Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 129 of 332
Found at i:42025986 original size:126 final size:127
Alignment explanation
Indices: 42025819--42026076 Score: 387
Period size: 126 Copynumber: 2.0 Consensus size: 127
42025809 ATTTATAGCC
*
42025819 TTATTTTTCAACGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGATTTCTTCTA-AAATTTTA
1 TTATTTTTCAACGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGATTT-TTCCAGAAATTTTA
* * * * *
42025883 CTGACAGTGCATCCTGCTTGAAGCGTTTT-TGGCACTGTTTGTTC-AGAAACGTCTACTCAGAA
65 CTGACAGTGCATCCTGCTTGAAACATTTTCCGACACTATTT-TTCTAGAAACGTCTACTCAGAA
* * * *
42025945 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCTACGTGGGAGCTTTTTCCAGAAATTTTAC
1 TTATTTTTCAACGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGATTTTTCCAGAAATTTTAC
42026010 TGACAGTGCATCCTGCTTGAAACATTTTCCGACACTATTTTTCTAGAAACGTCTACTCAGAA
66 TGACAGTGCATCCTGCTTGAAACATTTTCCGACACTATTTTTCTAGAAACGTCTACTCAGAA
42026072 TTATT
1 TTATT
42026077 CTTGCAGAAA
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
125 4 0.03
126 84 0.71
127 31 0.26
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (127 bp):
TTATTTTTCAACGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGATTTTTCCAGAAATTTTAC
TGACAGTGCATCCTGCTTGAAACATTTTCCGACACTATTTTTCTAGAAACGTCTACTCAGAA
Found at i:42026409 original size:20 final size:20
Alignment explanation
Indices: 42026384--42026454 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
42026374 TTATATGTAC
42026384 CAATTAACCCTAAATTTAAT
1 CAATTAACCCTAAATTTAAT
* * *
42026404 CAATTAACCTTAAACCCTAAAT
1 CAATTAACCCTAAA--TTTAAT
*
42026426 CAA-T--CCAT-AATTTAAT
1 CAATTAACCCTAAATTTAAT
42026442 CAATTAACCCTAA
1 CAATTAACCCTAA
42026455 TACCCTAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
16 7 0.18
17 1 0.03
18 2 0.05
19 6 0.16
20 14 0.37
21 1 0.03
22 7 0.18
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (20 bp):
CAATTAACCCTAAATTTAAT
Found at i:42027746 original size:126 final size:125
Alignment explanation
Indices: 42027521--42027901 Score: 523
Period size: 126 Copynumber: 3.0 Consensus size: 125
42027511 TTATAGCCTC
* * * *
42027521 ATTTTTCTACGAACTACTATAGCAAAAGAACGTTCGCGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * *
42027586 ACAGTGCATCCTGCTTGAAGCATTTTCGGCACTATTTGTTCAGAAATGTTTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAG-TTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * * *
42027647 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATTGGAGCTTTTTCCAAAACAATTT-CT
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAA-ATTTTGCT
* * *
42027711 AATAGTGCATCCTGCTTGAAGTGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
65 GACAGTGCATCCTGCTTGAAGT-TTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
42027773 ATTTTTCTACGAACTACTATTGTAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * *
42027838 ACAGTGCATCCTGCTTGAAACGTTTTTCGACACTATTT-TTTAGAAACGTCTGCTCAGAATT
66 ACAGTGCATCCTGCTTG-AA-GTTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
42027899 ATT
1 ATT
42027902 CTTGCAGAAA
Statistics
Matches: 222, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
125 4 0.02
126 196 0.88
127 20 0.09
128 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (125 bp):
ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGTTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:42028235 original size:20 final size:20
Alignment explanation
Indices: 42028210--42028282 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
42028200 TCTTGTATGT
42028210 ATCAATTAATCCTAAATTTA
1 ATCAATTAATCCTAAATTTA
* **
42028230 ATCAATTAACCCTAAACCCT-
1 ATCAATTAATCCTAAA-TTTA
*
42028250 A--AATCAATCC-ATAATTTA
1 ATCAATTAATCCTA-AATTTA
42028268 ATCAATTAATCCTAA
1 ATCAATTAATCCTAA
42028283 TACCCTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
17 2 0.05
18 10 0.26
20 25 0.64
21 2 0.05
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCAATTAATCCTAAATTTA
Found at i:42029571 original size:126 final size:125
Alignment explanation
Indices: 42029342--42029721 Score: 521
Period size: 126 Copynumber: 3.0 Consensus size: 125
42029332 TTATAGCCTC
* ** * *
42029342 ATTTTTCTACGAACTACTGTAGTAAAAGAGCGTCCACGTGGAAGGTTTTCCAGAAATTTTGCTGA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAAAGTCCACGTGGGAGCTTTTCCAGAAATTTTGCTGA
* * *
42029407 CAGTGCATCCTGCTTGAAGCATTTTCGGCACTACTTGTTCTGAAACGTCTACTCAGAATT
66 CAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
42029467 ATTTTTCAACGAACTACTGTAGCAAAAGAAAGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAAAGTCCACGTGGGAGC-TTTTCCAGAAATTTTGCTG
* * * *
42029532 ACAGTGCATTCTTCTTGAAGCGTTTTTGGCACTATTTGTTCAGAAACGTCTATTCAGAATT
65 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * *
42029593 ATTTTTCTACAAACTACTGTAGCAAAAGAGCA-TCCATGTAGGAGCTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGA-AAGTCCACGTGGGAGCTTTTCCAGAAATTTTGCTG
* * *
42029657 ACAGTGCATCCTGCTTGAAGCGTTTTCCGACACT-TTTTTTCCAGAAACGTCTGCTCAGAATT
65 ACAGTGCATCCTGCTTGAAGCGTTTT-CGGCACTATTTGTT-CAGAAACGTCTACTCAGAATT
42029719 ATT
1 ATT
42029722 CTTGCAGAAA
Statistics
Matches: 224, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
125 86 0.38
126 137 0.61
127 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (125 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAAAGTCCACGTGGGAGCTTTTCCAGAAATTTTGCTGA
CAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:42030061 original size:20 final size:20
Alignment explanation
Indices: 42030036--42030104 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
42030026 TCTTGTATGT
42030036 ATCAATTAACCTAAAATTTA
1 ATCAATTAACCTAAAATTTA
* *
42030056 ATCAATTAACCCTAAACTCTAA
1 ATCAATTAA-CCTAAAAT-TTA
*
42030078 ATCAA-T--CC-ATAATTTA
1 ATCAATTAACCTAAAATTTA
42030094 ATCAATTAACC
1 ATCAATTAACC
42030105 CTAATACCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 7 0.18
17 4 0.10
18 2 0.05
19 2 0.05
20 9 0.23
21 8 0.21
22 7 0.18
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (20 bp):
ATCAATTAACCTAAAATTTA
Found at i:42032665 original size:22 final size:21
Alignment explanation
Indices: 42032635--42032700 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
42032625 TACAAATTAA
42032635 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
42032657 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
42032678 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
42032697 ATCT
1 ATCT
42032701 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:42032687 original size:19 final size:19
Alignment explanation
Indices: 42032652--42032730 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
42032642 AGATTACAAG
42032652 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
42032673 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
42032692 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
42032709 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
42032728 ATC
1 ATC
42032731 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:42032694 original size:14 final size:15
Alignment explanation
Indices: 42032674--42032730 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
42032664 AGATTGCATA
42032674 TCATATCTAAGATTG
1 TCATATCTAAGATTG
42032689 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
42032708 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
42032725 -CATATC
1 TCATATC
42032731 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:42032716 original size:36 final size:39
Alignment explanation
Indices: 42032652--42032730 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
42032642 AGATTACAAG
42032652 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
42032692 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
42032728 ATC
1 ATC
42032731 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:42033481 original size:206 final size:206
Alignment explanation
Indices: 42033120--42033861 Score: 1218
Period size: 206 Copynumber: 3.6 Consensus size: 206
42033110 AATCTGTTAT
* *
42033120 CTTCGATCTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * *
42033185 GCGAAAACCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * *
42033250 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
42033315 GAGACGCCAAA
196 GAGACGCCAAA
*
42033326 CTTCGATTGGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
42033391 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
42033456 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCATCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
*
42033521 GAGATGCCAAA
196 GAGACGCCAAA
* *
42033532 CTTTGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
42033597 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * *
42033662 GGATCTGTTTCAGTATAAACATATGAAGGTCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
42033727 GAGACGCCAAA
196 GAGACGCCAAA
* *
42033738 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC-C
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
42033802 GTGAAAGCCAAATCAACTATGTCATT-GATTTGTTCCTTATAAGCACAAGGATGCCAAATC
66 GTGAAAGCCAAATCAACTATGTC-TTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
42033862 TACTATCTTC
Statistics
Matches: 501, Mismatches: 34, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
205 55 0.11
206 446 0.89
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
GAGACGCCAAA
Found at i:42034046 original size:43 final size:43
Alignment explanation
Indices: 42033866--42034089 Score: 186
Period size: 44 Copynumber: 5.1 Consensus size: 43
42033856 CAAATCTACT
* * *
42033866 ATCTTCAACTTGTTCCCTATAAACAAAGGGATGCCATGCTGAA
1 ATCTTCAGCTTGTTCCCTATAAACACAGGGATGTCATGCTGAA
* * * * * **
42033909 ATCTTC-GATCTGCTTCGCTGTAAGCACAGGAATGTCA-GATCTGCT
1 ATCTTCAGCT-TG-TTCCCTATAAACACAGGGATGTCATG--CTGAA
* * * * **
42033954 ATCTT-TGATTTGTTCCCTATAAAAACAGGGATGCTAAAT-CTGCT
1 ATCTTCAG-CTTGTTCCCTATAAACACAGGGATG-T-CATGCTGAA
42033998 ATCTTCAGCTTGTTCCCTATAAACACAGGGATGTCATGCTGAA
1 ATCTTCAGCTTGTTCCCTATAAACACAGGGATGTCATGCTGAA
* * *
42034041 ATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAA
1 ATCTTCAGCTTGTTCCCTATAAACACAGGGATGTCATGCTGAA
42034084 ATCTTC
1 ATCTTC
42034090 GATCTGCTTC
Statistics
Matches: 144, Mismatches: 26, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
42 3 0.02
43 59 0.41
44 67 0.47
45 13 0.09
46 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (43 bp):
ATCTTCAGCTTGTTCCCTATAAACACAGGGATGTCATGCTGAA
Found at i:42034156 original size:44 final size:43
Alignment explanation
Indices: 42033828--42034157 Score: 167
Period size: 44 Copynumber: 7.5 Consensus size: 43
42033818 CTATGTCATT
* * *
42033828 GATTTGTTCCTTATAAGCACAAGGA-TGCCAAATCTACTATCTTC
1 GATTTGTTCCCTATAAACAC-AGGAGTG-CAAATCTGCTATCTTC
* * * * **
42033872 AACTTGTTCCCTATAAACAAAGG-GATGC-CATGCTGAAATCTTC
1 GATTTGTTCCCTATAAACACAGGAG-TGCAAAT-CTGCTATCTTC
* * * * * * *
42033915 GATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTT
1 GATTTG-TTCCCTATAAACACAGGAGTG-CAAATCTGCTATCTTC
*
42033960 GATTTGTTCCCTATAAAAACAGG-GATGCTAAATCTGCTATCTTC
1 GATTTGTTCCCTATAAACACAGGAG-TGC-AAATCTGCTATCTTC
* **
42034004 -AGCTTGTTCCCTATAAACACAGG-GATGTC--ATGCTGAAATCTTC
1 GA-TTTGTTCCCTATAAACACAGGAG-TG-CAAAT-CTGCTATCTTC
* * * **
42034047 AACTTGTTCCCTATAAACACAAGGA-TGC-CATGCTGAAATCTTC
1 GATTTGTTCCCTATAAACAC-AGGAGTGCAAAT-CTGCTATCTTC
* * * * *
42034090 GATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTC
1 GATTTG-TTCCCTATAAACACAGGAGTG-CAAATCTGCTATCTTC
*
42034135 GATTTGTTCCCTATAAGCACAGG
1 GATTTGTTCCCTATAAACACAGG
42034158 GATGCCAAAT
Statistics
Matches: 221, Mismatches: 45, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
42 5 0.02
43 67 0.30
44 115 0.52
45 30 0.14
46 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (43 bp):
GATTTGTTCCCTATAAACACAGGAGTGCAAATCTGCTATCTTC
Found at i:42035040 original size:14 final size:15
Alignment explanation
Indices: 42035021--42035049 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42035011 TTGGCCTCTC
42035021 CATTTTTCT-TTTTT
1 CATTTTTCTCTTTTT
42035035 CATTTTTCTCTTTTT
1 CATTTTTCTCTTTTT
42035050 TCTTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (15 bp):
CATTTTTCTCTTTTT
Found at i:42035048 original size:16 final size:15
Alignment explanation
Indices: 42035023--42035090 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
42035013 GGCCTCTCCA
42035023 TTTT-TCTTTTTTCAT
1 TTTTCTCTTTTTTC-T
42035038 TTTTCTCTTTTTTCT
1 TTTTCTCTTTTTTCT
* *
42035053 TTTTATTCTTTTTCTTATT
1 TTTT-CTC-TTTT-TT-CT
*
42035072 TTTTCTGTTTTTTCT
1 TTTTCTCTTTTTTCT
42035087 TTTT
1 TTTT
42035091 TTTTTGAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
15 14 0.33
16 13 0.30
17 8 0.19
18 3 0.07
19 5 0.12
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (15 bp):
TTTTCTCTTTTTTCT
Found at i:42035049 original size:9 final size:8
Alignment explanation
Indices: 42035023--42035092 Score: 65
Period size: 9 Copynumber: 8.6 Consensus size: 8
42035013 GGCCTCTCCA
42035023 TTTTTC-T
1 TTTTTCTT
*
42035030 TTTTTC-A
1 TTTTTCTT
42035037 TTTTTCTCT
1 TTTTTCT-T
42035046 TTTTTCTT
1 TTTTTCTT
42035054 TTTATTCTT
1 TTT-TTCTT
*
42035063 TTTCTT-AT
1 TTT-TTCTT
42035071 TTTTTCTGT
1 TTTTTCT-T
42035080 TTTTTCTT
1 TTTTTCTT
42035088 TTTTT
1 TTTTT
42035093 TTTGAAATAG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
7 14 0.26
8 14 0.26
9 25 0.47
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:42035073 original size:25 final size:23
Alignment explanation
Indices: 42035023--42035090 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 23
42035013 GGCCTCTCCA
*
42035023 TTTTTC-TTTTTTCATTTTTCTCT
1 TTTTTCTTTTTTTC-TTTTTCTAT
42035046 TTTTTCTTTTTATTCTTTTTCTTAT
1 TTTTTCTTTTT-TTCTTTTTC-TAT
42035071 TTTTTCTGTTTTTTCTTTTT
1 TTTTTCT-TTTTTTCTTTTT
42035091 TTTTTGAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 6 0.15
24 10 0.25
25 20 0.50
26 4 0.10
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (23 bp):
TTTTTCTTTTTTTCTTTTTCTAT
Found at i:42035091 original size:16 final size:15
Alignment explanation
Indices: 42035023--42035092 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 15
42035013 GGCCTCTCCA
42035023 TTTTTCTTTTTTCATT
1 TTTTTCTTTTTTC-TT
*
42035039 TTTCTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
42035054 TTTATTC-TTTTTCTTAT
1 TTT-TTCTTTTTTC-T-T
42035071 TTTTTCTGTTTTTTCTT
1 TTTTTC--TTTTTTCTT
42035088 TTTTT
1 TTTTT
42035093 TTTGAAATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.24
16 18 0.39
17 10 0.22
18 1 0.02
19 6 0.13
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:42040749 original size:40 final size:40
Alignment explanation
Indices: 42040659--42040843 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
42040649 TCGAATGATG
* * *
42040659 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * * *
42040698 ATCCAGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42040739 TCCGGGCTAAG-CCCGAAGGCATTAGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42040778 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
42040817 AACCGGGCTATA-TCCCGAAGGCATTTG
1 -TCCGGGCTA-AGTCCCGAAGGCATTTG
42040844 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:42040865 original size:79 final size:79
Alignment explanation
Indices: 42040712--42040866 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
42040702 AGACTAAGAT
* * **
42040712 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTAGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
*
42040777 ATCTGGGTTAAGTC
66 ATCTCGGTTAAGTC
* * *
42040791 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATATCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTA-AGCCCGAAGGCATTAGAACGAGTTA-C
*
42040854 TATATC-CGGTTAA
63 TAAATCTCGGTTAA
42040867 ATTCTGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTAGAACGAGTTACTAA
ATCTCGGTTAAGTC
Found at i:42043392 original size:23 final size:22
Alignment explanation
Indices: 42043349--42043406 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
42043339 AAAAGGTATC
* *
42043349 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
42043370 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
42043393 TGCATATCATATCT
1 TACAAATCATATCT
42043407 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:42043420 original size:22 final size:19
Alignment explanation
Indices: 42043376--42043423 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
42043366 AGATTACAAA
42043376 ATCATATCTTCTAAGATTG
1 ATCATATCTTCTAAGATTG
42043395 --CATATCATATCTAAGATTG
1 ATCATATC-T-TCTAAGATTG
42043414 TATCATATCT
1 -ATCATATCT
42043424 AAGATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (19 bp):
ATCATATCTTCTAAGATTG
Found at i:42043446 original size:17 final size:19
Alignment explanation
Indices: 42043385--42043438 Score: 94
Period size: 17 Copynumber: 2.9 Consensus size: 19
42043375 AATCATATCT
42043385 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42043404 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
42043421 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
42043439 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:42045147 original size:21 final size:21
Alignment explanation
Indices: 42045110--42045166 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 21
42045100 GGTTTAAAAC
*
42045110 AAATAATATATGAAAAAC-TTA
1 AAATAATA-ATAAAAAACATTA
42045131 AAATAATAATAATAAAACAATTTA
1 AAATAATAATAA-AAAAC-A-TTA
42045155 AAATAAGTAATA
1 AAATAA-TAATA
42045167 TAAGAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.10
21 13 0.43
24 9 0.30
25 5 0.17
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
AAATAATAATAAAAAACATTA
Found at i:42045155 original size:49 final size:52
Alignment explanation
Indices: 42045102--42045207 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 52
42045092 AATAAAAGGG
*
42045102 TTTAAAACAAATAATATATGAAAA-ACTT-A-AAATAATAATAATAAAACAA
1 TTTAAAACAAATAATATAAGAAAAGACTTAATAAATAATAATAATAAAACAA
* * *
42045151 TTTAAAATAAGTAATATAAGAAAAGACTTAACATAAATGATAATAATAAAACAA
1 TTTAAAACAAATAATATAAGAAAAGACTT-A-ATAAATAATAATAATAAAACAA
42045205 TTT
1 TTT
42045208 TTTTTAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 21 0.44
50 4 0.08
53 1 0.02
54 22 0.46
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.28
Consensus pattern (52 bp):
TTTAAAACAAATAATATAAGAAAAGACTTAATAAATAATAATAATAAAACAA
Found at i:42045169 original size:24 final size:22
Alignment explanation
Indices: 42045110--42045174 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 22
42045100 GGTTTAAAAC
* *
42045110 AAATAAT-ATATGAAAAACTTA
1 AAATAATAATATAAAAAATTTA
42045131 AAATAATAATAATAAAACAATTTA
1 AAATAATAAT-ATAAAA-AATTTA
42045155 AAATAAGTAATATAAGAAAA
1 AAATAA-TAATATAA-AAAA
42045175 GACTTAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 7 0.19
22 2 0.05
23 5 0.14
24 17 0.46
25 6 0.16
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (22 bp):
AAATAATAATATAAAAAATTTA
Found at i:42047324 original size:36 final size:36
Alignment explanation
Indices: 42047284--42047357 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
42047274 GTTAGTGCAT
*
42047284 TAACAGATAATTCACTTGAATTATCATAAGGTAAGC
1 TAACACATAATTCACTTGAATTATCATAAGGTAAGC
42047320 TAACACATAATTCACTTGAATTATCATAAGGTAAGC
1 TAACACATAATTCACTTGAATTATCATAAGGTAAGC
42047356 TA
1 TA
42047358 GGTGTACATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (36 bp):
TAACACATAATTCACTTGAATTATCATAAGGTAAGC
Found at i:42049567 original size:35 final size:35
Alignment explanation
Indices: 42049516--42049591 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
42049506 GTACTACTGA
*
42049516 TTTGGTGGCTAGTCTTTATTGTGTTCTTTAGCAAT
1 TTTGCTGGCTAGTCTTTATTGTGTTCTTTAGCAAT
42049551 TTTGCTGGCTAGTCTTTATTGTGTTCTTTAGCAAT
1 TTTGCTGGCTAGTCTTTATTGTGTTCTTTAGCAAT
42049586 TTTGCT
1 TTTGCT
42049592 TACTTTCTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.53
Consensus pattern (35 bp):
TTTGCTGGCTAGTCTTTATTGTGTTCTTTAGCAAT
Found at i:42052513 original size:20 final size:20
Alignment explanation
Indices: 42052490--42052529 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42052480 CAACCAACCT
*
42052490 AATACAAATTAAATTTAAGA
1 AATACAAATTAAATTAAAGA
**
42052510 AATATTAATTAAATTAAAGA
1 AATACAAATTAAATTAAAGA
42052530 TATCAACATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
AATACAAATTAAATTAAAGA
Found at i:42053904 original size:31 final size:31
Alignment explanation
Indices: 42053866--42053928 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
42053856 TATAACGTTA
42053866 TCCATATTAATATCTCTAAAATATTCTAAAT
1 TCCATATTAATATCTCTAAAATATTCTAAAT
42053897 TCCATATTAATATCTCTAAAATATTCTAAAT
1 TCCATATTAATATCTCTAAAATATTCTAAAT
42053928 T
1 T
42053929 GCTTTCTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (31 bp):
TCCATATTAATATCTCTAAAATATTCTAAAT
Found at i:42058780 original size:26 final size:26
Alignment explanation
Indices: 42058744--42058796 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
42058734 TAAATCCCAA
42058744 GTCATCTTTTGCCTTCTCAAGAAAAT
1 GTCATCTTTTGCCTTCTCAAGAAAAT
42058770 GTCATCTTTTGCCTTCTCAAGAAAAT
1 GTCATCTTTTGCCTTCTCAAGAAAAT
42058796 G
1 G
42058797 CATTTACCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (26 bp):
GTCATCTTTTGCCTTCTCAAGAAAAT
Found at i:42061442 original size:39 final size:39
Alignment explanation
Indices: 42061388--42061499 Score: 188
Period size: 39 Copynumber: 2.9 Consensus size: 39
42061378 CAGTGATATT
42061388 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
42061427 TATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
42061466 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTGG
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGG
42061500 TAATATGTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:42064466 original size:116 final size:117
Alignment explanation
Indices: 42064246--42064478 Score: 369
Period size: 116 Copynumber: 2.0 Consensus size: 117
42064236 GAAACAAGGG
* * *
42064246 CACACGCCCGTGTGGAGATAAGAGACACGCCCGTGTGCTTTCGACACATCTGTGTCCTCAAGCTG
1 CACACACCCGTGTGGAGATAAGAGACACGCCCGTGTGCTTTCAACACATCCGTGTCCTCAAGCTG
* * *
42064311 TGTAACTCTCTGTTTATGAGGTTAGCACCAAAATATAGTCACACGGCCGTGT
66 TGTAACTCTCTGTTTATGACGTCAGCACCAAAATATAGTCACACGCCCGTGT
* * *
42064363 CACACACCCGTGTGGAGATAGGAGACACGCCCGTTTGCTTTCAACACATCCG-GTCCTCAGGCTG
1 CACACACCCGTGTGGAGATAAGAGACACGCCCGTGTGCTTTCAACACATCCGTGTCCTCAAGCTG
*
42064427 TGTAACTTTCTGTTTATGACGTCAGCACCAAAATATAGTCACACGCCCGTGT
66 TGTAACTCTCTGTTTATGACGTCAGCACCAAAATATAGTCACACGCCCGTGT
42064479 GGCTAGACCG
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
116 59 0.56
117 47 0.44
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (117 bp):
CACACACCCGTGTGGAGATAAGAGACACGCCCGTGTGCTTTCAACACATCCGTGTCCTCAAGCTG
TGTAACTCTCTGTTTATGACGTCAGCACCAAAATATAGTCACACGCCCGTGT
Found at i:42069999 original size:39 final size:40
Alignment explanation
Indices: 42069954--42070121 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
42069944 CGGGGTTTAG
* * *
42069954 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
42069993 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
42070033 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
42070073 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
42070114 CCGGATAT
1 CCGGATAT
42070122 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:42070104 original size:41 final size:40
Alignment explanation
Indices: 42069977--42070121 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
42069967 CTCGCACAAG
* * * * *
42069977 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
42070017 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
42070057 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
42070098 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
42070122 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:42077404 original size:40 final size:40
Alignment explanation
Indices: 42077348--42077489 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
42077338 GCACAAGGCT
* * * * *
42077348 TTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
42077388 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
* * * *
42077428 TTC-GGATCTCAGTCCGGATGTAGTCGCTTAGCACAAAAGCC
1 TTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAATGCC
42077469 TTCGGGACTTAGCCCGGATAT
1 TTCGGGACTTAGCCCGGATAT
42077490 CATTCGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 55 0.63
41 26 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
Found at i:42080080 original size:58 final size:59
Alignment explanation
Indices: 42079956--42080088 Score: 162
Period size: 61 Copynumber: 2.2 Consensus size: 59
42079946 TTCAAAAATA
* * * *
42079956 ATATTATTTTAGTAGTTTTAATATTAAATTTAATTTAAAATTTATCTTGTAGATAAGTATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATTTAAAATTTATCATGT--ATAAGTATT
* * *
42080017 CTATTAATTTAATAGATTTATTATTAAATTT-ATTCTAATATTTATCATGT-TAAGTATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATT-TAAAATTTATCATGTATAAGTATT
42080075 ATATTAATTTAATA
1 ATATTAATTTAATA
42080089 TTAAAGTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
58 21 0.33
60 3 0.05
61 39 0.62
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (59 bp):
ATATTAATTTAATAGATTTAATATTAAATTTAATTTAAAATTTATCATGTATAAGTATT
Found at i:42080101 original size:58 final size:57
Alignment explanation
Indices: 42079973--42080106 Score: 130
Period size: 58 Copynumber: 2.3 Consensus size: 57
42079963 TTTAGTAGTT
* *
42079973 TTAAT-ATTAAATTTAATTTAAAATTTATCTTGTAGATAAGTATTCTATTAATTTAATAGA
1 TTAATGATTAAATTT-ATTTAAAATTTATCATGT--ATAAGTATTATATTAATTTAATA-A
* * *
42080033 TTTATTATTAAATTTATTCTAATATTTATCATGT-TAAGTATTATATTAATTTAAT-A
1 TTAATGATTAAATTTATT-TAAAATTTATCATGTATAAGTATTATATTAATTTAATAA
*
42080089 TTAAAGTGATTAAGTTTA
1 TT-AA-TGATTAAATTTA
42080107 ATCATAGTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
56 3 0.05
57 1 0.02
58 30 0.48
60 7 0.11
61 22 0.35
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.51
Consensus pattern (57 bp):
TTAATGATTAAATTTATTTAAAATTTATCATGTATAAGTATTATATTAATTTAATAA
Found at i:42084404 original size:23 final size:23
Alignment explanation
Indices: 42084373--42084417 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
42084363 TAGATATGTG
*
42084373 ATGACTTTATCTT-ATAAATATGC
1 ATGAATTTATCTTGA-AAATATGC
42084396 ATGAATTTATCTTGAAAATATG
1 ATGAATTTATCTTGAAAATATG
42084418 TTGAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAATTTATCTTGAAAATATGC
Found at i:42095935 original size:26 final size:26
Alignment explanation
Indices: 42095905--42095956 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
42095895 TGCTGAGTCC
42095905 CTCAGAAGTGATATAGCACATTTCAA
1 CTCAGAAGTGATATAGCACATTTCAA
42095931 CTCAGAAGTGATATAGCACATTTCAA
1 CTCAGAAGTGATATAGCACATTTCAA
42095957 ACACTCATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (26 bp):
CTCAGAAGTGATATAGCACATTTCAA
Found at i:42096815 original size:6 final size:6
Alignment explanation
Indices: 42096806--42096870 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
42096796 CTTAATCACT
* * *
42096806 TTAATA TTAA-A TTAATA -TAATA TT--TA TCAAGA TAAATA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
42096849 TTAATA TTAATA TTAAATA TTA
1 TTAATA TTAATA TT-AATA TTA
42096871 TTAAAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
4 3 0.06
5 15 0.31
6 24 0.50
7 6 0.12
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
TTAATA
Found at i:42097330 original size:13 final size:13
Alignment explanation
Indices: 42097312--42097336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42097302 ATTTACGATC
42097312 TCAAGTTCAATTT
1 TCAAGTTCAATTT
42097325 TCAAGTTCAATT
1 TCAAGTTCAATT
42097337 ACCCATTAAG
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:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:42099781 original size:20 final size:20
Alignment explanation
Indices: 42099752--42099802 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
42099742 CAATGACCTA
42099752 TCCA-TTACTTA-TTTACCAC
1 TCCATTTACTTACTTT-CCAC
* *
42099771 TCCATTTACTTACTTTCTAT
1 TCCATTTACTTACTTTCCAC
42099791 TCCATTTACTTA
1 TCCATTTACTTA
42099803 GCATAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 21 0.75
21 3 0.11
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (20 bp):
TCCATTTACTTACTTTCCAC
Found at i:42100892 original size:45 final size:45
Alignment explanation
Indices: 42100843--42101058 Score: 297
Period size: 45 Copynumber: 4.8 Consensus size: 45
42100833 CTTTGATTCA
* * * *
42100843 TGATGTCATAGCGTCTTTCAGTTATGGTCTTACTCGATAGGATTG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATTG
* * *
42100888 TGATGCTATAAGGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATTG
* *
42100933 TGATGCCATAACGTCTTTCAATCATGGTCTTACTCGATAAAATTG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATTG
* * *
42100978 TGATGCCATAACATTTTTCAGTCATGGTCTTACTCGATGGAATTG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATTG
* * *
42101023 TGATGACATAACATCTTTCAGTCATGGTCTTCCTCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCG
42101059 TTTCTAGTAT
Statistics
Matches: 151, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 151 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATTG
Found at i:42102680 original size:15 final size:15
Alignment explanation
Indices: 42102660--42102689 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42102650 CTATGCATGT
*
42102660 AAAATATAAAAGACA
1 AAAATACAAAAGACA
42102675 AAAATACAAAAGACA
1 AAAATACAAAAGACA
42102690 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:42106406 original size:16 final size:16
Alignment explanation
Indices: 42106381--42106411 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42106371 ATAATGAAAT
*
42106381 TTCAATTAAAATAAAG
1 TTCAAATAAAATAAAG
42106397 TTCAAATAAAATAAA
1 TTCAAATAAAATAAA
42106412 CAAAACTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (16 bp):
TTCAAATAAAATAAAG
Found at i:42113578 original size:15 final size:15
Alignment explanation
Indices: 42113568--42113598 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42113558 TAAAAAATCA
42113568 TAAAAATAAAAATAT
1 TAAAAATAAAAATAT
42113583 TAAAAATAAAAATAT
1 TAAAAATAAAAATAT
42113598 T
1 T
42113599 TTGGTTCAAC
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATAAAAATAT
Found at i:42113930 original size:15 final size:14
Alignment explanation
Indices: 42113872--42113919 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
42113862 TCTCAAACAA
42113872 AAAATTTAAAAA--
1 AAAATTTAAAAATC
* *
42113884 AAAATCATAAAATTC
1 AAAAT-TTAAAAATC
42113899 AAAATTTAAAAATC
1 AAAATTTAAAAATC
42113913 AAAATTT
1 AAAATTT
42113920 TGAAATCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.17
13 5 0.17
14 14 0.48
15 5 0.17
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATTTAAAAATC
Found at i:42117670 original size:24 final size:25
Alignment explanation
Indices: 42117600--42117672 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 25
42117590 GGCCTATTTT
*
42117600 CGGCCTCTCACGGAATAGCCATTCA
1 CGGCCTCTCACAGAATAGCCATTCA
* * *
42117625 AGGCTATCATCAAAGAATAGCCATTC-
1 CGGC-CTC-TCACAGAATAGCCATTCA
42117651 CGGCCTCTCACAGAATAGCCAT
1 CGGCCTCTCACAGAATAGCCAT
42117673 CAAATTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 14 0.36
25 5 0.13
26 5 0.13
27 15 0.38
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (25 bp):
CGGCCTCTCACAGAATAGCCATTCA
Found at i:42123278 original size:39 final size:39
Alignment explanation
Indices: 42123195--42123318 Score: 158
Period size: 39 Copynumber: 3.2 Consensus size: 39
42123185 CCGAGTCCAA
* * * * *
42123195 TTTCTAGCACAAAGCCTGCGGGACTTTAAGCCCGGATATA
1 TTTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGATATG
42123235 TTTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATG
* * **
42123274 TTTCCAGCACGTAGCCTGCGGACCTCAAGTCTAGATATG
1 TTTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATG
42123313 TTTCCA
1 TTTCCA
42123319 AGTATCATGC
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 58 0.77
40 17 0.23
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
TTTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATG
Found at i:42131624 original size:21 final size:19
Alignment explanation
Indices: 42131592--42131631 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
42131582 ACCAAAATAA
42131592 TAAAAAAATTAAAGGAATT
1 TAAAAAAATTAAAGGAATT
42131611 TAAAAAAACTTTAAAGGAATT
1 TAAAAAAA--TTAAAGGAATT
42131632 CTTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.28
Consensus pattern (19 bp):
TAAAAAAATTAAAGGAATT
Found at i:42131784 original size:19 final size:19
Alignment explanation
Indices: 42131762--42131816 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
42131752 TTTTTAAGTA
42131762 AATTCTATTCATTTAAATT
1 AATTCTATTCATTTAAATT
*
42131781 AATT-TA-TCCTTT-AATT
1 AATTCTATTCATTTAAATT
* *
42131797 ATTTCTTTTTCATTTAAATT
1 AATTC-TATTCATTTAAATT
42131817 CTATTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 7 0.25
17 5 0.18
18 3 0.11
19 9 0.32
20 4 0.14
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTCTATTCATTTAAATT
Found at i:42131806 original size:51 final size:53
Alignment explanation
Indices: 42131747--42131847 Score: 136
Period size: 51 Copynumber: 1.9 Consensus size: 53
42131737 TTCTAATTTT
*
42131747 TTTCTTTTTTAAGTAAATTCTATTCATTTAAA-TT-AATTTA-TCCTTTAATTA
1 TTTCTTTTTCAAGTAAATTCTATT-ATTTAAATTTAAATTTATTCCTTTAATTA
** *
42131798 TTTCTTTTTCATTTAAATTCTATTTTTTAAATTTAAATTTATTCCTTTAA
1 TTTCTTTTTCAAGTAAATTCTATTATTTAAATTTAAATTTATTCCTTTAA
42131848 ATTAATTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 6 0.14
51 23 0.53
52 6 0.14
53 8 0.19
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (53 bp):
TTTCTTTTTCAAGTAAATTCTATTATTTAAATTTAAATTTATTCCTTTAATTA
Found at i:42131825 original size:20 final size:19
Alignment explanation
Indices: 42131808--42132060 Score: 65
Period size: 18 Copynumber: 14.2 Consensus size: 19
42131798 TTTCTTTTTC
42131808 ATTTAAATTCTATTTTTTAA
1 ATTTAAATT-TATTTTTTAA
*
42131828 ATTTAAATTTATTCCTTTAA
1 ATTTAAATTTATT-TTTTAA
***
42131848 A-TT-AATTTACCCTTT-A
1 ATTTAAATTTATTTTTTAA
*
42131864 A-TT--ATTTCTTTCTTT--
1 ATTTAAATTTATTT-TTTAA
*
42131879 ACTTAAATTCTATTTTTTAAA
1 ATTTAAATT-TATTTTTT-AA
* * *
42131900 ATTTGAAGTTATTCCTTTAA
1 ATTTAAATTTATT-TTTTAA
* *
42131920 A-TT-GATTTATCTTTT-A
1 ATTTAAATTTATTTTTTAA
42131936 A-TT--ATTTA-TTTTT-A
1 ATTTAAATTTATTTTTTAA
42131950 A-TTAAATTGTATTTTTTAAA
1 ATTTAAATT-TATTTTTT-AA
* *
42131970 ATTTAAATTTATTCCTTTGA
1 ATTTAAATTTATT-TTTTAA
* **
42131990 A--TAGATTTATCCTTT-A
1 ATTTAAATTTATTTTTTAA
42132006 A-TT--ATTTA-TTTTT-A
1 ATTTAAATTTATTTTTTAA
42132020 A-TTAAATTCTATTTTTT-A
1 ATTTAAATT-TATTTTTTAA
*
42132038 ATTTAAATTTATTCCTTTAA
1 ATTTAAATTTATT-TTTTAA
42132058 ATT
1 ATT
42132061 AATTTATCCC
Statistics
Matches: 183, Mismatches: 24, Indels: 52
0.71 0.09 0.20
Matches are distributed among these distances:
14 15 0.08
15 15 0.08
16 21 0.11
17 16 0.09
18 41 0.22
19 22 0.12
20 34 0.19
21 19 0.10
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTAAATTTATTTTTTAA
Found at i:42131847 original size:70 final size:70
Alignment explanation
Indices: 42131760--42132137 Score: 505
Period size: 70 Copynumber: 5.4 Consensus size: 70
42131750 CTTTTTTAAG
* * *
42131760 TAAATTCTATTCATTTAAATTAATTTATCCTTTAATTATTTCTTTTTCATTTAAATTCTATTTTT
1 TAAATT-TATTCCTTTAAATTAATTTATCCTTTAATTATTTATTTTT-AATTAAATTCTATTTTT
42131825 T-AAATT
64 TAAAATT
* * *
42131831 TAAATTTATTCCTTTAAATTAATTTACCCTTTAATTATTTCTTTCTTTACTTAAATTCTATTTTT
1 TAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTT-ATT-TTTAATTAAATTCTATTTTT
42131896 TAAAATT
64 TAAAATT
* * * * *
42131903 TGAAGTTATTCCTTTAAATTGATTTATCTTTTAATTATTTATTTTTAATTAAATTGTATTTTTTA
1 TAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTATTTTTAATTAAATTCTATTTTTTA
42131968 AAATT
66 AAATT
*
42131973 TAAATTTATTCCTTTGAA-TAGATTTATCCTTTAATTATTTATTTTTAATTAAATTCTATTTTTT
1 TAAATTTATTCCTTTAAATTA-ATTTATCCTTTAATTATTTATTTTTAATTAAATTCTATTTTTT
42132037 --AATT
65 AAAATT
* * *
42132041 TAAATTTATTCCTTTAAATTAATTTATCCCTCAA-AATTTATTTTTAAATTAAATTCTATTTTTT
1 TAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTATTTTT-AATTAAATTCTA-TTTTT
42132105 TAAAAATT
64 T-AAAATT
*
42132113 TAAATTTATTCCTTTAAATTTATTT
1 TAAATTTATTCCTTTAAATTAATTT
42132138 TTTAATTAAA
Statistics
Matches: 274, Mismatches: 23, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
67 10 0.04
68 44 0.16
69 9 0.03
70 113 0.41
71 27 0.10
72 71 0.26
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (70 bp):
TAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTATTTTTAATTAAATTCTATTTTTTA
AAATT
Found at i:42131950 original size:14 final size:15
Alignment explanation
Indices: 42131914--42131953 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
42131904 GAAGTTATTC
*
42131914 CTTTAAATTGATTTAT
1 CTTTTAATT-ATTTAT
42131930 CTTTTAATTATTTAT
1 CTTTTAATTATTTAT
42131945 -TTTTAATTA
1 CTTTTAATTA
42131954 AATTGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 6 0.26
16 8 0.35
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (15 bp):
CTTTTAATTATTTAT
Found at i:42131986 original size:142 final size:139
Alignment explanation
Indices: 42131767--42132137 Score: 498
Period size: 142 Copynumber: 2.6 Consensus size: 139
42131757 AAGTAAATTC
* * * *
42131767 TATTCATTTAAATTAATTTATCCTTTAATTATTTCTTTTTCATTTAAATTCTATTTTTT-AAATT
1 TATTCCTTTAAATTAATTTATCCTTTAATTATTTATTTTTAAATTAAATTCTATTTTTTAAAATT
* *
42131831 TAAATTTATTCCTTTAAATTAATTTACCCTTTAATTATTTCTTTCTTTACTTAAATTCTATTTTT
66 TAAATTTATTCCTTTAAATTAATTTACCCTTTAATTATTT-ATT-TTTAATTAAATTCTATTTTT
*
42131896 TAAAATTTGAAGT
129 T--AATTTAAAGT
* * *
42131909 TATTCCTTTAAATTGATTTATCTTTTAATTATTTATTTTT-AATTAAATTGTATTTTTTAAAATT
1 TATTCCTTTAAATTAATTTATCCTTTAATTATTTATTTTTAAATTAAATTCTATTTTTTAAAATT
* *
42131973 TAAATTTATTCCTTTGAA-TAGATTTATCCTTTAATTATTTATTTTTAATTAAATTCTATTTTTT
66 TAAATTTATTCCTTTAAATTA-ATTTACCCTTTAATTATTTATTTTTAATTAAATTCTATTTTTT
*
42132037 AATTTAAATT
130 AATTTAAAGT
* * *
42132047 TATTCCTTTAAATTAATTTATCCCTCAA-AATTTATTTTTAAATTAAATTCTATTTTTTTAAAAA
1 TATTCCTTTAAATTAATTTATCCTTTAATTATTTATTTTTAAATTAAATTCTA-TTTTTT-AAAA
*
42132111 TTTAAATTTATTCCTTTAAATTTATTT
64 TTTAAATTTATTCCTTTAAATTAATTT
42132138 TTTAATTAAA
Statistics
Matches: 203, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
137 10 0.05
138 43 0.21
139 6 0.03
140 47 0.23
141 21 0.10
142 76 0.37
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (139 bp):
TATTCCTTTAAATTAATTTATCCTTTAATTATTTATTTTTAAATTAAATTCTATTTTTTAAAATT
TAAATTTATTCCTTTAAATTAATTTACCCTTTAATTATTTATTTTTAATTAAATTCTATTTTTTA
ATTTAAAGT
Found at i:42133128 original size:40 final size:40
Alignment explanation
Indices: 42133080--42133186 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
42133070 CTTTTATCAA
* *
42133080 ATCACCAGCATTAAGCCTGCTAGGTTTTAAACCCAAATTC
1 ATCACCAGCATTAAGCCTGCTAGGCTTTAAACCCAAACTC
** * ** *
42133120 ATCACCAGCACGAAGCCTGCTAGACTTTAAGTCTAAACTC
1 ATCACCAGCATTAAGCCTGCTAGGCTTTAAACCCAAACTC
**
42133160 ATTCACCAGCATTTCGCCTGCTAGGCT
1 A-TCACCAGCATTAAGCCTGCTAGGCT
42133187 CGAAGCCCGA
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
40 33 0.62
41 20 0.38
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (40 bp):
ATCACCAGCATTAAGCCTGCTAGGCTTTAAACCCAAACTC
Found at i:42133227 original size:43 final size:43
Alignment explanation
Indices: 42133158--42133321 Score: 217
Period size: 43 Copynumber: 3.9 Consensus size: 43
42133148 AAGTCTAAAC
* *
42133158 TCAT-TCACCAGCATT-TCGCCTGCTAGGCTCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
* * *
42133199 TCATCTCACCGGCATTATAGCCTGCTAGGC-CCAATCCAGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
*
42133241 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCTCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
* * * *
42133284 TCATATCACCGGCATTATAGCCCGCTAGGATCAAAGCC
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCC
42133322 TGAATGTTAC
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
41 4 0.04
42 49 0.46
43 53 0.50
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
Found at i:42133283 original size:85 final size:83
Alignment explanation
Indices: 42133158--42133312 Score: 247
Period size: 85 Copynumber: 1.8 Consensus size: 83
42133148 AAGTCTAAAC
* * *
42133158 TCATTCACCAGCATTTCGCCTGCTAGGCTCGAAGCCCGATATCATCTCACCGGCATTATAGCCTG
1 TCATTCACCAGCATTTAGCCTGCTAGGCTCGAAGCCCGATATCATATCACCGGCATTATAGCCCG
42133223 CTAGGCCCAATCCAGATA
66 CTAGGCCCAATCCAGATA
* *
42133241 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCTCGATATCATATCACCGGCATTATAGCC
1 TCAT-TCACCAGCATT-TAGCCTGCTAGGCTCGAAGCCCGATATCATATCACCGGCATTATAGCC
42133306 CGCTAGG
64 CGCTAGG
42133313 ATCAAAGCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
83 4 0.06
84 10 0.15
85 51 0.78
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (83 bp):
TCATTCACCAGCATTTAGCCTGCTAGGCTCGAAGCCCGATATCATATCACCGGCATTATAGCCCG
CTAGGCCCAATCCAGATA
Found at i:42135376 original size:13 final size:14
Alignment explanation
Indices: 42135351--42135379 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
42135341 AAGGCACGAA
42135351 AAATTCACACATAC
1 AAATTCACACATAC
42135365 AAATTC-CACATAC
1 AAATTCACACATAC
42135378 AA
1 AA
42135380 TAAGCACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATTCACACATAC
Found at i:42146112 original size:40 final size:40
Alignment explanation
Indices: 42146016--42146199 Score: 248
Period size: 40 Copynumber: 4.5 Consensus size: 40
42146006 TATTCGGATG
42146016 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
42146059 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
*
42146099 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
42146139 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
* *
42146179 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
42146200 ATACTTGGGT
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
39 14 0.11
40 83 0.64
41 2 0.02
43 31 0.24
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:42149381 original size:40 final size:40
Alignment explanation
Indices: 42149326--42149549 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
42149316 TATTCGGATG
42149326 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
42149366 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
42149409 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
42149449 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
42149489 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
42149529 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
42149550 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:42149469 original size:83 final size:80
Alignment explanation
Indices: 42149330--42149549 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
42149320 CGGATGATAT
* **
42149330 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
42149395 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
42149413 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
42149478 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
42149493 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
42149550 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:42157508 original size:40 final size:40
Alignment explanation
Indices: 42157453--42157716 Score: 368
Period size: 40 Copynumber: 6.5 Consensus size: 40
42157443 TATTCGGATG
42157453 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
42157493 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
42157533 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
42157576 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
42157616 ATATCCGGCCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
42157656 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
42157696 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
42157717 ATACTTGGGT
Statistics
Matches: 201, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.06
40 151 0.75
41 1 0.00
43 36 0.18
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:42157678 original size:123 final size:120
Alignment explanation
Indices: 42157457--42157716 Score: 387
Period size: 123 Copynumber: 2.1 Consensus size: 120
42157447 CGGATGATAT
* * **
42157457 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGCCTAAGTCCCGAAGGCATTCA
* * *
42157522 TGCAAGTTACTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCTATAC
66 TGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGC--G-AGTTGCTATAC
*
42157580 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGCCTAAGTCCCGAAGGCATTCA
* *
42157645 TGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
66 TGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
*
42157700 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
42157717 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 14 0.11
120 12 0.10
121 1 0.01
123 99 0.79
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGCCTAAGTCCCGAAGGCATTCA
TGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
Found at i:42159444 original size:29 final size:29
Alignment explanation
Indices: 42159411--42159484 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
42159401 GTTGTGAGAT
* *
42159411 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
42159440 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
42159469 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42159485 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:42167490 original size:21 final size:20
Alignment explanation
Indices: 42167460--42167498 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
42167450 GTCATAATGA
*
42167460 CCACATGGGCGTGTTGCCCAT
1 CCACACGGGCGTG-TGCCCAT
42167481 CCACACGGGCGTGTGCCC
1 CCACACGGGCGTGTGCCC
42167499 TGTTTCAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.13, C:0.38, G:0.31, T:0.18
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCAT
Found at i:42167629 original size:9 final size:10
Alignment explanation
Indices: 42167600--42167635 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
42167590 GTTAAAGAGG
42167600 GTTTAGAAAAA
1 GTTT-GAAAAA
42167611 GTTTGAAAAA
1 GTTTGAAAAA
42167621 GTTTGAAAAAA
1 GTTTG-AAAAA
42167632 GTTT
1 GTTT
42167636 TAAATTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.46
11 13 0.54
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.33
Consensus pattern (10 bp):
GTTTGAAAAA
Found at i:42169833 original size:55 final size:53
Alignment explanation
Indices: 42169725--42169979 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 53
42169715 ATTAGGGTTT
* ** * *
42169725 AAGGATACCATGTAAGACCATGCCAAGGTATGGAAATTGGTAAGGTTTC-TAAGGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAA-G-TTCATAAGGA
* * *
42169780 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGG-A
* * * * * *
42169836 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATTAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
* *
42169888 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCA--A
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
* * * *
42169937 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
42169980 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 27, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
49 40 0.24
51 2 0.01
52 6 0.04
53 42 0.25
54 8 0.05
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
Found at i:42169931 original size:108 final size:110
Alignment explanation
Indices: 42169732--42169932 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
42169722 TTTAAGGATA
* * *
42169732 CCATGTAAGACCATGCCAAGGTATGGAAATTGGTAAGGTTTCTAAGGGAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
42169797 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
* * * *
42169842 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATTAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
42169904 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
42169933 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:42170085 original size:23 final size:24
Alignment explanation
Indices: 42170048--42170092 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
42170038 AAGGTAAGTT
*
42170048 AAGGTAAAACGAGTT-ATGCTAAA
1 AAGGTAAAACAAGTTCATGCTAAA
*
42170071 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAAACAAGTTCATGCTA
42170093 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (24 bp):
AAGGTAAAACAAGTTCATGCTAAA
Found at i:42177882 original size:50 final size:51
Alignment explanation
Indices: 42177807--42177928 Score: 176
Period size: 50 Copynumber: 2.4 Consensus size: 51
42177797 GACCATGGCA
42177807 ACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTGA-AAGTG
1 ACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TGACAAGTG
*
42177857 ACAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGACAAGTG
1 ACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAAGTG
* * * *
42177908 AAAAGTGGTACCTTCAGCTAC
1 ACAAGTGATAGCTTCGGCTAC
42177929 CTGATCAGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 40 0.62
51 25 0.38
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAAGTG
Found at i:42178052 original size:61 final size:61
Alignment explanation
Indices: 42177906--42178074 Score: 212
Period size: 61 Copynumber: 2.8 Consensus size: 61
42177896 AAATGACAAG
* * * *
42177906 TGAAAAGTGGTACCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAA
1 TGAAAAATGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGC-TCCGCTACCTGATCAA
* * * * *
42177968 TGAAAAGTGGTAGTTCCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGTACCTGGTCAG
1 TGAAAAATGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGCTACCTGATCAA
** * *
42178029 TGAAAAATGGTAGCTCTGGCTACCTGATTAGTGAATAGTGGTAGCT
1 TGAAAAATGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCT
42178075 TTGGCTACAA
Statistics
Matches: 94, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 52 0.55
62 42 0.45
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (61 bp):
TGAAAAATGGTAGCTCCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGCTACCTGATCAA
Found at i:42178080 original size:31 final size:31
Alignment explanation
Indices: 42177904--42178082 Score: 220
Period size: 31 Copynumber: 5.8 Consensus size: 31
42177894 ACAAATGACA
* *
42177904 AGTGAAAAGTGGTACCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
42177935 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
42177966 AATGAAAAGTGGTAG-TTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
42177997 AGTGAAAAGTGGTAGCTCCGG-TACCTGGTC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
42178027 AGTGAAAAATGGTAGC-TCTGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
42178058 AGTGAATAGTGGTAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
42178083 AAGTGACAAG
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
29 1 0.01
30 27 0.21
31 98 0.77
32 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:42178082 original size:92 final size:93
Alignment explanation
Indices: 42177904--42178072 Score: 243
Period size: 92 Copynumber: 1.8 Consensus size: 93
42177894 ACAAATGACA
*
42177904 AGTGAAAAGTGGTACCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAAT
1 AGTGAAAAGTGGTACCTTCAGCTACCTGATCAGTGAAAAATGGTAGCTTCTGCTACCTGATCAAT
42177969 GAAAAGTGGTAGTTCCAGCTACCTGATC
66 GAAAAGTGGTAGTTCCAGCTACCTGATC
* * * * * *
42177997 AGTGAAAAGTGGTAGC-TCCGGTACCTGGTCAGTGAAAAATGGTAGC-TCTGGCTACCTGATTAG
1 AGTGAAAAGTGGTACCTTCAGCTACCTGATCAGTGAAAAATGGTAGCTTCT-GCTACCTGATCAA
*
42178060 TGAATAGTGGTAG
65 TGAAAAGTGGTAG
42178073 CTTTGGCTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
91 3 0.04
92 49 0.73
93 15 0.22
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (93 bp):
AGTGAAAAGTGGTACCTTCAGCTACCTGATCAGTGAAAAATGGTAGCTTCTGCTACCTGATCAAT
GAAAAGTGGTAGTTCCAGCTACCTGATC
Found at i:42178250 original size:42 final size:42
Alignment explanation
Indices: 42178194--42178291 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
42178184 TATGTGATTC
* * *
42178194 GTGTAAGACCATAGCTAGGCTATGGAATCGGTATATGAATAT
1 GTGTAAGACCATAGCTAGGCAATGGAATCAGTATATGAAGAT
* * * *
42178236 GTGTAAGACCATAGCTGGGCAATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCAATGGAATCAGTATATGAAGAT
42178278 GTGTAAGACCATAG
1 GTGTAAGACCATAG
42178292 TTGAACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGCAATGGAATCAGTATATGAAGAT
Found at i:42178303 original size:42 final size:42
Alignment explanation
Indices: 42178194--42178306 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
42178184 TATGTGATTC
* * *
42178194 GTGTAAGACCATAGCT-AGGCTATGGAATCGGTATATGAATAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCAGTATATGAAGAT
* * * *
42178236 GTGTAAGACCATAGCTGGGCAATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCAGTATATGAAGAT
* *
42178278 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGCTGAGCTATGGCATC
42178307 GAGAAAACGA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCAGTATATGAAGAT
Found at i:42181032 original size:108 final size:110
Alignment explanation
Indices: 42180835--42181033 Score: 287
Period size: 108 Copynumber: 1.8 Consensus size: 110
42180825 TAAGGATACC
* * *
42180835 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGAAATCATGTAAGGCC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACC
*
42180900 ATGTAAAGACATAGCATTGATAAGTTACTATAAGGCAAAGGTCCT
66 ATGTAAAGACATAGCAATGATAAGTTACTATAAGGCAAAGGTCCT
* *
42180945 ATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGAC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGAC
* * *
42181007 CATGTTAAGACATGGCAATGGTAAGTT
65 CATGTAAAGACATAGCAATGATAAGTT
42181034 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 44 0.56
109 7 0.09
110 25 0.32
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACC
ATGTAAAGACATAGCAATGATAAGTTACTATAAGGCAAAGGTCCT
Found at i:42181299 original size:16 final size:16
Alignment explanation
Indices: 42181278--42181308 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42181268 ATAAATTTGA
42181278 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
42181294 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
42181309 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:42181830 original size:48 final size:48
Alignment explanation
Indices: 42181774--42181871 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
42181764 TAATGATGTG
42181774 AATTTGGAAAATCACTAAAAATAGTAGAAATGGATTTAGATAGTGAAT
1 AATTTGGAAAATCACTAAAAATAGTAGAAATGGATTTAGATAGTGAAT
42181822 AATTTGGAAAATCACTAAAAATAGTAGAAATGGATTTAGATAGTGAAT
1 AATTTGGAAAATCACTAAAAATAGTAGAAATGGATTTAGATAGTGAAT
42181870 AA
1 AA
42181872 GATATATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (48 bp):
AATTTGGAAAATCACTAAAAATAGTAGAAATGGATTTAGATAGTGAAT
Found at i:42196425 original size:42 final size:42
Alignment explanation
Indices: 42196380--42196545 Score: 183
Period size: 42 Copynumber: 3.9 Consensus size: 42
42196370 ACATTAGGGT
*
42196380 TATGAG-TTTACGTGTAAGACCATATCTGGGATATGGCATCGT
1 TATGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATCGA
* * * * *
42196422 TATGAGATTTTGTGTAGGACCATGTATGGGACATGGCATCGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* * *
42196464 TATGAGA-ATCGTGTAAGACCATAGCTGGGCTATTGGCATCGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGA
* *
42196506 TATGAGATTTTCCATGTAAGACCATATTTGGGATATGGCA
1 TATGAGA-TTT-CGTGTAAGACCATATCTGGGATATGGCA
42196546 GTGGTATGAT
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 17 0.17
42 55 0.55
43 3 0.03
44 6 0.06
45 19 0.19
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:42196554 original size:86 final size:83
Alignment explanation
Indices: 42196390--42196545 Score: 213
Period size: 86 Copynumber: 1.8 Consensus size: 83
42196380 TATGAGTTTA
* * * * *
42196390 CGTGTAAGACCATATCTGGGATATGGCATCGTTATGAGATTTTGTGTAGGACCATGTATGGGACA
1 CGTGTAAGACCATAGCTGGGATATGGCATCGATATGAGATTTTATGTAAGACCATATATGGGACA
42196455 TGGCATCGATATGAGAAT
66 TGGCATCGATATGAGAAT
* *
42196473 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTTTCCATGTAAGACCATATTTGGG
1 CGTGTAAGACCATAGCTGGGATA-TGGCATCGATATGAGATTTT--ATGTAAGACCATATATGGG
*
42196538 ATATGGCA
63 ACATGGCA
42196546 GTGGTATGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 21 0.34
84 19 0.31
86 22 0.35
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (83 bp):
CGTGTAAGACCATAGCTGGGATATGGCATCGATATGAGATTTTATGTAAGACCATATATGGGACA
TGGCATCGATATGAGAAT
Found at i:42202509 original size:35 final size:35
Alignment explanation
Indices: 42202427--42202501 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
42202417 GTATATATAT
*
42202427 AAGTTCTATATAAACTCACATGTAACCAAATACAC
1 AAGTTCAATATAAACTCACATGTAACCAAATACAC
* * * *
42202462 ATGTTCAATATAAATTCACATGTAACCGAATACTC
1 AAGTTCAATATAAACTCACATGTAACCAAATACAC
42202497 AAGTT
1 AAGTT
42202502 TGATATAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (35 bp):
AAGTTCAATATAAACTCACATGTAACCAAATACAC
Found at i:42205067 original size:42 final size:42
Alignment explanation
Indices: 42204946--42205067 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
42204936 TACCATACCA
* * * *
42204946 ATGCTATATCCCAGATATGGCCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
42204988 ATGCCAATAGCCCAGCA-ATGGTCGTATACG-AAGTCTCATATCG
1 ATGCC-ATATCCCAG-ATATGGTCTTACACGTAA-TCTCATATCG
*
42205031 ATGCCATATCCGAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
42205068 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.45
43 33 0.52
44 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:42211526 original size:23 final size:23
Alignment explanation
Indices: 42211500--42211549 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
42211490 ACCCTATGCA
42211500 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
42211523 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
42211546 ATGC
1 ATGC
42211550 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:42211874 original size:27 final size:27
Alignment explanation
Indices: 42211638--42211873 Score: 328
Period size: 27 Copynumber: 8.7 Consensus size: 27
42211628 GAGTATTTCG
* *
42211638 GTCATTTTATCACATAAGGGAAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
42211665 GCCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * * *
42211692 ATCATTTTATTACCTAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
42211719 GTCATTTTATCACCTAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
42211746 ATCATTTTATCACATAAGGGCAAAATA
1 GTCATTTTATCACATAAGGGCAAAATC
**
42211773 GTCATTTTATCACATAAGGGCAAAAGA
1 GTCATTTTATCACATAAGGGCAAAATC
42211800 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
42211827 ATCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
42211854 TTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
42211874 TTTAGGTACG
Statistics
Matches: 187, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 187 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:42218997 original size:29 final size:29
Alignment explanation
Indices: 42218965--42219166 Score: 221
Period size: 29 Copynumber: 7.0 Consensus size: 29
42218955 ATGACGTATC
* *
42218965 GATGCCCATCAAATATGAAATGGGATGGT
1 GATGACCATCAAATATGAAAAGGGATGGT
42218994 GATGACCATCAAATATGAAAAGGGATGGT
1 GATGACCATCAAATATGAAAAGGGATGGT
* * *
42219023 -TTCGACCATCGAATATAAAAAGGGATGGT
1 GAT-GACCATCAAATATGAAAAGGGATGGT
* *
42219052 GACGACCATCAAATATGAAAA-GGATGAT
1 GATGACCATCAAATATGAAAAGGGATGGT
*** ** *
42219080 GGCAACCATTGAATATGAAAAGGGATGAT
1 GATGACCATCAAATATGAAAAGGGATGGT
* *
42219109 GACGACCATCGAATATGAAAAGGGATGGT
1 GATGACCATCAAATATGAAAAGGGATGGT
*
42219138 AATGACCAT-AGAATATGAAAAGGGATGGT
1 GATGACCATCA-AATATGAAAAGGGATGGT
42219167 TTCGACCATC
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
28 24 0.16
29 124 0.84
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.21
Consensus pattern (29 bp):
GATGACCATCAAATATGAAAAGGGATGGT
Found at i:42219048 original size:58 final size:58
Alignment explanation
Indices: 42218970--42219176 Score: 256
Period size: 58 Copynumber: 3.6 Consensus size: 58
42218960 GTATCGATGC
* * * *
42218970 CCATCAAATATGAAATGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGGTATCGA
* * ** *
42219028 CCATCGAATATAAAAAGGGATGGTGACGACCATCAAATATGAAAA-GGATGATGGCAA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGGTATCGA
* * *
42219085 CCATTGAATATGAAAAGGGATGATGACGACCATCGAATATGAAAAGGGATGGTAAT-GA
1 CCATCGAATATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGGT-ATCGA
* **
42219143 CCATAGAATATGAAAAGGGATGGTTTCGACCATC
1 CCATCGAATATGAAAAGGGATGGTGACGACCATC
42219177 GTTCAACACA
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
57 49 0.39
58 78 0.61
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (58 bp):
CCATCGAATATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGGTATCGA
Found at i:42222580 original size:20 final size:21
Alignment explanation
Indices: 42222555--42222594 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42222545 ACTTTGGAAT
42222555 AGGGC-ACAAGCCCATGTGGA
1 AGGGCAACAAGCCCATGTGGA
* *
42222575 AGGGCAACACGCCCGTGTGG
1 AGGGCAACAAGCCCATGTGG
42222595 CCATTTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.28, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACAAGCCCATGTGGA
Found at i:42222939 original size:42 final size:42
Alignment explanation
Indices: 42222837--42222929 Score: 186
Period size: 42 Copynumber: 2.2 Consensus size: 42
42222827 CCCCAAAATG
42222837 TCACACGGCCATGGCACACGCCCGTGGGCTAGGCCGTGTTCA
1 TCACACGGCCATGGCACACGCCCGTGGGCTAGGCCGTGTTCA
42222879 TCACACGGCCATGGCACACGCCCGTGGGCTAGGCCGTGTTCA
1 TCACACGGCCATGGCACACGCCCGTGGGCTAGGCCGTGTTCA
42222921 TCACACGGC
1 TCACACGGC
42222930 TAAGACACAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.17, C:0.37, G:0.30, T:0.16
Consensus pattern (42 bp):
TCACACGGCCATGGCACACGCCCGTGGGCTAGGCCGTGTTCA
Found at i:42227603 original size:46 final size:45
Alignment explanation
Indices: 42227497--42227761 Score: 236
Period size: 46 Copynumber: 5.7 Consensus size: 45
42227487 GTATATCTAT
** * **
42227497 GCCGATGCCATGTCCCAGACATGATCTTACACT-GACACATCTTGTA-
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAGTTACGTC-TCAAG
* *
42227543 GCGGATGCATGTCCCAAACATGTCTTACACTAGTTTACGTCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG-TTACGTCTCAAG
* *
42227589 GCCGATGCATGTCCCAGACATGTCTTTCACTAGTTTACGTTTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG-TTACGTCTCAAG
* * * *
42227635 GCCGATGCATGTCCCAAACATGTCTTACACTAG-CACTTGTTTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGTTAC--GTCTCAAG
* *
42227681 GCCGATGCCATGTCCCAGATATGGTCTTACACTAGCT-C-TCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGTTACGTC-TCAA---G
42227729 GCCGATGCATGTCCCAGACATGTCTTACACTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG
42227762 CTCACACAAG
Statistics
Matches: 186, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
44 11 0.06
45 20 0.11
46 110 0.59
47 25 0.13
48 20 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGTTACGTCTCAAG
Found at i:42227755 original size:94 final size:91
Alignment explanation
Indices: 42227495--42227762 Score: 292
Period size: 92 Copynumber: 2.9 Consensus size: 91
42227485 TAGTATATCT
* * * * *
42227495 ATGCCGATGCCATGTCCCAGACATGATCTTACACT-GACACATCTTGTAGCGGATGCATGTCCCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCAT-TTGTGGCCGATGCATGTCCCA
* *
42227559 AACATGTCTTACACTAG-TTTACGTCTCA
65 AACATGTCTTACACTAGCCTT--GTTTCA
* * * * **
42227587 AGGCCGATG-CATGTCCCAGACAT-GTCTTTCACTAGTTTACGTTTCAAGGCCGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCT-CATTT-GTGGCCGATGCATGTCCC
42227650 AAACATGTCTTACACTAGCACTTGTTTCA
64 AAACATGTCTTACACTAGC-CTTGTTTCA
* *
42227679 ATGCCGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCTCAT-TTGTGGCCGATGCATGTCCC
*
42227744 AGACATGTCTTACACTAGC
64 AAACATGTCTTACACTAGC
42227763 TCACACAAGT
Statistics
Matches: 145, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
90 8 0.06
91 17 0.12
92 55 0.38
93 13 0.09
94 49 0.34
95 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (91 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCATTTGTGGCCGATGCATGTCCCAA
ACATGTCTTACACTAGCCTTGTTTCA
Found at i:42229253 original size:141 final size:142
Alignment explanation
Indices: 42229068--42229343 Score: 313
Period size: 141 Copynumber: 2.0 Consensus size: 142
42229058 ATTCATGATT
* * * *** *
42229068 ATAAATCAATGAACTTACTGAGTGGAGCTACGATCTTACATCAACGGGCACTAAAAAAATCAGTT
1 ATAAATCAATGAACTTACTGAGTGGAACTACGATCCTAAATCAACAAACACTAAAAAAATCAATT
* * * * * *
42229133 GTGATCGTAAATCACCCGACTGTTTAAATGAATCGACT-ATCATAAATCGACGAGCTATGAAGGA
66 GTGATCGTAAATCAACAGACTATTTAAATAAAGCGA-TGATCATAAATCGACAAGCTATGAAGGA
42229197 ATTGTTTATAATC
130 ATTGTTTATAATC
** ** * * *
42229210 ATAAATCAATGAA-TTTTTGAGTGGAACTGTGATCCTAAATCAACAAACTCTAGAAATATCAATT
1 ATAAATCAATGAACTTACTGAGTGGAACTACGATCCTAAATCAACAAACACTAAAAAAATCAATT
* * * *
42229274 GTGATCGTAAATCAATAGACTATTTAAATAAAGCTATGATCGTAAATCGACAAGCTATGAATGAA
66 GTGATCGTAAATCAACAGACTATTTAAATAAAGCGATGATCATAAATCGACAAGCTATGAAGGAA
42229339 TTGTT
131 TTGTT
42229344 CAGGACCGTA
Statistics
Matches: 109, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
140 1 0.01
141 95 0.87
142 13 0.12
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (142 bp):
ATAAATCAATGAACTTACTGAGTGGAACTACGATCCTAAATCAACAAACACTAAAAAAATCAATT
GTGATCGTAAATCAACAGACTATTTAAATAAAGCGATGATCATAAATCGACAAGCTATGAAGGAA
TTGTTTATAATC
Found at i:42234079 original size:54 final size:54
Alignment explanation
Indices: 42233945--42234150 Score: 218
Period size: 54 Copynumber: 3.8 Consensus size: 54
42233935 TTCCTTTTTA
* * * * *
42233945 AACTTACCATTGCCATGTCTTGATATGGTCTTACGTGGTATCCTTGTCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
42233998 AACTCACCATTGCCATGCCTTGGCATGGTCTTAC-TGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
42234051 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
42234106 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
42234151 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
52 14 0.11
53 31 0.25
54 64 0.52
55 14 0.11
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:42248609 original size:92 final size:93
Alignment explanation
Indices: 42248495--42248664 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
42248485 GCCCCTAAGT
* *
42248495 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
42248560 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
42248588 GAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
42248652 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42248665 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 66 0.92
93 6 0.08
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42248661 original size:46 final size:46
Alignment explanation
Indices: 42248490--42248661 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
42248480 AACCCGCCCC
* * * *
42248490 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
42248536 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
42248584 TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
42248628 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42248662 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 6 0.06
43 2 0.02
44 2 0.02
45 6 0.06
46 75 0.71
47 6 0.06
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:42256131 original size:93 final size:93
Alignment explanation
Indices: 42256021--42256191 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
42256011 GCCCCTAAGT
* *
42256021 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
42256086 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
42256114 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
42256179 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42256192 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42256188 original size:46 final size:46
Alignment explanation
Indices: 42256016--42256188 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
42256006 AACCCGCCCC
* * * *
42256016 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
42256062 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
42256110 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
42256155 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42256189 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:42260920 original size:34 final size:34
Alignment explanation
Indices: 42260877--42260944 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
42260867 TCATGCTTAG
42260877 CCAATTTTTCATAGCTCTCATACAAGTCCATACA
1 CCAATTTTTCATAGCTCTCATACAAGTCCATACA
42260911 CCAATTTTTCATAGCTCTCATACAAGTCCATACA
1 CCAATTTTTCATAGCTCTCATACAAGTCCATACA
42260945 TTTCATTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (34 bp):
CCAATTTTTCATAGCTCTCATACAAGTCCATACA
Found at i:42263664 original size:43 final size:43
Alignment explanation
Indices: 42263616--42263759 Score: 116
Period size: 43 Copynumber: 3.3 Consensus size: 43
42263606 AGCTCATAAA
* *
42263616 ATGCCAACGTCCAAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAAGTAATCAAATATCG
* *
42263659 ATGCC-ACTGTCCCAGACAG-GATCTTACAAGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAAGTAATCAAATATCG
** * * * * *
42263701 ATTTCAATGTCCCATATGTGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAAGT-AATCA-AATATCG
*
42263745 ATACCAACGTCCCAG
1 ATGCCAACGTCCCAG
42263760 CTGTGGGTAA
Statistics
Matches: 77, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
41 1 0.01
42 22 0.29
43 39 0.51
44 15 0.19
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACAAGTAATCAAATATCG
Found at i:42265109 original size:21 final size:19
Alignment explanation
Indices: 42265085--42265196 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
42265075 CTTTTAGGGT
42265085 TTCAGTTCAGCTCTTGTGTGC
1 TTCAGTT-AGC-CTTGTGTGC
42265106 TTCAGTTAGCCTTCG-G-GC
1 TTCAGTTAGCCTT-GTGTGC
*
42265124 TTCCGTTTAGCACTTGTGTGC
1 TTCAG-TTAGC-CTTGTGTGC
42265145 TTCAGTTAGCCTTCG-G-GC
1 TTCAGTTAGCCTT-GTGTGC
*
42265163 TTTC-GTTTAACACTTGTGTGC
1 -TTCAG-TTAGC-CTTGTGTGC
42265184 TTCAGTTAGCCTT
1 TTCAGTTAGCCTT
42265197 CGGGCTTCCG
Statistics
Matches: 75, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
18 9 0.12
19 25 0.33
20 25 0.33
21 16 0.21
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.41
Consensus pattern (19 bp):
TTCAGTTAGCCTTGTGTGC
Found at i:42265237 original size:78 final size:78
Alignment explanation
Indices: 42265097--42265242 Score: 233
Period size: 78 Copynumber: 1.9 Consensus size: 78
42265087 CAGTTCAGCT
* *
42265097 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGG
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGACTTCGGG
42265162 CTTTCGTTTAACA
66 CTTTCGTTTAACA
*
42265175 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGTACTTATGTGC-TCTA-TCTAGACTTCG
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTTC-AGT-TAGACTTCG
42265238 GGCTT
64 GGCTT
42265243 CAGATCACGA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
77 3 0.05
78 60 0.95
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (78 bp):
CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGACTTCGGG
CTTTCGTTTAACA
Found at i:42265243 original size:39 final size:39
Alignment explanation
Indices: 42265097--42265223 Score: 218
Period size: 39 Copynumber: 3.3 Consensus size: 39
42265087 CAGTTCAGCT
42265097 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
* *
42265136 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTTCGTTTAACA
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
*
42265175 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGTA
1 CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
*
42265214 CTTATGTGCT
1 CTTGTGTGCT
42265224 CTATCTAGAC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (39 bp):
CTTGTGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCA
Found at i:42271771 original size:40 final size:40
Alignment explanation
Indices: 42271680--42271942 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 40
42271670 TCCTTGTTCA
* * * * *
42271680 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42271719 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42271759 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42271799 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
42271839 AATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
42271879 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
42271919 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42271943 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.18
40 157 0.78
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:42271951 original size:41 final size:41
Alignment explanation
Indices: 42271874--42271951 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
42271864 TTAGTACCTC
* * *
42271874 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
42271915 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
42271952 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:42274663 original size:42 final size:42
Alignment explanation
Indices: 42274574--42274670 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
42274564 ACCGAGGCTA
42274574 TGTGTAAGACCATATTTGGGATATAGCATCATTATGAGACTT
1 TGTGTAAGACCATATTTGGGATATAGCATCATTATGAGACTT
* * * * *
42274616 CGTGTAAGGCCATATTTGGGATATGGCATCGA-TATTAGATTT
1 TGTGTAAGACCATATTTGGGATATAGCATC-ATTATGAGACTT
42274658 TGTGTAAGACCAT
1 TGTGTAAGACCAT
42274671 GGCTGAGCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (42 bp):
TGTGTAAGACCATATTTGGGATATAGCATCATTATGAGACTT
Found at i:42282873 original size:45 final size:44
Alignment explanation
Indices: 42282770--42282941 Score: 224
Period size: 45 Copynumber: 3.9 Consensus size: 44
42282760 TTTTATCGAA
* * *
42282770 TCACCGGCATT-CAGCCTGCTAGGCTCGAAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATC
* *
42282812 TCACCGGCATTATAGCCTGGTAGGCTCGAAAGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATC
* *
42282857 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATC
42282902 TCACCGGCATTATAGCCTGCTAGGCTCAAAGACCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAG-CCCGAATA
42282942 ATACTGTGCA
Statistics
Matches: 114, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
42 11 0.10
43 13 0.11
44 10 0.09
45 79 0.69
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
Found at i:42283795 original size:47 final size:47
Alignment explanation
Indices: 42283738--42283931 Score: 316
Period size: 47 Copynumber: 4.1 Consensus size: 47
42283728 TCAAAATTTT
*
42283738 CTTTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAG
1 CTTT-ACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
*
42283786 CTTTACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAATAAG
1 CTTTACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
* * *
42283833 CTTAACTAAGTAACTTAGCCGGAAATATTAAGAGCAAATTTAATAAG
1 CTTTACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
* *
42283880 CTTAACTAAGTAACTTATCCGGAAATATTAAGACCAAATTTAACAAG
1 CTTTACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
42283927 CTTTA
1 CTTTA
42283932 AATTCAACTT
Statistics
Matches: 138, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
47 134 0.97
48 4 0.03
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (47 bp):
CTTTACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
Found at i:42290524 original size:45 final size:45
Alignment explanation
Indices: 42290464--42290593 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 45
42290454 CGATATCATT
* *
42290464 TCACTAGCATTATAGCCTGCTAGGCTCAAAAGCCAGAATAGTATC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTATC
* * * *
42290509 TCACCAGCATAATAGCCTGCTAGGCTCAACGGCCAAAATTGTATC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTATC
* * * *
42290554 TCATCGGCATTATAGCCCGCTAGGCTCAAAGGCCCGAATA
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATA
42290594 ATACTGTGCG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTATC
Found at i:42302678 original size:42 final size:42
Alignment explanation
Indices: 42302614--42302730 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
42302604 TTATTGAGAT
* *
42302614 TCACGTGTAAGACTATATCTGGGATATGGCATCGATATGAAA
1 TCACGTGTAAGACCATATCTGGGATATGGCATCGATACGAAA
* * * * *
42302656 -CTTCGTGTAAGACCATAGCTGGGCTATTTGCATCGATACGAGA
1 TC-ACGTGTAAGACCATATCTGGGATA-TGGCATCGATACGAAA
*
42302699 TCACATGTAAGACCATATCTGGGATATGGCAT
1 TCACGTGTAAGACCATATCTGGGATATGGCAT
42302731 TGGTACGGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 33 0.55
44 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
TCACGTGTAAGACCATATCTGGGATATGGCATCGATACGAAA
Found at i:42303368 original size:13 final size:13
Alignment explanation
Indices: 42303350--42303385 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
42303340 AAGTTGATAA
42303350 GTATGTGATATTC
1 GTATGTGATATTC
*
42303363 GTATGTTATATTC
1 GTATGTGATATTC
42303376 GTATGTGATA
1 GTATGTGATA
42303386 AATGGTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.06, G:0.22, T:0.47
Consensus pattern (13 bp):
GTATGTGATATTC
Found at i:42306684 original size:39 final size:39
Alignment explanation
Indices: 42306444--42306674 Score: 336
Period size: 39 Copynumber: 5.9 Consensus size: 39
42306434 ATTACCAGCA
* * *
42306444 CCAGCACGAAGCCTGCGGGTCTTTAGCCTGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
42306483 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATATATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
42306522 CCAGCACGAAGCCTGCGGGGCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
42306561 CCAGCACGAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * ** *
42306600 TCAGCACGATGCCTATGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
42306639 CCAGCACGAAGCCTGCGGGACTCTAACCCGGATACA
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACA
42306675 ATCTCAGCAC
Statistics
Matches: 169, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 169 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:42312326 original size:39 final size:39
Alignment explanation
Indices: 42312086--42312316 Score: 354
Period size: 39 Copynumber: 5.9 Consensus size: 39
42312076 ATTACCAGCA
* *
42312086 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
42312125 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
42312164 CCAGCACAAAGCCTGAGGGACTTTATCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
42312203 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
42312242 CCAGCACGAAACCTGTGGGACTTTAGCCCGTATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
42312281 CCAGCACGAAGCCTGCGGGACTCTAACCCGAATACA
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACA
42312317 ATCTCAGCAC
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 177 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:42320810 original size:48 final size:48
Alignment explanation
Indices: 42320734--42321040 Score: 483
Period size: 48 Copynumber: 6.6 Consensus size: 48
42320724 AGATAAATAT
42320734 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42320782 ATATTTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42320830 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42320878 ATATGTATATGCGGTAAAGCCGAATTGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
42320926 ATATGTATATGTGGTAAAGCCGAATGGCTAA--TG-----TG-A--A-
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42320963 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
42321011 ATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
42321041 GTGATTCGGC
Statistics
Matches: 241, Mismatches: 7, Indels: 22
0.89 0.03 0.08
Matches are distributed among these distances:
37 31 0.13
38 1 0.00
39 1 0.00
40 1 0.00
41 2 0.01
44 2 0.01
45 1 0.00
46 2 0.01
47 1 0.00
48 199 0.83
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:42320976 original size:37 final size:37
Alignment explanation
Indices: 42320926--42321007 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
42320916 TATGTATGAG
*
42320926 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAA
42320963 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAA
42321000 ATATGTAT
1 ATATGTAT
42321008 GAGATATGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (37 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAA
Found at i:42320979 original size:85 final size:85
Alignment explanation
Indices: 42320878--42321040 Score: 299
Period size: 85 Copynumber: 1.9 Consensus size: 85
42320868 TATGTATGAG
* *
42320878 ATATGTATATGCGGTAAAGCCGAATTGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGCGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
42320943 AGCCGAATGGCTAATGTGAA
66 AGCCGAATGGCTAATGTGAA
*
42320963 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGCGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
42321028 AGCCGAATGGCTA
66 AGCCGAATGGCTA
42321041 GTGATTCGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (85 bp):
ATATGTATATGCGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAA
Found at i:42321263 original size:37 final size:37
Alignment explanation
Indices: 42321213--42321314 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
42321203 GGAAATATAT
42321213 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
42321250 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
42321287 TCTGGGTAAGACCCTAT-ACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
42321315 GGACTATTCG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
36 11 0.18
37 51 0.82
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:42322643 original size:40 final size:40
Alignment explanation
Indices: 42322595--42322745 Score: 243
Period size: 40 Copynumber: 3.8 Consensus size: 40
42322585 AGTTATATAG
42322595 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
42322635 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* * *
42322675 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
42322715 CCGGGCTAA-ACCTCGAAG-GCATTCGTGCTGG
1 CCGGGCTAAGTCC-CGAAGAGCATTCGTGCTGG
42322746 AATTATGAGG
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
Found at i:42322819 original size:29 final size:29
Alignment explanation
Indices: 42322786--42322883 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
42322776 CAATCGAGCG
42322786 CTATGTGTGCGAGATT-GGTAATTGAGGCA
1 CTATGTGTGCGAG-TTCGGTAATTGAGGCA
**
42322815 CTATGTGTGCGAGTTCTTTAATTGAGGCA
1 CTATGTGTGCGAGTTCGGTAATTGAGGCA
* ** * *
42322844 CTATGTGTGCAAGTTCTATAATCGA-GCG
1 CTATGTGTGCGAGTTCGGTAATTGAGGCA
42322872 CTATGTGTGCGA
1 CTATGTGTGCGA
42322884 AATCGGTTAG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 15 0.25
29 46 0.75
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (29 bp):
CTATGTGTGCGAGTTCGGTAATTGAGGCA
Done.