Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 172 of 345
Found at i:58883085 original size:27 final size:26
Alignment explanation
Indices: 58883046--58883144 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
58883036 CAGTTATCAA
* *
58883046 ATATTGTGACAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
58883073 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
*
58883099 ATATTTGTGGCATAGCCACCAGAAACAG
1 ATA-TTGTGGCAGAGCCACCAG-AACAG
* * *
58883127 GTAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
58883145 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.78
28 7 0.11
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:58883824 original size:27 final size:27
Alignment explanation
Indices: 58883785--58884310 Score: 797
Period size: 27 Copynumber: 19.6 Consensus size: 27
58883775 TACCCCAAAA
* *
58883785 GGTATCTT-GGTAATGCCACCCTACAGG
1 GGTAT-TTCGGTAATTCTACCCTACAGG
**
58883812 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
58883839 GGTATTTCGGTAATTCTACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
*
58883865 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
58883892 GGTATTGCGAT-ATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
58883918 GGTATTTCGGTAGTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
58883945 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* **
58883972 GGTATTTCGATAATTCTACCCGGCAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
58883999 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
58884026 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
58884053 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
58884080 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
58884107 GGTATTACGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
58884134 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
58884161 GGTATTCCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
58884188 GGTATTCCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
58884215 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
58884242 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
58884269 GGTATTTTGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
58884296 GGTATTTCGATAATT
1 GGTATTTCGGTAATT
58884311 TTGTAAATCG
Statistics
Matches: 462, Mismatches: 34, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
26 50 0.11
27 412 0.89
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:58884325 original size:27 final size:27
Alignment explanation
Indices: 58884295--58884614 Score: 145
Period size: 27 Copynumber: 11.9 Consensus size: 27
58884285 TACCCTATAG
**
58884295 GGGTATTTCGATAATTTTGTAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
*** * * ** *
58884322 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTATTTCGATAATTTTACAAATCGA
* *
58884349 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCGATAATTTTACAAATCGA
** **
58884376 GGGTATTTTAATAATTTTACAGGTCGA
1 GGGTATTTCGATAATTTTACAAATCGA
*
58884403 GGGTATTTC-AGTAATTTCACAAATC-A
1 GGGTATTTCGA-TAATTTTACAAATCGA
* * *
58884429 GGGGTATTTTGATAATTTCACAAAT-TA
1 -GGGTATTTCGATAATTTTACAAATCGA
** * *
58884456 GGGGTATTTTAATAATTTTAACAACTAG-
1 -GGGTATTTCGATAATTTT-ACAAATCGA
* *
58884484 GGGTATTTTGATAATTTTACAAA-CCA
1 GGGTATTTCGATAATTTTACAAATCGA
* * * *
58884510 GGGGTATTTTGGTAATTTTATAAA-CAAA
1 -GGGTATTTCGATAATTTTACAAATC-GA
* *
58884538 GGGTATTT-TAGTAATTTTACAAA-CTA
1 GGGTATTTCGA-TAATTTTACAAATCGA
* * ** * *
58884564 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCGATAATTTTACAAATCGA
*
58884592 GGGTATTTCGGTAATTTTACAAA
1 GGGTATTTCGATAATTTTACAAA
58884615 CCTGGGGTAT
Statistics
Matches: 233, Mismatches: 45, Indels: 30
0.76 0.15 0.10
Matches are distributed among these distances:
26 10 0.04
27 214 0.92
28 9 0.04
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCGA
Found at i:58884696 original size:27 final size:27
Alignment explanation
Indices: 58884349--58884689 Score: 319
Period size: 27 Copynumber: 12.6 Consensus size: 27
58884339 TGTAAATCAA
* **
58884349 GGGTACTTTGGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
** ***
58884375 AGGGTATTTTAATAATTTTACAGGTC-G
1 -GGGTATTTTGGTAATTTTACAAACCAG
** * *
58884402 AGGGTATTTCAGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * **
58884430 GGGTATTTTGATAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
58884457 GGGTATTTTAATAATTTTA-ACAACTAG
1 GGGTATTTTGGTAATTTTACA-AACCAG
*
58884484 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
58884511 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
58884538 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
58884565 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
58884592 GGGTATTTCGGTAATTTTACAAACCTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
58884619 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
58884646 GGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
58884673 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
58884690 GGTAAACTAA
Statistics
Matches: 265, Mismatches: 46, Indels: 6
0.84 0.15 0.02
Matches are distributed among these distances:
26 1 0.00
27 262 0.99
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:58887033 original size:93 final size:93
Alignment explanation
Indices: 58886919--58887090 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
58886909 GTCCATATGT
* *
58886919 GAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58886984 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
58887012 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58887077 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
58887091 CAAACATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:58887086 original size:46 final size:46
Alignment explanation
Indices: 58886910--58887086 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
58886900 ATGTAACCCG
* * *
58886910 TCCATATGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCA
*
58886956 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A
* *** * *
58887000 GTTACATCTCTCGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCA
1 --TCCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCA
*
58887049 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
58887087 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCA
Found at i:58887105 original size:46 final size:46
Alignment explanation
Indices: 58886917--58887105 Score: 140
Period size: 46 Copynumber: 4.1 Consensus size: 46
58886907 CCGTCCATAT
** *
58886917 GTGAACTCGGACTCAACTCAACGAGCTCGG--G-CTTTCGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAT-ACATCC-T-A
*
58886963 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT-
1 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--TACATC-CTA
* * * * * * *
58887011 -CGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCAT--AA
1 GTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCATACATCCTA
* *
58887056 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTA
1 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCTA
58887102 GTGA
1 GTGA
58887106 CATGTCACTT
Statistics
Matches: 114, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
44 8 0.07
46 62 0.54
47 30 0.26
48 1 0.01
49 6 0.05
50 5 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCTA
Found at i:58892732 original size:43 final size:43
Alignment explanation
Indices: 58892658--58892787 Score: 160
Period size: 43 Copynumber: 3.0 Consensus size: 43
58892648 ATAGGATTTC
*
58892658 TGATATGTGTTCTTGTG-AAGACCACGTCTGGGACGTTGGCAT
1 TGATATGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCAT
58892700 TGATATGTGTTCTCGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 TGATATGTGTTCTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * * *
58892743 CGATATGTGATT-ACATGTAAGACCACATCTGGGACGTTGGCAT
1 TGATATGTG-TTCTCGTGTAAGACCACGTCTGGGACGTTGGCAT
58892786 TG
1 TG
58892788 TACGATATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 18 0.24
43 54 0.71
44 4 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
TGATATGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:58895907 original size:43 final size:43
Alignment explanation
Indices: 58895789--58895930 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 43
58895779 GTTTTCATGC
* * * *
58895789 AAGACCACGTCTGGGAC-GTTGGCATCGATCTGTGATTTATGTGT
1 AAGACCATGTCTGGGACAG-TGGCATCGATATTTGATTT-CGTGT
* *
58895833 AAGACCATGTCTGGGACATTGGCATC-TTATTTGATTTCGTGT
1 AAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCGTGT
* * * *
58895875 AAGACCTTGTCTGGGACAGTGGCGTCGATATTTGATTACATGT
1 AAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCGTGT
*
58895918 AAGACCACGTCTG
1 AAGACCATGTCTG
58895931 AGACGTTGGC
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.33
43 32 0.39
44 23 0.28
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
AAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTCGTGT
Found at i:58903736 original size:40 final size:41
Alignment explanation
Indices: 58903676--58903769 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 41
58903666 TTTGGTATCA
* * *
58903676 CACACTTAGTG-CTTTATATAGCCGATGCTAT-TCCAACTCG
1 CACACTTAGTGCCATTATATAGCCGAAGCTATATCAAAC-CG
*
58903716 CACACTTAGTGCCATT-TATAGCCGAAGCTATATTAAACCG
1 CACACTTAGTGCCATTATATAGCCGAAGCTATATCAAACCG
58903756 CACACTTAGTGCCA
1 CACACTTAGTGCCA
58903770 AACATAGTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (41 bp):
CACACTTAGTGCCATTATATAGCCGAAGCTATATCAAACCG
Found at i:58911101 original size:44 final size:42
Alignment explanation
Indices: 58911053--58911190 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 42
58911043 AATGATTCCA
***
58911053 CACACTTAGTGCCATTTCAGT-TAGCCGAAGCTAAGTTGGTA-TCG
1 CACACTTAGTGCCATTT-A-TATAGCCGAAGCT-A-TTCCAACTCG
58911097 CACACTTAGTGCC--TTATATAGCCGAAGCTATTCCAACTCG
1 CACACTTAGTGCCATTTATATAGCCGAAGCTATTCCAACTCG
* **
58911137 CACACTTAGTGCCA-TT-TATAGTCGAAGCTATATTAAAC-CG
1 CACACTTAGTGCCATTTATATAGCCGAAGCTAT-TCCAACTCG
*
58911177 CAAACTTAGTGCCA
1 CACACTTAGTGCCA
58911191 AGTATAGTTG
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
39 3 0.04
40 47 0.57
41 18 0.22
42 2 0.02
44 13 0.16
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
CACACTTAGTGCCATTTATATAGCCGAAGCTATTCCAACTCG
Found at i:58911146 original size:40 final size:41
Alignment explanation
Indices: 58911094--58911190 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
58911084 TAAGTTGGTA
*
58911094 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTAT-TCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCGAAGCTATATCAAAC
* *
58911134 TCGCACACTTAGTGCCATTTATAGTCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAGCTATATCAAAC
*
58911175 -CGCAAACTTAGTGCCA
1 TCGCACACTTAGTGCCA
58911191 AGTATAGTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.88
41 6 0.12
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAGCTATATCAAAC
Found at i:58919254 original size:30 final size:29
Alignment explanation
Indices: 58919211--58919274 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
58919201 CAAGTAGCCG
58919211 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
58919240 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
58919270 AAGCT
1 AAGCT
58919275 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:58922600 original size:24 final size:24
Alignment explanation
Indices: 58922574--58922815 Score: 351
Period size: 24 Copynumber: 10.0 Consensus size: 24
58922564 GAGGAAGTGC
*
58922574 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
58922598 AAAAGGGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58922622 AAAAAAGGGCTTATGCCCCAGTTATC
1 --AAAAGGGCTTATGCCCCAGTTATT
*
58922648 AAAAGGGGTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58922672 AAAAGGGCTTATGCCTCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58922696 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
58922720 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58922744 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
58922768 AAAAAGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58922792 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
58922816 ATGATAAATT
Statistics
Matches: 198, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
24 165 0.83
25 11 0.06
26 22 0.11
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:58930994 original size:24 final size:24
Alignment explanation
Indices: 58930968--58931147 Score: 261
Period size: 24 Copynumber: 7.4 Consensus size: 24
58930958 AAGGAAGTGC
*
58930968 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
58930992 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
58931016 AAAAAATGGCTTATGCCCCAGTTATC
1 --AAAAGGGCTTATGCCCCAGTTATT
58931042 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
**
58931066 AAAAGGGCTTATGCCTTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58931090 AAAAAGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
58931114 AAAAGGCCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
58931138 AAAAGAGGCT
1 AAAAG-GGCT
58931148 AGGCCTCTAG
Statistics
Matches: 139, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
24 114 0.82
25 3 0.02
26 22 0.16
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:58937938 original size:30 final size:29
Alignment explanation
Indices: 58937886--58937949 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
58937876 CAAGTAGCCG
*
58937886 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCAAACTTAGTGCCA
*
58937915 AAGCTAGTTTAAATTGCAAACTTAGTGCCA
1 AAGCTAG-TTAAATCGCAAACTTAGTGCCA
58937945 AAGCT
1 AAGCT
58937950 TCCGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCAAACTTAGTGCCA
Found at i:58941251 original size:15 final size:15
Alignment explanation
Indices: 58941231--58941262 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58941221 TTCTAATGTA
*
58941231 AGCCCTCTTGAGCTT
1 AGCCCTATTGAGCTT
58941246 AGCCCTATTGAGCTT
1 AGCCCTATTGAGCTT
58941261 AG
1 AG
58941263 GTTATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (15 bp):
AGCCCTATTGAGCTT
Found at i:58949626 original size:35 final size:34
Alignment explanation
Indices: 58949554--58949626 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
58949544 TTCCATGCTA
* * * *
58949554 AATTCAATTTGGCAATGTAGTTATACATACATAC
1 AATTCAATTCGGCAATGTAATAATAAATACATAC
* *
58949588 AATTCAATTCGGCTATGTACATAATAAATACATTC
1 AATTCAATTCGGCAATGTA-ATAATAAATACATAC
58949623 AATT
1 AATT
58949627 TAACATCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.36
Consensus pattern (34 bp):
AATTCAATTCGGCAATGTAATAATAAATACATAC
Found at i:58956231 original size:48 final size:46
Alignment explanation
Indices: 58956164--58956299 Score: 137
Period size: 50 Copynumber: 2.8 Consensus size: 46
58956154 TAGGGTTATG
* * * * *
58956164 TGTGGGCCAGTTTAAGACCATGTATGGAACATGGCATCAGCGTTGTTA
1 TGTGAGCCAGTGTAAGACCATGTCTGG-ACATGGCATCACCGAT-TTA
58956212 TGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGATTTA
1 TGTGAGCCAGTGTAAGACCATGTCT-GGACATGGCAT---CACCGATTTA
* * *
58956262 TGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCATC
1 TGTGAGCCAGTGTAAGACCATGT-CTGGACATGGCATC
58956300 GGCATTTTAC
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
47 1 0.01
48 31 0.41
49 2 0.03
50 35 0.47
51 6 0.08
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTGAGCCAGTGTAAGACCATGTCTGGACATGGCATCACCGATTTA
Found at i:58956282 original size:50 final size:50
Alignment explanation
Indices: 58956209--58956303 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
58956199 ATCAGCGTTG
* *
58956209 TTATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGAT
1 TTATGAGAGCCAGTGTAAGACCATGTCCAGGACATGGCATCGGCACCGAT
* *
58956259 TTATGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCATCGGCA
1 TTATGAGAGCCAGTGTAAGACCATGTCCAGGACATGGCATCGGCA
58956304 TTTTACCCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
TTATGAGAGCCAGTGTAAGACCATGTCCAGGACATGGCATCGGCACCGAT
Found at i:58963422 original size:47 final size:47
Alignment explanation
Indices: 58963359--58963752 Score: 644
Period size: 47 Copynumber: 8.4 Consensus size: 47
58963349 CCCTTCGGGA
* * * * *
58963359 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58963406 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58963453 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58963500 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
58963547 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58963594 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
58963641 CTTATCACATATACACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
58963688 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
58963735 CTTATCACATATACACAC
1 CTTATCACATATACACAC
58963753 CTTGTACACC
Statistics
Matches: 328, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 328 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58963509 original size:22 final size:22
Alignment explanation
Indices: 58963481--58963556 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
58963471 TTTCACATTC
58963481 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
58963503 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
58963527 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58963550 ATCACAT
1 ATCACAT
58963557 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58963613 original size:141 final size:141
Alignment explanation
Indices: 58963359--58963752 Score: 716
Period size: 141 Copynumber: 2.8 Consensus size: 141
58963349 CCCTTCGGGA
* * *
58963359 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCTCATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
58963424 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATT
58963489 GGCCATTCGGC
131 GGCCATTCGGC
58963500 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
58963565 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATT
58963630 GGCCATTCGGC
131 GGCCATTCGGC
* ** * *
58963641 CTTATCACATATACACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
58963706 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
58963753 CTTGTACACC
Statistics
Matches: 245, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 245 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATT
GGCCATTCGGC
Found at i:58967475 original size:47 final size:47
Alignment explanation
Indices: 58967406--58967584 Score: 198
Period size: 47 Copynumber: 3.8 Consensus size: 47
58967396 GGTATAATGC
* *
58967406 CGATGCCATGTCCTAGACATGGTCTTACATTGGCTCATCCATCAAGT
1 CGATGCCATATCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT
58967453 CGATGCCATATCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT
1 CGATGCCATATCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT
* * * * * * * *
58967500 TGATGCCATATCCCAAATATGGTCTTACACTGACT-ATCGAAATCGAGGC
1 CGATGCCATATCCTAGACATGGTCTTACACTGGCTCATC--CATC-AAGT
* * * *
58967549 CGACGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 CGATGCCATATCCTAGACATGGTCTTACACTGGCTC
58967585 TCACATGTCC
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
46 3 0.03
47 75 0.68
48 3 0.03
49 30 0.27
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATATCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT
Found at i:58967571 original size:49 final size:50
Alignment explanation
Indices: 58967504--58967632 Score: 138
Period size: 50 Copynumber: 2.6 Consensus size: 50
58967494 TCAAGTTGAT
* * *
58967504 GCCATATCCCAAATATGGTCTTACACTGACTATCGA-A-ATCGAGGCCGAC
1 GCCATGTCCCAAACATGGTCTTACACTGACTATC-ACATATCCAGGCCGAC
* * * * * *
58967553 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATGTCCATGCCTAT
1 GCCATGTCCCAAACATGGTCTTACACTGA-CTATCACATATCCAGGCCGAC
58967603 GCCATGTCCCAAACATGGTCTTACACTGAC
1 GCCATGTCCCAAACATGGTCTTACACTGAC
58967633 ACATCTCATA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.03
49 29 0.44
50 34 0.52
51 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACACTGACTATCACATATCCAGGCCGAC
Found at i:58967697 original size:46 final size:46
Alignment explanation
Indices: 58967555--58967719 Score: 140
Period size: 46 Copynumber: 3.5 Consensus size: 46
58967545 AGGCCGACGC
* * * * *
58967555 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATGTCCATGCCTATGC
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CAAGCCAAT-A
* * *
58967605 CATGTCCCAAACATGGTCTTACACTGAC--ACATCTCATAGCCGATA
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCA-AGCCAATA
* *
58967650 CATGTCTCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCAATA
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-AAGCCAATA
* *
58967696 CATGTTCCAGTCAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
58967720 AGCACTCGTC
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
44 12 0.12
45 14 0.15
46 44 0.46
47 1 0.01
50 25 0.26
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCCAATA
Found at i:58970520 original size:23 final size:23
Alignment explanation
Indices: 58970489--58970582 Score: 79
Period size: 23 Copynumber: 4.1 Consensus size: 23
58970479 CTGAGCTGAT
*
58970489 AAACAATAAGCTCTATTAAGCTG
1 AAACGATAAGCTCTATTAAGCTG
*
58970512 AAACGATAAGCTCTATCAAGCTG
1 AAACGATAAGCTCTATTAAGCTG
58970535 -AAC-AGTAAGCTC-A-TACGAGCTG
1 AAACGA-TAAGCTCTATTA--AGCTG
* * * *
58970557 AAATGGTATGCTCTAATAAGCTG
1 AAACGATAAGCTCTATTAAGCTG
58970580 AAA
1 AAA
58970583 ACAGTAAGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 15 0.26
23 37 0.64
24 1 0.02
25 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (23 bp):
AAACGATAAGCTCTATTAAGCTG
Found at i:58970604 original size:47 final size:46
Alignment explanation
Indices: 58970482--58970604 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 46
58970472 GCTCCTTCTG
* *
58970482 AGCTGATAAACAATAAGCTCTATTAAGCTGAAACGATAAGCTCTATCA
1 AGCTGA-AAACAGTAAGCTCTA-TGAGCTGAAACGATAAGCTCTATCA
* * * *
58970530 AGCTG--AACAGTAAGCTCATACGAGCTGAAATGGTATGCTCTAAT-A
1 AGCTGAAAACAGTAAGCTC-TATGAGCTGAAACGATAAGCTCT-ATCA
58970575 AGCTGAAAACAGTAAGCTCTTATGAGCTGA
1 AGCTGAAAACAGTAAGCTC-TATGAGCTGA
58970605 TATATCAGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
45 33 0.52
46 4 0.06
47 21 0.33
48 5 0.08
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (46 bp):
AGCTGAAAACAGTAAGCTCTATGAGCTGAAACGATAAGCTCTATCA
Found at i:58977453 original size:40 final size:40
Alignment explanation
Indices: 58977404--58977498 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
58977394 CGGATGTAAC
*
58977404 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
58977444 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
58977484 AACCCGCACGAATGC
1 AACCCGCACGAATGC
58977499 TATGCACATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:58982005 original size:47 final size:47
Alignment explanation
Indices: 58981884--58982359 Score: 785
Period size: 47 Copynumber: 10.1 Consensus size: 47
58981874 GAAATGATAG
58981884 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58981931 TAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58981977 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58982024 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
58982073 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
58982122 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58982169 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
58982216 TAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58982263 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
58982310 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
58982356 TAAG
1 TAAG
58982360 TCCCGAAGGG
Statistics
Matches: 408, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 83 0.20
47 230 0.56
49 95 0.23
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:58982208 original size:192 final size:189
Alignment explanation
Indices: 58981884--58982305 Score: 767
Period size: 192 Copynumber: 2.2 Consensus size: 189
58981874 GAAATGATAG
*
58981884 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGGCTAATGGCCGA
*
58981947 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
*
58982012 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
131 GTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTG--TATATATGAGA
58982073 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGG-CTAATGGCCG
58982138 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
65 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
*
58982203 TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGA
130 TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGAGA
58982263 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
58982306 GTGACGGGCC
Statistics
Matches: 226, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
189 36 0.16
190 53 0.23
191 15 0.07
192 122 0.54
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (189 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGATAAGGCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
GTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGAGA
Found at i:58982533 original size:37 final size:37
Alignment explanation
Indices: 58982477--58982555 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
58982467 CCGAGCTCTA
* *
58982477 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
58982514 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58982551 AAGAC
1 AAGAC
58982556 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58985196 original size:27 final size:28
Alignment explanation
Indices: 58985144--58985218 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 28
58985134 ACACGCTAGA
** *
58985144 AAATGGAAGATTTTGTGGCAACCTAT-G
1 AAATGGAAGCCTTTGTGGCGACCTATGG
*
58985171 AAATGGAAGCCTTTGTGGCGATCTATGG
1 AAATGGAAGCCTTTGTGGCGACCTATGG
58985199 AAA-GGAACGCCTTTGTGGCG
1 AAATGGAA-GCCTTTGTGGCG
58985219 CATTCTAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 26 0.62
28 16 0.38
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
AAATGGAAGCCTTTGTGGCGACCTATGG
Found at i:58985837 original size:27 final size:27
Alignment explanation
Indices: 58985808--58985950 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
58985798 ACACGCCAAA
* ** *
58985808 AAATGGAAGTCTTTGTGAAAATCTATA
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * *
58985835 AAATTGAAGCCTTTGTAGAAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
58985862 AAATGGAAGCCTTTGTGGCAATTTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
58985889 AAATGGAAGCCTTTGTGGCAATTTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
58985916 AAATGGAAGCCTTTGTGGCAATCTATGG
1 AAATGGAAGCCTTTGTGGCAATCTAT-G
58985944 AAA-GGAA
1 AAATGGAA
58985951 CACGTTCATG
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 101 0.96
28 4 0.04
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:58986087 original size:27 final size:26
Alignment explanation
Indices: 58986049--58986140 Score: 112
Period size: 27 Copynumber: 3.5 Consensus size: 26
58986039 TGTATGGCTC
* * *
58986049 ACTCTGAAGAATGGTAAGTACAGTAA
1 ACTCTAAAGAATGATAAGTACGGTAA
* * *
58986075 ACTCTAAGAGAATGATATGTATGGCAA
1 ACTCTAA-AGAATGATAAGTACGGTAA
58986102 ACTCTAAAGAATGATAAGTACGGTAA
1 ACTCTAAAGAATGATAAGTACGGTAA
58986128 ACTCTAAAAGAAT
1 ACTCT-AAAGAAT
58986141 TATTTATGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
26 27 0.49
27 28 0.51
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (26 bp):
ACTCTAAAGAATGATAAGTACGGTAA
Found at i:58986158 original size:53 final size:53
Alignment explanation
Indices: 58986005--58986188 Score: 190
Period size: 53 Copynumber: 3.5 Consensus size: 53
58985995 AAAATAGACA
* * * * * *
58986005 AATGGTAAATACAGAAAACTCTAAAAGAAGGATATGTATGGCTCACTCTGAAG
1 AATGATAAGTACAGTAAACTCTAAAAGAATGATATGTATGGCTAACTCTAAAG
* * *
58986058 AATGGTAAGTACAGTAAACTCTAAGAGAATGATATGTATGGCAAACTCTAAAG
1 AATGATAAGTACAGTAAACTCTAAAAGAATGATATGTATGGCTAACTCTAAAG
* * * * *
58986111 AATGATAAGTACGGTAAACTCTAAAAGAATTATTTATGTGGCTAACTCTGAAAG
1 AATGATAAGTACAGTAAACTCTAAAAGAATGATATGTATGGCTAACTCT-AAAG
* * *
58986165 ACT-AGTAAGAATAGTAAACTCTAA
1 AATGA-TAAGTACAGTAAACTCTAA
58986189 GGAAAGATGT
Statistics
Matches: 110, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
53 88 0.80
54 22 0.20
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (53 bp):
AATGATAAGTACAGTAAACTCTAAAAGAATGATATGTATGGCTAACTCTAAAG
Found at i:58991005 original size:27 final size:27
Alignment explanation
Indices: 58990907--58991034 Score: 161
Period size: 27 Copynumber: 4.7 Consensus size: 27
58990897 TTAGTTTACC
58990907 AAATTACCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCT-GATTAGCA
*
58990934 AAATTACCAAAATACCCTTGATTAGCA
1 AAATTACCAAAATACCCCTGATTAGCA
* *
58990961 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGATTAGCA
* * *
58990988 AAATTACCGAAATACCCCTG-TAAGGTA
1 AAATTACCAAAATACCCCTGATTA-GCA
*
58991015 AAATTACCGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
58991035 TAGGGTGGAA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 88 0.96
28 3 0.03
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTAGCA
Found at i:58991035 original size:27 final size:27
Alignment explanation
Indices: 58990962--58991372 Score: 432
Period size: 27 Copynumber: 15.3 Consensus size: 27
58990952 TGATTAGCAA
* ** *
58990962 AATTACCAAAATACCCCTG-ATTTGTAA
1 AATTACCGAAATACCCCTGTA-GGGTAG
* *
58990989 AATTACCGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
58991016 AATTACCGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
58991043 AATTACTGAAATACTCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
**
58991070 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
58991097 AATTATTGAAATACTCCTGCATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
58991124 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58991151 AATGACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
58991178 AATTACCGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58991205 AATTACTGAAATACCCCAGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
58991232 AATTATTGAAATAGCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
58991259 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
58991286 AATTACCGAAATACCCTTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58991312 AAATACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58991339 AATTACCGAGATA-CCCTCGTGGGGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
58991366 AATTACC
1 AATTACC
58991373 ATTTTGCCCT
Statistics
Matches: 325, Mismatches: 56, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 27 0.08
27 297 0.91
28 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:58991047 original size:54 final size:54
Alignment explanation
Indices: 58990962--58991371 Score: 493
Period size: 54 Copynumber: 7.6 Consensus size: 54
58990952 TGATTAGCAA
* ** * * *
58990962 AATTACCAAAATACCCCTG-ATTTGTAAAATTACCGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTA-GGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
58991016 AATTACCGAAATACCCCTGTAGGGTGGAATTACTGAAATACTCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
** * * * *
58991070 AATTATTGAAATACCCCTGTAGGGTAGAATTATTGAAATACTCCTGCATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
58991124 AATTACCAAAATACCCCTATAGGGTAGAATGACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
58991178 AATTACCGAAATATCCCTGTAGGGTAGAATTACTGAAATACCCCAGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
** * * *
58991232 AATTATTGAAATAGCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * * *
58991286 AATTACCGAAATACCCTTGTA-GGTAGAAATACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* * *
58991339 AATTACCGAGATA-CCCTCGTGGGGTAAAATTAC
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTAC
58991372 CATTTTGCCC
Statistics
Matches: 307, Mismatches: 46, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
52 3 0.01
53 43 0.14
54 260 0.85
55 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:58991703 original size:20 final size:20
Alignment explanation
Indices: 58991656--58991703 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
58991646 CGAAGGCTGT
*
58991656 GTGCCGTTATTGTGGGCTTC
1 GTGCCGATATTGTGGGCTTC
**
58991676 GTATCGATATTGTGGGCTTC
1 GTGCCGATATTGTGGGCTTC
58991696 GTGCCGAT
1 GTGCCGAT
58991704 TATAGACCCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.19, G:0.33, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTGTGGGCTTC
Found at i:58991752 original size:22 final size:22
Alignment explanation
Indices: 58991720--58991778 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
58991710 CCCGTTATCG
* *
58991720 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACATAAAT
* * *
58991742 ATGGCTTTGTGCCATCATGACT
1 ATGGCTTTGTGCCAACATAAAT
*
58991764 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
58991779 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACATAAAT
Found at i:58991992 original size:28 final size:28
Alignment explanation
Indices: 58991935--58992070 Score: 115
Period size: 27 Copynumber: 5.0 Consensus size: 28
58991925 ATCCTGTTAA
* *
58991935 GTGGCTTTGCCACATTA-TCTGATTT-TG
1 GTGGCTCTGCCACAATATTCTG-TTTCTG
* *
58991962 GTGGCCCTGTCACAATATTCTGTTTCTG
1 GTGGCTCTGCCACAATATTCTGTTTCTG
* *
58991990 GTGGCTATGCCACAA-ATATCTG-TTCTA
1 GTGGCTCTGCCACAATAT-TCTGTTTCTG
* *
58992017 GTGGCTCTGCCACAATA-CCTGTATCTG
1 GTGGCTCTGCCACAATATTCTGTTTCTG
* *
58992044 GTGACTCTGTCACAATATT-TG-TTCTG
1 GTGGCTCTGCCACAATATTCTGTTTCTG
58992070 G
1 G
58992071 CAGCCATGCT
Statistics
Matches: 87, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
26 8 0.09
27 56 0.64
28 23 0.26
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (28 bp):
GTGGCTCTGCCACAATATTCTGTTTCTG
Found at i:58992021 original size:55 final size:53
Alignment explanation
Indices: 58991935--58992068 Score: 133
Period size: 55 Copynumber: 2.5 Consensus size: 53
58991925 ATCCTGTTAA
* * * * * * *
58991935 GTGGCTTTGCCACATTATCTGATTTTGGTGGCCCTGTCACAATATTCTGTTTCTG
1 GTGGCTATGCCACAATATCTG-TTCTAGTGGCCCTGCCACAATA-CCTGTATCTG
*
58991990 GTGGCTATGCCACAAATATCTGTTCTAGTGGCTCTGCCACAATACCTGTATCTG
1 GTGGCTATGCCAC-AATATCTGTTCTAGTGGCCCTGCCACAATACCTGTATCTG
* * * *
58992044 GTGACTCTGTCACAATATTTGTTCT
1 GTGGCTATGCCACAATATCTGTTCT
58992069 GGCAGCCATG
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 11 0.17
54 18 0.27
55 30 0.45
56 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (53 bp):
GTGGCTATGCCACAATATCTGTTCTAGTGGCCCTGCCACAATACCTGTATCTG
Found at i:58992196 original size:6 final size:6
Alignment explanation
Indices: 58992187--58992291 Score: 74
Period size: 6 Copynumber: 17.3 Consensus size: 6
58992177 TTGCATTCAC
* *
58992187 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATT-TG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
58992235 ATTATG ATTCTG -TCACATG ATTCTG ATTCTA ATTCTC ATTTTG ATTCTTG
1 ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTC-TG
58992285 -TTCTG AT
1 ATTCTG AT
58992292 ACTGTTTCTT
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 10 0.13
6 59 0.75
7 8 0.10
8 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:58992261 original size:42 final size:43
Alignment explanation
Indices: 58992181--58992280 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
58992171 TTGGGATTGC
* * * * * *
58992181 ATTCACATTCTGATTCTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTCATTTTGATTATGATTCTGTCACATGATACTGATTCTA
* *
58992224 ATT-TGATTTTGATTATGATTCTGTCACATGATTCTGATTCTA
1 ATTCTCATTTTGATTATGATTCTGTCACATGATACTGATTCTA
58992266 ATTCTCATTTTGATT
1 ATTCTCATTTTGATT
58992281 CTTGTTCTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 34 0.72
43 13 0.28
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (43 bp):
ATTCTCATTTTGATTATGATTCTGTCACATGATACTGATTCTA
Found at i:58999827 original size:43 final size:42
Alignment explanation
Indices: 58999737--58999832 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
58999727 TCGATGCCTC
* * *
58999737 TGTCCCAGACAGGGTCTTATACGAAATCAGATACGATGCTGA
1 TGTCCCAGACAGGGTCATATACGAAATCAGATACGAGGCCGA
* *
58999779 TGTCCCAGACATGGTCATATACGTAAATCTCA-AT-CGAGGCCGG
1 TGTCCCAGACAGGGTCATATACG-AAA--TCAGATACGAGGCCGA
58999822 TGTCCCAGACA
1 TGTCCCAGACA
58999833 CGATCTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 21 0.46
43 20 0.43
44 2 0.04
45 3 0.07
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (42 bp):
TGTCCCAGACAGGGTCATATACGAAATCAGATACGAGGCCGA
Found at i:59003698 original size:43 final size:42
Alignment explanation
Indices: 59003645--59003795 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 42
59003635 TATCCCAAGT
*
59003645 ATGGTCTTACATGTTATCTCATATCGATGCCAATGTCTCAGAC
1 ATGGTCTTACATGTAATCTCATATCGATGCCAATGTC-CAGAC
* * * * *
59003688 ATGGCCTTACACGAAATCAT-ATAACGATGCCAATGTCCTAGAT
1 ATGGTCTTACATGTAATC-TCATATCGATGCCAATGTCC-AGAC
* *
59003731 ATGGTCTTACATGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCTCATAT-CGATGCCAATGT-CCAGAC
*
59003774 ATGGTCTTACATCTAATCTCAT
1 ATGGTCTTACATGTAATCTCAT
59003796 CTCGGTAATC
Statistics
Matches: 87, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.02
43 82 0.94
44 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCTCATATCGATGCCAATGTCCAGAC
Found at i:59005284 original size:35 final size:35
Alignment explanation
Indices: 59005219--59005285 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
59005209 GATGACACCT
**
59005219 TGTAAACGATATATAGGTCCTTCAGTGCAACACTG
1 TGTAAACGATATATAGGTCCTTCAAAGCAACACTG
* * *
59005254 TGTAAATGGTATATATGTCCTTCAAAGCAACA
1 TGTAAACGATATATAGGTCCTTCAAAGCAACA
59005286 TCTCAAACGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (35 bp):
TGTAAACGATATATAGGTCCTTCAAAGCAACACTG
Found at i:59007988 original size:39 final size:40
Alignment explanation
Indices: 59007945--59008062 Score: 150
Period size: 40 Copynumber: 3.0 Consensus size: 40
59007935 TTATTGCCTG
59007945 AATGCACATACGTGCCCCTGTTTGTACT-TCGGT-CCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTCT-GGTACCCCTA
59007984 AATGCACATACGTGCCCCTGTTTGTACTCTGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTCTGGTACCCCTA
* * * * * * *
59008024 AATGTACATACATGCCTCTATTTATACTTTGGTAACCCT
1 AATGCACATACGTGCCCCTGTTTGTACTCTGGTACCCCT
59008063 GATATACTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
39 31 0.44
40 39 0.56
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTCTGGTACCCCTA
Found at i:59008070 original size:19 final size:19
Alignment explanation
Indices: 59008046--59008083 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59008036 TGCCTCTATT
59008046 TATACTTTGGTAACCCTGA
1 TATACTTTGGTAACCCTGA
59008065 TATACTTTGGTAACCCTGA
1 TATACTTTGGTAACCCTGA
59008084 ATCAAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (19 bp):
TATACTTTGGTAACCCTGA
Found at i:59012029 original size:30 final size:30
Alignment explanation
Indices: 59011995--59012055 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59011985 TCCTTAACTC
59011995 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
59012025 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
59012055 A
1 A
59012056 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:59026163 original size:50 final size:49
Alignment explanation
Indices: 59026057--59026232 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 49
59026047 CTGGTACGCA
* * * ** *
59026057 TAGTAGCCTGCGCTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
*
59026106 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCTGATACACG
**** * * * *
59026156 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCTGATACACG
59026207 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59026233 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 29 0.27
50 43 0.40
51 35 0.32
52 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
Found at i:59026240 original size:101 final size:99
Alignment explanation
Indices: 59026057--59026240 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
59026047 CTGGTACGCA
* * * *
59026057 TAGTAGCCTGCGCTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTACACTTA
*
59026122 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * *
59026156 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCGGGTACACATAGTAGCCTACACT
*
59026221 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
59026241 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 28 0.39
100 1 0.01
101 43 0.60
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:59033195 original size:13 final size:13
Alignment explanation
Indices: 59033177--59033202 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59033167 GGGTTCCCTT
59033177 CTATGGGCGTGTG
1 CTATGGGCGTGTG
59033190 CTATGGGCGTGTG
1 CTATGGGCGTGTG
59033203 TCCCCTGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.46, T:0.31
Consensus pattern (13 bp):
CTATGGGCGTGTG
Found at i:59040502 original size:30 final size:29
Alignment explanation
Indices: 59040459--59040522 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
59040449 CAAGTAGCCG
*
59040459 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
*
59040488 AAGCTAGTTTAAATCACACAGTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
59040518 AAGCT
1 AAGCT
59040523 TCTGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:59046562 original size:27 final size:27
Alignment explanation
Indices: 59046531--59046583 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
59046521 ACTCCCTAAT
*
59046531 TGATAAAATGACTGTTATGCCCCTATG
1 TGATAAAATAACTGTTATGCCCCTATG
59046558 TGATAAAATAACTGTTATGCCCCTAT
1 TGATAAAATAACTGTTATGCCCCTAT
59046584 ATGAGGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (27 bp):
TGATAAAATAACTGTTATGCCCCTATG
Found at i:59048816 original size:40 final size:40
Alignment explanation
Indices: 59048638--59048860 Score: 242
Period size: 40 Copynumber: 5.6 Consensus size: 40
59048628 GCTCCTCGTT
* *
59048638 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
59048678 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
59048718 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
* *
59048758 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * ** *
59048797 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGCCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
59048838 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
59048861 AACATCATTC
Statistics
Matches: 159, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 112 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:59048822 original size:119 final size:120
Alignment explanation
Indices: 59048640--59048862 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
59048630 TCCTCGTTCA
*
59048640 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
59048705 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCACACC
66 ATAGCAACTTAGCACAAA-GCCTTCGGGACTTAACCCGAATTTAGTAACTCACACC
* * **
59048760 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
59048822 ATATGGCCACTTAGCACAAAGCCTTCGGGACTTAGCCCGAA
64 ATATAGCAACTTAGCACAAAGCCTTCGGGACTTAACCCGAA
59048863 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGCAACTTAGCACAAAGCCTTCGGGACTTAACCCGAATTTAGTAACTCACACC
Found at i:59048846 original size:79 final size:80
Alignment explanation
Indices: 59048638--59048860 Score: 238
Period size: 79 Copynumber: 2.8 Consensus size: 80
59048628 GCTCCTCGTT
* * ** * *
59048638 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTC-GCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGCAACTCAGCACAAA-GCCTTCGGGACTTAGCCCG
*
59048702 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* * *
59048718 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCA-CACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGCAACTCAGCA-CAAAGCCTTCGGGACTTAGCCCG
*
59048781 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
** * * * *
59048797 CAAATGCCTTC-GGATCTTAGTCCGGATATGGCCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGCAACTCAGCACAAAGCCTTCGGGACTTAGCCCG
59048861 AACATCATTC
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.50
80 54 0.45
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGCAACTCAGCACAAAGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:59056733 original size:118 final size:119
Alignment explanation
Indices: 59056552--59056773 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
59056542 TCCTCGTTCA
*
59056552 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
59056617 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
59056671 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
59056733 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
59056774 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:59056773 original size:40 final size:40
Alignment explanation
Indices: 59056550--59056773 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
59056540 GCTCCTCGTT
* *
59056550 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59056590 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59056630 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
59056670 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
59056708 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
59056749 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59056774 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59062384 original size:18 final size:18
Alignment explanation
Indices: 59062318--59062385 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
59062308 CTTGGTCAAT
*
59062318 TGCAGTAACAATAA-ACAG
1 TGCAGTAACAGTAATA-AG
* *
59062336 TGCAGTAATAGTAATCAG
1 TGCAGTAACAGTAATAAG
* * *
59062354 TGCAGCAATAGTAATAAA
1 TGCAGTAACAGTAATAAG
59062372 TGCAGTAACAGTAA
1 TGCAGTAACAGTAA
59062386 ACAAGTCCTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAATAAG
Found at i:59062763 original size:27 final size:27
Alignment explanation
Indices: 59062701--59062770 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
59062691 CCTTACATAG
* *
59062701 GGGCAAAACAGTCATCTTACCATACAA
1 GGGCAAAATAGTCATTTTACCATACAA
*
59062728 GGGCAAAATAGTCATTTTACCATATAA
1 GGGCAAAATAGTCATTTTACCATACAA
*
59062755 GGGCAAAATAGCCATT
1 GGGCAAAATAGTCATT
59062771 CTATCGATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTACCATACAA
Found at i:59068630 original size:39 final size:39
Alignment explanation
Indices: 59068576--59068712 Score: 202
Period size: 39 Copynumber: 3.5 Consensus size: 39
59068566 ATTTGAAAAT
*
59068576 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
59068615 TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
* * * ** *
59068654 TATATTCGGACTTCAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
*
59068693 TATATCCGGGCTTAAAGTCC
1 TATATCCGGACTTAAAGTCC
59068713 CGAAGGCTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
Found at i:59072285 original size:27 final size:27
Alignment explanation
Indices: 59072254--59072311 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
59072244 ACCCTCTAAT
*
59072254 TGATAAAATGACTATTACGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
* *
59072281 TGATAAAATAACTGTTATGCCCCTATG
1 TGATAAAATAACTATTACGCCCCTATG
59072308 TGAT
1 TGAT
59072312 GGATGACTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (27 bp):
TGATAAAATAACTATTACGCCCCTATG
Found at i:59073990 original size:42 final size:42
Alignment explanation
Indices: 59073929--59074154 Score: 164
Period size: 48 Copynumber: 5.0 Consensus size: 42
59073919 CCATGGCAGT
* *
59073929 ACATGTGATCCTATATAAGACCATATCTGGGATATGGCATCG
1 ACATGTGATCCCATGTAAGACCATATCTGGGATATGGCATCG
* * *
59073971 ACATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTCTCATC
1 ACATGTGATCCCATGTAAGACCATATCTGGGATATGGCA---TC--G
* *
59074018 AGCATGTGATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCATCG
1 A-CATGTGATCCCATGTAAGACCATATCTGGG--AT---A-TGGCATCG
**
59074067 GTATGTGATCCCATGTAAGACCATATCTGGGATATGGAATTGGCATCG
1 ACATGTGATCCCATGTAAGACCATATCTGGG--AT---A-TGGCATCG
* ** * *
59074115 ATATGTGATTTCATGTAAGACCATAGCTGGGCTATGGCAT
1 ACATGTGATCCCATGTAAGACCATATCTGGGATATGGCAT
59074155 TGTGACGACA
Statistics
Matches: 153, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
42 41 0.27
43 1 0.01
45 2 0.01
46 1 0.01
47 1 0.01
48 98 0.64
50 1 0.01
51 2 0.01
53 1 0.01
54 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
ACATGTGATCCCATGTAAGACCATATCTGGGATATGGCATCG
Found at i:59074028 original size:48 final size:47
Alignment explanation
Indices: 59073963--59074156 Score: 230
Period size: 48 Copynumber: 4.0 Consensus size: 47
59073953 ATCTGGGATA
59073963 TGGCATCGACATGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
1 TGGCATCG-CATGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
** *
59074011 TCTCATCAGCATGTGATCCCATGTAAGACTATGTCTGGGACATGGCAT
1 TGGCATC-GCATGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
* * * *
59074059 TGGCATCGGTATGTGATCCCATGTAAGACCATATCTGGGATATGGAAT
1 TGGCATC-GCATGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
* **
59074107 TGGCATCGATATGTGATTTCATGTAAGACCATAG-CTGGG-CTATGGCAT
1 TGGCATCG-CATGTGATCCCATGTAAGACCAT-GTCTGGGAC-ATGGCAT
59074155 TG
1 TG
59074157 TGACGACATG
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 124 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (47 bp):
TGGCATCGCATGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
Found at i:59074181 original size:36 final size:37
Alignment explanation
Indices: 59074126--59074195 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 37
59074116 TATGTGATTT
59074126 CATGTAAGACCATAGCTGGGCTATGGCATTGTGACGA
1 CATGTAAGACCATAGCTGGGCTATGGCATTGTGACGA
*
59074163 CATGTAA-ACCATAGCTGGGTTATGGCATTGTGA
1 CATGTAAGACCATAGCTGGGCTATGGCATTGTGA
59074196 TATGAGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 25 0.78
37 7 0.22
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (37 bp):
CATGTAAGACCATAGCTGGGCTATGGCATTGTGACGA
Found at i:59074208 original size:36 final size:37
Alignment explanation
Indices: 59074126--59074226 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 37
59074116 TATGTGATTT
*
59074126 CATGTAAGACCATAGCTGGGCTATGGCATTGTGACGA
1 CATGTAAAACCATAGCTGGGCTATGGCATTGTGACGA
* *
59074163 CATGT-AAACCATAGCTGGGTTATGGCATTGTGA-TA
1 CATGTAAAACCATAGCTGGGCTATGGCATTGTGACGA
* * *
59074198 TGA-GTAAAACCATAGTTGGACTATGGCAT
1 -CATGTAAAACCATAGCTGGGCTATGGCAT
59074227 CAAGTAAAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
35 3 0.05
36 47 0.85
37 5 0.09
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (37 bp):
CATGTAAAACCATAGCTGGGCTATGGCATTGTGACGA
Found at i:59075787 original size:46 final size:45
Alignment explanation
Indices: 59075718--59075939 Score: 245
Period size: 46 Copynumber: 4.8 Consensus size: 45
59075708 TGTAACCCGC
59075718 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACGTT-GCAT
* * *
59075764 CTATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTGCAT
* * * *
59075814 -C-TCA-CGAACTCGGACTCAAGTCAACGAGTTCGGACGCTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTGCAT
* *
59075857 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTGCAT
*
59075903 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
59075940 TGCCAAATAT
Statistics
Matches: 152, Mismatches: 14, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 2 0.01
45 4 0.03
46 105 0.69
47 26 0.17
48 2 0.01
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTGCAT
Found at i:59084776 original size:40 final size:40
Alignment explanation
Indices: 59084721--59084898 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
59084711 CGGATGATAA
* *
59084721 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
59084761 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
59084801 CCGGGCTAAGTCCCGAAGGCATTTGTGGGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
59084841 CCGGGCTAAGTCCCGAAGGTATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
59084881 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59084899 TACTTGGTTG
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 17 0.13
40 108 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59090420 original size:46 final size:45
Alignment explanation
Indices: 59090334--59090553 Score: 160
Period size: 46 Copynumber: 4.8 Consensus size: 45
59090324 GCATATCCAT
* *
59090334 GTTGATGACATGTCCCAGACGTGGTCTTACACTAACACATCGCT-TA
1 GTTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACATCGCTGTA
* * * *
59090380 GTTGATGCATGTCCCAAACATGTCTTACACTGGCTTACATC-TTGTG
1 GTTGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCGCTGTA
** *
59090426 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCTA
1 GTTGATGCATGTCCCAGACATGTCTTACACTAGCACATCG-CTGTA
* * * * * ** *
59090471 TGCTGACGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATGTG
1 -GTTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACATC--GCTGTA
*
59090520 GTTGATACATGTCCCAGACATGTCTTACACTAGC
1 GTTGATGCATGTCCCAGACATGTCTTACACTAGC
59090554 TCACACAAGT
Statistics
Matches: 137, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 13 0.09
45 15 0.11
46 60 0.44
47 26 0.19
48 19 0.14
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
GTTGATGCATGTCCCAGACATGTCTTACACTAGCACATCGCTGTA
Found at i:59090520 original size:94 final size:90
Alignment explanation
Indices: 59090337--59090553 Score: 267
Period size: 94 Copynumber: 2.3 Consensus size: 90
59090327 TATCCATGTT
* * * *
59090337 GATGACATGTCCCAGACGTGGTCTTACACTAACACATCGCTTAGTTGATGCATGTCCCAAACATG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATCGCTTAGCTGACGCATGTCCCAAACATG
**
59090402 TCTTACACTGGCTTACATCTTGTGGCC
64 TCTTACACTGGCTTACATAATGTGGCC
59090429 GATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCTATGCTGACGCCATGTCCCAAACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCG-CT-TA-GCTGACG-CATGTCCCAAACA
**
59090493 TGGTCTTACACTGGCTCT-CATAATGTGGTT
62 T-GTCTTACACTGGCT-TACATAATGTGGCC
*
59090523 GATACATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
59090554 TCACACAAGT
Statistics
Matches: 110, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
89 3 0.03
90 16 0.15
91 15 0.14
92 9 0.08
93 14 0.13
94 52 0.47
95 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (90 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCGCTTAGCTGACGCATGTCCCAAACATGTC
TTACACTGGCTTACATAATGTGGCC
Found at i:59102227 original size:15 final size:14
Alignment explanation
Indices: 59102209--59102259 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
59102199 CATAACAGAG
59102209 AAATCCAGAATATAA
1 AAATCCAGAATA-AA
*
59102224 AAATCCAGCATAAA
1 AAATCCAGAATAAA
* *
59102238 AAATCCAAAACAAGA
1 AAATCCAGAATAA-A
59102253 AAATCCA
1 AAATCCA
59102260 ATCACGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.61, C:0.20, G:0.06, T:0.14
Consensus pattern (14 bp):
AAATCCAGAATAAA
Found at i:59106237 original size:54 final size:54
Alignment explanation
Indices: 59106152--59106286 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
59106142 CTTACAGTGA
* * * *
59106152 GATTACCAGTCTAGGCTAAATCCCCTGTAACATAAACTCATAGGCTATTATCGG
1 GATTACCAGTCCAGGCTAAATCCCCTATAACATAAACCCATAGGCTATTATCAG
* * *
59106206 GATTACCAGTCCAGGCTAAATCCCCTATAACATAAACCCATAGGGTATTTTTAG
1 GATTACCAGTCCAGGCTAAATCCCCTATAACATAAACCCATAGGCTATTATCAG
*
59106260 GATTACCAGTCCAGGCTAAATCTCCTA
1 GATTACCAGTCCAGGCTAAATCCCCTA
59106287 CAATGACATG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (54 bp):
GATTACCAGTCCAGGCTAAATCCCCTATAACATAAACCCATAGGCTATTATCAG
Found at i:59108577 original size:42 final size:42
Alignment explanation
Indices: 59108473--59108627 Score: 168
Period size: 43 Copynumber: 3.6 Consensus size: 42
59108463 TGTGATATCA
* * *
59108473 TGTAAGACCATGTCTGGGACGTTGGCATTG-ACTTTTGTTTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA--TTTGATTT-CG
59108517 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCG
* * * * * * *
59108559 TGTAAGACCCTGTTTGGGACAGTGGCATCAATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-GTATTTGATTTCG
*
59108602 TGTAAGACCATGTCTGGGACGTTGGC
1 TGTAAGACCATGTCTGGGACATTGGC
59108628 GTTGTATATG
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
42 28 0.29
43 38 0.40
44 28 0.29
45 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCG
Found at i:59112431 original size:44 final size:45
Alignment explanation
Indices: 59112380--59112541 Score: 244
Period size: 44 Copynumber: 3.7 Consensus size: 45
59112370 GACTATATGA
* **
59112380 GGCACTAAGTGTGC-GATACCGATT-TAGCTTCAGTTAATTGAGAT
1 GGCACTAAGTGTGCGGA-ATCGATTCTAGCTTTGGTTAATTGAGAT
*
59112424 GGCACTAAGTGTGCGGAATCG-TTCTAGCTTTGGTTAATTCAGAT
1 GGCACTAAGTGTGCGGAATCGATTCTAGCTTTGGTTAATTGAGAT
59112468 GGCACTAAGTGTGCGGAATC-ATTCTAGCTTTGGTTAATTGAGAT
1 GGCACTAAGTGTGCGGAATCGATTCTAGCTTTGGTTAATTGAGAT
59112512 GGCACTAAGTGTGCGGAATC-ATTCTAGCTT
1 GGCACTAAGTGTGCGGAATCGATTCTAGCTT
59112542 CAGCTAACTG
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
43 2 0.02
44 106 0.96
45 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (45 bp):
GGCACTAAGTGTGCGGAATCGATTCTAGCTTTGGTTAATTGAGAT
Found at i:59118783 original size:28 final size:28
Alignment explanation
Indices: 59118738--59118801 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
59118728 TGGGAAGTAG
* * *
59118738 TTGGGCCTGCAGGGCCATATGAATGTGA
1 TTGGGCCTGCAGGACCATATGAACGAGA
*
59118766 TTGGGCCTG-ATGGACCATGTGAACGAGA
1 TTGGGCCTGCA-GGACCATATGAACGAGA
59118794 TTGGGCCT
1 TTGGGCCT
59118802 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGCAGGACCATATGAACGAGA
Found at i:59120361 original size:40 final size:40
Alignment explanation
Indices: 59120310--59120537 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
59120300 ACTACTTGCT
59120310 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
59120350 CAAATGCCTTCGGTACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
59120390 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
59120430 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** *
59120470 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCGCTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
59120509 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
59120538 CATCCGAATA
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 138 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:59128481 original size:40 final size:40
Alignment explanation
Indices: 59128432--59128659 Score: 334
Period size: 40 Copynumber: 5.7 Consensus size: 40
59128422 GCTACTTGCT
*
59128432 CAAAAGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
59128472 TAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
59128512 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
59128552 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
59128592 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
59128631 CAAATGCCTTCAGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
59128660 CATCCGAATA
Statistics
Matches: 168, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 31 0.18
40 135 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:59131468 original size:40 final size:40
Alignment explanation
Indices: 59131411--59131708 Score: 449
Period size: 40 Copynumber: 7.5 Consensus size: 40
59131401 TGGATGATAA
* * * *
59131411 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* *
59131451 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
59131491 CCGGGCTAAGTCCTGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
59131531 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
59131571 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
59131611 CCGGGCTAAGTCCCGAAGGCATTCATGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
59131651 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
59131691 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59131709 TACTTGGCTT
Statistics
Matches: 241, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.07
40 225 0.93
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:59134041 original size:27 final size:27
Alignment explanation
Indices: 59133954--59134341 Score: 406
Period size: 27 Copynumber: 14.4 Consensus size: 27
59133944 TTTTTAAAAT
* *
59133954 CGAAATACCCCCGATTTGTAAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAC
* * *
59133981 TGAAATACCCTCG-GTTGTGAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
* *
59134007 TGAAATACCTTCGATTTG-AAAATTTAC
1 CGAAATACCCTCGATTTGTAAAA-TTAC
* * *
59134034 CGAAATACCCCCAATTTGTGAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
* * * *
59134061 CAAAACACCATCGATTTGTAAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAC
* *
59134088 C-AAAGTACCCTTGATTTGTAAAATTAT
1 CGAAA-TACCCTCGATTTGTAAAATTAC
* * *
59134115 CGAAATACCCTTGATTTGTGAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAC
* * *
59134142 CGAAACACCCTCAATTTGTAAATTTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
* * *
59134169 CAAAACACCCTCTATTTGTAAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
* *
59134196 CGAAACACCCTCGATTTGTAAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAC
* *
59134223 TGAAATAACCTCGATTTGTAAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
*
59134250 CAAAATACCCTCGATTTGTAAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
* *
59134277 CGAAACACCCCCGATTTGTAAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
* * *
59134304 CGAAATACCCTTG-TAGTGTAAAATTAT
1 CGAAATACCCTCGAT-TTGTAAAATTAC
59134331 CGAAATACCCT
1 CGAAATACCCT
59134342 TGTAGTGTAA
Statistics
Matches: 304, Mismatches: 51, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
26 29 0.10
27 269 0.88
28 6 0.02
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (27 bp):
CGAAATACCCTCGATTTGTAAAATTAC
Found at i:59134365 original size:27 final size:27
Alignment explanation
Indices: 59134293--59134386 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
59134283 ACCCCCGATT
*
59134293 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACTGAAATACCCTTGTAG
59134320 TGTAAAATTA-TCGAAATACCCTTGTAG
1 TGTAAAATTACT-GAAATACCCTTGTAG
* * * *
59134347 TGTAAAATAACTGACATACCCCTGGAG
1 TGTAAAATTACTGAAATACCCTTGTAG
* *
59134374 GGTAAAATGACTG
1 TGTAAAATTACTG
59134387 TTTTACCCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCCTTGTAG
Found at i:59138599 original size:27 final size:28
Alignment explanation
Indices: 59138515--59138612 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
59138505 CATGAGATTG
* * * *
59138515 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
59138544 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
59138572 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59138599 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
59138613 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59138623 original size:27 final size:27
Alignment explanation
Indices: 59138543--59138625 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
59138533 TAAATTGTAC
* *
59138543 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
59138571 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
59138598 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
59138625 A
1 A
59138626 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:59140870 original size:28 final size:28
Alignment explanation
Indices: 59140807--59140925 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
59140797 TGGGAAGTAG
*
59140807 TTGGGCTTGATGGGCCATAT-AATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
59140834 TTGGTCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
59140862 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * * *
59140890 TTGGACCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
59140918 TTGGGCCT
1 TTGGGCCT
59140926 AAAGGGGTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 18 0.22
28 64 0.78
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:59142733 original size:29 final size:28
Alignment explanation
Indices: 59142666--59142761 Score: 111
Period size: 29 Copynumber: 3.4 Consensus size: 28
59142656 AAGTCTACAT
* * * *
59142666 ACATGCATATGGCCTACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCAAATC
*
59142694 TCATTCATATGGCCCATTAGGCCAAAATC
1 ACATTCATATGGCCCATTAGGCC-AAATC
* *
59142723 ACATTCGTATGGCTCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGG-CCAAATC
59142752 ACATTCATAT
1 ACATTCATAT
59142762 TCATGCTTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
28 19 0.33
29 36 0.63
30 2 0.04
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCAAATC
Found at i:59148604 original size:20 final size:21
Alignment explanation
Indices: 59148566--59148604 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
59148556 AATGGTCATG
*
59148566 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
*
59148587 GATGA-TTACGAGTCACTT
1 GATGATTTAAGAGTCACTT
59148605 GTTGTTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:59149141 original size:28 final size:28
Alignment explanation
Indices: 59149108--59149181 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
59149098 ATTGCATGAC
59149108 TATGAATGTGATTGGGCCTGACT-GGCCA
1 TATGAATGTGATTGGGCCTGA-TGGGCCA
* **
59149136 TATGAAAGTGATTGGGTTTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
59149164 TATGAATGAGATTGGGCC
1 TATGAATGTGATTGGGCC
59149182 CAAAGGGGCC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:59151469 original size:74 final size:75
Alignment explanation
Indices: 59151385--59151533 Score: 264
Period size: 74 Copynumber: 2.0 Consensus size: 75
59151375 TACACAAAAC
*
59151385 ACAAAATACACAAAATTTTAGCATAACCATGTTGAGTCGAATTTTTCTCACTCTT-AAAAAGTCC
1 ACAAAATACACAAAATTTCAGCATAACCATGTTGAGTCGAATTTTTCTCACTCTTAAAAAAGTCC
59151449 AATATTTAAT
66 AATATTTAAT
* *
59151459 ACAAAATACACAAAATTTCAGCATACCCATGTTGATTCGAATTTTTCTCACTCTTAAAAAAGTCC
1 ACAAAATACACAAAATTTCAGCATAACCATGTTGAGTCGAATTTTTCTCACTCTTAAAAAAGTCC
59151524 AATATTTAAT
66 AATATTTAAT
59151534 GTATTTTACA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 52 0.73
75 19 0.27
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (75 bp):
ACAAAATACACAAAATTTCAGCATAACCATGTTGAGTCGAATTTTTCTCACTCTTAAAAAAGTCC
AATATTTAAT
Found at i:59165488 original size:30 final size:30
Alignment explanation
Indices: 59165430--59165488 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
59165420 ATTTTCGAGC
* **
59165430 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
*
59165460 CTAGGGGCAAAATGGTTATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
59165489 AAGTGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:59165888 original size:47 final size:47
Alignment explanation
Indices: 59165829--59166000 Score: 147
Period size: 47 Copynumber: 3.7 Consensus size: 47
59165819 TTGTGAGCTG
** *
59165829 GTGTAAGACATGTCTGGGACAT-GCATCGGCCATGTTATAAGAGCCA
1 GTGTAAGACATGTCTGGGACATGGCATCGGCCATGAAATAAGAGCAA
* * * *
59165875 GCGTAAGACCATGTCTAGGACATGGCATCGG-CATCAAGACGT-A-AGCTA
1 GTGTAAGA-CATGTCTGGGACATGGCATCGGCCATGAA-A--TAAGAGCAA
* * * * * *
59165923 GTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTAA
1 GTGTAAGACATGTCTGGGACATGGCATCGGCCATGAAATAAGAGCAA
59165969 GTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGTAAGA-CATGTCTGGGACATGGCATCGGC
59166001 ACCTTACCCC
Statistics
Matches: 102, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 26 0.25
47 45 0.44
48 27 0.26
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
GTGTAAGACATGTCTGGGACATGGCATCGGCCATGAAATAAGAGCAA
Found at i:59165990 original size:94 final size:94
Alignment explanation
Indices: 59165824--59166001 Score: 257
Period size: 94 Copynumber: 1.9 Consensus size: 94
59165814 GGTTATTGTG
* * ** *
59165824 AGCTGGTGTAAGACATGTCTGGGACATGCATCGGCCATGTTATAAGAGCCAGCGTAAGACCATGT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATAAGAGCAAGCGTAAGACCATGT
59165889 CTAGGACATGGCATCGGCATCAAGACGTA
66 CTAGGACATGGCATCGGCATCAAGACGTA
* * * * *
59165918 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTAAGTGTAAGACCATGT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATAAGAGCAAGCGTAAGACCATGT
*
59165983 CTGGGACATGGCATCGGCA
66 CTAGGACATGGCATCGGCA
59166002 CCTTACCCCA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 73 1.00
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATAAGAGCAAGCGTAAGACCATGT
CTAGGACATGGCATCGGCATCAAGACGTA
Found at i:59177811 original size:178 final size:178
Alignment explanation
Indices: 59177502--59177864 Score: 627
Period size: 178 Copynumber: 2.0 Consensus size: 178
59177492 AATCCCCAAC
* * *
59177502 TTTCTAAAAGTAGATAGTGGCATTAGGTTAATGCTAGTTCCCAAGTCGCATAAAGCATTGCTCAA
1 TTTCCAAAAGTAGATAATGGCATTAGGTTAATGCTAGTTCCCAAGTCGCATAAAACATTGCTCAA
* *
59177567 ATAATGGTTTCCAATTGAACATGGGATAGTAAAGCTCCCAGGATCTTTCATTTTGGGGGCAACTT
66 ATAATGGTTTCCAATTGAACAGGGGATAGTAAAGCTCCCAAGATCTTTCATTTTGGGGGCAACTT
*
59177632 ATTTGTCAAAACAGCACTACAGCCTTCTGTGAGTGCAATAATTCAGAA
131 ATTTCTCAAAACAGCACTACAGCCTTCTGTGAGTGCAATAATTCAGAA
* *
59177680 TTTCCAAAAGTAGATAATGGCATTAGGTTAATGCTAGTTCCCAAGTCGCATAAAACCTTGCTTAA
1 TTTCCAAAAGTAGATAATGGCATTAGGTTAATGCTAGTTCCCAAGTCGCATAAAACATTGCTCAA
*
59177745 ATAATGGTTTCCAATTGAACAGGGGATAGTAAAGCTCCCAAGATCTTTCATTTTGGGGGTAACTT
66 ATAATGGTTTCCAATTGAACAGGGGATAGTAAAGCTCCCAAGATCTTTCATTTTGGGGGCAACTT
* *
59177810 ATTTCTCAAAACAGCACTACAGCTTTTTGTGAGTGCAATAATTCAGAA
131 ATTTCTCAAAACAGCACTACAGCCTTCTGTGAGTGCAATAATTCAGAA
59177858 TTTCCAA
1 TTTCCAA
59177865 TAATTCCAAT
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
178 174 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (178 bp):
TTTCCAAAAGTAGATAATGGCATTAGGTTAATGCTAGTTCCCAAGTCGCATAAAACATTGCTCAA
ATAATGGTTTCCAATTGAACAGGGGATAGTAAAGCTCCCAAGATCTTTCATTTTGGGGGCAACTT
ATTTCTCAAAACAGCACTACAGCCTTCTGTGAGTGCAATAATTCAGAA
Found at i:59181381 original size:27 final size:27
Alignment explanation
Indices: 59181351--59181517 Score: 217
Period size: 27 Copynumber: 6.2 Consensus size: 27
59181341 TAATGAAATG
*
59181351 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
59181378 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
59181405 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
59181432 GCTTCGATTTATAGAATTAACATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
59181459 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
59181486 CCCCCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
59181513 CCCTC
1 CCCTC
59181518 AGTTTGCAAA
Statistics
Matches: 120, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:59181447 original size:81 final size:81
Alignment explanation
Indices: 59181354--59181512 Score: 255
Period size: 81 Copynumber: 2.0 Consensus size: 81
59181344 TGAAATGCCC
* * * * *
59181354 TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCGATTTACAA
1 TCGATTTATAGAATTAACATTTTACCCTCGATTTACAGAATTACCATTTCACCCCCGATTTACAA
*
59181419 AATTACCGTTTTAGCT
66 AATTACCATTTTAGCT
*
59181435 TCGATTTATAGAATTAACATTTTACCCTCGATTTACAGAATTACCATTTTACCCCCGATTTACAA
1 TCGATTTATAGAATTAACATTTTACCCTCGATTTACAGAATTACCATTTCACCCCCGATTTACAA
59181500 AATTACCATTTTA
66 AATTACCATTTTA
59181513 CCCTCAGTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
TCGATTTATAGAATTAACATTTTACCCTCGATTTACAGAATTACCATTTCACCCCCGATTTACAA
AATTACCATTTTAGCT
Found at i:59181527 original size:27 final size:27
Alignment explanation
Indices: 59181351--59181541 Score: 204
Period size: 27 Copynumber: 7.1 Consensus size: 27
59181341 TAATGAAATG
* *
59181351 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * * *
59181378 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
*
59181405 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * * *
59181432 GCTTCGATTTATAGAATTAACATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
59181459 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
59181486 CCCCCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
59181513 CCCTC-AGTTTGCAAAATTATCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
59181540 CC
1 CC
59181542 TTCAATTGTG
Statistics
Matches: 140, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.01
27 139 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:59181610 original size:27 final size:27
Alignment explanation
Indices: 59181580--59181702 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
59181570 TGTAGGATAG
59181580 AATTACCAAAATACCACTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTGTAA
*
59181607 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCACTAGTTTGTAA
* * * *
59181634 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCACTAGTTTGTAA
** *
59181661 AATTACTGAAATACC-CTCAATTTGTAA
1 AATTACCAAAATACCACT-AGTTTGTAA
59181688 AATTACCAAAATACC
1 AATTACCAAAATACC
59181703 CCTGATTTAC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.02
27 80 0.98
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCACTAGTTTGTAA
Found at i:59181619 original size:54 final size:54
Alignment explanation
Indices: 59181547--59181702 Score: 145
Period size: 54 Copynumber: 2.9 Consensus size: 54
59181537 TTACCTTCAA
** * *
59181547 TTGTGAAATTACTGAAATACTCCT-GTAGGATAGAATTACCAAAATACCACTAGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* ** * * *
59181601 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
** * **
59181655 TTGTGAAATTACTGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCAAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
59181703 CCTGATTTAC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 4 0.05
54 77 0.92
55 3 0.04
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:59181710 original size:27 final size:26
Alignment explanation
Indices: 59181580--59181719 Score: 136
Period size: 27 Copynumber: 5.2 Consensus size: 26
59181570 TGTAGGATAG
*
59181580 AATTACCAAAATACCACTAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
59181607 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
* * * * *
59181634 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCT-ATTTGTAA
** *
59181661 AATTACTGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCC-CTATTTGTAA
**
59181688 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCT-ATTTGTAA
59181715 AATTA
1 AATTA
59181720 TAGAAATACC
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 91 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCCTATTTGTAA
Found at i:59181718 original size:54 final size:55
Alignment explanation
Indices: 59181580--59181731 Score: 168
Period size: 54 Copynumber: 2.8 Consensus size: 55
59181570 TGTAGGATAG
** *
59181580 AATTACCAAAATACCACT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTGA-TTTGTAAAATTACTGAAATACCCTCTAATTTGTAA
* * * *
59181634 AATTATCGAAATACCACTGGTTTGTGAAATTACTGAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCACTGATTTGTAAAATTACTGAAATACCCTCTAATTTGTAA
* **
59181688 AATTACCAAAATACCCCTGATTTACAAAATTA-TAGAAATACCCT
1 AATTACCAAAATACCACTGATTTGTAAAATTACT-GAAATACCCT
59181732 TGACTTTCTA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 79 0.98
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (55 bp):
AATTACCAAAATACCACTGATTTGTAAAATTACTGAAATACCCTCTAATTTGTAA
Found at i:59181793 original size:27 final size:27
Alignment explanation
Indices: 59181660--59181789 Score: 95
Period size: 27 Copynumber: 4.7 Consensus size: 27
59181650 CTGGTTTGTG
** **
59181660 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTTGATTTACA
** *
59181687 AAATTACCAAAATACCCCTGATTTACA
1 AAATTACTGAAATACCCTTGATTTACA
59181714 AAATTA-TAGAAATACCCTTGACTTT-CTAA
1 AAATTACT-GAAATACCCTTGA-TTTAC--A
** * *
59181743 AAATTA-TAGAAATGTCATTGGTTTACA
1 AAATTACT-GAAATACCCTTGATTTACA
59181770 AAATTACTGAAATACCCTTG
1 AAATTACTGAAATACCCTTG
59181790 GTTTGTAGCT
Statistics
Matches: 80, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
27 54 0.68
28 7 0.09
29 19 0.24
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGATTTACA
Found at i:59181888 original size:27 final size:27
Alignment explanation
Indices: 59181834--59181911 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
59181824 AAATGACTAA
* *
59181834 AATACCCTTAGTA-GGTAAAAAGACCGT
1 AATACCCTT-GTAGGGTAAAATGATCGT
*
59181861 AA-AGCCCTTGTAGGGTAAAGTGATCGT
1 AATA-CCCTTGTAGGGTAAAATGATCGT
*
59181888 AATACCCTTGTATGGTAAAATGAT
1 AATACCCTTGTAGGGTAAAATGAT
59181912 GAATATGCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.09
27 38 0.88
28 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (27 bp):
AATACCCTTGTAGGGTAAAATGATCGT
Found at i:59181922 original size:27 final size:28
Alignment explanation
Indices: 59181834--59181923 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 28
59181824 AAATGACTAA
* *
59181834 AATA-CCCTTAGTA-GGTAAAAAGACCGT
1 AATAGCCCTT-GTAGGGTAAAATGATCGT
*
59181861 AA-AGCCCTTGTAGGGTAAAGTGATCGT
1 AATAGCCCTTGTAGGGTAAAATGATCGT
*
59181888 AATA-CCCTTGTATGGTAAAATGAT-G-
1 AATAGCCCTTGTAGGGTAAAATGATCGT
59181913 AATATGCCCTT
1 AATA-GCCCTT
59181924 ATGTTCCATA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
25 4 0.08
26 5 0.09
27 43 0.81
28 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (28 bp):
AATAGCCCTTGTAGGGTAAAATGATCGT
Found at i:59182758 original size:25 final size:25
Alignment explanation
Indices: 59182722--59182790 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
59182712 GGAAGTGCTA
*
59182722 AAAGGGCTTTGCCCCAGTTTA-CCG
1 AAAGGGCTTTGCCCCAGTTTATCAG
*
59182746 AAGAGGGCTTTGCCCCGGTTTATCAG
1 AA-AGGGCTTTGCCCCAGTTTATCAG
59182772 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
59182791 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.05
25 34 0.85
26 4 0.10
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAG
Found at i:59183008 original size:42 final size:42
Alignment explanation
Indices: 59182938--59183071 Score: 234
Period size: 42 Copynumber: 3.2 Consensus size: 42
59182928 TAGTCTCCCC
*
59182938 AAATAGGCTTGCATACATTCAATT-ACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTC-ATTGACATTACATGTGATATTG
59182980 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
59183022 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
59183064 AAATGGGC
1 AAATGGGC
59183072 CTAAGGGCCA
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
41 3 0.03
42 86 0.97
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:59183131 original size:31 final size:31
Alignment explanation
Indices: 59183095--59183178 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
59183085 CATTTACAGT
*
59183095 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
59183126 AAAGGCTTCAGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59183157 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
59183179 TCAAGACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:59185470 original size:27 final size:27
Alignment explanation
Indices: 59185440--59185630 Score: 267
Period size: 27 Copynumber: 7.1 Consensus size: 27
59185430 TAATGAAATG
**
59185440 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
59185467 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
59185494 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
59185521 GCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
59185548 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
59185575 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
59185602 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
59185629 CC
1 CC
59185631 ATCAATTATG
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 1 0.01
27 150 0.99
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:59185555 original size:81 final size:81
Alignment explanation
Indices: 59185440--59185630 Score: 294
Period size: 81 Copynumber: 2.4 Consensus size: 81
59185430 TAATGAAATG
* * *
59185440 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
*
59185505 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
*
59185521 GCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
59185586 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
59185602 CCCTC-AGTTTACAAAATTACCGTTTTACC
1 CCCTCGA-TTTATAGAATTACCATTTTACC
59185631 ATCAATTATG
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 99 0.99
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:59185698 original size:53 final size:54
Alignment explanation
Indices: 59185641--59185766 Score: 132
Period size: 53 Copynumber: 2.4 Consensus size: 54
59185631 ATCAATTATG
*
59185641 AAATTACTGAAATACCCCT-ATAGGAT-AGAATTACCAAAATACCCT-AGTTTGTA
1 AAATTACTGAAATACCCCTGATAGG-TGA-AATTACCAAAATACCCTCAATTTGTA
* * * ** *
59185694 AAATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCCTGATAGGTGAAATTACCAAAATACCCTCAATTTGTA
* *
59185748 AAATTACTAAAATAACCCT
1 AAATTACTGAAATACCCCT
59185767 TGATTTACCA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
53 34 0.58
54 25 0.42
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (54 bp):
AAATTACTGAAATACCCCTGATAGGTGAAATTACCAAAATACCCTCAATTTGTA
Found at i:59185725 original size:27 final size:26
Alignment explanation
Indices: 59185669--59185754 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
59185659 TATAGGATAG
*
59185669 AATTACCAAAATACCCTAGTTTGTAA
1 AATTACCGAAATACCCTAGTTTGTAA
* *
59185695 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCGAAATACC-CTAGTTTGTAA
*
59185722 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCT-AGTTTGTAA
59185749 AATTAC
1 AATTAC
59185755 TAAAATAACC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 16 0.31
27 36 0.69
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
AATTACCGAAATACCCTAGTTTGTAA
Found at i:59185760 original size:27 final size:26
Alignment explanation
Indices: 59185669--59185766 Score: 115
Period size: 27 Copynumber: 3.7 Consensus size: 26
59185659 TATAGGATAG
59185669 AATTACCAAAATACCCTAGTTTGTAA
1 AATTACCAAAATACCCTAGTTTGTAA
* * *
59185695 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* *
59185722 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
*
59185749 AATTACTAAAATAACCCT
1 AATTACCAAAAT-ACCCT
59185767 TGATTTACCA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 16 0.26
27 40 0.66
28 5 0.08
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:59185795 original size:28 final size:27
Alignment explanation
Indices: 59185747--59185839 Score: 73
Period size: 29 Copynumber: 3.3 Consensus size: 27
59185737 CTCAATTTGT
*
59185747 AAAATTACTAAAATAACCCTTGATTTACC
1 AAAATTACAAAAAT-A-CCTTGATTTACC
*
59185776 AAAATTACAAAAATATCCTTGACTTT-CTA
1 AAAATTACAAAAATA-CCTTGA-TTTAC-C
* * *
59185805 AAAATTATAGAAATACCATTGGTTTA-C
1 AAAATTACAAAAATACC-TTGATTTACC
59185832 AAAATTAC
1 AAAATTAC
59185840 TGAAATACGC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
27 7 0.13
28 13 0.25
29 32 0.62
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAATTACAAAAATACCTTGATTTACC
Found at i:59185844 original size:27 final size:27
Alignment explanation
Indices: 59185805--59185856 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
59185795 TGACTTTCTA
59185805 AAAATTATAGAAATAC-CATTGGTTTAC
1 AAAATTATAGAAATACGC-TTGGTTTAC
59185832 AAAATTACT-GAAATACGCTTGGTTT
1 AAAATTA-TAGAAATACGCTTGGTTT
59185857 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACGCTTGGTTTAC
Found at i:59186741 original size:16 final size:16
Alignment explanation
Indices: 59186720--59186766 Score: 78
Period size: 16 Copynumber: 2.9 Consensus size: 16
59186710 CAAATATGGG
59186720 CATGACAT-TCTGCATA
1 CATGACATAT-TGCATA
59186736 CATGACATATTGCATA
1 CATGACATATTGCATA
59186752 CATGACATATTGCAT
1 CATGACATATTGCAT
59186767 GGGATATGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (16 bp):
CATGACATATTGCATA
Found at i:59186837 original size:25 final size:24
Alignment explanation
Indices: 59186799--59186881 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
59186789 AGGAAGTGCT
*
59186799 AAAAGGGCTCTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
59186823 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* * *
59186848 AGAAAGGGCCTTGCCCTAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
59186872 AAAAGAGGCT
1 AAAAG-GGCT
59186882 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 9 0.18
25 38 0.75
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:59187075 original size:42 final size:42
Alignment explanation
Indices: 59187016--59187149 Score: 223
Period size: 42 Copynumber: 3.2 Consensus size: 42
59187006 TAGTCTCCCC
* *
59187016 AAATGGGCTTGCATACATTCATTGAGATTACATGTAATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* *
59187058 AAATGGGCTTGCATACATTCATTGATAATACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
59187100 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
59187142 AAATGGGC
1 AAATGGGC
59187150 CTAAGGGCCA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:59187233 original size:30 final size:31
Alignment explanation
Indices: 59187172--59187285 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
59187162 TCGTTTACAT
59187172 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59187203 AAAGGCTTCGGCCCAGTGATATGA-TTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
59187233 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
59187264 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
59187286 TCAAGACTAA
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
30 35 0.44
31 45 0.56
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:59187247 original size:61 final size:60
Alignment explanation
Indices: 59187172--59187285 Score: 201
Period size: 61 Copynumber: 1.9 Consensus size: 60
59187162 TCGTTTACAT
*
59187172 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAGCCCAGT-ATATGATTATGA
*
59187233 AAAGGCTTCGGCCCAGTGATATGATTTATGGAAAGGCTTCAGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAGCCCAGTATATG
59187286 TCAAGACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
60 5 0.10
61 46 0.90
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (60 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAGCCCAGTATATGATTATGA
Found at i:59188212 original size:49 final size:49
Alignment explanation
Indices: 59188154--59188380 Score: 301
Period size: 49 Copynumber: 4.6 Consensus size: 49
59188144 CTAGTATGCA
59188154 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * ** * *
59188203 TGGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * * *
59188253 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
59188304 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
59188353 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
59188381 TGTCCTCACA
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 69 0.45
50 46 0.30
51 37 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Done.