Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 98 of 292
Found at i:30039761 original size:68 final size:67
Alignment explanation
Indices: 30039689--30039838 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
30039679 CATCATGTGT
* * * *
30039689 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
30039751 ATGTAG
62 ATGTAG
** * *
30039757 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
30039822 AG
66 AG
30039824 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
30039839 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:30039794 original size:64 final size:64
Alignment explanation
Indices: 30039713--30039896 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
30039703 AGACATTATG
* *
30039713 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30039777 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30039842 AA
63 AA
* * * *
30039844 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
30039897 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30040315 original size:29 final size:27
Alignment explanation
Indices: 30040282--30040345 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
30040272 AAAATAGTAT
*
30040282 AAATTGAATCAGAGACTGAATGAGATATC
1 AAATTAAATCAGA-A-TGAATGAGATATC
**
30040311 AAATTAAATCTTAATGAATGAGATATC
1 AAATTAAATCAGAATGAATGAGATATC
30040338 AAATTAAA
1 AAATTAAA
30040346 CCTTAATGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 21 0.66
28 1 0.03
29 10 0.31
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (27 bp):
AAATTAAATCAGAATGAATGAGATATC
Found at i:30040333 original size:27 final size:27
Alignment explanation
Indices: 30040298--30040354 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
30040288 AATCAGAGAC
*
30040298 TGAATGAGATATCAAATTAAATCTTAA
1 TGAATGAGATATCAAATTAAACCTTAA
30040325 TGAATGAGATATCAAATTAAACCTTAA
1 TGAATGAGATATCAAATTAAACCTTAA
30040352 TGA
1 TGA
30040355 GTCTATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (27 bp):
TGAATGAGATATCAAATTAAACCTTAA
Found at i:30050395 original size:2 final size:2
Alignment explanation
Indices: 30050388--30050416 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30050378 CATCCACACG
30050388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30050417 CATTCTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30050715 original size:40 final size:38
Alignment explanation
Indices: 30050660--30050792 Score: 144
Period size: 40 Copynumber: 3.4 Consensus size: 38
30050650 GCGGGTCTCT
*
30050660 AGCCCGGATAGCATTCTAGCACGAAGCCTGCGAGTCTTTA
1 AGCCCGGATAACATTC-AGCAC-AAGCCTGCGAGTCTTTA
* *
30050700 AGCCCGGATAACATTCCAGCATATAGCTTGCGAGTCTTTA
1 AGCCCGGATAACATT-CAGCACA-AGCCTGCGAGTCTTTA
* * *
30050740 AGCCCGGATAACATTC--CATCTAGCCTGTGGGTCTTTA
1 AGCCCGGATAACATTCAGCA-CAAGCCTGCGAGTCTTTA
*
30050777 AGCTCGGATAACATTC
1 AGCCCGGATAACATTC
30050793 CTCAAGTATC
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
37 30 0.37
39 2 0.02
40 48 0.59
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (38 bp):
AGCCCGGATAACATTCAGCACAAGCCTGCGAGTCTTTA
Found at i:30050785 original size:37 final size:37
Alignment explanation
Indices: 30050684--30050793 Score: 148
Period size: 37 Copynumber: 2.9 Consensus size: 37
30050674 TCTAGCACGA
30050684 AGCCTGCGAGTCTTTAAGCCCGGATAACATTCCAGCATAT
1 AGCCTGCGAGTCTTTAAGCCCGGATAACATT-C--CATAT
* *
30050724 AGCTTGCGAGTCTTTAAGCCCGGATAACATTCCATCT
1 AGCCTGCGAGTCTTTAAGCCCGGATAACATTCCATAT
* * *
30050761 AGCCTGTGGGTCTTTAAGCTCGGATAACATTCC
1 AGCCTGCGAGTCTTTAAGCCCGGATAACATTCC
30050794 TCAAGTATCA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
37 33 0.52
39 1 0.02
40 30 0.47
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (37 bp):
AGCCTGCGAGTCTTTAAGCCCGGATAACATTCCATAT
Found at i:30058493 original size:40 final size:40
Alignment explanation
Indices: 30058434--30058641 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
30058424 CAATTGAATG
* * * *
30058434 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
30058474 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30058514 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30058554 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
30058594 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
30058634 ATATCCGG
1 ATATCCGG
30058642 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:30058572 original size:80 final size:80
Alignment explanation
Indices: 30058435--30058641 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
30058425 AATTGAATGA
* * ** * * *
30058435 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
30058500 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
30058513 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
30058578 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
30058595 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
30058642 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:30061812 original size:79 final size:81
Alignment explanation
Indices: 30061711--30061895 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
30061701 ACGACTCGCT
** * *
30061711 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
30061774 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
30061791 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
30061855 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
30061871 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30061896 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:30061895 original size:40 final size:39
Alignment explanation
Indices: 30061704--30061895 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
30061694 GGATATAACG
* ** * *
30061704 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
30061744 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
30061784 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
30061823 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
30061863 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
30061896 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:30069844 original size:79 final size:81
Alignment explanation
Indices: 30069743--30069927 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
30069733 ACGACTCGCT
** * *
30069743 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
30069806 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
30069823 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
30069887 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
30069903 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30069928 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:30069927 original size:40 final size:39
Alignment explanation
Indices: 30069736--30069927 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
30069726 GGATATAACG
* ** * *
30069736 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
30069776 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
30069816 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
30069855 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
30069895 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
30069928 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:30077817 original size:39 final size:39
Alignment explanation
Indices: 30077696--30077886 Score: 170
Period size: 40 Copynumber: 4.8 Consensus size: 39
30077686 GGATATAACG
* ** *
30077696 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGTG
1 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTA
* * *
30077736 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTAGTA
* *
30077776 ACTTGCACAAATGCCTTCGGGCTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGCTTAGCCCGGATTTAGTA
* * * * * *
30077815 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGG-GCTTAGCCCGGATTTAGTA
* *
30077855 ACTTAGCACAAA-GCCTTCGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGCTTAGCCCGGA
30077887 CATCATTCGA
Statistics
Matches: 124, Mismatches: 24, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 42 0.34
40 73 0.59
41 9 0.07
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGCTTAGCCCGGATTTAGTA
Found at i:30077819 original size:79 final size:81
Alignment explanation
Indices: 30077703--30077886 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
30077693 ACGACTCGCT
** * *
30077703 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
30077766 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
30077783 CAAATGCCTTCGGGCTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
30077847 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
30077863 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
30077887 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.03
79 64 0.71
80 23 0.26
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:30091795 original size:79 final size:81
Alignment explanation
Indices: 30091694--30091878 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
30091684 ACGACTCGCT
** * *
30091694 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
30091757 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
30091774 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
30091838 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
30091854 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30091879 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:30091878 original size:40 final size:39
Alignment explanation
Indices: 30091687--30091878 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
30091677 GGATATAACG
* ** * *
30091687 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
30091727 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
30091767 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
30091806 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
30091846 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
30091879 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:30104833 original size:42 final size:41
Alignment explanation
Indices: 30104786--30104901 Score: 108
Period size: 43 Copynumber: 2.7 Consensus size: 41
30104776 AGTTTATGTG
*
30104786 TAAGACCATATCTGGGATATGGAATTGGTATGAGAT-TTCATA
1 TAAGACCATAT-TGGGATATGGAATTGGTATGAGATCCT-ATA
* * * * *
30104828 TAAGACCATAGTTGGGCTATTGGCATCGATATGAGATCCTATG
1 TAAGACCATA-TTGGGATA-TGGAATTGGTATGAGATCCTATA
* *
30104871 TAAGATCATATTTGGGATATAGAATTGGTAT
1 TAAGACCATA-TTGGGATATGGAATTGGTAT
30104902 ATTACTATGT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 24 0.41
43 33 0.57
44 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (41 bp):
TAAGACCATATTGGGATATGGAATTGGTATGAGATCCTATA
Found at i:30106110 original size:20 final size:20
Alignment explanation
Indices: 30106085--30106156 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
30106075 CGACTTACCT
*
30106085 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCTAAGCC
30106105 ACACGGGCGTGTCCTAAGCC
1 ACACGGGCGTGTCCTAAGCC
30106125 ACACGGGCGTGTCCTAAGCC
1 ACACGGGCGTGTCCTAAGCC
30106145 ACACGGGCGTGT
1 ACACGGGCGTGT
30106157 AACCGTTATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.19, C:0.35, G:0.32, T:0.14
Consensus pattern (20 bp):
ACACGGGCGTGTCCTAAGCC
Found at i:30113380 original size:93 final size:93
Alignment explanation
Indices: 30113274--30113444 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
30113264 ACCCATAAGT
* * *
30113274 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30113339 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
30113367 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30113432 CGAGTTCGGATGC
66 CGAGCTCGGATGC
30113445 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:30113441 original size:46 final size:46
Alignment explanation
Indices: 30113266--30113441 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
30113256 TGTAACCCAC
* * *
30113266 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
30113312 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
30113358 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
30113405 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
30113442 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 70 0.64
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:30115152 original size:43 final size:42
Alignment explanation
Indices: 30115073--30115185 Score: 118
Period size: 43 Copynumber: 2.7 Consensus size: 42
30115063 TAAAGTTTAT
** ** **
30115073 GTGTAAGACCATATTTGGGATATGGCATCGGTATGAGATTTC
1 GTGTAAGACCATACCTGGGATATGGCATCAATATGAGATCCC
* *
30115115 GTGTAAGACCATACCTGGGCTTTTGGCATCAATATGAGATCCC
1 GTGTAAGACCATACCTGGG-ATATGGCATCAATATGAGATCCC
* * *
30115158 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATACCTGGGATATGGCAT
30115186 TGGTATATTA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATACCTGGGATATGGCATCAATATGAGATCCC
Found at i:30121220 original size:40 final size:40
Alignment explanation
Indices: 30121161--30121267 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
30121151 CAATTGAATG
* * * *
30121161 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
30121201 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
30121241 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
30121268 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:30121325 original size:39 final size:39
Alignment explanation
Indices: 30121199--30121327 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
30121189 ATGCTGGAAA
* *
30121199 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGA
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
30121239 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
30121279 TTCTATCCGGGCTAAGACCCG-AGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
30121318 TTATATCCGG
1 TTATATCCGG
30121328 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 27 0.36
40 48 0.63
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:30128868 original size:40 final size:40
Alignment explanation
Indices: 30128823--30128951 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
30128813 CGGAATACAA
30128823 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
30128863 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
30128903 CCGGATGT-AGCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
30128942 CCGGATATAA
1 CCGGATATAA
30128952 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.03
39 32 0.42
40 43 0.56
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:30128945 original size:39 final size:40
Alignment explanation
Indices: 30128839--30128948 Score: 154
Period size: 39 Copynumber: 2.8 Consensus size: 40
30128829 ATAACCACGT
*
30128839 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTA
*
30128879 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG-ACTA
*
30128918 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
30128949 TAATTTCCAG
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 3 0.05
39 31 0.48
40 30 0.47
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTA
Found at i:30132498 original size:40 final size:39
Alignment explanation
Indices: 30132413--30132539 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
30132403 CTGGAAATTA
* * *
30132413 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
30132451 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
30132493 TATCCGGGCTAAGACCCGAGGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
30132533 TATCCGG
1 TATCCGG
30132540 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:30136211 original size:40 final size:39
Alignment explanation
Indices: 30136043--30136222 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
30136033 AGAAATTGAA
* *
30136043 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
30136083 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
30136123 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
30136163 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
30136203 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
30136223 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:30144121 original size:40 final size:41
Alignment explanation
Indices: 30144073--30144175 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
30144063 AAATTGAATG
* **
30144073 ATATCCGGGCTAAGCCCCGAAGACAAT-TATGCT-GAAATTT
1 ATATCCGGGCTAAGACCCGAAGACAATGTATGCTAG-AAGCT
* * * *
30144113 ATATCCGGGTTAAGACCCGAAGGCAATGTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATGTATGCTAGAAGCT
30144154 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
30144176 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 24 0.45
41 28 0.53
42 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGACAATGTATGCTAGAAGCT
Found at i:30144240 original size:40 final size:40
Alignment explanation
Indices: 30144071--30144242 Score: 156
Period size: 40 Copynumber: 4.3 Consensus size: 40
30144061 AGAAATTGAA
* *
30144071 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGCAATT-TG-TGCAAATG
* * * * *
30144111 TTATATCCGGGTTAAGACCCGAAGGCAATGTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTTGTGCAAAT-G
* *
30144152 CT-ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCAATTTGTGCAA-ATG
* *
30144192 TTAAATCCGGGCTAAGACCCGAAGGC-ATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCAATTTGTGCAAAT-G
30144232 TGATATCCGGG
1 TGATATCCGGG
30144243 TAAAGTCCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
38 2 0.02
39 6 0.06
40 75 0.69
41 24 0.22
42 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGACCCGAAGGCAATTTGTGCAAATG
Found at i:30148989 original size:28 final size:27
Alignment explanation
Indices: 30148956--30149011 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
30148946 TTAGAATACT
*
30148956 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-CTAAAAATACCGAAATACCC
* *
30148984 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTCTAAAAATACCGAAATACCC
30149011 T
1 T
30149012 CGATTTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACCC
Found at i:30148995 original size:27 final size:28
Alignment explanation
Indices: 30148965--30149064 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
30148955 TTTAGTTTAC
30148965 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
30148992 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * * *
30149019 TAAATTTACCAAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
30149046 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
30149065 CCGATTTACA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.12
27 51 0.85
28 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:30149090 original size:27 final size:27
Alignment explanation
Indices: 30149067--30149459 Score: 453
Period size: 27 Copynumber: 14.6 Consensus size: 27
30149057 AAGTACCCCC
30149067 GATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
30149094 AATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
30149121 GATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30149148 GACTTACAGAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
30149175 AATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
30149202 GATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30149229 GACTTACAGAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * * *
30149256 AATTTACATAATTATCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
30149283 GATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
30149310 GACTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* **
30149337 GATTTACTGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* **
30149364 GATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30149391 GATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30149418 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
*
30149445 GATTTACAAAATTAC
1 GATTTACAGAATTAC
30149460 TAAAATACCC
Statistics
Matches: 321, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 321 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTT
Found at i:30149468 original size:27 final size:27
Alignment explanation
Indices: 30149330--30149603 Score: 108
Period size: 27 Copynumber: 10.1 Consensus size: 27
30149320 ATTACTGTTT
* ** ***
30149330 TACCCTCGATTTACTGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * ***
30149357 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * ****
30149384 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
30149411 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
30149438 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *** **
30149465 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
** ** *
30149492 -ACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
30149518 TACCCCTAATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
30149545 TA-CCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * *
30149573 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
30149600 TACC
1 TACC
30149604 TTTGGTTTGT
Statistics
Matches: 204, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
26 27 0.13
27 155 0.76
28 17 0.08
29 5 0.02
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:30149472 original size:81 final size:81
Alignment explanation
Indices: 30149060--30149458 Score: 545
Period size: 81 Copynumber: 4.9 Consensus size: 81
30149050 ATTACCAAAG
* * *
30149060 TACCCCCGATTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACTGTTTTACCCCTGATT
30149125 TACATAATTATCGTTT
66 TACATAATTATCGTTT
* *
30149141 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACTGTTTTACCCCTGATT
30149206 TACATAATTATCGTTT
66 TACATAATTATCGTTT
*
30149222 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTA-TCGTTTTACCCCTGAT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACT-GTTTTACCCCTGAT
30149286 TTACATAATTATCGTTT
65 TTACATAATTATCGTTT
* ** * *
30149303 TACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTAC-TGAATTACTATTTTACCCTTGAT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACAT-AATTACTGTTTTACCCCTGAT
* * *
30149367 TTATAGAATTA-CTATTT
65 TTACATAATTATC-GTTT
* * * * * *
30149384 TACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTA-CCCTCGAT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACTGTTTTACCCCT-GAT
*
30149448 TTACAAAATTA
65 TTACATAATTA
30149459 CTAAAATACC
Statistics
Matches: 290, Mismatches: 22, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
80 5 0.02
81 284 0.98
82 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACTGTTTTACCCCTGATT
TACATAATTATCGTTT
Found at i:30149608 original size:27 final size:27
Alignment explanation
Indices: 30149560--30149611 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30149550 TGACTTTCTA
30149560 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
30149587 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
30149612 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:30149695 original size:27 final size:27
Alignment explanation
Indices: 30149665--30149725 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
30149655 ACCCCTAACA
30149665 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** *
30149692 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
30149719 GGTAAAA
1 GGTAAAA
30149726 CGACGAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:30150986 original size:9 final size:9
Alignment explanation
Indices: 30150974--30151048 Score: 60
Period size: 9 Copynumber: 7.7 Consensus size: 9
30150964 TTTGATAAAC
30150974 ATGATATGT
1 ATGATATGT
*
30150983 ATGATATGCAC
1 ATGATATG--T
30150994 ATGATATGT
1 ATGATATGT
*
30151003 ATGATATGCAC
1 ATGATATG--T
*
30151014 ATGACATGT
1 ATGATATGT
*
30151023 ATGATATGCAC
1 ATGATATG--T
30151034 ATGATATGT
1 ATGATATGT
30151043 ATGATA
1 ATGATA
30151049 CGCACACGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 29 0.56
11 23 0.44
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:30150999 original size:11 final size:11
Alignment explanation
Indices: 30150983--30151041 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
30150973 CATGATATGT
30150983 ATGATATGCAC
1 ATGATATGCAC
*
30150994 ATGATATG--T
1 ATGATATGCAC
30151003 ATGATATGCAC
1 ATGATATGCAC
* *
30151014 ATGACATG--T
1 ATGATATGCAC
30151023 ATGATATGCAC
1 ATGATATGCAC
30151034 ATGATATG
1 ATGATATG
30151042 TATGATACGC
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 15 0.39
11 23 0.61
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30151062 original size:20 final size:20
Alignment explanation
Indices: 30150972--30151054 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
30150962 ATTTTGATAA
30150972 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30150992 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30151012 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30151032 ACATGATATGTATGATACGC
1 ACATGATATGTATGATATGC
30151052 ACA
1 ACA
30151055 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30151255 original size:24 final size:24
Alignment explanation
Indices: 30151108--30151248 Score: 248
Period size: 24 Copynumber: 5.9 Consensus size: 24
30151098 GAGGAAGTGA
30151108 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
30151131 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
30151155 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
30151179 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
30151203 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
*
30151227 AAAAGGGCTTTTGCCCCAGTTA
1 AAAAGGGCTTATGCCCCAGTTA
30151249 CTAAAAGAGG
Statistics
Matches: 113, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 22 0.19
24 91 0.81
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:30151456 original size:42 final size:42
Alignment explanation
Indices: 30151393--30151484 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
30151383 TAGTCTCCCC
* **
30151393 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
30151435 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
30151477 AAATGGGC
1 AAATGGGC
30151485 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:30155348 original size:27 final size:27
Alignment explanation
Indices: 30155318--30155511 Score: 219
Period size: 27 Copynumber: 7.2 Consensus size: 27
30155308 TAATGAAATT
** *
30155318 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCAATTTACAAAATTACCATTTTA
* * * *
30155345 CCCTCGATTTATAGAATTA-CAGTTTCA
1 CCCTCAATTTACAAAATTACCA-TTTTA
** *
30155372 CCCTTGATTTACAAAATTACCGTTTTA
1 CCCTCAATTTACAAAATTACCATTTTA
* * *
30155399 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCAATTTACAAAATTACCATTTTA
30155426 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCAATTTACAAAATTACCATTTTA
30155453 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCAATTTACAAAATTACCATTTTA
* * **
30155480 CCCTTAGTTTACAAAATTACTGTTTTA
1 CCCTCAATTTACAAAATTACCATTTTA
30155507 CCCTC
1 CCCTC
30155512 GATTGTGAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 142 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (27 bp):
CCCTCAATTTACAAAATTACCATTTTA
Found at i:30155398 original size:54 final size:53
Alignment explanation
Indices: 30155332--30155515 Score: 253
Period size: 54 Copynumber: 3.4 Consensus size: 53
30155322 CAATTTGTAG
*
30155332 AATTACCATTTTACCCTCGATTTATAGAATTA-CAGTTTCACCCTTGATTTACAA
1 AATTACCATTTTACCCTCGATTTATAGAATTACCA-TTTTACCCTT-ATTTACAA
* *
30155386 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCT-TATTTACAA
* * *
30155440 AATTACCATTTTACCCTCAATTTACAAAATTACCATTTTACCCTTAGTTTACAA
1 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTA-TTTACAA
**
30155494 AATTACTGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
30155516 GTGAAATTAC
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 113 0.97
55 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (53 bp):
AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTATTTACAA
Found at i:30155685 original size:54 final size:55
Alignment explanation
Indices: 30155547--30155711 Score: 165
Period size: 54 Copynumber: 3.0 Consensus size: 55
30155537 TGTAGGATAC
* * * *
30155547 AATTACCAAAATACCCCTAGTGTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTAACGAAATACCCTCTAATTTGTAA
* * * * * *
30155601 AATTATCGAAATACCACTGGTTTGTGAAATTATCGAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTAACGAAATACCCTCTAATTTGTAA
* ** * *
30155655 AATTACCAAAATACCCCTAATTTACAAAATTAAAGAAATACCCT-TAACTTTCTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTAACGAAATACCCTCTAA-TTTGTAA
30155710 AA
1 AA
30155712 ATTATAGAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
54 79 0.90
55 9 0.10
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (55 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTAACGAAATACCCTCTAATTTGTAA
Found at i:30155686 original size:27 final size:27
Alignment explanation
Indices: 30155547--30155673 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
30155537 TGTAGGATAC
*
30155547 AATTACCAAAATACCCCTAGTGTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
30155574 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
30155601 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
30155628 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
30155655 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
30155674 ATTTACAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.03
27 79 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:30155693 original size:27 final size:28
Alignment explanation
Indices: 30155663--30155725 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
30155653 AAAATTACCA
30155663 AAATACCCCTAA-TTT-ACAAAATTAAAG
1 AAATACCCCTAACTTTCA-AAAATTAAAG
* *
30155690 AAATACCCTTAACTTTCTAAAAATTATAG
1 AAATACCCCTAACTTTC-AAAAATTAAAG
30155719 AAATACC
1 AAATACC
30155726 ATTGGTTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 11 0.35
28 3 0.10
29 16 0.52
30 1 0.03
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (28 bp):
AAATACCCCTAACTTTCAAAAATTAAAG
Found at i:30156721 original size:25 final size:25
Alignment explanation
Indices: 30156688--30156757 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
30156678 AGGAAGTGCT
*
30156688 AAAAGGGCTCTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
30156713 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
30156738 GAAAGGGCTTTGCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
30156758 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:30156770 original size:24 final size:24
Alignment explanation
Indices: 30156688--30156770 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
30156678 AGGAAGTGCT
* *
30156688 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
30156712 AAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
30156737 AGAAAGGGCTTTGCTCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
30156761 AAAAGAGGCT
1 AAAAG-GGCT
30156771 AGGCCTCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:30159888 original size:2 final size:2
Alignment explanation
Indices: 30159881--30159920 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
30159871 TTATTGAAAG
30159881 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30159921 AAGGCTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30160102 original size:32 final size:32
Alignment explanation
Indices: 30160041--30160131 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 32
30160031 TACTAGTGTG
**
30160041 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
30160073 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
30160105 TATCTAGGTGTAGTTTGATATAGCCGA
1 TATATATGTGTAGTTGGATAAAGCCGA
30160132 TTGAGATGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 43 0.90
33 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:30160185 original size:2 final size:2
Alignment explanation
Indices: 30160140--30160170 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
30160130 GATTGAGATG
*
30160140 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30160171 GTGAGTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:30160315 original size:27 final size:26
Alignment explanation
Indices: 30160284--30160378 Score: 84
Period size: 27 Copynumber: 3.6 Consensus size: 26
30160274 TTGAGGGATA
30160284 CACTAAGTGTGCGAATTTGATACTGAG
1 CACTAAGTGTGCGAATTTGAT-CTGAG
* * * *
30160311 CACTAAGTGTGCGAGTTGGATTTAAG
1 CACTAAGTGTGCGAATTTGATCTGAG
* * * *
30160337 CACTATGTGCGTGAATTAAT-TTCTGAG
1 CACTAAGTGTGCGAATT--TGATCTGAG
30160364 CACTAAGTGTGCGAA
1 CACTAAGTGTGCGAA
30160379 ATCAGTTATT
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
26 16 0.31
27 35 0.69
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (26 bp):
CACTAAGTGTGCGAATTTGATCTGAG
Found at i:30167842 original size:26 final size:26
Alignment explanation
Indices: 30167810--30167874 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
30167800 ATACAAGCCA
*
30167810 TAATCAGGAAGTTCACAAAGA-ACTTT
1 TAATCAGGAAGCTCACAAAGAGAC-TT
*
30167836 TAATCAGGAAGCTCACGAAGAGACTT
1 TAATCAGGAAGCTCACAAAGAGACTT
30167862 TAATCA-GAAGCTC
1 TAATCAGGAAGCTC
30167875 CGGATAGCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 7 0.19
26 27 0.75
27 2 0.06
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAGACTT
Found at i:30168005 original size:65 final size:65
Alignment explanation
Indices: 30167936--30168057 Score: 190
Period size: 65 Copynumber: 1.9 Consensus size: 65
30167926 AAGAACTGCA
*
30167936 TTTGTGTCTGCAATATAAGCAAAATCACAACCGATCATATAACAGGACGCTCACAAAGAGCTGTG
1 TTTGTGTCCGCAATATAAGCAAAATCACAACCGATCATATAACAGGACGCTCACAAAGAGCTGTG
* ** * *
30168001 TTTGTGTCCGCAATATATGCAGGATCACAACCGATCATATAGCAGGATGCTCACAAA
1 TTTGTGTCCGCAATATAAGCAAAATCACAACCGATCATATAACAGGACGCTCACAAA
30168058 AAGCCGCGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (65 bp):
TTTGTGTCCGCAATATAAGCAAAATCACAACCGATCATATAACAGGACGCTCACAAAGAGCTGTG
Found at i:30178406 original size:39 final size:40
Alignment explanation
Indices: 30178323--30178488 Score: 201
Period size: 40 Copynumber: 4.2 Consensus size: 40
30178313 TGTGCATGAA
30178323 TGTGCGAATTGTGATATCCGGGCTAAGCCCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCCGAAGGCAAT
30178364 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCCGAAGGCAAT
** * * * * *
30178403 TGTGCGAGCTATCATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCCGAAGGCAAT
* * * *
30178443 TGTGC-AAGTTGTGATATACGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAA-TTGTGATATCCGGGCTAAGCCCCGAAGGCAAT
30178483 TGTGCG
1 TGTGCG
30178489 GGTTATCATA
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 34 0.32
40 44 0.42
41 27 0.26
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCCGAAGGCAAT
Found at i:30178447 original size:40 final size:39
Alignment explanation
Indices: 30178352--30178447 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 39
30178342 GGGCTAAGCC
* * * * *
30178352 CCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG
1 CCCGAAGGCAATTGTGCGAACTATCATATCCGGGATAAA
*
30178391 CCCGAAGGCAATTGTGCGAGCTATCATATCCGGGATAAA
1 CCCGAAGGCAATTGTGCGAACTATCATATCCGGGATAAA
30178430 CTCCGAAGGCAATTGTGC
1 C-CCGAAGGCAATTGTGC
30178448 AAGTTGTGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 34 0.68
40 16 0.32
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
CCCGAAGGCAATTGTGCGAACTATCATATCCGGGATAAA
Found at i:30178455 original size:79 final size:80
Alignment explanation
Indices: 30178353--30178504 Score: 227
Period size: 79 Copynumber: 1.9 Consensus size: 80
30178343 GGCTAAGCCC
*
30178353 CCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATCA
1 CCGAAGGCAATTGTGCGAATTGTGATATACGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTATCA
*
30178417 TATCCGGGATAAACT
66 TAACCGGGATAAACT
* * * *
30178432 CCGAAGGCAATTGTGC-AAGTTGTGATATACGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATC
1 CCGAAGGCAATTGTGCGAA-TTGTGATATACGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTATC
30178496 ATAACCGGG
65 ATAACCGGG
30178505 CTATGTCCCG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
78 2 0.03
79 33 0.51
80 30 0.46
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (80 bp):
CCGAAGGCAATTGTGCGAATTGTGATATACGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTATCA
TAACCGGGATAAACT
Found at i:30178513 original size:40 final size:40
Alignment explanation
Indices: 30178340--30178518 Score: 166
Period size: 40 Copynumber: 4.5 Consensus size: 40
30178330 ATTGTGATAT
* * * * *
30178340 CCGGGCTAAGCCCCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAG-TCCCGAAGGCAATTGTGCGAGTTATCATAA
* *
30178381 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATCATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATCATAA
* * * * *
30178420 CCGGGATAA-ACTCCGAAGGCAATTGTGCAAGTTGTGATATA
1 CCGGGCTAAGTC-CCGAAGGCAATTGTGCGAGTTATCATA-A
* * *
30178461 -CGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATCATAA
*
30178500 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
30178519 TGTTTGAACG
Statistics
Matches: 114, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 35 0.31
40 68 0.60
41 11 0.10
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATCATAA
Found at i:30180192 original size:21 final size:23
Alignment explanation
Indices: 30180168--30180219 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
30180158 TCAAATGGAG
*
30180168 TAAAGAAAT-CTTGTA-ATGAAA
1 TAAAGAAATACTTGAACATGAAA
30180189 TAAA-AAATACTTGAACATGAAA
1 TAAAGAAATACTTGAACATGAAA
*
30180211 AAAATGAAA
1 TAAA-GAAA
30180220 ATTATTCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 4 0.16
21 9 0.36
22 9 0.36
24 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.12, T:0.23
Consensus pattern (23 bp):
TAAAGAAATACTTGAACATGAAA
Found at i:30182213 original size:37 final size:37
Alignment explanation
Indices: 30182163--30182237 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
30182153 GTTTCGTTTC
30182163 TTCCATATGAAAGTAGATTCATCAAGGTTCATTTACA
1 TTCCATATGAAAGTAGATTCATCAAGGTTCATTTACA
30182200 TTCCATATGAAAGTAGATTCATCAAGGTTCATTTACA
1 TTCCATATGAAAGTAGATTCATCAAGGTTCATTTACA
30182237 T
1 T
30182238 AATTTATTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (37 bp):
TTCCATATGAAAGTAGATTCATCAAGGTTCATTTACA
Found at i:30183094 original size:40 final size:40
Alignment explanation
Indices: 30183034--30183201 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
30183024 CGGGATTTAA
* ** *
30183034 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
30183074 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
*
30183114 CCGGATATAACAACTCACACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
30183154 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
30183194 CCGGATAT
1 CCGGATAT
30183202 CATTCAAATG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 102 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:30193172 original size:40 final size:40
Alignment explanation
Indices: 30193071--30193173 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
30193061 ACAATTCAGT
** *
30193071 TATGTATGGCACTTAGTGTGTAATTCGAGATAGCTTTGAC
1 TATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGAC
*
30193111 TATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
1 TATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGAC
*
30193151 TATGTATGACACTTAGTGTGCGA
1 TATGTATGGCACTTAGTGTGCGA
30193174 AATTAAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
TATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTCGAC
Found at i:30196272 original size:40 final size:39
Alignment explanation
Indices: 30196227--30196356 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
30196217 CGGAATACAA
30196227 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
30196267 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
30196307 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
30196347 CCGGATATAA
1 CCGGATATAA
30196357 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:30204413 original size:40 final size:39
Alignment explanation
Indices: 30204368--30204497 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
30204358 CGGAATACAA
30204368 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
30204408 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
30204448 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
30204488 CCGGATATAA
1 CCGGATATAA
30204498 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:30207116 original size:43 final size:43
Alignment explanation
Indices: 30207057--30207180 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
30207047 TCACATATCG
* * *
30207057 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATC-GAATA-A
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATACA
* * * *
30207098 TGATGGCAATGTCTCAGACATGGTCTTACATGTAATCACAATACA
1 --ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATACA
* *
30207143 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
30207181 TCTAGGTAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 65 0.93
44 4 0.06
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATACA
Found at i:30212661 original size:43 final size:42
Alignment explanation
Indices: 30212614--30212711 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
30212604 CCCAGACGTT
* *
30212614 GTCTTACATGTAATCAAATATCGATGCCAATGTCCTAGACAGG
1 GTCTTACACGTAATCAAATA-CGATACCAATGTCCTAGACAGG
* * * *
30212657 GTCTTACACGAAATCAAGTACGATACCGATGTCCTAGACATG
1 GTCTTACACGTAATCAAATACGATACCAATGTCCTAGACAGG
30212699 GTCTTACACGTAA
1 GTCTTACACGTAA
30212712 ATCTCAAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 31 0.65
43 17 0.35
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCTTACACGTAATCAAATACGATACCAATGTCCTAGACAGG
Found at i:30212702 original size:42 final size:43
Alignment explanation
Indices: 30212614--30212764 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 43
30212604 CCCAGACGTT
* * *
30212614 GTCTTACATGTAATCAAATATCGATGCCAATGTCCTAGACAGG
1 GTCTTACACGAAATCAAATATCGATACCAATGTCCTAGACAGG
* * *
30212657 GTCTTACACGAAATCAAGTA-CGATACCGATGTCCTAGACATG
1 GTCTTACACGAAATCAAATATCGATACCAATGTCCTAGACAGG
* ** *
30212699 GTCTTACACGTAAATCTCAA-ATCGACGCCAACGT-CTCAGAC-GTG
1 GTCTTACACG-AAATC-AAATATCGATACCAATGTCCT-AGACAG-G
*
30212743 GTCTTACACGAAATCACATATC
1 GTCTTACACGAAATCAAATATC
30212765 AGAATCATAT
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 30 0.34
43 33 0.38
44 24 0.28
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATCGATACCAATGTCCTAGACAGG
Found at i:30223887 original size:27 final size:27
Alignment explanation
Indices: 30223855--30224213 Score: 345
Period size: 27 Copynumber: 13.4 Consensus size: 27
30223845 GGCAAATCAA
* *
30223855 TCATTTTACCTTACAGGGGTATTACAG
1 TCATTTTACCTTACAGGGGTATTTCGG
* * *
30223882 TTATTTTATCTTACAGGGGTATTTCGA
1 TCATTTTACCTTACAGGGGTATTTCGG
*
30223909 TCATTTTACCTTAAAGGGGTATTTCGG
1 TCATTTTACCTTACAGGGGTATTTCGG
*
30223936 TCATTTTACC-T-CATGAGGGTATTTCTG
1 TCATTTTACCTTACA-G-GGGTATTTCGG
* *
30223963 TCATTTTACCCTACGGGGGTATTTCGG
1 TCATTTTACCTTACAGGGGTATTTCGG
* * *
30223990 TCATTTTACCCTACAAGGGTATTTCAG
1 TCATTTTACCTTACAGGGGTATTTCGG
** *
30224017 TCATTTTA-CTCTATGGGGGTA-TGCGG
1 TCATTTTACCT-TACAGGGGTATTTCGG
* * *
30224043 CCATTTTACCCTACGGGGGTATTTCGG
1 TCATTTTACCTTACAGGGGTATTTCGG
* *
30224070 TCATTTTACCTTACGGGGGTATTTCAG
1 TCATTTTACCTTACAGGGGTATTTCGG
*
30224097 TTATTTTATCCTATA-A-GGGTATTTCGG
1 TCATTTTA-CCT-TACAGGGGTATTTCGG
* *
30224124 TCATTTTACCCTA-TGGGGTATTTCGG
1 TCATTTTACCTTACAGGGGTATTTCGG
* ** *
30224150 TCATTTCACCTTATGGGGGTATTTCAG
1 TCATTTTACCTTACAGGGGTATTTCGG
* * * *
30224177 TCATTTCACCCTATAGGGGTATTTCGA
1 TCATTTTACCTTACAGGGGTATTTCGG
30224204 TCATTTTACC
1 TCATTTTACC
30224214 CTATGGGGTT
Statistics
Matches: 277, Mismatches: 44, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.01
26 46 0.17
27 220 0.79
28 5 0.02
29 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (27 bp):
TCATTTTACCTTACAGGGGTATTTCGG
Found at i:30224078 original size:80 final size:81
Alignment explanation
Indices: 30223897--30224234 Score: 398
Period size: 80 Copynumber: 4.2 Consensus size: 81
30223887 TTATCTTACA
* * *
30223897 GGGGTATTTCGATCATTTTACCTTA-AAGGGGTATTTCGGTCATTTTAC-CTCATGAGGGTATTT
1 GGGGTATTTCGGTCATTTTACCTTACAA-GGGTATTTCAGTCATTTTACTCT-ATAAGGGTATTT
*
30223960 CTGTCATTTTACCCTACG
64 CGGTCATTTTACCCTACG
* ** *
30223978 GGGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCAGTCATTTTACTCTATGGGGGTA-TGCG
1 GGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCAGTCATTTTACTCTATAAGGGTATTTCG
*
30224042 GCCATTTTACCCTACG
66 GTCATTTTACCCTACG
** *
30224058 GGGGTATTTCGGTCATTTTACCTTACGGGGGTATTTCAGTTATTTTA-TCCTATAAGGGTATTTC
1 GGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCAGTCATTTTACT-CTATAAGGGTATTTC
*
30224122 GGTCATTTTACCCTA-T
65 GGTCATTTTACCCTACG
* *** * * *
30224138 GGGGTATTTCGGTCATTTCACCTTATGGGGGTATTTCAGTCATTTCACCCTATAGGGGTATTTCG
1 GGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCAGTCATTTTACTCTATAAGGGTATTTCG
* *
30224203 ATCATTTTACCCTATG
66 GTCATTTTACCCTACG
* *
30224219 GGGTTATTTCAGTCAT
1 GGGGTATTTCGGTCAT
30224235 ACATGGCCCA
Statistics
Matches: 225, Mismatches: 26, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
79 1 0.00
80 140 0.62
81 80 0.36
82 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (81 bp):
GGGGTATTTCGGTCATTTTACCTTACAAGGGTATTTCAGTCATTTTACTCTATAAGGGTATTTCG
GTCATTTTACCCTACG
Found at i:30227699 original size:37 final size:37
Alignment explanation
Indices: 30227635--30227776 Score: 203
Period size: 37 Copynumber: 3.8 Consensus size: 37
30227625 AGCTCAGACG
* *
30227635 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30227672 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
30227709 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
30227746 TACTCTCAACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
30227777 TAGACATAAT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30228233 original size:37 final size:37
Alignment explanation
Indices: 30228180--30228258 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
30228170 ATCTGTACAT
*
30228180 CCGGACAAAATTTCCACACGTAGTCATCGGGTCTTAC
1 CCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
*
30228217 CCGGACATAATCTCCACACGTAGTCATCGGGTCTTAC
1 CCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
30228254 CCGGA
1 CCGGA
30228259 ATATATTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
Found at i:30228517 original size:47 final size:47
Alignment explanation
Indices: 30228465--30228658 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
30228455 CATACATATT
* * * * *
30228465 TCACATTAGCCATTTGGCTTTACCACATATATGCATGTTCATACTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACACTCA
* * *
30228512 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACACTCA
*
30228559 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACACTCA
* * ** *
30228606 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACACTCA
30228653 TCACAT
1 TCACAT
30228659 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACACTCA
Found at i:30228537 original size:22 final size:22
Alignment explanation
Indices: 30228511--30228629 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
30228501 GTTCATACTC
30228511 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
30228533 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
30228557 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
30228580 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
30228604 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
30228627 ATC
1 ATC
30228630 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:30232396 original size:43 final size:43
Alignment explanation
Indices: 30232348--30232519 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
30232338 AACTCGTACA
* * *
30232348 ATGCCAATGTCTCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* ** *
30232391 ATGCCATTGTCCCAGACAAGGTCTTACACGAAATCATATAT-G
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* * * *
30232433 ATACCGATGTCCCAAACAGT--TCTTACACGTAAATCTCAA-ATCGG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACG-AAATC-AAATATC-G
* * *
30232477 CT-CCAATGTCTCAGACGTGGTCTTACACGAAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
30232519 A
1 A
30232520 AATCCTATAT
Statistics
Matches: 99, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
41 9 0.09
42 25 0.25
43 54 0.55
44 11 0.11
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:30233862 original size:12 final size:12
Alignment explanation
Indices: 30233845--30233876 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
30233835 TTTGTAGGCT
30233845 ATTTTCCAAGCC
1 ATTTTCCAAGCC
30233857 ATTTTCCAAGCC
1 ATTTTCCAAGCC
30233869 ATTTTCCA
1 ATTTTCCA
30233877 TCCTCAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (12 bp):
ATTTTCCAAGCC
Found at i:30237879 original size:11 final size:10
Alignment explanation
Indices: 30237847--30237892 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
30237837 CATGAGATTT
30237847 TGATAT-ACA
1 TGATATGACA
*
30237856 TGATTTGACA
1 TGATATGACA
30237866 TGATATGCACA
1 TGATATG-ACA
*
30237877 TGATATG-TA
1 TGATATGACA
30237886 TGATATG
1 TGATATG
30237893 CACGTGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:30237974 original size:24 final size:25
Alignment explanation
Indices: 30237947--30238030 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
30237937 GAGGAAGTGC
*
30237947 AAAAGGGCTATG-CCCTAGTTACAG
1 AAAAGGGCTATGCCCCAAGTTACAG
* * *
30237971 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTATGCCCCAAGTTACAG
* * *
30237996 AAAAGGGCTTTTCCCCCAGTTTATCA-
1 AAAAGGGCTATGCCCCAAG-TTA-CAG
30238022 AAAAGGGCT
1 AAAAGGGCT
30238031 TGTGACAGCC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 11 0.22
25 25 0.51
26 12 0.24
27 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAAGTTACAG
Found at i:30237999 original size:25 final size:25
Alignment explanation
Indices: 30237947--30238031 Score: 82
Period size: 26 Copynumber: 3.4 Consensus size: 25
30237937 GAGGAAGTGC
* * * *
30237947 AAAAGGGCTATG-CCCTAGTTACAG
1 AAAAGGGCTTTGCCCCAATTTACCG
30237971 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAATTTACCG
* * * *
30237996 AAAAGGGCTTTTCCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAATTTACCG
30238022 AAAAGGGCTT
1 AAAAGGGCTT
30238032 GTGACAGCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
24 11 0.22
25 19 0.37
26 21 0.41
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAATTTACCG
Found at i:30239473 original size:28 final size:28
Alignment explanation
Indices: 30239408--30239534 Score: 132
Period size: 28 Copynumber: 4.5 Consensus size: 28
30239398 TCATGAATTG
* ** *
30239408 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-TGATTATATA
30239437 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30239465 GCACTAAGTGTGCGAGTTTGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
* * *
30239493 GCACTAAGTGTGCGGGCTT-ATTATACA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30239520 TGCTCTAAGTGTGCG
1 -GCACTAAGTGTGCG
30239535 GCCTTATCGA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.07
28 62 0.73
29 17 0.20
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:30242656 original size:46 final size:45
Alignment explanation
Indices: 30242513--30242656 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
30242503 CCCGCCCATA
*
30242513 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
30242562 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
*
30242605 AAGTGAACTAGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
30242652 AGTGA
1 AGTGA
30242657 CATGTCACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 33 0.42
47 29 0.37
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:30251726 original size:24 final size:25
Alignment explanation
Indices: 30251699--30251752 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
30251689 AAGTGCAAAT
30251699 GGGCTATGCCCCAG-TTACAGAAAA
1 GGGCTATGCCCCAGTTTACAGAAAA
* * * *
30251723 GGGCTTTGCCCTAGTTTCCCGAAAA
1 GGGCTATGCCCCAGTTTACAGAAAA
30251748 GGGCT
1 GGGCT
30251753 TTTGCCGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (25 bp):
GGGCTATGCCCCAGTTTACAGAAAA
Found at i:30251751 original size:25 final size:26
Alignment explanation
Indices: 30251705--30251789 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 26
30251695 AAATGGGCTA
* *
30251705 TGCCCCAG-TTACAGAAAAGGGC-TT
1 TGCCCTAGTTTACCGAAAAGGGCTTT
*
30251729 TGCCCTAGTTTCCCGAAAAGGGCTTT
1 TGCCCTAGTTTACCGAAAAGGGCTTT
* * *
30251755 TGCCGT-GTTTATCAAAAAGGGCTTT
1 TGCCCTAGTTTACCGAAAAGGGCTTT
*
30251780 TGCCCCAGTT
1 TGCCCTAGTT
30251790 ATTAAAAGAG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 7 0.14
25 32 0.65
26 10 0.20
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (26 bp):
TGCCCTAGTTTACCGAAAAGGGCTTT
Found at i:30252045 original size:31 final size:31
Alignment explanation
Indices: 30252010--30252096 Score: 102
Period size: 38 Copynumber: 2.6 Consensus size: 31
30252000 CATTAACAGT
30252010 AAAGGCTTCGGCCCAGTAACATGAAATATGA
1 AAAGGCTTCGGCCCAGTAACATGAAATATGA
*
30252041 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T--AACATGAAATATGA
30252079 AAAGGCTTCGGCCCAGTA
1 AAAGGCTTCGGCCCAGTA
30252097 TATGCTGAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
31 16 0.33
33 2 0.04
36 2 0.04
38 28 0.58
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAACATGAAATATGA
Found at i:30254036 original size:47 final size:47
Alignment explanation
Indices: 30253977--30254192 Score: 378
Period size: 47 Copynumber: 4.6 Consensus size: 47
30253967 CCATTGGCAC
30253977 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
30254024 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTTG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
30254071 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
30254118 TAAGACAAGGATACCATGTAAGACCATGTTAGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
30254165 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
30254193 CCAAGGCATG
Statistics
Matches: 161, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 161 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:30254229 original size:54 final size:54
Alignment explanation
Indices: 30254165--30254367 Score: 194
Period size: 54 Copynumber: 3.8 Consensus size: 54
30254155 TGGAATTTGG
* * * * *
30254165 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGTATTGATAAGTTATA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTATA
* * * * ** *
30254219 TAAGGTAAGGAAATCATGTAAGACTATGTCAAGACATCACACTGATGAGTTACTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTA-TA
* * * * *
30254274 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-CA
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTATA
* * *
30254327 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCA
30254368 ATGGTAAGTT
Statistics
Matches: 119, Mismatches: 27, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.27
54 42 0.35
55 37 0.31
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTATA
Found at i:30254379 original size:53 final size:54
Alignment explanation
Indices: 30254171--30254377 Score: 193
Period size: 53 Copynumber: 3.8 Consensus size: 54
30254161 TTGGTAAGAT
* * * * *
30254171 AAGGATATCATGTAAGACCATGCCAAGGCATGGTATTGATAAGTTATATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACATAAGGC
* * * * ** * *
30254225 AAGGAAATCATGTAAGACTATGTCAAGACATCACACTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTAC-ATAAGGC
* * * *
30254280 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-CATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACATAAGGC
* * * *
30254333 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT
30254378 CAAAAAGGAA
Statistics
Matches: 123, Mismatches: 27, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
52 4 0.03
53 41 0.33
54 38 0.31
55 36 0.29
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACATAAGGC
Found at i:30257795 original size:40 final size:39
Alignment explanation
Indices: 30257750--30257879 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
30257740 CGGAATATAA
30257750 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
30257790 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30257830 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
30257870 CCGGATATAA
1 CCGGATATAA
30257880 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30257894 original size:40 final size:40
Alignment explanation
Indices: 30257766--30257917 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
30257756 ATAACCATGT
* * *
30257766 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
30257806 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
30257846 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
30257886 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
30257918 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:30257900 original size:80 final size:80
Alignment explanation
Indices: 30257766--30257915 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
30257756 ATAACCATGT
*
30257766 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
30257830 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
30257846 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
30257909 CCCGGAT
64 CCCGGAT
30257916 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:30265850 original size:40 final size:40
Alignment explanation
Indices: 30265790--30265896 Score: 205
Period size: 40 Copynumber: 2.7 Consensus size: 40
30265780 ATAACCATGT
*
30265790 GCACAAATGCCTTCGGGTCTTAGCCCGAATAGAATGTCTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGAATAGAATGTCTC
30265830 GCACGAATGCCTTCGGGTCTTAGCCCGAATAGAATGTCTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGAATAGAATGTCTC
30265870 GCACGAATGCCTTCGGGTCTTAGCCCG
1 GCACGAATGCCTTCGGGTCTTAGCCCG
30265897 GATGTAGCCA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGAATAGAATGTCTC
Found at i:30269960 original size:12 final size:12
Alignment explanation
Indices: 30269943--30269967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30269933 TTTTGGATGA
30269943 ATTTGATTAAAT
1 ATTTGATTAAAT
30269955 ATTTGATTAAAT
1 ATTTGATTAAAT
30269967 A
1 A
30269968 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTGATTAAAT
Found at i:30271846 original size:2 final size:2
Alignment explanation
Indices: 30271839--30271868 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30271829 TGAAATGGGT
30271839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30271869 AATAACTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30277139 original size:2 final size:2
Alignment explanation
Indices: 30277132--30277159 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30277122 AACATGTGTC
30277132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30277160 CACGAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30282329 original size:26 final size:26
Alignment explanation
Indices: 30282299--30282351 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
30282289 CTTTCATTCT
30282299 CAAACATGATAAACATTTCAAACGTA
1 CAAACATGATAAACATTTCAAACGTA
*
30282325 CAAACATGATAAACATTTCAAGCGTA
1 CAAACATGATAAACATTTCAAACGTA
30282351 C
1 C
30282352 CTAAATTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (26 bp):
CAAACATGATAAACATTTCAAACGTA
Found at i:30292562 original size:40 final size:40
Alignment explanation
Indices: 30292503--30292710 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
30292493 CAATTGAATG
* * * *
30292503 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
30292543 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30292583 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30292623 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
30292663 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
30292703 ATATCCGG
1 ATATCCGG
30292711 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:30292641 original size:80 final size:80
Alignment explanation
Indices: 30292504--30292710 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
30292494 AATTGAATGA
* * ** * * *
30292504 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
30292569 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
30292582 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
30292647 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
30292664 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
30292711 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:30300589 original size:40 final size:40
Alignment explanation
Indices: 30300530--30300737 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
30300520 CAATTGAATG
* * * *
30300530 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
30300570 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30300610 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30300650 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
30300690 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
30300730 ATATCCGG
1 ATATCCGG
30300738 TTGTATTCCG
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:30300668 original size:80 final size:80
Alignment explanation
Indices: 30300532--30300737 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
30300522 ATTGAATGAT
* * ** * * *
30300532 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
30300597 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
30300612 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
30300677 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
30300692 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
30300738 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 107 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:30303662 original size:43 final size:44
Alignment explanation
Indices: 30303558--30303681 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 44
30303548 GGTTATCAAG
* *
30303558 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTTA
1 ATGTGATTACATGTAAGACCATATCTGGGACAATGGCATCGATA
* * * * *
30303602 AT-CGATTTCGTGCAAGACCCTATCTGGGACAATGGCATCGAT-
1 ATGTGATTACATGTAAGACCATATCTGGGACAATGGCATCGATA
* *
30303644 ATGTGATAACATGTAAGACCATATCTGGGA-TATGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACAATGGCAT
30303682 TCTATGAGCT
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 9 0.14
43 54 0.83
44 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACAATGGCATCGATA
Found at i:30305346 original size:40 final size:40
Alignment explanation
Indices: 30305290--30305428 Score: 172
Period size: 40 Copynumber: 3.4 Consensus size: 40
30305280 ATTCGATTAC
*
30305290 GTATGGCACTTCGTGTGCAATTCGAGATAGCTTCAGCTAT
1 GTATGGCACTTAGTGTGCAATTCGAGATAGCTTCAGCTAT
**
30305330 GTATGGCACTTAGTGTGTGATTCGAGATAGCTTCAGCTAT
1 GTATGGCACTTAGTGTGCAATTCGAGATAGCTTCAGCTAT
* * * * *
30305370 GTATGGCACTTACTATGCAAGATT-AAAATAGCTTCGGCTAT
1 GTATGGCACTTAGTGTGC-A-ATTCGAGATAGCTTCAGCTAT
30305411 GTATTGGCACTTAGTGTG
1 GTA-TGGCACTTAGTGTG
30305429 TGAGAATTCG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 52 0.62
41 17 0.20
42 15 0.18
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (40 bp):
GTATGGCACTTAGTGTGCAATTCGAGATAGCTTCAGCTAT
Found at i:30305587 original size:8 final size:8
Alignment explanation
Indices: 30305576--30305604 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30305566 CTTTGAATAT
30305576 AAGTTATG
1 AAGTTATG
30305584 AAGTTATG
1 AAGTTATG
30305592 AAGTTATG
1 AAGTTATG
30305600 AAGTT
1 AAGTT
30305605 TGCATATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (8 bp):
AAGTTATG
Found at i:30306533 original size:25 final size:25
Alignment explanation
Indices: 30306505--30306574 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
30306495 CTCTTTTAAT
*
30306505 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
30306530 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
30306555 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
30306575 AGCACTTCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:30306810 original size:27 final size:27
Alignment explanation
Indices: 30306779--30306949 Score: 225
Period size: 27 Copynumber: 6.3 Consensus size: 27
30306769 AGGGCAAAAT
* * *
30306779 AGTAATTTTACCCCACAAGGGTATCTC
1 AGTAATTCTACCCTACAAGGGTATTTC
* * *
30306806 GGTAATTTTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAAGGGTATTTC
*
30306833 AGTAATTCTACCCTATAAGGGTATTTC
1 AGTAATTCTACCCTACAAGGGTATTTC
*
30306860 AGTAATTCTACCTTACAAGGGTATTTC
1 AGTAATTCTACCCTACAAGGGTATTTC
*
30306887 AGTAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAAGGGTATTTC
* * *
30306914 GGTAATTCTACTCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAAGGGTATTTC
*
30306941 AATAATTCT
1 AGTAATTCT
30306950 GTAAATCAGG
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
AGTAATTCTACCCTACAAGGGTATTTC
Found at i:30307016 original size:27 final size:27
Alignment explanation
Indices: 30306965--30307354 Score: 356
Period size: 27 Copynumber: 14.4 Consensus size: 27
30306955 TCAGGGGTCC
* *
30306965 TTTGGTAATTTTTACAAGTCTAGGGTAT
1 TTTGGTAA-TTTTACAAATCAAGGGTAT
** *
30306993 TTCAGTAATTTTACAAATTAAGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
** *
30307020 TTCAGTAATTTTACAAA-CTGAGGGTAT
1 TTTGGTAATTTTACAAATC-AAGGGTAT
* *
30307047 TTCGATAATTTTACAAATCAAGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
*
30307074 TTTGGTAATTTTACAAACTCGA-GGTAT
1 TTTGGTAATTTTACAAA-TCAAGGGTAT
** * *
30307101 TTTGGTAATTTTGTAAACCAAAGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
* *
30307128 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
** * *
30307155 TTCAGT-ATTTTCACAAATTAGGGGTAT
1 TTTGGTAATTTT-ACAAATCAAGGGTAT
* *
30307182 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
** *
30307209 TTCAGTAATTTTACAAATCAGGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
* *
30307236 TTTGGTAATTTCACAAA-CTAGGGGTAT
1 TTTGGTAATTTTACAAATC-AAGGGTAT
* * *
30307263 TTTGGCAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
* * *
30307290 TTTGGTAATTTTACAAACCACGAGTAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
* ** *
30307317 TTTAGTAATTTTACAAATTGAGGGCAT
1 TTTGGTAATTTTACAAATCAAGGGTAT
*
30307344 TTTAGTAATTT
1 TTTGGTAATTT
30307355 GGTAAACTAA
Statistics
Matches: 299, Mismatches: 55, Indels: 17
0.81 0.15 0.05
Matches are distributed among these distances:
26 8 0.03
27 275 0.92
28 16 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTGGTAATTTTACAAATCAAGGGTAT
Found at i:30307056 original size:54 final size:54
Alignment explanation
Indices: 30306932--30307354 Score: 394
Period size: 54 Copynumber: 7.8 Consensus size: 54
30306922 TACTCTACAG
* * ** * ** *
30306932 GGGTATTTCAATAATTCTGTAAATCAGGGGTCCTTTGGTAATTTTTACAAGTCT-A
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAA-TTTTACAA-ACTGA
* **
30306987 GGGTATTTCAGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACTGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTGA
30307041 GGGTATTTC-GATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTCGA
1 GGGTATTTCAG-TAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACT-GA
** ** * * *
30307096 -GGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTGGTAATTTTAC-AAGTCGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACT-GA
* * *
30307149 GGGTATTTCAGT-ATTTTCACAAATTAGGGGTATTTTGGTAATTTTAC-AAGTCGA
1 GGGTATTTCAGTAATTTT-ACAAATCAAGGGTATTTTGGTAATTTTACAAACT-GA
* *
30307203 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTCACAAACT-A
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTGA
** * * * *
30307256 GGGGTATTTTGGCAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAAC-CA
1 -GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTGA
* * ** * *
30307310 CGAGTATTTTAGTAATTTTACAAATTGAGGGCATTTTAGTAATTT
1 -GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTT
30307355 GGTAAACTAA
Statistics
Matches: 312, Mismatches: 46, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
53 15 0.05
54 255 0.82
55 42 0.13
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTGA
Found at i:30309187 original size:40 final size:40
Alignment explanation
Indices: 30309142--30309271 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
30309132 CGGAATATAA
*
30309142 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTGGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
30309182 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
30309222 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
30309262 CCGGATATAA
1 CCGGATATAA
30309272 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
40 73 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30309286 original size:40 final size:40
Alignment explanation
Indices: 30309142--30309308 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
30309132 CGGAATATAA
*** * *
30309142 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTGGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
* **
30309182 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** *
30309222 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * *
30309262 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
30309301 CCGGATAT
1 CCGGATAT
30309309 CATTCAATTT
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 15 0.15
40 85 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:30309292 original size:80 final size:79
Alignment explanation
Indices: 30309142--30309308 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
30309132 CGGAATATAA
**
30309142 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTGGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
30309207 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
30309222 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
30309284 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
30309301 CCGGATAT
1 CCGGATAT
30309309 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 17 0.23
80 57 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:30312519 original size:31 final size:30
Alignment explanation
Indices: 30312446--30312528 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
30312436 TTCAGTCTCG
*
30312446 ACATATACTGGGCCGAAGCC-TTTCATTTA
1 ACATATACTGGGCCGAAGCCTTTTCATTAA
*
30312475 AC-TGTTACTGGGCCGAAGCCTTTTCA-TAA
1 ACAT-ATACTGGGCCGAAGCCTTTTCATTAA
30312504 ATCATATCACTGGGCCGAAGCCTTT
1 A-CATAT-ACTGGGCCGAAGCCTTT
30312529 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.02
29 20 0.43
30 7 0.15
31 18 0.39
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (30 bp):
ACATATACTGGGCCGAAGCCTTTTCATTAA
Found at i:30312783 original size:25 final size:25
Alignment explanation
Indices: 30312749--30312818 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
30312739 CTCTTTTAAT
*
30312749 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGAGGCAAAGCCCTTTTTGATA
*
30312774 AACTGAGGCAAAGCCCTTTTTGGTA
1 AACTGAGGCAAAGCCCTTTTTGATA
30312799 AACT-AGGGCAAAGCCCTTTT
1 AACTGA-GGCAAAGCCCTTTT
30312819 AACACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGAGGCAAAGCCCTTTTTGATA
Found at i:30313030 original size:27 final size:27
Alignment explanation
Indices: 30312980--30313043 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
30312970 CTGTCACTTG
* *
30312980 CCCATAAGGGCAAAATAATCATTTAAC
1 CCCACAAGGGCAAAATAATAATTTAAC
** *
30313007 ACCCA-AAGGGCAAAATGGTAATTTTAC
1 -CCCACAAGGGCAAAATAATAATTTAAC
30313034 CCCACAAGGG
1 CCCACAAGGG
30313044 TATCTCGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 4 0.13
27 23 0.74
28 4 0.13
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (27 bp):
CCCACAAGGGCAAAATAATAATTTAAC
Found at i:30313053 original size:27 final size:27
Alignment explanation
Indices: 30313024--30313191 Score: 228
Period size: 27 Copynumber: 6.2 Consensus size: 27
30313014 GGGCAAAATG
* * * *
30313024 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
30313051 GTAATTCTACCCTACAGGGGTGTTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
30313078 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
30313105 GTAATTCTACCGTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
30313132 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
30313159 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
30313186 ATAATT
1 GTAATT
30313192 TTGTAAATCG
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:30313206 original size:27 final size:27
Alignment explanation
Indices: 30313176--30313327 Score: 98
Period size: 27 Copynumber: 5.6 Consensus size: 27
30313166 TACCCTACAG
30313176 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTGTAAATCGA
** ** * *
30313203 GGGTAAAAT-GGTAATTCTGTAAATCGG
1 GGGT-ATTTCAATAATTTTGTAAATCGA
**
30313230 GGGTACTTT-GGTAATTTT-TACAAGTCGA
1 GGGTA-TTTCAATAATTTTGTA-AA-TCGA
* **
30313258 GGGTATTTCAGTAA-TTTACAAATCGA
1 GGGTATTTCAATAATTTTGTAAATCGA
* *
30313284 GGGTATTTCAATAATTTTGCAAA-CTAA
1 GGGTATTTCAATAATTTTGTAAATC-GA
*
30313311 GGGTATTTCGATAATTT
1 GGGTATTTCAATAATTT
30313328 CACAAATCAG
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
26 21 0.21
27 65 0.64
28 15 0.15
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTGTAAATCGA
Found at i:30313233 original size:54 final size:55
Alignment explanation
Indices: 30313175--30313302 Score: 122
Period size: 54 Copynumber: 2.4 Consensus size: 55
30313165 CTACCCTACA
* **
30313175 GGGGTATTTCAATAATTTTGTA-AA-TCGAGGGTAAAAT-GGTAATTCTGTAAATCG
1 GGGGTATTTCAATAATTTTGTACAAGTCGAGGGT-AAATCAGTAATT-TACAAATCG
** **
30313229 GGGGTACTTT-GGTAATTTT-TACAAGTCGAGGGTATTTCAGTAATTTACAAATCG
1 GGGGTA-TTTCAATAATTTTGTACAAGTCGAGGGTAAATCAGTAATTTACAAATCG
*
30313283 AGGGTATTTCAATAATTTTG
1 GGGGTATTTCAATAATTTTG
30313303 CAAACTAAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
53 5 0.09
54 36 0.62
55 17 0.29
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (55 bp):
GGGGTATTTCAATAATTTTGTACAAGTCGAGGGTAAATCAGTAATTTACAAATCG
Found at i:30313333 original size:27 final size:27
Alignment explanation
Indices: 30313230--30313623 Score: 302
Period size: 27 Copynumber: 14.6 Consensus size: 27
30313220 TGTAAATCGG
* * *
30313230 GGGTACTTTGGTAATTTTTAC-AAGTCGA
1 GGGTATTTTGGTAA-TTTTACAAACT-AA
** *
30313258 GGGTATTTCAGTAA-TTTACAAA-TCGA
1 GGGTATTTTGGTAATTTTACAAACT-AA
*** *
30313284 GGGTATTTCAATAATTTTGCAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
* * * *
30313311 GGGTATTTCGATAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AA
30313338 GGGTATTTTGGTAA-TTTACAAACT-A
1 GGGTATTTTGGTAATTTTACAAACTAA
** *
30313363 GGGATATTTTGGTAATTTTGTAAACCAA
1 GGG-TATTTTGGTAATTTTACAAACTAA
* *
30313391 GGGTATTTTGGTAATTTTAC-AAGTCGA
1 GGGTATTTTGGTAATTTTACAAACT-AA
** * * *
30313418 GGGTATTTCAGTAACTTCACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
30313445 GGGTATTTTGGTAATTTTAC-AAGTCGA
1 GGGTATTTTGGTAATTTTACAAACT-AA
** * *
30313472 GGGTATTTCAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AA
*
30313499 GGGTATTTTGGTAATTTCACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
30313526 GGGTATTTTGGTAATTTTAGAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAA
*
30313553 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAA
* * *
30313580 GGGTATTTTAGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
30313607 GGGCATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
30313624 GGTAAACTAA
Statistics
Matches: 302, Mismatches: 51, Indels: 27
0.79 0.13 0.07
Matches are distributed among these distances:
25 3 0.01
26 46 0.15
27 231 0.76
28 22 0.07
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:30313333 original size:54 final size:53
Alignment explanation
Indices: 30313230--30313623 Score: 336
Period size: 54 Copynumber: 7.3 Consensus size: 53
30313220 TGTAAATCGG
* * *
30313230 GGGTACTTTGGTAATTTTTAC-AAGTCGAGGGTATTTCAGTAATTT-ACAAATCGA
1 GGGTATTTTGGTAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTCACAAATC-A
*** *
30313284 GGGTATTTCAATAATTTTGCAAACTAAGGGTATTTC-GATAATTTCACAAATCA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAG-TAATTTCACAAATCA
** *** *
30313337 GGGGTATTTTGGTAA-TTTACAAACT-AGGGATATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACTAAGGG-TATTTCAGTAATTTCACAAATC-A
* * * *
30313391 GGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAGTAACTTCACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTCAGTAATTTCACAAA-TCA
* *
30313445 GGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTCACAAATCA
1 GGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTCAGTAATTTCACAAATCA
* ** * *
30313498 GGGGTATTTTGGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTAGAAA-CTA
1 -GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAATC-A
* * * *
30313552 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAA-TCA
* *
30313607 GGGCATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
30313624 GGTAAACTAA
Statistics
Matches: 283, Mismatches: 41, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
52 5 0.02
53 66 0.23
54 204 0.72
55 8 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAATCA
Found at i:30313475 original size:81 final size:79
Alignment explanation
Indices: 30313230--30313623 Score: 373
Period size: 81 Copynumber: 4.9 Consensus size: 79
30313220 TGTAAATCGG
* * * ** **
30313230 GGGTACTTTGGTAATTTTTACAAGTC-GAGGGTATTTCAGTAATTTACAAATCGAGGGTATTTCA
1 GGGTATTTTGGTAA-TTTTACAAATCAG-GGGTATTTTAGTAATTTACAAATTAAGGGTATTTTG
* *
30313294 ATAATTTTGCAAACTAA
64 GTAATTTTACAAAC-AA
* * * * *
30313311 GGGTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTACAAACT-AGGGATATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTACAAATTAAGGG-TATTTTGG
**
30313375 TAATTTTGTAAACCAA
65 TAATTTTACAAA-CAA
* * *
30313391 GGGTATTTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAACTTCACAAATTAAGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAA-TTTACAAATTAAGGGTATTTTG
* *
30313455 GTAATTTTACAAGTCGA
64 GTAATTTTACAA-ACAA
** * * *
30313472 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCACAAACTAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTT-ACAAATTAAGGGTATTTTGG
* *
30313537 TAATTTTAGAAACTAG
65 TAATTTTACAAAC-AA
* * *
30313553 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTAGTAATTTTACAAATTGAGGGCATTTTA
1 GGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTAGTAA-TTTACAAATTAAGGGTATTTTG
30313617 GTAATTT
64 GTAATTT
30313624 GGTAAACTAA
Statistics
Matches: 256, Mismatches: 45, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
79 5 0.02
80 84 0.33
81 159 0.62
82 8 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (79 bp):
GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTACAAATTAAGGGTATTTTGGT
AATTTTACAAACAA
Found at i:30315577 original size:31 final size:30
Alignment explanation
Indices: 30315504--30315586 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
30315494 TTCAGTCTCG
*
30315504 ACATATACTGGGCCGAAGCC-TTTCATTGA
1 ACATATACTGGGCCGAAGCCTTTTCATTAA
*
30315533 AC-TGTTACTGGGCCGAAGCCTTTTCA-TAA
1 ACAT-ATACTGGGCCGAAGCCTTTTCATTAA
30315562 ATCATATCACTGGGCCGAAGCCTTT
1 A-CATAT-ACTGGGCCGAAGCCTTT
30315587 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.02
29 20 0.43
30 7 0.15
31 18 0.39
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (30 bp):
ACATATACTGGGCCGAAGCCTTTTCATTAA
Found at i:30315835 original size:25 final size:25
Alignment explanation
Indices: 30315807--30315876 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
30315797 CTCTTTTAAT
*
30315807 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
30315832 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
30315857 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
30315877 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Done.