTT
1 TGTTAGAGGGGTCTAGATCTAAGATCTAGGGGAGAAGAGATTTTTGTTTAAGTTT
94314746 TCTCATAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
57 2 0.04
58 46 0.88
59 4 0.08
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.36
Consensus pattern (59 bp):
TGTTAGAGGGGTCTAGATCTAAGATCTAGGGGAGAAGAGATTTTTGTTTAAGTTTACCA
Found at i:94321237 original size:39 final size:39
Alignment explanation
Indices: 94321191--94321367 Score: 257
Period size: 39 Copynumber: 4.6 Consensus size: 39
94321181 GCTCTGATGA
*
94321191 GCTTCAGTTAGCCTTCGGGCTTCCGATTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
94321230 GCTTCAGTTAGCCTTCGGGATTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
94321269 GCTTCAGCTAGCCTTCAGGCTTCTGTTTAGCACTTAT-T
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
94321307 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
94321346 GCTTCAGCTAGACTTTGGGCTT
1 GCTTCAGTTAGCCTTCGGGCTT
94321368 TAAATCATGA
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 34 0.28
39 87 0.72
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:94321367 original size:77 final size:78
Alignment explanation
Indices: 94321191--94321367 Score: 266
Period size: 77 Copynumber: 2.3 Consensus size: 78
94321181 GCTCTGATGA
* *
94321191 GCTTCAGTTAGCCTTCGGGCTTCCGATTAGCACTTATGTGCTTCAGTTAGCCTTCGGGATTTCGT
1 GCTTCAGCTAGCCTTCGGGCTTCCGATTAGCACTTATGTGCTTCAGTTAGCCTTCGGGATTCCGT
94321256 TTAGCACTTATGT
66 TTAGCACTTATGT
* * * * *
94321269 GCTTCAGCTAGCCTTCAGGCTTCTGTTTAGCACTTAT-TGCTTTAGTTAGCCTTCGGGCTTCCGT
1 GCTTCAGCTAGCCTTCGGGCTTCCGATTAGCACTTATGTGCTTCAGTTAGCCTTCGGGATTCCGT
94321333 TTAGCACTTATGT
66 TTAGCACTTATGT
* *
94321346 GCTTCAGCTAGACTTTGGGCTT
1 GCTTCAGCTAGCCTTCGGGCTT
94321368 TAAATCATGA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 56 0.63
78 33 0.37
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.39
Consensus pattern (78 bp):
GCTTCAGCTAGCCTTCGGGCTTCCGATTAGCACTTATGTGCTTCAGTTAGCCTTCGGGATTCCGT
TTAGCACTTATGT
Found at i:94332336 original size:47 final size:47
Alignment explanation
Indices: 94332180--94332493 Score: 231
Period size: 44 Copynumber: 6.7 Consensus size: 47
94332170 GGATATATTG
* *
94332180 CCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TC-TCATATATGCGT
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCATC-TAT-TGAGT
* * * * *
94332229 ACTGATGCATGTCCCAGACATGCCTTACACTAGCA-CAACTCTT-AGT
1 -CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTATTGAGT
*
94332275 -CGATGCATGTCCCAGACACGTCTTACACTGGCTATC-TCTATTGAGT
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCTATTGAGT
* * *
94332321 CCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCT-CTGTGT
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTATTGAGT
* * *
94332368 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTTA-TGCGT
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATCTATTGAGT
* * * * * *
94332416 GCTGATGAATCTCCCAGACATGTCTTACAGTAGCATAACTCT-TT--G-
1 -CCGATGCATGTCCCAGACATGTCTTACACTGGCATCA-TCTATTGAGT
* *
94332461 CCGATGCGTGTCCCAGACACGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC
94332494 GCACAAATCA
Statistics
Matches: 212, Mismatches: 36, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
44 54 0.25
45 5 0.02
46 13 0.06
47 53 0.25
48 52 0.25
49 26 0.12
50 9 0.04
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTATTGAGT
Found at i:94332441 original size:48 final size:46
Alignment explanation
Indices: 94332181--94332493 Score: 253
Period size: 48 Copynumber: 6.7 Consensus size: 46
94332171 GATATATTGC
* *
94332181 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATGCGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTATGCGT
* * * * *
94332229 ACTGATGCATGTCCCAGACATGCCTTACACTAGCAC-AACTCT-T-AGT
1 -C-GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA-TCTATGCGT
* * *
94332275 CGATGCATGTCCCAGACACGTCTTACACTGGCTATC-TCTATTGAGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTA-TGCGT
* * * *
94332321 CCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGT
1 -CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTATGCGT
*
94332368 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTTATGCGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTATGCGT
* * * * * * *
94332416 GCTGATGAATCTCCCAGACATGTCTTACAGTAGC-ATAACTCTTTGC--
1 -C-GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA-TCTATGCGT
* *
94332462 CGATGCGTGTCCCAGACACGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
94332494 GCACAAATCA
Statistics
Matches: 213, Mismatches: 38, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.01
44 53 0.25
45 3 0.01
46 10 0.05
47 54 0.25
48 55 0.26
49 27 0.13
50 8 0.04
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTATGCGT
Found at i:94339791 original size:67 final size:68
Alignment explanation
Indices: 94339683--94339825 Score: 272
Period size: 67 Copynumber: 2.1 Consensus size: 68
94339673 CCGTTTGGAA
94339683 TACTACTGGATATTCTATGAACCTTCAACATGGGATATATTGCCGATGCCATGTCCCATACATGG
1 TACTACTGGATATTCTATGAACCTTCAACATGGGATATATTGCCGATGCCATGTCCCATACATGG
94339748 TC-
66 TCT
94339750 TACTACTGGATATTCTATGAACCTTCAACATGGGATATATTGCCGATGCCATGTCCCATACATGG
1 TACTACTGGATATTCTATGAACCTTCAACATGGGATATATTGCCGATGCCATGTCCCATACATGG
94339815 TCT
66 TCT
94339818 TAC-ACTGG
1 TACTACTGG
94339826 CTCTCATATA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
67 72 0.96
68 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (68 bp):
TACTACTGGATATTCTATGAACCTTCAACATGGGATATATTGCCGATGCCATGTCCCATACATGG
TCT
Found at i:94339814 original size:32 final size:32
Alignment explanation
Indices: 94339710--94339814 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
94339700 TGAACCTTCA
94339710 ACATGGGATATATTGCCGATGCCATGTCCCAT
1 ACATGGGATATATTGCCGATGCCATGTCCCAT
** * *** * * *
94339742 ACATGGTCTACTACTGGATATTCTATGAACCTTCA-
1 ACATGGGATA-TATTGCCGATGCCATG-TCC--CAT
94339777 ACATGGGATATATTGCCGATGCCATGTCCCAT
1 ACATGGGATATATTGCCGATGCCATGTCCCAT
94339809 ACATGG
1 ACATGG
94339815 TCTTACACTG
Statistics
Matches: 50, Mismatches: 18, Indels: 10
0.64 0.23 0.13
Matches are distributed among these distances:
31 2 0.04
32 14 0.28
33 12 0.24
34 12 0.24
35 8 0.16
36 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (32 bp):
ACATGGGATATATTGCCGATGCCATGTCCCAT
Found at i:94339898 original size:44 final size:45
Alignment explanation
Indices: 94339790--94340104 Score: 225
Period size: 44 Copynumber: 6.8 Consensus size: 45
94339780 TGGGATATAT
*
94339790 TGCCGATGCCATGTCCCATACATGGTCTTACACTGG--C-TCTCATATA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTC-T-TA
* *
94339836 TGCGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTA
1 TGC---C-GATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTTA
* * * *
94339885 -GCCGATGCGTGTCCCAAACACGTCTTACACTGGCTATC-TCTATTGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGC-A-CATCTCTT-A
* *
94339931 GGCCGATGCATGTCCCAGACATGTCTTACTCTGGCATTCATCTC-TA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCA--CATCTCTTA
* *
94339977 TGCCGATGCCATGTCCCAGACATGGTATTACACTGGCTC-TCAT-TTA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATC-TCTTA
* * * *
94340023 TGCATGCTGATACATGTCCCAGACATGTCTTACAGTAGCACAACTCTTA
1 TGC---C-GATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTTA
* * *
94340072 -GTCGATGCGTGTCCCAGACACGTCTTACACTGG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGG
94340105 TGCACAAATC
Statistics
Matches: 216, Mismatches: 30, Indels: 48
0.73 0.10 0.16
Matches are distributed among these distances:
44 52 0.24
45 9 0.04
46 21 0.10
47 47 0.22
48 40 0.19
49 35 0.16
50 9 0.04
51 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTTA
Found at i:94345758 original size:29 final size:30
Alignment explanation
Indices: 94345710--94345766 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
94345700 GAATTGAATC
*
94345710 AAATCAAAATTTCATATATAAAATTACATA
1 AAATCAAAAGTTCATATATAAAATTACATA
* *
94345740 AAAT-AAAAGTTCATGTATAAATTTACA
1 AAATCAAAAGTTCATATATAAAATTACA
94345767 CATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (30 bp):
AAATCAAAAGTTCATATATAAAATTACATA
Found at i:94345790 original size:31 final size:30
Alignment explanation
Indices: 94345710--94345796 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 30
94345700 GAATTGAATC
* *
94345710 AAATCAAAATTTCATATATAAAATT-ACATA
1 AAAT-AAAAGTTCATATATAAATTTAACATA
*
94345740 AAATAAAAGTTCATGTATAAATTTACACATTA
1 AAATAAAAGTTCATATATAAATTTA-ACA-TA
* *
94345772 AAAT-AAAGTTTATATATAATTTTAA
1 AAATAAAAGTTCATATATAAATTTAA
94345797 AATTTATCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 17 0.35
30 5 0.10
31 20 0.42
32 6 0.12
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATAAAAGTTCATATATAAATTTAACATA
Found at i:94346121 original size:13 final size:15
Alignment explanation
Indices: 94346097--94346128 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
94346087 ACGAAATAGT
94346097 TATTTAAAAATG-TA
1 TATTTAAAAATGATA
94346111 TATTT-AAAATGATA
1 TATTTAAAAATGATA
94346125 TATT
1 TATT
94346129 AAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TATTTAAAAATGATA
Found at i:94348147 original size:11 final size:11
Alignment explanation
Indices: 94348131--94348165 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
94348121 CCCTTCCCCC
94348131 CTCCCTTCTCT
1 CTCCCTTCTCT
94348142 CTCCCTTCTCT
1 CTCCCTTCTCT
94348153 CTTCCC-TCTCT
1 C-TCCCTTCTCT
94348164 CT
1 CT
94348166 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:94348282 original size:36 final size:36
Alignment explanation
Indices: 94348229--94348319 Score: 164
Period size: 36 Copynumber: 2.5 Consensus size: 36
94348219 ATATAGCCCT
*
94348229 CCAAAACGACGTTGTTTTGGGGGCTGCCATTTAACC
1 CCAAAACGACGTCGTTTTGGGGGCTGCCATTTAACC
*
94348265 CCAAAACGATGTCGTTTTGGGGGCTGCCATTTAACC
1 CCAAAACGACGTCGTTTTGGGGGCTGCCATTTAACC
94348301 CCAAAACGACGTCGTTTTG
1 CCAAAACGACGTCGTTTTG
94348320 AGCCTACCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (36 bp):
CCAAAACGACGTCGTTTTGGGGGCTGCCATTTAACC
Found at i:94349263 original size:33 final size:34
Alignment explanation
Indices: 94349221--94349300 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 34
94349211 CCATCTTATG
94349221 TATATATATTTTAAATACTATATT-GTATAT-GTA
1 TATATATATTTT-AATACTATATTAGTATATAGTA
* *
94349254 TATATATATTCTTAGTACTATATTACGTATATATTA
1 TATATATATT-TTAATACTATATTA-GTATATAGTA
*
94349290 TGTATATATTT
1 TATATATATTT
94349301 ATTTTTACCC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 20 0.50
34 2 0.05
35 7 0.17
36 11 0.28
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (34 bp):
TATATATATTTTAATACTATATTAGTATATAGTA
Found at i:94350399 original size:137 final size:137
Alignment explanation
Indices: 94350153--94350436 Score: 523
Period size: 137 Copynumber: 2.1 Consensus size: 137
94350143 TATTGGGCCT
* *
94350153 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
**
94350218 AGCCCCTTATTCAGATAACAGTATGTTCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
94350283 CATATGC
131 CATATGC
*
94350290 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
94350355 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
94350420 CATATGC
131 CATATGC
94350427 AAGCCCATTT
1 AAGCCCATTT
94350437 TGGGAGACTA
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:94350716 original size:26 final size:26
Alignment explanation
Indices: 94350687--94350739 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
94350677 TCAAACATGC
94350687 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
94350713 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
94350739 A
1 A
94350740 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:94352258 original size:26 final size:26
Alignment explanation
Indices: 94352220--94352329 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
94352210 CATGAAATTC
*
94352220 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
94352246 TTATCATGTAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
94352272 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
94352298 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
94352324 TTATCA
1 TTATCA
94352330 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:94356284 original size:137 final size:137
Alignment explanation
Indices: 94356038--94356324 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
94356028 TATTGGGCCT
**
94356038 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
94356103 AGCCCCTTATTCAGATAACAGCATGGCCCATAGGCCCATTTCAAAATACATGAAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGCATGGCCCATAGGCCCATTTCAAAATACATGAAACATCAGTAAA
94356168 CATATGC
131 CATATGC
*
94356175 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGTCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* * *
94356240 AGCCCCTTATTCAGATAACAGTATGGCTCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGCATGGCCCATAGGCCCATTTCAAAATACATGAAACATCAGTAAA
94356305 CATATGC
131 CATATGC
94356312 AAGCCCATTTGGG
1 AAGCCCATTTGGG
94356325 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGCATGGCCCATAGGCCCATTTCAAAATACATGAAACATCAGTAAA
CATATGC
Found at i:94356601 original size:26 final size:26
Alignment explanation
Indices: 94356572--94356624 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
94356562 TCAAACATGC
94356572 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
94356598 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
94356624 A
1 A
94356625 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:94358133 original size:26 final size:26
Alignment explanation
Indices: 94358097--94358206 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
94358087 CATGAAATTC
94358097 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
94358123 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
94358149 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
94358175 TTATTATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
94358201 TTATCA
1 TTATCA
94358207 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:94370757 original size:73 final size:74
Alignment explanation
Indices: 94370633--94370770 Score: 199
Period size: 73 Copynumber: 1.9 Consensus size: 74
94370623 CGATTTCTGT
* * * *
94370633 TTTTCAATTTATGTTTCCAAAAATCAATTCATAGCGCTAAAGGTGAATTGAGCCTCGGGTCACAT
1 TTTTCAATTTATGTTTCCAAAAATCAACTCATAGCGCGAAAGGTGAATTGAGCCTCAGCTCACAT
94370698 AGCAAGGTA
66 AGCAAGGTA
* *
94370707 TTTTCAATTTATGTTT-CAAAAATCAACTCATA-CTGCGAGAGGTGAGTTGAGCCTCAGCTCACA
1 TTTTCAATTTATGTTTCCAAAAATCAACTCATAGC-GCGAAAGGTGAATTGAGCCTCAGCTCACA
94370770 T
65 T
94370771 GCTGAGGTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
72 1 0.02
73 40 0.70
74 16 0.28
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (74 bp):
TTTTCAATTTATGTTTCCAAAAATCAACTCATAGCGCGAAAGGTGAATTGAGCCTCAGCTCACAT
AGCAAGGTA
Found at i:94370789 original size:73 final size:74
Alignment explanation
Indices: 94370632--94370795 Score: 190
Period size: 73 Copynumber: 2.2 Consensus size: 74
94370622 TCGATTTCTG
* * * *
94370632 TTTTTCAATTTATGTTTCCAAAAATCAATTCATAGCGCTAAAGGTGAATTGAGCCTCGGGTCACA
1 TTTTT-AATTTATGTTTCCAAAAATCAACTCATAGCGCGAAAGGTGAATTGAGCCTCAGCTCACA
94370697 TAGCAAGGTA
65 TAGCAAGGTA
* * *
94370707 TTTTCAATTTATGTTT-CAAAAATCAACTCATA-CTGCGAGAGGTGAGTTGAGCCTCAGCTCACA
1 TTTTTAATTTATGTTTCCAAAAATCAACTCATAGC-GCGAAAGGTGAATTGAGCCTCAGCTCACA
* *
94370770 T-GCTGAGGTC
65 TAGC-AAGGTA
*
94370780 TTTTTAATTTCTGTTT
1 TTTTTAATTTATGTTT
94370796 TTATGTTTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
72 3 0.04
73 58 0.76
74 11 0.14
75 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (74 bp):
TTTTTAATTTATGTTTCCAAAAATCAACTCATAGCGCGAAAGGTGAATTGAGCCTCAGCTCACAT
AGCAAGGTA
Found at i:94370937 original size:72 final size:73
Alignment explanation
Indices: 94370815--94370999 Score: 255
Period size: 73 Copynumber: 2.5 Consensus size: 73
94370805 TTTTTTTTTT
**
94370815 AAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTGACCTC
1 AAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAACCTC
* *
94370880 CGT-TTTCG
65 CGTCTGTCA
* * ** *
94370888 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAACCTCC
94370953 GTCTGTCA
66 GTCTGTCA
**
94370961 AAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
94371000 CTCACATGCT
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
72 47 0.47
73 52 0.53
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAACCTCC
GTCTGTCA
Found at i:94371160 original size:89 final size:87
Alignment explanation
Indices: 94370942--94371263 Score: 260
Period size: 89 Copynumber: 3.6 Consensus size: 87
94370932 GCTGAGGTAA
* * * * * *
94370942 TTTCAATTTCTGTCTGTCAAAAATCAACTCATA-TCACGAGAGGTGAGTTGAGCCTCAGCTCACA
1 TTTCAATTTATGTTTTTCCAAAATCAACTCATACT-GCGAGAGGTGAGTTGAGCCTCAG--GACA
* * * * * *
94371006 TGCTGAGGTCTTTTCAATTTTTATT
63 CGCTGAGGTATTCTCAATCTCTGTT
* * *
94371031 TTT-AATTTCTATTTTTCAAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTATGTTTTTC---CAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
94371095 TGTTGAGGTAATT-TCAATCTCTGTT
63 CGCTGAGGT-ATTCTCAATCTCTGTT
* * * *
94371120 TTCTCCAATTTATGTTTTTCCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCTGGGCAC
1 TT-T-CAATTTATGTTTTTCCAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
94371185 GCTGAGGTATTCTCGATTTCTGTT
64 GCTGAGGTATTCTCAATCTCTGTT
* * * *
94371209 TTTCAATTTATG--TTTCCAAAAATCAATTCATAGC-GCTAAAGGTGAATTGAGCCTC
1 TTTCAATTTATGTTTTTCC-AAAATCAACTCATA-CTGCGAGAGGTGAGTTGAGCCTC
94371264 GGGTCACATA
Statistics
Matches: 195, Mismatches: 27, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
85 5 0.03
86 30 0.15
87 9 0.05
88 15 0.08
89 83 0.43
90 3 0.02
91 37 0.19
92 13 0.07
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (87 bp):
TTTCAATTTATGTTTTTCCAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTCTCAATCTCTGTT
Found at i:94371408 original size:76 final size:75
Alignment explanation
Indices: 94371208--94371522 Score: 349
Period size: 73 Copynumber: 4.2 Consensus size: 75
94371198 CGATTTCTGT
* * ** * *
94371208 TTTTCAATTTATG-TTTCCAAAAATCAATTCATAGCGCTAAAGGTGAATTGAGCCTCGGGTCACA
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGGTCACA
*
94371272 TAGC-GAGGTA
66 -CGCTGAGGTA
* *
94371282 TTTTTAATTTATG--TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGGTCACA
*
94371345 CGCTGAGGTG
66 CGCTGAGGTA
*
94371355 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTCGGG--G
1 TTTTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAA-TTGAGCCTCGGGTCA
94371417 CACGCTGAGGTA
64 CACGCTGAGGTA
* * * * * * *
94371429 TTTTCAA-TCATTGTTTTTCAAGAATTAATTCATATTGCTAGAGGTGAATTGAGCGTCAGGATCA
1 TTTTCAATTTA-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTC-GGGTCA
*
94371493 CACGCCGAGGTA
64 CACGCTGAGGTA
*
94371505 TTTTCAATTAATGTTTTT
1 TTTTCAATTTATGTTTTT
94371523 TTCAATTTAT
Statistics
Matches: 206, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
72 2 0.01
73 92 0.45
74 42 0.20
75 5 0.02
76 63 0.31
77 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (75 bp):
TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGGTCACA
CGCTGAGGTA
Found at i:94371481 original size:149 final size:148
Alignment explanation
Indices: 94371208--94371522 Score: 361
Period size: 149 Copynumber: 2.1 Consensus size: 148
94371198 CGATTTCTGT
* * * *
94371208 TTTTCAATTTATG--TTTCCAAAAATCAATTCATAGCGCTAAAGGTGAATTGAGCCTCGGGTCAC
1 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATAGCGCGAAAGGTGAATTGAGCCTCGGGGCAC
* *
94371271 ATAGCGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 --AGCGAGGTATTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCT
* * *
94371336 C-GGGTCACACGCTGAGGTG
129 CAGGATCACACGCCGAGGTA
** *
94371355 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTCGGGGCA
1 TTTTCAATTTATGTTTTTCAAAAAATCAACTCATAGCGCGAAAGGTGAA-TTGAGCCTCGGGGCA
* * * * * *
94371419 C-GCTGAGGTATTTTCAATCATTGTTTTTCAAGAATTAATTCATATTGCTAGAGGTGAATTGAGC
65 CAGC-GAGGTATTTTCAAT--TTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGC
*
94371483 GTCAGGATCACACGCCGAGGTA
127 CTCAGGATCACACGCCGAGGTA
*
94371505 TTTTCAATTAATGTTTTT
1 TTTTCAATTTATGTTTTT
94371523 TTCAATTTAT
Statistics
Matches: 141, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
146 2 0.01
147 26 0.18
148 2 0.01
149 79 0.56
150 32 0.23
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (148 bp):
TTTTCAATTTATGTTTTTCAAAAAATCAACTCATAGCGCGAAAGGTGAATTGAGCCTCGGGGCAC
AGCGAGGTATTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCA
GGATCACACGCCGAGGTA
Found at i:94371538 original size:16 final size:16
Alignment explanation
Indices: 94371505--94371538 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94371495 CGCCGAGGTA
*
94371505 TTTTCAATTAATGTTT
1 TTTTCAATTAATGCTT
*
94371521 TTTTCAATTTATGCTT
1 TTTTCAATTAATGCTT
94371537 TT
1 TT
94371539 CAAAATCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTCAATTAATGCTT
Found at i:94372183 original size:25 final size:25
Alignment explanation
Indices: 94372149--94372196 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
94372139 AAAAGTCTTT
*
94372149 ACTCTATTCTCGTTACACGACAACA
1 ACTCTATTCTCGTTACACAACAACA
*
94372174 ACTCTGTTCTCGTTACACAACAA
1 ACTCTATTCTCGTTACACAACAA
94372197 TGAGTAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.29
Consensus pattern (25 bp):
ACTCTATTCTCGTTACACAACAACA
Found at i:94372959 original size:11 final size:11
Alignment explanation
Indices: 94372945--94372979 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
94372935 TCCCCTTCCC
94372945 CTCCCTTCTCT
1 CTCCCTTCTCT
94372956 CTCCCTTCTCT
1 CTCCCTTCTCT
94372967 CTTCCC-TCTCT
1 C-TCCCTTCTCT
94372978 CT
1 CT
94372980 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:94373953 original size:22 final size:22
Alignment explanation
Indices: 94373895--94373956 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
94373885 CTAATGTATG
*
94373895 TATATATTGTATATGTTTTATA
1 TATATATTGTATATGTTTTAAA
* *
94373917 TATGT-TATGTATATATTTTTAAA
1 TATATAT-TGTATAT-GTTTTAAA
94373940 TACTATATTGTATATGT
1 TA-TATATTGTATATGT
94373957 ATATATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
21 1 0.03
22 11 0.35
23 9 0.29
24 9 0.29
25 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (22 bp):
TATATATTGTATATGTTTTAAA
Found at i:94373996 original size:34 final size:34
Alignment explanation
Indices: 94373926--94374001 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
94373916 ATATGTTATG
* *
94373926 TATATATTTTTAAATACTATATTGTATATGTATA
1 TATATATTCTTAAATACTATATTGTATATATATA
*
94373960 TATATATTCTT-AGTACTATATTACGTATATAT-TA
1 TATATATTCTTAAATACTATATT--GTATATATATA
94373994 TATATATT
1 TATATATT
94374002 TATTTTTACC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 10 0.27
34 20 0.54
35 7 0.19
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (34 bp):
TATATATTCTTAAATACTATATTGTATATATATA
Found at i:94377922 original size:46 final size:46
Alignment explanation
Indices: 94377864--94377994 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
94377854 ATAATTTCAC
* *
94377864 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTT-GCAT
* ** * *
94377910 CCATAATAAACTCGGAATACAACTCAATGAGTTCAGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTGCAT
*
94377956 CCATAAGTGAACTTGGAACGCAACTCAACGAGTTCGGAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGAT
94377995 CTCAATTTCC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
46 42 0.60
47 28 0.40
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTGCAT
Found at i:94380701 original size:12 final size:14
Alignment explanation
Indices: 94380686--94380740 Score: 53
Period size: 15 Copynumber: 4.0 Consensus size: 14
94380676 TATTTTTACC
94380686 ATTTTTATT-TTA-
1 ATTTTTATTATTAT
94380698 A-TTTTATTATTAT
1 ATTTTTATTATTAT
*
94380711 ATTTATTATTATTGTT
1 ATTT-TTATTATT-AT
*
94380727 ATTATTATTATTAT
1 ATTTTTATTATTAT
94380741 TTGTATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 7 0.20
12 4 0.11
13 1 0.03
14 3 0.09
15 16 0.46
16 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
ATTTTTATTATTAT
Found at i:94380709 original size:3 final size:3
Alignment explanation
Indices: 94380701--94380757 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
94380691 TATTTTAATT
*
94380701 TTA TTA TTA -TA TTTA TTA TTA TTG TTA TTA TTA TTA TTA TT- TGTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
94380746 TTA TTTA TTA TT
1 TTA -TTA TTA TT
94380758 TGTCTTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 3 0.06
3 38 0.81
4 6 0.13
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:94380879 original size:24 final size:24
Alignment explanation
Indices: 94380852--94380909 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
94380842 ATATGTTATG
*
94380852 TATACATATTTAAATACTATATTA
1 TATACATATTTAAATACTACATTA
* * *
94380876 TATACATATTTTAATGCTACGTTA
1 TATACATATTTAAATACTACATTA
94380900 TATACATATT
1 TATACATATT
94380910 ATTATATCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (24 bp):
TATACATATTTAAATACTACATTA
Found at i:94380968 original size:24 final size:25
Alignment explanation
Indices: 94380941--94381023 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 25
94380931 ATCATATTTG
94380941 TTATTAGTAT-TAGTATATATTTTA
1 TTATTAGTATATAGTATATATTTTA
* *
94380965 TTA-TATGTGTGTA-TATATATTTTA
1 TTATTA-GTATATAGTATATATTTTA
94380989 TT-TTA-TATATAGTAT-TATTTTTA
1 TTATTAGTATATAGTATATA-TTTTA
*
94381012 TATATTATTATA
1 T-TATTAGTATA
94381024 CTTATTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
22 6 0.12
23 11 0.23
24 22 0.46
25 5 0.10
26 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (25 bp):
TTATTAGTATATAGTATATATTTTA
Found at i:94380999 original size:18 final size:17
Alignment explanation
Indices: 94380976--94381022 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
94380966 TATATGTGTG
*
94380976 TATATATATTTTA-TTT
1 TATATATATATTATTTT
94380992 TATATATAGTATTATTTT
1 TATATATA-TATTATTTT
94381010 TATATAT-TATTAT
1 TATATATATATTAT
94381023 ACTTATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 14 0.50
17 4 0.14
18 10 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TATATATATATTATTTT
Found at i:94381263 original size:18 final size:18
Alignment explanation
Indices: 94381226--94381264 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
94381216 TATATGCATA
**
94381226 TATATTTATTATTATTAT
1 TATATTTATTATTAACAT
94381244 TATATTTATTATTAACAT
1 TATATTTATTATTAACAT
94381262 TAT
1 TAT
94381265 TAATACTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTTATTATTAACAT
Found at i:94381393 original size:21 final size:21
Alignment explanation
Indices: 94381367--94381439 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
94381357 ATTTCTAATA
*
94381367 TATATATATCGTATATGTTTT
1 TATATATATCGTATATATTTT
*
94381388 TATATATTTCATGTATATATTTT
1 TATATATATC--GTATATATTTT
* *
94381411 TA-ATATTATTAGT-TATTTTTT
1 TATATA-TA-TCGTATATATTTT
94381432 TATATATA
1 TATATATA
94381440 CTGTTTCATG
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
21 20 0.48
22 8 0.19
23 13 0.31
24 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (21 bp):
TATATATATCGTATATATTTT
Found at i:94381403 original size:23 final size:23
Alignment explanation
Indices: 94381365--94381438 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
94381355 TCATTTCTAA
*
94381365 TATATATATATC-GTATATGTTTT
1 TATATAT-TATCAGTATATATTTT
94381388 TATATATT-TCATGTATATATTTT
1 TATATATTATCA-GTATATATTTT
* *
94381411 TA-ATATTATTAGT-TATTTTTT
1 TATATATTATCAGTATATATTTT
94381432 TATATAT
1 TATATAT
94381439 ACTGTTTCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
21 11 0.25
22 12 0.27
23 21 0.48
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (23 bp):
TATATATTATCAGTATATATTTT
Found at i:94381729 original size:25 final size:24
Alignment explanation
Indices: 94381675--94381729 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
94381665 TTAATATTGT
* *
94381675 ATTTTT-ATATATGTTATGTATAT
1 ATTTTTAATATATATTATGTATAC
* *
94381698 ATCTTTAATACTATATTATTTATAC
1 ATTTTTAATA-TATATTATGTATAC
94381723 ATTTTTA
1 ATTTTTA
94381730 TTTTTCGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 5 0.20
24 3 0.12
25 17 0.68
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTTTAATATATATTATGTATAC
Found at i:94381999 original size:15 final size:16
Alignment explanation
Indices: 94381979--94382016 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
94381969 ATTATACGTG
94381979 TATATATA-TACTTTT
1 TATATATAGTACTTTT
* *
94381994 TATATAGAGTATTTTT
1 TATATATAGTACTTTT
94382010 TATATAT
1 TATATAT
94382017 CATTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (16 bp):
TATATATAGTACTTTT
Found at i:94385984 original size:22 final size:22
Alignment explanation
Indices: 94385947--94385991 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
94385937 ATTCATGACT
*
94385947 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTCATTC
**
94385969 AACATTCATTTTTCATTCATTC
1 AACATTCATTCGTCATTCATTC
94385991 A
1 A
94385992 TTCATTGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTCATTC
Found at i:94394399 original size:75 final size:73
Alignment explanation
Indices: 94394186--94394382 Score: 317
Period size: 75 Copynumber: 2.7 Consensus size: 73
94394176 TTGATGTTTT
* *
94394186 TTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
1 TTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
94394250 ATTTTCAA
66 ATTTTCAA
*
94394258 TTTCT-TTCTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 TTTCTGTTC-TT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
94394322 GGTATTTTCAA
63 GGTATTTTCAA
*
94394333 TTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
94394383 TGGTTACATA
Statistics
Matches: 115, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
71 2 0.02
72 5 0.04
73 40 0.35
75 65 0.57
76 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (73 bp):
TTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCAA
Found at i:94394781 original size:73 final size:73
Alignment explanation
Indices: 94394428--94394781 Score: 437
Period size: 74 Copynumber: 4.7 Consensus size: 73
94394418 CAATTTCTGC
* * * *
94394428 TTTTCAATTTATGTGTTTCAGAAAAATTAACTCATATTGCTAGAGGTGAGTTGAGCCTCAG-GAT
1 TTTTCAATTTATGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCCAC
*
94394492 ACGCTAAGGTAA
63 ACGCTGAGGT-A
* * * * *
94394504 TTTT-AATTTCTGTTCATCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGCTAAGCCTTAGCT
1 TTTTCAATTTATGTT-TTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGC-
*
94394568 CACACACTGAGGTA
60 CACACGCTGAGGTA
94394582 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCCT-AGCTCACA
1 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCAGC-CACA
94394646 CGCTGAGGTA
64 CGCTGAGGTA
*
94394656 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACG
1 TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCCACACG
94394720 CTGAGGTA
66 CTGAGGTA
* *
94394728 TTTTCAATTTCTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTATGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
94394782 TTCGGGTCAC
Statistics
Matches: 249, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
72 27 0.11
73 40 0.16
74 104 0.42
75 13 0.05
76 4 0.02
77 36 0.14
78 7 0.03
79 18 0.07
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCCACACG
CTGAGGTA
Found at i:94394801 original size:147 final size:147
Alignment explanation
Indices: 94394526--94394822 Score: 400
Period size: 147 Copynumber: 2.0 Consensus size: 147
94394516 TTCATCAAAA
*
94394526 AAAAATCAACTCATATTGCGAGAGGTGAGCTAAGCCTTAGCTCACACACTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGC-CACACACTGAGGTATTTTCAATT
* * *
94394591 TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCCTAGCTCACACGCTGAGGTA
65 TATGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCCTAGCTCACACACCGAGGTA
* *
94394656 TTTTCAATTTATGTTTTC
130 TCTTCAAATTATGTTTTC
* * * *
94394674 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGCCACACACTGAGGTATTTTCAATTT
* * * * *
94394738 CTGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCGGGTCACATACCGAGGT
66 ATGTT-GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCCT-AGCTCACACACCGAGGT
* *
94394802 CTCTTCAAATTCTGTTTTC
129 ATCTTCAAATTATGTTTTC
94394821 AA
1 AA
94394823 TTTCCCCCTA
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
146 28 0.22
147 65 0.50
148 37 0.28
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (147 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGCCACACACTGAGGTATTTTCAATTT
ATGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCCTAGCTCACACACCGAGGTAT
CTTCAAATTATGTTTTC
Found at i:94395240 original size:9 final size:9
Alignment explanation
Indices: 94395215--94395249 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
94395205 ATAGACATAG
94395215 ATAAAAAAA
1 ATAAAAAAA
*
94395224 AGTTAAAAAA
1 A-TAAAAAAA
94395234 ATAAAAAAA
1 ATAAAAAAA
94395243 ATAAAAA
1 ATAAAAA
94395250 TTTTTACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:94395836 original size:3 final size:3
Alignment explanation
Indices: 94395828--94395898 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
94395818 TATTTTAATT
*
94395828 TTA TTA TTA -TA TTTA TTA TTA TT- TGCTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA
* * *
94395874 -TA TTT TTA CTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
94395899 TGTCTTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
2 5 0.09
3 46 0.84
4 3 0.05
5 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:94395845 original size:9 final size:10
Alignment explanation
Indices: 94395796--94395899 Score: 50
Period size: 9 Copynumber: 11.3 Consensus size: 10
94395786 TAATTTGGTT
94395796 TTTA-TATTA
1 TTTATTATTA
**
94395805 TTT-TTACCA
1 TTTATTATTA
94395814 TTT-TTATT-
1 TTTATTATTA
*
94395822 TTAATT-TTA
1 TTTATTATTA
94395831 -TTATTA-TA
1 TTTATTATTA
94395839 TTTATTATTA
1 TTTATTATTA
**
94395849 TTTGCTATTA
1 TTTATTATTA
94395859 -TTATTATTA
1 TTTATTATTA
94395868 -TTAGTATATT-
1 TTTA-T-TATTA
*
94395878 TTTACTATTA
1 TTTATTATTA
*
94395888 -TTAGTATTA
1 TTTATTATTA
94395897 TTT
1 TTT
94395900 GTCTTTTTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
8 10 0.14
9 42 0.58
10 13 0.18
11 7 0.10
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTATTATTA
Found at i:94395889 original size:12 final size:12
Alignment explanation
Indices: 94395813--94395889 Score: 75
Period size: 12 Copynumber: 6.2 Consensus size: 12
94395803 TATTTTTACC
94395813 ATTTTTATT-TT
1 ATTTTTATTATT
*
94395824 AATTTTATTATT
1 ATTTTTATTATT
*
94395836 ATATTTATTATT
1 ATTTTTATTATT
*
94395848 ATTTGCTATTATT
1 ATTT-TTATTATT
*
94395861 ATTATTATTAGTAT
1 ATTTTTATTA-T-T
*
94395875 ATTTTTACTATT
1 ATTTTTATTATT
94395887 ATT
1 ATT
94395890 AGTATTATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
11 8 0.15
12 24 0.45
13 12 0.23
14 9 0.17
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:94396014 original size:24 final size:24
Alignment explanation
Indices: 94395987--94396044 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
94395977 ATATGTTATG
*
94395987 TATACATATTTAAATACTATATTA
1 TATACATATTTAAATACTACATTA
* * *
94396011 TATACATATTTTAATGCTACGTTA
1 TATACATATTTAAATACTACATTA
94396035 TATACATATT
1 TATACATATT
94396045 ATTATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (24 bp):
TATACATATTTAAATACTACATTA
Found at i:94396106 original size:24 final size:25
Alignment explanation
Indices: 94396079--94396162 Score: 63
Period size: 24 Copynumber: 3.5 Consensus size: 25
94396069 ATCATATTTG
94396079 TTATTAGTAT-TAGTATATATTTTA
1 TTATTAGTATATAGTATATATTTTA
* * *
94396103 TTA-TATGTGTGTA-TATATACTTTA
1 TTATTA-GTATATAGTATATATTTTA
94396127 TT-TTA-TATATAGTAT-TATTTTTA
1 TTATTAGTATATAGTATATA-TTTTA
*
94396150 TATATTATTATAT
1 T-TATTAGTATAT
94396163 TTATTATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
22 6 0.13
23 10 0.21
24 21 0.45
25 5 0.11
26 5 0.11
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.60
Consensus pattern (25 bp):
TTATTAGTATATAGTATATATTTTA
Found at i:94396135 original size:16 final size:17
Alignment explanation
Indices: 94396114--94396184 Score: 74
Period size: 16 Copynumber: 4.1 Consensus size: 17
94396104 TATATGTGTG
94396114 TATATATACT-TTATTT
1 TATATATACTATTATTT
*
94396130 TATATATAGTATTATTT
1 TATATATACTATTATTT
*
94396147 T-TATATATTATTATATT
1 TATATATACTATTAT-TT
94396164 TATTATTATACTTATTATTT
1 TA-TA-TATAC-TATTATTT
94396184 T
1 T
94396185 CACCATTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
16 21 0.46
17 10 0.22
19 2 0.04
20 7 0.15
21 6 0.13
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (17 bp):
TATATATACTATTATTT
Found at i:94396169 original size:12 final size:12
Alignment explanation
Indices: 94396086--94396182 Score: 54
Period size: 12 Copynumber: 7.6 Consensus size: 12
94396076 TTGTTATTAG
*
94396086 TATTAGTATATAT
1 TATTATTATAT-T
*
94396099 T-TTATTATATG
1 TATTATTATATT
*
94396110 TGTGTATATATACTT
1 TAT-TAT-TATA-TT
94396125 TATT-TTATATAT
1 TATTATTATAT-T
* *
94396137 AGTATTATTTTTATA
1 --TATTA-TTATATT
94396152 TATTATTATATT
1 TATTATTATATT
*
94396164 TATTATTATACT
1 TATTATTATATT
94396176 TATTATT
1 TATTATT
94396183 TTCACCATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
11 2 0.03
12 37 0.56
13 10 0.15
14 9 0.14
15 3 0.05
16 5 0.08
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (12 bp):
TATTATTATATT
Found at i:94396393 original size:15 final size:15
Alignment explanation
Indices: 94396373--94396401 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94396363 AATGCATATA
94396373 TATATTTATTATTAT
1 TATATTTATTATTAT
94396388 TATATTTATTATTA
1 TATATTTATTATTA
94396402 ACATTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTATTATTAT
Found at i:94396678 original size:23 final size:25
Alignment explanation
Indices: 94396651--94396697 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
94396641 TATGTTTTAT
94396651 TATATGTATATATTT-T-TAATATA
1 TATATGTATATATTTATGTAATATA
94396674 TATATGTATATATTTATGTAATAT
1 TATATGTATATATTTATGTAATAT
94396698 TATTAATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 15 0.68
24 1 0.05
25 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATGTATATATTTATGTAATATA
Found at i:94397091 original size:31 final size:33
Alignment explanation
Indices: 94396980--94397112 Score: 87
Period size: 35 Copynumber: 3.9 Consensus size: 33
94396970 TTTTTACTAT
* * *
94396980 TATTATTATTCCTAGTATATATATACTATGTATACA
1 TATTATTAATACTAGTATATATAT--TAT-TATATA
*
94397016 T-TCT-TTAAATACTA-TATTATATACATATATATATA
1 TAT-TATT-AATACTAGTA-TATATA-TTAT-TATATA
* *
94397051 TATTTTTAATACT-GTATAT-TATTATTATATT
1 TATTATTAATACTAGTATATATATTATTATATA
* *
94397082 TATTATTAATATTAGTATATATTTTATTATA
1 TATTATTAATACTAGTATATATATTATTATA
94397113 CGTGTATATA
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
31 16 0.21
32 9 0.12
33 11 0.14
34 3 0.04
35 23 0.29
36 16 0.21
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (33 bp):
TATTATTAATACTAGTATATATATTATTATATA
Found at i:94397100 original size:21 final size:21
Alignment explanation
Indices: 94397070--94397110 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94397060 TACTGTATAT
*
94397070 TATTATTATAT-TTATTATTAA
1 TATTAGTATATATT-TTATTAA
94397091 TATTAGTATATATTTTATTA
1 TATTAGTATATATTTTATTA
94397111 TACGTGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTAGTATATATTTTATTAA
Found at i:94397107 original size:24 final size:24
Alignment explanation
Indices: 94397066--94397111 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
94397056 TTAATACTGT
*
94397066 ATATTATTATTATATTTATTATTA
1 ATATTAGTATTATATTTATTATTA
94397090 ATATTAGTA-TATATTTTATTAT
1 ATATTAGTATTATA-TTTATTAT
94397112 ACGTGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTAGTATTATATTTATTATTA
Found at i:94403305 original size:20 final size:19
Alignment explanation
Indices: 94403282--94403330 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
94403272 TTTTCTTTCA
*
94403282 AATATTGTTATTGTTATTTT
1 AATATTATTATTGTT-TTTT
94403302 AATATTATTA--GTTTTTT
1 AATATTATTATTGTTTTTT
*
94403319 AATATTCTTATT
1 AATATTATTATT
94403331 ATTAATTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 13 0.52
18 3 0.12
20 9 0.36
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (19 bp):
AATATTATTATTGTTTTTT
Found at i:94405878 original size:37 final size:37
Alignment explanation
Indices: 94405823--94405897 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
94405813 ATTCATTGCA
*
94405823 AAGGAATGTGCCATTTATGTTGTCAACTTTTCTAGTT
1 AAGGAATGTGCCATTTATGCTGTCAACTTTTCTAGTT
*
94405860 AAGGGATGTGCCATTTATGCTGTCAACTTTTCTAGTT
1 AAGGAATGTGCCATTTATGCTGTCAACTTTTCTAGTT
94405897 A
1 A
94405898 GTGTTTACTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (37 bp):
AAGGAATGTGCCATTTATGCTGTCAACTTTTCTAGTT
Found at i:94406154 original size:23 final size:23
Alignment explanation
Indices: 94406128--94406182 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
94406118 TTCGTGAACA
*
94406128 TAAACGAATATGTTTGCGAACGT
1 TAAACGAATATGTTTGCGAACGC
* * *
94406151 TAAACGAACATGTTTGTGAATGC
1 TAAACGAATATGTTTGCGAACGC
94406174 TAAACGAAT
1 TAAACGAAT
94406183 CGAGCCCGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (23 bp):
TAAACGAATATGTTTGCGAACGC
Found at i:94407328 original size:123 final size:123
Alignment explanation
Indices: 94407092--94407334 Score: 371
Period size: 123 Copynumber: 2.0 Consensus size: 123
94407082 ATAAATTATG
* * * * *
94407092 TTTTACAGTAATGCCATTTCCCGTTTTCTAACCCTGAATGAGAAAATTTGTCAATTATAATGGAA
1 TTTTACAGTAATGACATTTCCCATTTTCTAACCCCGAATGAGAAAATTTGTCAAATATAACGGAA
* *
94407157 ACCATCCAAGTCTCGCTCTTTGATACCTCCGCTTAAGAGGCTTTCGGTGAATATCATA
66 ACCACCCAAGTCTCGCTCTTTGATACCTCCGCTTAAGAAGCTTTCGGTGAATATCATA
*
94407215 TTTTACAGTAATGACATTTCCCATTTTTTAACCCCGAATGAGAAAGATTTGTCAAATATAACGGA
1 TTTTACAGTAATGACATTTCCCATTTTCTAACCCCGAATGAGAAA-ATTTGTCAAATATAACGGA
* **
94407280 AAGCACCCAAGTCTCGCTCTTTGATACCTCCGC-TGGGAAGCTTTCGGTGAATATC
65 AACCACCCAAGTCTCGCTCTTTGATACCTCCGCTTAAGAAGCTTTCGGTGAATATC
94407335 CATCAACCGA
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
123 60 0.56
124 48 0.44
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (123 bp):
TTTTACAGTAATGACATTTCCCATTTTCTAACCCCGAATGAGAAAATTTGTCAAATATAACGGAA
ACCACCCAAGTCTCGCTCTTTGATACCTCCGCTTAAGAAGCTTTCGGTGAATATCATA
Found at i:94412585 original size:206 final size:206
Alignment explanation
Indices: 94412254--94412925 Score: 945
Period size: 206 Copynumber: 3.3 Consensus size: 206
94412244 CAGGGATGAA
* * * * * * *
94412254 AAATCATCTTAGATCTTGCATCAGTCTAATCGTCTGAATGTGAGATCTGCTATGCATCTGCTCTC
1 AAATCATCTTGGATCTTGCTTCAGTCTAAACATCTAAAGGTGAGATCTGCTATGTATCTGCTCTC
* *
94412319 CATCGAAATGGAGATGTCAGACTTCGACTTGTTCTCTGACAATACAGAGAT-AACAAATCATCTT
66 CATCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAA-AAATCATCTT
* *
94412383 AGATTTGCTTCAGCATAAACACGTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAG
130 AGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAG
94412448 CACAAGGATGCC
195 CACAAGGATGCC
* *
94412460 AAATCATCTTGGATCTTGCTTCAGTCTAAACGTCTAAAGGTAAGATCTGCTATGTATCTGCTCTC
1 AAATCATCTTGGATCTTGCTTCAGTCTAAACATCTAAAGGTGAGATCTGCTATGTATCTGCTCTC
* *
94412525 CATCGAAGTGGAGATGCCAGACTTTGATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTA
66 CATCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTA
*
94412590 GATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGT
131 GATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGC
94412655 ACAAGGATGCC
196 ACAAGGATGCC
* * * * *
94412666 AAACCATCTTGGATCTTGCTTTAGT-GAAACCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCT
1 AAATCATCTTGGATCTTGCTTCAGTCTAAA-CATCTAAAGGTGAGATCTGCTATGTATCTGCTCT
* ** * * **
94412730 CCACCGAATATGGAGACCCCAAACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCT
65 CCATCGAA-ATGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAAAAATCATCT
* * * * *
94412795 TAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTACGTCTTCGATTTGTTCATTGTAA
129 TAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAA
94412860 GCACAAGGATGCC
194 GCACAAGGATGCC
* * * ** *
94412873 AAATCATATTGGATC-TGCTTCAGTATAAACATATAAAGGCCAGATCTACTATG
1 AAATCATCTTGGATCTTGCTTCAGTCTAAACATCTAAAGGTGAGATCTGCTATG
94412926 CTGCGACCTA
Statistics
Matches: 417, Mismatches: 45, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
205 3 0.01
206 276 0.66
207 138 0.33
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (206 bp):
AAATCATCTTGGATCTTGCTTCAGTCTAAACATCTAAAGGTGAGATCTGCTATGTATCTGCTCTC
CATCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGAAAAATCATCTTA
GATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGC
ACAAGGATGCC
Found at i:94421033 original size:14 final size:14
Alignment explanation
Indices: 94421010--94421039 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94421000 ATTCTGGTTC
94421010 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
94421024 AACTTTATTTAGAA
1 AACTTCATTTAGAA
94421038 AA
1 AA
94421040 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:94425136 original size:20 final size:19
Alignment explanation
Indices: 94425111--94425165 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
94425101 GAAAGTGTAT
94425111 ATATGTAAAAATAATATATA
1 ATATGT-AAAATAATATATA
94425131 ATATGTATAAATAATA-ATA
1 ATATGTA-AAATAATATATA
94425150 ATATG--AAATAATATAT
1 ATATGTAAAATAATATAT
94425166 TGTTAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 8 0.24
17 2 0.06
19 9 0.27
20 14 0.42
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
ATATGTAAAATAATATATA
Found at i:94425147 original size:16 final size:16
Alignment explanation
Indices: 94425119--94425162 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 16
94425109 ATATATGTAA
94425119 AAATAATATATAATATG
1 AAATAATA-ATAATATG
94425136 TATAAATAATAATAATATG
1 ---AAATAATAATAATATG
94425155 AAATAATA
1 AAATAATA
94425163 TATTGTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
AAATAATAATAATATG
Found at i:94425159 original size:26 final size:28
Alignment explanation
Indices: 94425094--94425159 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 28
94425084 ATTGTAATTT
* *
94425094 ATAATATGAAA-GTGTATATATGTAAAA
1 ATAATATGAAATATGTATATATATAAAA
*
94425121 ATAATAT-ATAATATGTATA-A-ATAATA
1 ATAATATGA-AATATGTATATATATAAAA
94425147 ATAATATGAAATA
1 ATAATATGAAATA
94425160 ATATATTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 16 0.48
27 11 0.33
28 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (28 bp):
ATAATATGAAATATGTATATATATAAAA
Found at i:94430508 original size:68 final size:68
Alignment explanation
Indices: 94430399--94430534 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
94430389 AATTATATAC
94430399 TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
1 TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
94430464 GAA
66 GAA
94430467 TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
1 TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
94430532 GAA
66 GAA
94430535 AGATGACATT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCATATTTTAACGGAGTTAAATTATATACTATCATGTCAACTGTAAAGGTTATGCCATTAAGG
GAA
Found at i:94430942 original size:89 final size:89
Alignment explanation
Indices: 94430849--94431173 Score: 465
Period size: 90 Copynumber: 3.6 Consensus size: 89
94430839 TGTATCTGTA
*
94430849 AATTTAATTTAATCTGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCAT
1 AATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCAT
*
94430914 CTGTTTGTAATTTGTTGGGTGTTT
66 CTGTTTGTAGTTTGTTGGGTGTTT
* * * * *
94430938 AATTTAATTTAGTCTATATTATATATAGTTTGAATTTTAAATTTTCGTGCATTAATTTTACCCAT
1 AATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCAT
* *
94431003 CTGTTTTTAGTTTGTTGGGTGCTTA
66 CTGTTTGTAGTTTGTTGGGTG-TTT
* *
94431028 AATTTAATTTAGCCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCAT
1 AATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCAT
94431093 CTGTTTGTAGTTTGTTGGGTGTTT
66 CTGTTTGTAGTTTGTTGGGTGTTT
* * * *
94431117 AAATTTAATTTAGTAC-GTATTATTTGTTA-TTTGAATTTTATATTTTTGTGGATTAAT
1 -AATTTAATTTAGT-CTGTATTATATG-TAGTTTGAATTTAAAATTTTTGTGTATTAAT
94431174 ATTCTAGAAT
Statistics
Matches: 209, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
89 80 0.38
90 126 0.60
91 3 0.01
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.53
Consensus pattern (89 bp):
AATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCAT
CTGTTTGTAGTTTGTTGGGTGTTT
Found at i:94431211 original size:179 final size:177
Alignment explanation
Indices: 94430794--94431217 Score: 543
Period size: 179 Copynumber: 2.4 Consensus size: 177
94430784 AAGGTTTCAT
* * *
94430794 TTTTATATTTTCATGTATTAATTTCTTAAAATGTTTTTATTTTTTTGTATCTGTAAATTTAATTT
1 TTTTATATTTTCGTGCATTAATTTC-TAAAATGTTTTTATTTTATTGTATCTGTAAATTTAATTT
* *
94430859 AATCTGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCATCTGTTTGTAA
65 AACCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCATCTGTTTGTAA
94430924 TTTGTTGGGTGTTTAATTTAATTTAGTCTATATTATATATAGTTTGAA
130 TTTGTTGGGTGTTTAATTTAATTTAGTCTATATTATATATAGTTTGAA
* ** * * **
94430972 TTTTAAATTTTCGTGCATTAATTT-TACCCATCTGTTTTTAGTTTGTTGGGTGCT-TAAATTTAA
1 TTTTATATTTTCGTGCATTAATTTCTA---AAATGTTTTTATTTTATTGTAT-CTGTAAATTTAA
*
94431035 TTTAGCCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCATCTGTTTG
62 TTTAACCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCATCTGTTTG
* *
94431100 TAGTTTGTTGGGTGTTTAAATTTAATTTAGTACGTATTATT-TGT-TA-TTTGAA
127 TAATTTGTTGGGTGTTT-AATTTAATTTAGT-C-TA-TATTATATATAGTTTGAA
* * * **
94431152 TTTTATATTTTTGTGGATTAATATTCTAGAATGTTTGCATTTTATTGTATCTGTAAATTTAATTT
1 TTTTATATTTTCGTGCATTAAT-TTCTAAAATGTTTTTATTTTATTGTATCTGTAAATTTAATTT
94431217 A
65 A
94431218 TTGTGTACTA
Statistics
Matches: 209, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
176 2 0.01
178 23 0.11
179 129 0.62
180 40 0.19
181 5 0.02
182 6 0.03
183 4 0.02
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.54
Consensus pattern (177 bp):
TTTTATATTTTCGTGCATTAATTTCTAAAATGTTTTTATTTTATTGTATCTGTAAATTTAATTTA
ACCCGTATTATATGTAGTTTGAATTTAAAATTTTTGTGTATTAATTTTACCCATCTGTTTGTAAT
TTGTTGGGTGTTTAATTTAATTTAGTCTATATTATATATAGTTTGAA
Found at i:94431308 original size:22 final size:20
Alignment explanation
Indices: 94431283--94431332 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
94431273 TTATTCAAAC
*
94431283 AAATAATTATTTTAGAAAAATT
1 AAATAATTATATTA-AAAAA-T
94431305 AAAT--TTATATTAAAAAAT
1 AAATAATTATATTAAAAAAT
94431323 AAAGTAATTA
1 AAA-TAATTA
94431333 CAAAATAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 7 0.29
21 3 0.12
22 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
AAATAATTATATTAAAAAAT
Found at i:94431337 original size:16 final size:16
Alignment explanation
Indices: 94431313--94431345 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
94431303 TTAAATTTAT
94431313 ATTAAAAAATAAAGTA
1 ATTAAAAAATAAAGTA
*
94431329 ATTACAAAATAAAGTA
1 ATTAAAAAATAAAGTA
94431345 A
1 A
94431346 ATATTTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
ATTAAAAAATAAAGTA
Found at i:94433768 original size:26 final size:26
Alignment explanation
Indices: 94433739--94433846 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
94433729 TGATACAAAT
*
94433739 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
94433765 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
94433791 TGATAATAGGTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94433817 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94433843 TGAT
1 TGAT
94433847 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94436596 original size:6 final size:6
Alignment explanation
Indices: 94436581--94436614 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
94436571 TTTCATTTCA
* *
94436581 TTTCCA TTTCTG TTTCCG TTTCCG TTTCCG TTTC
1 TTTCCG TTTCCG TTTCCG TTTCCG TTTCCG TTTC
94436615 ATTTCATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.29, G:0.12, T:0.56
Consensus pattern (6 bp):
TTTCCG
Found at i:94436621 original size:5 final size:5
Alignment explanation
Indices: 94436611--94436655 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
94436601 TCCGTTTCCG
* *
94436611 TTTCA TTTCA TTTAAA TTTCA TTTCA TTTCA TTTAAA TTTCA TTT
1 TTTCA TTTCA TTT-CA TTTCA TTTCA TTTCA TTT-CA TTTCA TTT
94436656 TTTCTATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 26 0.76
6 8 0.24
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:94436629 original size:11 final size:11
Alignment explanation
Indices: 94436615--94436675 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
94436605 TTTCCGTTTC
94436615 ATTTCATTTAA
1 ATTTCATTTAA
*
94436626 ATTTCATTT-C
1 ATTTCATTTAA
94436636 ATTTCATTTAA
1 ATTTCATTTAA
94436647 ATTTCATTT--
1 ATTTCATTTAA
94436656 -TTTCTATTTAA
1 ATTTC-ATTTAA
*
94436667 ATTTAATTT
1 ATTTCATTT
94436676 TTTTCATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 9 0.21
11 22 0.52
12 3 0.07
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTTCATTTAA
Found at i:94436635 original size:21 final size:21
Alignment explanation
Indices: 94436611--94436675 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
94436601 TCCGTTTCCG
94436611 TTTCATTTCATTTAAATTTCA
1 TTTCATTTCATTTAAATTTCA
94436632 TTTCATTTCATTTAAATTTCA
1 TTTCATTTCATTTAAATTTCA
*
94436653 TTT--TTTCTATTTAAATTTAA
1 TTTCATTTC-ATTTAAATTTCA
94436673 TTT
1 TTT
94436676 TTTTCATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
19 4 0.10
20 14 0.33
21 24 0.57
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTCATTTCATTTAAATTTCA
Found at i:94436679 original size:21 final size:20
Alignment explanation
Indices: 94436616--94436687 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 20
94436606 TTCCGTTTCA
*
94436616 TTTCATTTAAATTTCATTTCA
1 TTTCATTTAAATTTCATTT-T
94436637 TTTCATTTAAATTTCA-TTT
1 TTTCATTTAAATTTCATTTT
*
94436656 TTTCTATTTAAATTTAATTTT
1 TTTC-ATTTAAATTTCATTTT
94436677 TTTCATATTAA
1 TTTCAT-TTAA
94436688 TAGCAAGTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.09
20 15 0.33
21 27 0.59
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTCATTTAAATTTCATTTT
Found at i:94436762 original size:17 final size:17
Alignment explanation
Indices: 94436732--94436833 Score: 70
Period size: 17 Copynumber: 5.7 Consensus size: 17
94436722 CAGTATTTGT
94436732 TTTCATTTCAATTTATAA
1 TTTCATTTC-ATTTATAA
94436750 TTT-ATTTTCATTTA-AA
1 TTTCA-TTTCATTTATAA
94436766 CTTTCATTTCATTTCATAA
1 -TTTCATTTCATTT-ATAA
*
94436785 TCATTACAAATTCA-TT-TAA
1 T--TT-C-ATTTCATTTATAA
94436804 TTTCATATTCATTTA-ACA
1 TTTCAT-TTCATTTATA-A
94436822 TTTCATTTCATT
1 TTTCATTTCATT
94436834 AATTTTTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 27
0.70 0.02 0.28
Matches are distributed among these distances:
15 1 0.01
16 7 0.10
17 28 0.41
18 17 0.25
19 6 0.09
20 2 0.03
21 3 0.04
22 5 0.07
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTCATTTCATTTATAA
Found at i:94436777 original size:5 final size:5
Alignment explanation
Indices: 94436767--94436833 Score: 53
Period size: 5 Copynumber: 12.4 Consensus size: 5
94436757 TCATTTAAAC
* * * *
94436767 TTTCA TTTCA TTTCA TAATCA TTACAA ATTCA TTTAA TTTCA TATTCA
1 TTTCA TTTCA TTTCA T-TTCA TTTC-A TTTCA TTTCA TTTCA T-TTCA
94436815 TTTAACA TTTCA TTTCA TT
1 TTT--CA TTTCA TTTCA TT
94436834 AATTTTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
5 32 0.65
6 12 0.24
7 5 0.10
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.52
Consensus pattern (5 bp):
TTTCA
Found at i:94436779 original size:27 final size:28
Alignment explanation
Indices: 94436756--94436833 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 28
94436746 ATAATTTATT
94436756 TTCATTTAAACTTTCATTTCATTTCATA
1 TTCATTTAAACTTTCATTTCATTTCATA
* * *
94436784 ATCA-TTACAA-ATTCATTTAATTTCATA
1 TTCATTTA-AACTTTCATTTCATTTCATA
94436811 TTCATTT-AACATTTCATTTCATT
1 TTCATTTAAAC-TTTCATTTCATT
94436834 AATTTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.05
27 21 0.52
28 17 0.43
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (28 bp):
TTCATTTAAACTTTCATTTCATTTCATA
Found at i:94436815 original size:16 final size:16
Alignment explanation
Indices: 94436794--94436838 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
94436784 ATCATTACAA
94436794 ATTCATTTAATTTCAT
1 ATTCATTTAATTTCAT
94436810 ATTCATTTAACATTTCAT
1 ATTCATTT-A-ATTTCAT
94436828 -TTCA-TTAATTT
1 ATTCATTTAATTT
94436839 TTTTTCCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.15
15 1 0.04
16 10 0.37
17 5 0.19
18 7 0.26
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTCATTTAATTTCAT
Found at i:94437010 original size:22 final size:20
Alignment explanation
Indices: 94436970--94437015 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
94436960 TCTCAATTAC
94436970 ATTTTATTTAAATTTTTTCA
1 ATTTTATTTAAATTTTTTCA
94436990 TATTTTATTTAAATTTTTTTCA
1 -ATTTTATTTAAA-TTTTTTCA
94437012 ATTT
1 ATTT
94437016 AAATATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTATTTAAATTTTTTCA
Found at i:94437256 original size:12 final size:11
Alignment explanation
Indices: 94437237--94437318 Score: 74
Period size: 12 Copynumber: 6.9 Consensus size: 11
94437227 ATTTTCTTTT
*
94437237 TTTCATTTCAT
1 TTTCATTTCAA
94437248 TTTCAATTTTCAA
1 TTTC-A-TTTCAA
94437261 TTTTCATTTCTAA
1 -TTTCATTTC-AA
* *
94437274 ATTCATTTCAT
1 TTTCATTTCAA
*
94437285 TTTCATTTCTCA
1 TTTCATTTC-AA
94437297 TTTCATTTCACA
1 TTTCATTTCA-A
94437309 TTTCATTTCA
1 TTTCATTTCA
94437319 TCTACTTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
11 13 0.22
12 33 0.57
13 8 0.14
14 4 0.07
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTCATTTCAA
Found at i:94437290 original size:23 final size:23
Alignment explanation
Indices: 94437255--94437317 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
94437245 CATTTTCAAT
94437255 TTTCAATTTTCATTTCTAAATTCA
1 TTTC-ATTTTCATTTCTAAATTCA
* *
94437279 TTTCATTTTCATTTCTCATTTCA
1 TTTCATTTTCATTTCTAAATTCA
*
94437302 TTTCACATTTCATTTC
1 TTTCA-TTTTCATTTC
94437318 ATCTACTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 22 0.63
24 13 0.37
ACGTcount: A:0.22, C:0.21, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTCATTTTCATTTCTAAATTCA
Found at i:94437347 original size:15 final size:15
Alignment explanation
Indices: 94437296--94437351 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
94437286 TTCATTTCTC
94437296 ATTTCATTTCACATTT
1 ATTTCATTT-ACATTT
* *
94437312 CATTTCATCTACTTTT
1 -ATTTCATTTACATTT
* *
94437328 TTTTCATTTAAATTT
1 ATTTCATTTACATTT
94437343 ATTTCATTT
1 ATTTCATTT
94437352 TCCATTTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 19 0.59
16 5 0.16
17 8 0.25
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTCATTTACATTT
Found at i:94437374 original size:22 final size:20
Alignment explanation
Indices: 94437324--94437430 Score: 67
Period size: 22 Copynumber: 5.2 Consensus size: 20
94437314 TTTCATCTAC
*
94437324 TTTTTTTTCATTTAAATTTA
1 TTTTTTTTCATTTTAATTTA
*
94437344 TTTCATTTTCCATTTTAATTTA
1 TTT--TTTTTCATTTTAATTTA
*
94437366 CGTTTTTTTTCATATTAA--T-
1 --TTTTTTTTCATTTTAATTTA
* *
94437385 TTTTGTCTCATTTTAATTTA
1 TTTTTTTTCATTTTAATTTA
** *
94437405 TTTCATTTCAATTTATACTTTA
1 TTTTTTTTC-ATTT-TAATTTA
94437427 TTTT
1 TTTT
94437431 CATTTCATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
17 13 0.20
19 1 0.02
20 10 0.15
21 4 0.06
22 35 0.53
24 3 0.05
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTTTCATTTTAATTTA
Found at i:94437454 original size:23 final size:23
Alignment explanation
Indices: 94437403--94437489 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
94437393 CATTTTAATT
* *
94437403 TATTTCATTTCA-ATTTATACTTTA
1 TATTTCATTTCATATTCAT--TTAA
94437427 T-TTTCATTTCATATTCATTTAA
1 TATTTCATTTCATATTCATTTAA
94437449 TATTTCATTTCATATTCATTTAA
1 TATTTCATTTCATATTCATTTAA
*
94437472 TATTTTAGTTTCAT-TTCA
1 TATTTCA-TTTCATATTCA
94437490 AATTCATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
22 4 0.07
23 41 0.72
24 12 0.21
ACGTcount: A:0.28, C:0.13, G:0.01, T:0.59
Consensus pattern (23 bp):
TATTTCATTTCATATTCATTTAA
Found at i:94437457 original size:12 final size:12
Alignment explanation
Indices: 94437428--94437476 Score: 66
Period size: 11 Copynumber: 4.2 Consensus size: 12
94437418 TATACTTTAT
*
94437428 TTTCATTTCATA
1 TTTCATTTAATA
94437440 -TTCATTTAATA
1 TTTCATTTAATA
*
94437451 TTTCATTTCATA
1 TTTCATTTAATA
94437463 -TTCATTTAATA
1 TTTCATTTAATA
94437474 TTT
1 TTT
94437477 TAGTTTCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.62
12 12 0.38
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTCATTTAATA
Found at i:94437466 original size:29 final size:29
Alignment explanation
Indices: 94437407--94437529 Score: 127
Period size: 29 Copynumber: 4.5 Consensus size: 29
94437397 TTAATTTATT
* *
94437407 TCAT-TTCAATTT-ATACTTTATTTTCATT
1 TCATATTC-ATTTCATATTTTAGTTTCATT
94437435 TCATATTCATTT-A-A---TA-TTTCATT
1 TCATATTCATTTCATATTTTAGTTTCATT
*
94437458 TCATATTCATTTAATATTTTAGTTTCATT
1 TCATATTCATTTCATATTTTAGTTTCATT
* *
94437487 TCAAATTCATTTCATATTTTATTTTCATT
1 TCATATTCATTTCATATTTTAGTTTCATT
*
94437516 TCATATTAATTTCA
1 TCATATTCATTTCA
94437530 CTTTATTCAC
Statistics
Matches: 83, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
23 19 0.23
24 3 0.04
25 1 0.01
27 1 0.01
28 11 0.13
29 48 0.58
ACGTcount: A:0.28, C:0.13, G:0.01, T:0.58
Consensus pattern (29 bp):
TCATATTCATTTCATATTTTAGTTTCATT
Found at i:94437505 original size:18 final size:18
Alignment explanation
Indices: 94437484--94437522 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
94437474 TTTTAGTTTC
94437484 ATTTCAAATTCATTTCAT
1 ATTTCAAATTCATTTCAT
* **
94437502 ATTTTATTTTCATTTCAT
1 ATTTCAAATTCATTTCAT
94437520 ATT
1 ATT
94437523 AATTTCACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTCAAATTCATTTCAT
Found at i:94437510 original size:23 final size:24
Alignment explanation
Indices: 94437425--94437525 Score: 100
Period size: 23 Copynumber: 4.0 Consensus size: 24
94437415 ATTTATACTT
94437425 TATTTTCATTTCATATTCATTTAA
1 TATTTTCATTTCATATTCATTTAA
94437449 TA-TTTCATTTCATATTCATTTAA
1 TATTTTCATTTCATATTCATTTAA
* *
94437472 TATTTTAGTTTCATTTCAAATTCATTTCA
1 TA---T--TTTCATTTCATATTCATTTAA
94437501 TATTTT-ATTTTCAT-TTCATATTAA
1 TATTTTCA-TTTCATATTCAT-TTAA
94437525 T
1 T
94437526 TTCACTTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
23 29 0.45
24 14 0.22
26 1 0.02
29 21 0.32
ACGTcount: A:0.29, C:0.12, G:0.01, T:0.58
Consensus pattern (24 bp):
TATTTTCATTTCATATTCATTTAA
Found at i:94438191 original size:65 final size:65
Alignment explanation
Indices: 94438119--94438250 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
94438109 ATATTTTTAC
94438119 AATGTTTTTACAAGAACATACGCTCAATAATATATCATATGTCATTTTTGAGTCTGGTATTAGGA
1 AATGTTTTTACAAGAACATACGCTCAATAATATATCATATGTCATTTTTGAGTCTGGTATTAGGA
94438184 AATGTTTTTACAAGAACATACGCTCAATAATATATCATATGTCATTTTTGAGTCTGGTATTAGGA
1 AATGTTTTTACAAGAACATACGCTCAATAATATATCATATGTCATTTTTGAGTCTGGTATTAGGA
94438249 AA
1 AA
94438251 CGATTGATCG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (65 bp):
AATGTTTTTACAAGAACATACGCTCAATAATATATCATATGTCATTTTTGAGTCTGGTATTAGGA
Found at i:94440133 original size:11 final size:11
Alignment explanation
Indices: 94440117--94440150 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
94440107 CGGATGTATA
94440117 CGACAAGAAGT
1 CGACAAGAAGT
94440128 CGACAAGAAGT
1 CGACAAGAAGT
94440139 CGACAAGTAAGT
1 CGACAAG-AAGT
94440151 ACCTACGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.12
Consensus pattern (11 bp):
CGACAAGAAGT
Found at i:94440556 original size:48 final size:48
Alignment explanation
Indices: 94440485--94440660 Score: 271
Period size: 48 Copynumber: 3.7 Consensus size: 48
94440475 GTAAGATCTC
*
94440485 GTGTAAGACCATGTCAGGGACATGGCATCGGCGTTGATATGTATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTATGCCA
*
94440533 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGCATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTATGCCA
* * * *
94440581 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCAA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTATGCCA
* * *
94440629 GTGTAATACCATGTCTAGGATATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
94440661 ACCAATATGT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTATGCCA
Found at i:94440669 original size:96 final size:96
Alignment explanation
Indices: 94440485--94440702 Score: 267
Period size: 96 Copynumber: 2.3 Consensus size: 96
94440475 GTAAGATCTC
* * * *
94440485 GTGTAAGACCATGTCAGGGACATGGCATCGGCGTTGATATGTATGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCAGGGACATGGCATCAGCGATGATATGTATGCAAGTGTAAGACCATGTCTA
****
94440550 GGACATGGCATCGGCGTTGATATGCATGCCA
66 GGACATGGCATCGGCACCAATATGCATGCCA
* * *
94440581 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCAAGTGTAATACCATGTCTA
1 GTGTAAGACCATGTCAGGGACATGGCATCAGCGATGATATGTATGCAAGTGTAAGACCATGTCTA
* * *
94440646 GGATATGGCATCGGCACCAATATGTGAT-CCC
66 GGACATGGCATCGGCACCAATATG-CATGCCA
* * *
94440677 GTATAAGACCATATCAGGGATATGGC
1 GTGTAAGACCATGTCAGGGACATGGC
94440703 TTCGACATCA
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
96 101 0.98
97 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
GTGTAAGACCATGTCAGGGACATGGCATCAGCGATGATATGTATGCAAGTGTAAGACCATGTCTA
GGACATGGCATCGGCACCAATATGCATGCCA
Found at i:94440688 original size:48 final size:48
Alignment explanation
Indices: 94440636--94440755 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
94440626 CAAGTGTAAT
* * *
94440636 ACCATGTCTAGGATATGGCATCGGCACCAATATGTGATCCCGTATAAG
1 ACCATATCTAGGATATGGCATCGACACCAATAAGTGATCCCGTATAAG
* * * * **
94440684 ACCATATC-AGGGATATGGCTTCGACATCATTAAGTTATTTCGTATAAG
1 ACCATATCTA-GGATATGGCATCGACACCAATAAGTGATCCCGTATAAG
* *
94440732 ACCATATCTGGGATATGGCGTCGA
1 ACCATATCTAGGATATGGCATCGA
94440756 TATGTAGATC
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 1 0.02
48 58 0.98
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (48 bp):
ACCATATCTAGGATATGGCATCGACACCAATAAGTGATCCCGTATAAG
Found at i:94443860 original size:42 final size:42
Alignment explanation
Indices: 94443813--94443893 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
94443803 GTCTTACGAC
* *
94443813 ATACGAGCAGACGTGCATGTGTGTGAACCTTCTAGTTTTCTT
1 ATACGAGCAAACGTGCATGTGTATGAACCTTCTAGTTTTCTT
* * *
94443855 ATACGAGCAAATGTGTATGTGTATGGACCTTCTAGTTTT
1 ATACGAGCAAACGTGCATGTGTATGAACCTTCTAGTTTT
94443894 TTTACCATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (42 bp):
ATACGAGCAAACGTGCATGTGTATGAACCTTCTAGTTTTCTT
Found at i:94447189 original size:69 final size:70
Alignment explanation
Indices: 94447077--94447236 Score: 225
Period size: 69 Copynumber: 2.3 Consensus size: 70
94447067 TCAACTTTAC
*
94447077 CCTTCTCCCTCTTTTTCGTTCTCACGTCTGAAGCAACTTCTTTTTTTTCA-TC-CTTCCCATTTC
1 CCTTCT-CCTCTTTTTCATTCTCACGTCTGAAGCAACTTC-TTTTTTTCATTCTCTTCCCATTTC
94447140 CTTCCAA
64 CTTCCAA
* * *
94447147 CCTTCTCCTCTTTTTCATTGTCACGTCTGAATCATCTTCTTTTTTTCATTCTTCTTCCCATTTCC
1 CCTTCTCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCATTC-TCTTCCCATTTCC
94447212 TTCCAA
65 TTCCAA
*
94447218 CCATCTCTCTCTTTTTCAT
1 CCTTCTC-CTCTTTTTCAT
94447237 GCTTATATCC
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
68 9 0.11
69 31 0.38
70 6 0.07
71 24 0.30
72 11 0.14
ACGTcount: A:0.12, C:0.34, G:0.04, T:0.49
Consensus pattern (70 bp):
CCTTCTCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCATTCTCTTCCCATTTCCT
TCCAA
Found at i:94451856 original size:17 final size:17
Alignment explanation
Indices: 94451836--94451868 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94451826 ATTAAGAATG
94451836 TTATTAAATTAAATTTT
1 TTATTAAATTAAATTTT
*
94451853 TTATTAAATTATATTT
1 TTATTAAATTAAATTT
94451869 AATAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAATTAAATTTT
Found at i:94452129 original size:16 final size:16
Alignment explanation
Indices: 94452108--94452146 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
94452098 TGAATTACTG
*
94452108 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCA
*
94452124 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
94452140 ATTACAG
1 ATTACAG
94452147 TGAACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:94452881 original size:17 final size:17
Alignment explanation
Indices: 94452855--94452887 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
94452845 ATTTAAGGAT
94452855 GAAAAATAAA-GAAAAC
1 GAAAAATAAATGAAAAC
94452871 GAAAAATTAAATGAAAA
1 GAAAAA-TAAATGAAAA
94452888 GTTAAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
GAAAAATAAATGAAAAC
Found at i:94464945 original size:6 final size:7
Alignment explanation
Indices: 94464927--94464952 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
94464917 ATGGTGGTGG
94464927 ATTTTTT
1 ATTTTTT
94464934 ATTTTTT
1 ATTTTTT
94464941 ATTTTTT
1 ATTTTTT
94464948 ATTTT
1 ATTTT
94464953 AAAATGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:94466323 original size:29 final size:28
Alignment explanation
Indices: 94466266--94466320 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
94466256 TTCCTTAAAA
*
94466266 AAAAGAAAACGAAGAAAATATAATTTTC
1 AAAAGAAAAAGAAGAAAATATAATTTTC
* *
94466294 AAAAGAAAAATAATAAAATATAATTTT
1 AAAAGAAAAAGAAGAAAATATAATTTT
94466321 TCAGTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (28 bp):
AAAAGAAAAAGAAGAAAATATAATTTTC
Found at i:94467689 original size:20 final size:20
Alignment explanation
Indices: 94467666--94467706 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
94467656 GCCAAAGCAT
94467666 ATAGCACTACAGCAAAATAG
1 ATAGCACTACAGCAAAATAG
94467686 ATAGCACTACAGCAAAATAG
1 ATAGCACTACAGCAAAATAG
94467706 A
1 A
94467707 CTTTTAGCGG
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:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (20 bp):
ATAGCACTACAGCAAAATAG
Found at i:94467921 original size:40 final size:41
Alignment explanation
Indices: 94467868--94467953 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 41
94467858 CAAATAATCA
* * * * * *
94467868 AGCATTAGCGGCGCTTTTAGGAAAACGCCGC-TATATGTTG
1 AGCAATAGCGGCGCTTTCACGAAAACACCGCAAATATGATG
*
94467908 AGCAATAGTGGCGCTTTCACGAAAACACCGCAAATATGATG
1 AGCAATAGCGGCGCTTTCACGAAAACACCGCAAATATGATG
94467949 AGCAA
1 AGCAA
94467954 AACGACGACG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 26 0.68
41 12 0.32
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (41 bp):
AGCAATAGCGGCGCTTTCACGAAAACACCGCAAATATGATG
Found at i:94468694 original size:28 final size:29
Alignment explanation
Indices: 94468663--94468753 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
94468653 TAGGAATTAT
* *
94468663 GTTTATGGCTTATGGTTTAAG-GGTT-GGG
1 GTTTAAGGCTTATGGGTT-AGTGGTTAGGG
*
94468691 GTTTAAGGGTTATGGGTTAGTGGTTAGGG
1 GTTTAAGGCTTATGGGTTAGTGGTTAGGG
* * * *
94468720 G-TTAGGGGTTTAGGGGTTAGGGGTTAGGG
1 GTTTA-AGGCTTATGGGTTAGTGGTTAGGG
94468749 GTTTA
1 GTTTA
94468754 GGGGTTAAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.04
28 22 0.42
29 25 0.48
30 3 0.06
ACGTcount: A:0.15, C:0.01, G:0.45, T:0.38
Consensus pattern (29 bp):
GTTTAAGGCTTATGGGTTAGTGGTTAGGG
Found at i:94468715 original size:14 final size:14
Alignment explanation
Indices: 94468683--94468774 Score: 105
Period size: 14 Copynumber: 6.4 Consensus size: 14
94468673 TATGGTTTAA
*
94468683 GGGTT-GGGGTTTAA
1 GGGTTAGGGG-TTAG
*
94468697 GGGTTATGGGTTAG
1 GGGTTAGGGGTTAG
*
94468711 TGGTTAGGGGTTAG
1 GGGTTAGGGGTTAG
94468725 GGGTTTAGGGGTTAG
1 GGG-TTAGGGGTTAG
94468740 GGGTTAGGGGTTTAG
1 GGGTTAGGGG-TTAG
* *
94468755 GGGTTAAGGCTTAG
1 GGGTTAGGGGTTAG
94468769 GGGTTA
1 GGGTTA
94468775 TTATTTTATG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
14 39 0.57
15 29 0.43
ACGTcount: A:0.15, C:0.01, G:0.50, T:0.34
Consensus pattern (14 bp):
GGGTTAGGGGTTAG
Found at i:94468715 original size:22 final size:22
Alignment explanation
Indices: 94468688--94468773 Score: 111
Period size: 22 Copynumber: 3.9 Consensus size: 22
94468678 TTTAAGGGTT
*
94468688 GGGGTTTAAGGGTTATGGG-TTA
1 GGGG-TTAAGGGTTAGGGGTTTA
* *
94468710 GTGGTTAGGGGTTAGGGGTTTA
1 GGGGTTAAGGGTTAGGGGTTTA
*
94468732 GGGGTTAGGGGTTAGGGGTTTA
1 GGGGTTAAGGGTTAGGGGTTTA
*
94468754 GGGGTTAAGGCTTAGGGGTT
1 GGGGTTAAGGGTTAGGGGTT
94468774 ATTATTTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 12 0.21
22 45 0.79
ACGTcount: A:0.15, C:0.01, G:0.50, T:0.34
Consensus pattern (22 bp):
GGGGTTAAGGGTTAGGGGTTTA
Found at i:94468990 original size:21 final size:21
Alignment explanation
Indices: 94468966--94469021 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
94468956 ATTGTTTGTG
* * *
94468966 GTTTATGGTTTAGGGGATATA
1 GTTTAGGGTTTAAGAGATATA
94468987 GTTTAGGGTTTAAGAGATATA
1 GTTTAGGGTTTAAGAGATATA
*
94469008 GTTTAGAGTTTAAG
1 GTTTAGGGTTTAAG
94469022 GTTATGGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.30, T:0.41
Consensus pattern (21 bp):
GTTTAGGGTTTAAGAGATATA
Found at i:94471337 original size:14 final size:14
Alignment explanation
Indices: 94471319--94471363 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
94471309 TAATGTATAT
94471319 ATATATCAATATG-
1 ATATATCAATATGC
*
94471332 -TATAT--ATATAC
1 ATATATCAATATGC
94471343 ATATATCAATATGC
1 ATATATCAATATGC
94471357 ATATATC
1 ATATATC
94471364 TTGGGTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
10 4 0.15
12 10 0.38
14 12 0.46
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (14 bp):
ATATATCAATATGC
Found at i:94471346 original size:24 final size:24
Alignment explanation
Indices: 94471314--94471362 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
94471304 GATTGTAATG
* *
94471314 TATATATATATCAATATGTATATA
1 TATACATATATCAATATGCATATA
94471338 TATACATATATCAATATGCATATA
1 TATACATATATCAATATGCATATA
94471362 T
1 T
94471363 CTTGGGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (24 bp):
TATACATATATCAATATGCATATA
Found at i:94471531 original size:25 final size:25
Alignment explanation
Indices: 94471474--94471536 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
94471464 TCCGCATCGT
* * *
94471474 CGTCGGCAGCCCTATGCTACATTTT
1 CGTCGGCATCCCTATGCTACATCTC
* * *
94471499 CATTGGCATCCCTTTGCTACATCTC
1 CGTCGGCATCCCTATGCTACATCTC
94471524 CGTCGGCATCCCT
1 CGTCGGCATCCCT
94471537 CTGTTGCTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.14, C:0.37, G:0.17, T:0.32
Consensus pattern (25 bp):
CGTCGGCATCCCTATGCTACATCTC
Found at i:94473387 original size:13 final size:14
Alignment explanation
Indices: 94473371--94473399 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94473361 TTATAAATAT
94473371 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
94473384 TTATAATGGTTTAA
1 TTATAATGGTTTAA
94473398 TT
1 TT
94473400 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:94473861 original size:21 final size:20
Alignment explanation
Indices: 94473810--94473884 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
94473800 CTTAGAGCGG
94473810 ATGCAGCAGCGAGGGAGGCA
1 ATGCAGCAGCGAGGGAGGCA
* *
94473830 ACGACAACAGCGAGGGAGGCA
1 ATG-CAGCAGCGAGGGAGGCA
* **
94473851 GTTGCAGCAGCGAAAGAGGCAA
1 -ATGCAGCAGCGAGGGAGGC-A
*
94473873 AGGCAGCAGCGA
1 ATGCAGCAGCGA
94473885 TGGCAGCAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.05
21 39 0.91
22 2 0.05
ACGTcount: A:0.35, C:0.21, G:0.40, T:0.04
Consensus pattern (20 bp):
ATGCAGCAGCGAGGGAGGCA
Done.