Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 56 of 373
Found at i:16792951 original size:26 final size:26
Alignment explanation
Indices: 16792915--16793023 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
16792905 ATGAAATGTC
* * *
16792915 TATCATGGAACCTTTGCCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
16792941 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* ** *
16792967 TATCATGGAATATTTACCTATTCTAT
1 TATCATGGAACATTTACCTAACCCAT
*
16792993 TATCATAGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
16793019 TATCA
1 TATCA
16793024 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:16800065 original size:26 final size:26
Alignment explanation
Indices: 16800034--16800141 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
16800024 TGAAATGCCC
*
16800034 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16800060 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16800086 ATCATGGAAGATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16800112 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16800138 ATCA
1 ATCA
16800142 ATTTGTACCG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16801182 original size:26 final size:25
Alignment explanation
Indices: 16801099--16801183 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 25
16801089 AGCTATGATC
* **
16801099 AGTAAGCTCCTCCTGAGCTGATGGAT
1 AGTAAGCT-CTCATGAGCTGATAAAT
* *
16801125 AGTAAGCTCTGATAAGCTGA-AAAT
1 AGTAAGCTCTCATGAGCTGATAAAT
* *
16801149 AGTAAGCTCTTATGAGCTGATATAT
1 AGTAAGCTCTCATGAGCTGATAAAT
16801174 CAGTAAGCTC
1 -AGTAAGCTC
16801184 ATACGAGTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 20 0.41
25 12 0.24
26 17 0.35
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (25 bp):
AGTAAGCTCTCATGAGCTGATAAAT
Found at i:16802622 original size:611 final size:613
Alignment explanation
Indices: 16801457--16802676 Score: 2246
Period size: 611 Copynumber: 2.0 Consensus size: 613
16801447 TCCACTTTTC
*
16801457 CTTTTCCTCGATCTAATCCTGATCTTAGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
1 CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
*
16801522 CAGCATTCGGCCTAATCAATTTATCCTATAATTTACAATTTGGCAAATTTACACATTTGCCCCTA
66 CAGCATTCGGCCTAATCAATTTATCCTATAATTTACAATTTGGAAAATTTACACATTTGCCCCTA
16801587 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGCAAATTCATGCAATTTAGTACA
131 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGCAAATTCATGCAATTTAGTACA
16801652 AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
196 AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
* *
16801717 TCAACGACCACATTTCACATTTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
261 TCAACCACCACATTTCACATGTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
16801782 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
326 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
*
16801847 ATTCATCAACGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCATTGGCTAGCTAGTA
391 ATTCATCAACGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCATGGGCTAGCTAGTA
16801912 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
456 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
*
16801977 TCAAGACACCATAGATGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTAG
521 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTAG
*
16802042 TGGTGCTTAATGAAGATGAAGACATTTG
586 TGATGCTTAATGAAGATGAAGACATTTG
*
16802070 CTTTTCCTCGATCTAATCCTGATCTCGGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
1 CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
* ** * *
16802135 CAGTATTCGGTGTATTCAATTTATCCTATAATTTACAATTTGGAAAATTTACACATTTGCCCTTA
66 CAGCATTCGGCCTAATCAATTTATCCTATAATTTACAATTTGGAAAATTTACACATTTGCCCCTA
*
16802200 ATG-TTCACATTTTCACAATTTAGTCCTTATCACATAAAATTGCAAATTCATGCAATTTAGTACA
131 ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGCAAATTCATGCAATTTAGTACA
16802264 AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
196 AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
16802329 TCAACCACCACATTTCACATGTTCTCAATTTAATCCCTA-TTTTAATTTTCACTAAAAATCACTT
261 TCAACCACCACATTTCACATGTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
16802393 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
326 TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
* * * *
16802458 ATTTATCAATGGAAATATTCAAAATCTTTAACAGTTTTGCAAACTAGTCCCTGGGCTAGCTAGTA
391 ATTCATCAACGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCATGGGCTAGCTAGTA
16802523 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
456 CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
* *
16802588 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTATTTTTGGTGG
521 TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTAG
16802653 TGATGCTTAATGAAGATGAAGACA
586 TGATGCTTAATGAAGATGAAGACA
16802677 AAATGTTTTT
Statistics
Matches: 587, Mismatches: 20, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
611 300 0.51
612 162 0.28
613 125 0.21
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (613 bp):
CTTTTCCTCGATCTAATCCTGATCTCAGCTTATCTTGATCTATATATTATCAAATTTAGTACATT
CAGCATTCGGCCTAATCAATTTATCCTATAATTTACAATTTGGAAAATTTACACATTTGCCCCTA
ATGTTTCACATTTTCACAATTTAGTCCTTATAACATAAAATTGCAAATTCATGCAATTTAGTACA
AAACCATGCTTAGCTGAATTTAATACATGTTATTATCAACCCATATTTTTAATTTATTCACACTT
TCAACCACCACATTTCACATGTTCTCAATTTAATCCCTATTTTTAATTTTCACTAAAAATCACTT
TACAAAACTTGTTTAACTAATAACAAATATCCATAATCTATTATTAAACATAAAAACACTCATAT
ATTCATCAACGGAAATATTCAAAATCTTTAACAGTTTTCCAAACTAGTCCATGGGCTAGCTAGTA
CTAGTTGCAACGATCACAAAAACATAGAAATCATTAAAAACGGGACCAAAAATGGACTTACATGC
TCAAGACACCATAGACGAATGTTCCAAGCTCTCAAATGGTGTTCTACAAGCCCTAATTTTGGTAG
TGATGCTTAATGAAGATGAAGACATTTG
Found at i:16804824 original size:161 final size:161
Alignment explanation
Indices: 16804559--16804877 Score: 584
Period size: 161 Copynumber: 2.0 Consensus size: 161
16804549 ATTTCATGCT
*
16804559 GATATGTGTAATAACTCATTTCTTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTACATT
1 GATATGTGTAATAACTCATTTATTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTACATT
*
16804624 TATCTAAAATATCGATGGATACGCAGATAGTACACTCGAGGTGTATGAATCAGAATCTGTCAATT
66 TATCTAAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATCTGTCAATT
*
16804689 CATGTCTAATGGTACCCGTAGGGTACTAGCC
131 CATGTCTAATGGTACCCATAGGGTACTAGCC
*
16804720 GATATGTGTAATAACTCATTTATTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTAGATT
1 GATATGTGTAATAACTCATTTATTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTACATT
* *
16804785 TATCTGAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATTTGTCAATT
66 TATCTAAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATCTGTCAATT
16804850 CATGTCTAATGGTACCCATAGGGTACTA
131 CATGTCTAATGGTACCCATAGGGTACTA
16804878 TATTAGAAAG
Statistics
Matches: 152, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
161 152 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (161 bp):
GATATGTGTAATAACTCATTTATTATTCATATCTTCTCATGTCAAGAACTTTTAGCAATTACATT
TATCTAAAATATCGATGGATACACAGATAGTACACTCGAGGTGTATGAATCAGAATCTGTCAATT
CATGTCTAATGGTACCCATAGGGTACTAGCC
Found at i:16814962 original size:45 final size:45
Alignment explanation
Indices: 16814898--16814987 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
16814888 TTCTGATATG
16814898 AAAGACCCCCCACACTTAAGATGTACATTGCCCTCAATGTACAAA
1 AAAGACCCCCCACACTTAAGATGTACATTGCCCTCAATGTACAAA
* *
16814943 AAAGACCCCTCAGACTTAAGATGTACATTGCCCTCAATGTACAAA
1 AAAGACCCCCCACACTTAAGATGTACATTGCCCTCAATGTACAAA
16814988 GGTAGATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (45 bp):
AAAGACCCCCCACACTTAAGATGTACATTGCCCTCAATGTACAAA
Found at i:16819766 original size:39 final size:40
Alignment explanation
Indices: 16819645--16819868 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
16819635 GCTACTCGTT
* *
16819645 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
16819685 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
16819725 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
16819764 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
16819803 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
16819844 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16819869 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 77 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:16819828 original size:118 final size:120
Alignment explanation
Indices: 16819645--16819868 Score: 305
Period size: 118 Copynumber: 1.9 Consensus size: 120
16819635 GCTACTCGTT
*
16819645 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
16819710 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCACA
* * **
16819764 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
16819826 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
16819869 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
117 4 0.04
118 55 0.60
119 33 0.36
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACA
Found at i:16833288 original size:35 final size:35
Alignment explanation
Indices: 16833229--16833352 Score: 149
Period size: 35 Copynumber: 3.5 Consensus size: 35
16833219 TCTAAATGAC
* * * * *
16833229 CTTGTATATTTGGCTACATGTGATGTTTTATTGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
*
16833264 CTTGTATATTCGGCCATATATGATGATATATTGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
* *
16833299 CTTGTATATTCGGCCATATGTGATGACATAATGAA
1 CTTGTATATTCGGCCATATGTGATGATATATTGAA
* *
16833334 CCTTGTGTATTTGGCCATA
1 -CTTGTATATTCGGCCATA
16833353 CAAGTAAGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 61 0.79
36 16 0.21
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (35 bp):
CTTGTATATTCGGCCATATGTGATGATATATTGAA
Found at i:16841124 original size:18 final size:19
Alignment explanation
Indices: 16841101--16841137 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16841091 GTTGTTCGCT
16841101 TCTCCCAC-GCCCGTGTGG
1 TCTCCCACAGCCCGTGTGG
16841119 TCTCCCACATGCCCGTGTG
1 TCTCCCACA-GCCCGTGTG
16841138 TCTGAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (19 bp):
TCTCCCACAGCCCGTGTGG
Found at i:16842803 original size:37 final size:37
Alignment explanation
Indices: 16842739--16842847 Score: 157
Period size: 37 Copynumber: 2.9 Consensus size: 37
16842729 AGCTCAGACG
* * * *
16842739 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
16842776 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
*
16842813 TAATCTCCACACGTAGTCATC-AGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGA-GTCTTACCCGGA
16842848 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.02
37 65 0.98
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
Found at i:16843051 original size:50 final size:50
Alignment explanation
Indices: 16842997--16843180 Score: 277
Period size: 50 Copynumber: 3.7 Consensus size: 50
16842987 CATCGCCTAC
*
16842997 ATATTTCACACTAG-CCATTCAGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATAT
*
16843047 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
* * *
16843097 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
16843145 ATATTTCACATTAG-CCATTCGGCTTTACCACATATA
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATA
16843181 TACATGTTCA
Statistics
Matches: 126, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
48 34 0.27
49 4 0.03
50 88 0.70
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (50 bp):
ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:16843243 original size:47 final size:47
Alignment explanation
Indices: 16843151--16843296 Score: 166
Period size: 47 Copynumber: 3.1 Consensus size: 47
16843141 ATACATATTT
* * * * *
16843151 CACATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCAC
1 CACATTAGCCATTCGGCCTTATCACACATATACATGCTCACATTCAC
* * *
16843198 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTAGCCATTCGGCCTTATCACACATATACATGCTCACATTCAC
* * *** *
16843245 CACATTAGCCATTCGGCCTTATCTCATATATACACATTCACATTCAT
1 CACATTAGCCATTCGGCCTTATCACACATATACATGCTCACATTCAC
16843292 CACAT
1 CACAT
16843297 AAAATCCTAA
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CACATTAGCCATTCGGCCTTATCACACATATACATGCTCACATTCAC
Found at i:16843273 original size:94 final size:94
Alignment explanation
Indices: 16843103--16843296 Score: 232
Period size: 94 Copynumber: 2.1 Consensus size: 94
16843093 ATATATATTT
* * *
16843103 CACATTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGC
1 CACATTGACCATTCGGCCTTACCACATATGCATAGCTCA-ACATATATCACATTAGCCATTCGGC
* ** *
16843168 TTTACCACATATATACATGTTCATATTCAC
65 CTTACCACATATATACACATTCACATTCAC
*
16843198 CACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-ACAT-TCATCACATTAGCCATTCG
1 CACATTGACCATTCGGCCTTA-C-CACATATGCATAGCTCAACATAT-ATCACATTAGCCATTCG
* * *
16843260 GCCTTATCTCATATATACACATTCACATTCAT
63 GCCTTACCACATATATACACATTCACATTCAC
16843292 CACAT
1 CACAT
16843297 AAAATCCTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
93 1 0.01
94 50 0.59
95 19 0.22
96 4 0.05
97 11 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CACATTGACCATTCGGCCTTACCACATATGCATAGCTCAACATATATCACATTAGCCATTCGGCC
TTACCACATATATACACATTCACATTCAC
Found at i:16856000 original size:9 final size:9
Alignment explanation
Indices: 16855988--16856013 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16855978 TTCACTACTT
16855988 CACAAAATA
1 CACAAAATA
16855997 CACAAAATA
1 CACAAAATA
16856006 CACAAAAT
1 CACAAAAT
16856014 TTGCTTGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
CACAAAATA
Found at i:16867531 original size:18 final size:18
Alignment explanation
Indices: 16867494--16867550 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
16867484 AGCCATTCGG
* * *
16867494 CACAACTGTGTGGACTGA
1 CACAGCTGTGTGCACCGA
* *
16867512 CATAGTTGTGTGCACCGA
1 CACAGCTGTGTGCACCGA
* *
16867530 CACGGCTGTGTGCACCCA
1 CACAGCTGTGTGCACCGA
16867548 CAC
1 CAC
16867551 GCCCAAGGAA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (18 bp):
CACAGCTGTGTGCACCGA
Found at i:16880439 original size:46 final size:46
Alignment explanation
Indices: 16880306--16880572 Score: 179
Period size: 46 Copynumber: 5.7 Consensus size: 46
16880296 GTAAAGTGCT
* * * * * *
16880306 GATGCCATATCCCAGGCATGGTCTTACACAAGCTCTAGCATATCTATGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TA-CATCTCGAGGCC
* * *
16880356 GATCCCATGTCCTAGACATGGTCTTACACT-GAC--ACATCTTGTA-GCC
1 GAT-GCATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTCG-AGGCC
* *
16880402 GATGGATGTCCCAGACTTGTCTTACACTAGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
* * * **
16880448 GATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATACC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTCGAGGCC
* * * *
16880494 GATGACACGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGAGGCC
*
16880542 GATGCATGTCCTAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
16880573 CAACAGTAAC
Statistics
Matches: 173, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
44 11 0.06
45 13 0.08
46 73 0.42
47 28 0.16
48 21 0.12
49 2 0.01
50 25 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
Found at i:16880906 original size:30 final size:30
Alignment explanation
Indices: 16880872--16880931 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16880862 AATAATTCAT
*
16880872 ACTTTGGA-AAAATGACCAATTTGCCCCTAG
1 ACTTT-GACAAAATGACCAATTTACCCCTAG
* *
16880902 ACTTTGACAAAATGATCATTTTACCCCTAG
1 ACTTTGACAAAATGACCAATTTACCCCTAG
16880932 GTTCGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (30 bp):
ACTTTGACAAAATGACCAATTTACCCCTAG
Found at i:16882290 original size:37 final size:37
Alignment explanation
Indices: 16882240--16882313 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
16882230 GTGTAAGACC
*
16882240 ATATTTGGGATATGGCATCTATATGAGACTTCGTGTA
1 ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
*
16882277 ATATTTGGGATATGGCATCGATATGAGATTTCGTGTA
1 ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
16882314 CGACCATAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.38
Consensus pattern (37 bp):
ATATTTGGGATATGGCATCGATATGAGACTTCGTGTA
Found at i:16883755 original size:41 final size:41
Alignment explanation
Indices: 16883698--16883780 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
16883688 ACAAGTAAGG
16883698 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTGGTCCACAC
1 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTGGTCCACAC
* *
16883739 GTGGCGAAATGGCTTGGTAAATAGCCTTTTTTTGTCCACAC
1 GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTGGTCCACAC
16883780 G
1 G
16883781 GGTAGACACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (41 bp):
GTGGCAAAATGGCTTGGTAAATAGCCTTTTTTGGTCCACAC
Found at i:16901787 original size:21 final size:22
Alignment explanation
Indices: 16901749--16901789 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16901739 ATAGATATAA
**
16901749 TTATATATTAAAGGTTATCATC
1 TTATATATTAAAACTTATCATC
16901771 TTAT-TATTAAAACTTATCA
1 TTATATATTAAAACTTATCA
16901790 AACAAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (22 bp):
TTATATATTAAAACTTATCATC
Found at i:16911890 original size:25 final size:25
Alignment explanation
Indices: 16911859--16911909 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16911849 AGGGTAAACT
16911859 ACACAAATCATCATTCAAATTTTAA
1 ACACAAATCATCATTCAAATTTTAA
16911884 ACACAAATCATCATTCAAATTTTAA
1 ACACAAATCATCATTCAAATTTTAA
16911909 A
1 A
16911910 AGTTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (25 bp):
ACACAAATCATCATTCAAATTTTAA
Found at i:16911962 original size:63 final size:63
Alignment explanation
Indices: 16911889--16912019 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
16911879 TTTAAACACA
16911889 AATCATCATTCAAATTTTAAAAGTTTTTATTTTAAGCTCCAGAAGAACAAAAAAGATTGAATT
1 AATCATCATTCAAATTTTAAAAGTTTTTATTTTAAGCTCCAGAAGAACAAAAAAGATTGAATT
16911952 AATCATCATTCAAATTTTAAAAGTTTTTATTTTAAGCTCCAGAAGAACAAAAAAGATTGAATT
1 AATCATCATTCAAATTTTAAAAGTTTTTATTTTAAGCTCCAGAAGAACAAAAAAGATTGAATT
16912015 AATCA
1 AATCA
16912020 AAGACAAGGC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (63 bp):
AATCATCATTCAAATTTTAAAAGTTTTTATTTTAAGCTCCAGAAGAACAAAAAAGATTGAATT
Found at i:16912347 original size:23 final size:24
Alignment explanation
Indices: 16912303--16912348 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
16912293 ATTAATGTGG
**
16912303 GTGTTTAAATTATAAATTTTTTTTA
1 GTGTTTAAA-TATAAAAATTTTTTA
16912328 GTGTTTAAA-ATAAAAATTTTT
1 GTGTTTAAATATAAAAATTTTT
16912349 AAAAGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
25 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (24 bp):
GTGTTTAAATATAAAAATTTTTTA
Found at i:16919031 original size:22 final size:23
Alignment explanation
Indices: 16919005--16919050 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16918995 CAACGAAACC
16919005 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16919027 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16919050 A
1 A
16919051 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:16919056 original size:23 final size:23
Alignment explanation
Indices: 16919012--16919056 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16919002 ACCAATTCAA
*
16919012 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16919035 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16919057 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:16924354 original size:48 final size:48
Alignment explanation
Indices: 16924289--16924687 Score: 575
Period size: 48 Copynumber: 8.1 Consensus size: 48
16924279 ACTGAAATTG
* *
16924289 ATGTATAAGATATGTATATATGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
16924337 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
16924385 ATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGCGAAATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-AT
* * * *
16924437 ATATATGAGATATGTATATGTGGTAAAGCTGATTGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
16924487 ACATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 --ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
16924537 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* *
16924587 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
16924635 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
16924683 ATGTA
1 ATGTA
16924688 GGCGATGTGT
Statistics
Matches: 324, Mismatches: 17, Indels: 20
0.90 0.05 0.06
Matches are distributed among these distances:
47 1 0.00
48 182 0.56
49 4 0.01
50 48 0.15
51 6 0.02
52 83 0.26
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:16924525 original size:152 final size:146
Alignment explanation
Indices: 16924296--16924687 Score: 624
Period size: 152 Copynumber: 2.6 Consensus size: 146
16924286 TTGATGTATA
*
16924296 AGATATGTATATATGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
16924361 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCTGAATGG-CTAA
66 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AA
16924425 TGCGAAATATATATATATG
130 TGCG-AA-ATATATATATG
* * * *
16924444 AGATATGTATATGTGGTAAAGCTGATTGGTTAATGTGAAATATACATATATGAGATATGTATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT--ATGTATGAGATATGTATATG
16924509 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGT
62 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGT
*
16924574 CAATGTGAAATATATATATG
127 CAATGCGAAATATATATATG
*
16924594 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
16924659 AAAGCCGAATGGCTAGTGTGAAATATGTA
66 AAAGCCGAATGGCTAATGTGAAATATGTA
16924688 GGCGATGTGT
Statistics
Matches: 225, Mismatches: 14, Indels: 12
0.90 0.06 0.05
Matches are distributed among these distances:
146 51 0.23
148 35 0.16
149 4 0.02
150 46 0.20
151 2 0.01
152 86 0.38
153 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (146 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAAT
GCGAAATATATATATG
Found at i:16924703 original size:98 final size:98
Alignment explanation
Indices: 16924296--16924684 Score: 595
Period size: 98 Copynumber: 3.9 Consensus size: 98
16924286 TTGATGTATA
*
16924296 AGATATGTATATATGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
16924361 AAAGCCGAATGGCTAATGTG-AA-ATATGTATG
66 AAAGCCGAATGGCTAATGTGAAATATATATATG
* * *
16924392 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGCGAAATATATATATATGAGATATGTATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATATG
* * *
16924457 TGGTAAAGCTGATTGGTTAATGTGAAATATACATATATG
62 TGGTAAAGCCGAATGGCTAATGTGAAATAT--ATATATG
*
16924496 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
16924561 AAAGCCGAATGG-TCAATGTGAAATATATATATG
66 AAAGCCGAATGGCT-AATGTGAAATATATATATG
*
16924594 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
16924659 AAAGCCGAATGGCTAGTGTGAAATAT
66 AAAGCCGAATGGCTAATGTGAAATAT
16924685 GTAGGCGATG
Statistics
Matches: 266, Mismatches: 17, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
96 34 0.13
98 94 0.35
99 3 0.01
100 88 0.33
101 3 0.01
102 3 0.01
104 41 0.15
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (98 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATATATATG
Found at i:16924942 original size:37 final size:37
Alignment explanation
Indices: 16924834--16924942 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
16924824 GGAAATATAT
*
16924834 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
16924871 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
16924908 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
16924943 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:16926323 original size:16 final size:15
Alignment explanation
Indices: 16926304--16926335 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
16926294 TCGTTTTTTA
16926304 TTTTTATTTTAATATT
1 TTTTTATTTTAA-ATT
16926320 TTTTTATTTTAAATT
1 TTTTTATTTTAAATT
16926335 T
1 T
16926336 AATTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTAAATT
Found at i:16926325 original size:22 final size:21
Alignment explanation
Indices: 16926297--16926342 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
16926287 AATTTTGTCG
* *
16926297 TTTTTTATTTTTATTTTAATAT
1 TTTTTTATTTTAAATTTAAT-T
16926319 TTTTTTATTTTAAATTTAATT
1 TTTTTTATTTTAAATTTAATT
16926340 TTT
1 TTT
16926343 ATATTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTATTTTAAATTTAATT
Found at i:16929147 original size:14 final size:15
Alignment explanation
Indices: 16929128--16929164 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
16929118 CTGAGTGTTT
16929128 TTTATTTTTATTT-A
1 TTTATTTTTATTTCA
16929142 TTTA-TTTTATTTCA
1 TTTATTTTTATTTCA
16929156 TTT-TTTTTA
1 TTTATTTTTA
16929165 AATGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTATTTCA
Found at i:16929258 original size:12 final size:11
Alignment explanation
Indices: 16929241--16929283 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
16929231 AAAATATTTG
16929241 AAAAAAATAAA
1 AAAAAAATAAA
16929252 AATAAAAATGAAA
1 AA-AAAAAT-AAA
*
16929265 AAAATAATAAA
1 AAAAAAATAAA
16929276 AGAAAAAA
1 A-AAAAAA
16929284 AGTGAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 6 0.22
12 16 0.59
13 5 0.19
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:16929267 original size:15 final size:16
Alignment explanation
Indices: 16929249--16929284 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16929239 TGAAAAAAAT
*
16929249 AAAAATAA-AAATGAA
1 AAAAATAATAAAAGAA
16929264 AAAAATAATAAAAGAA
1 AAAAATAATAAAAGAA
16929280 AAAAA
1 AAAAA
16929285 GTGAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAAATAATAAAAGAA
Found at i:16929273 original size:24 final size:26
Alignment explanation
Indices: 16929240--16929297 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
16929230 TAAAATATTT
*
16929240 GAAAAAAATAAAA-ATAAAAA-TGAA
1 GAAAAAAATAAAAGAAAAAAAGTGAA
16929264 -AAAAATAATAAAAGAAAAAAAGTGAA
1 GAAAAA-AATAAAAGAAAAAAAGTGAA
16929290 GAAAAAAA
1 GAAAAAAA
16929298 GCGGTCCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 5 0.17
24 7 0.24
25 6 0.21
26 6 0.21
27 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (26 bp):
GAAAAAAATAAAAGAAAAAAAGTGAA
Found at i:16955249 original size:13 final size:13
Alignment explanation
Indices: 16955231--16955255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16955221 TATGTTATAT
16955231 GTGTGAAAATTTC
1 GTGTGAAAATTTC
16955244 GTGTGAAAATTT
1 GTGTGAAAATTT
16955256 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:16959454 original size:26 final size:26
Alignment explanation
Indices: 16959418--16959468 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
16959408 TCTTGAGCAT
*
16959418 GGTTGATGGGTACGGGCGTGTCGCAC
1 GGTTGATGGGTACGGGCATGTCGCAC
16959444 GGTTGATGGGTACGGGCATGTCGCA
1 GGTTGATGGGTACGGGCATGTCGCA
16959469 TGCCCGTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.14, C:0.18, G:0.45, T:0.24
Consensus pattern (26 bp):
GGTTGATGGGTACGGGCATGTCGCAC
Found at i:16962730 original size:48 final size:48
Alignment explanation
Indices: 16962671--16962767 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
16962661 ATACGTGATA
16962671 TTCGTGACATGTTTTAAAAATCTATAATTAATCGTTCTTGAAACTAAC
1 TTCGTGACATGTTTTAAAAATCTATAATTAATCGTTCTTGAAACTAAC
16962719 TTCGTGACATGTTTTAAAAATCTATAATTAATCGTTCTTGAAACTAAC
1 TTCGTGACATGTTTTAAAAATCTATAATTAATCGTTCTTGAAACTAAC
16962767 T
1 T
16962768 ATTATCACGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (48 bp):
TTCGTGACATGTTTTAAAAATCTATAATTAATCGTTCTTGAAACTAAC
Found at i:16964728 original size:25 final size:24
Alignment explanation
Indices: 16964700--16964746 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16964690 AAATATAACA
*
16964700 TAAAAGAAATAAAACAAATGAAACG
1 TAAAAGAAATAAAA-AAAGGAAACG
*
16964725 TAAAAGAAGTAAAAAAAGGAAA
1 TAAAAGAAATAAAAAAAGGAAA
16964747 GAAAGTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (24 bp):
TAAAAGAAATAAAAAAAGGAAACG
Found at i:16965799 original size:39 final size:40
Alignment explanation
Indices: 16965692--16965802 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
16965682 GACCTTGAGT
* **
16965692 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGAGC
** ** *
16965733 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
16965771 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
16965803 AACTATTCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
41 15 0.27
42 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:16965814 original size:39 final size:39
Alignment explanation
Indices: 16965691--16965826 Score: 100
Period size: 39 Copynumber: 3.5 Consensus size: 39
16965681 CGACCTTGAG
* *
16965691 TCGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATA-GAT
1 TCGATGAGACACTGGGTGTCAACT--ATTACTTC-GA-ACTAT
** ** * *
16965732 TCGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGG
1 TCGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-T
*
16965770 CCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
1 TCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
* *
16965809 TCGATGAGGCATTGGGTG
1 TCGATGAGACACTGGGTG
16965827 CCATATTGGT
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 29 0.40
40 3 0.04
41 16 0.22
42 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAACTATTACTTCGAACTAT
Found at i:16965956 original size:18 final size:18
Alignment explanation
Indices: 16965933--16965972 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16965923 ATAAAAAAAG
16965933 GAAATT-GAATTATGAATA
1 GAAATTGGAATTATG-ATA
*
16965951 GAAATTGGAATTGTGATA
1 GAAATTGGAATTATGATA
16965969 GAAA
1 GAAA
16965973 GAGAAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
GAAATTGGAATTATGATA
Found at i:16972250 original size:25 final size:24
Alignment explanation
Indices: 16972222--16972268 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16972212 AAATATAACA
*
16972222 TAAAAGAAATAAAACAAATGAAATG
1 TAAAAGAAATAAAA-AAAGGAAATG
*
16972247 TAAAAGAAGTAAAAAAAGGAAA
1 TAAAAGAAATAAAAAAAGGAAA
16972269 GAAAGTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.70, C:0.02, G:0.15, T:0.13
Consensus pattern (24 bp):
TAAAAGAAATAAAAAAAGGAAATG
Found at i:16973315 original size:39 final size:40
Alignment explanation
Indices: 16973208--16973318 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
16973198 GACCTTGAGT
* **
16973208 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGAGC
** ** *
16973249 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
16973287 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
16973319 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
41 15 0.27
42 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:16973329 original size:39 final size:39
Alignment explanation
Indices: 16973208--16973342 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
16973198 GACCTTGAGT
* * *
16973208 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTC-GA-ACTATC
** ** * *
16973249 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
16973287 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
* *
16973326 CGATGAGGCATTGGGTG
1 CGATGAGACACTGGGTG
16973343 CCATATTGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 30 0.42
40 3 0.04
41 15 0.21
42 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:16973468 original size:18 final size:18
Alignment explanation
Indices: 16973445--16973485 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16973435 AATAAAAAAA
16973445 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
16973463 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
16973481 AGAAA
1 AGAAA
16973486 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:16974919 original size:34 final size:34
Alignment explanation
Indices: 16974862--16974957 Score: 133
Period size: 34 Copynumber: 2.8 Consensus size: 34
16974852 AATTCGATTA
*
16974862 TATATAT-TAATAGTGCCGAATTGAATTATTATTTG
1 TATATATGT-ATA-TGCTGAATTGAATTATTATTTG
*
16974897 TATATATGTATATGCTGAATTGAATTATTATTTT
1 TATATATGTATATGCTGAATTGAATTATTATTTG
16974931 TATATATGTATATG-TCGAATTGAATTA
1 TATATATGTATATGCT-GAATTGAATTA
16974958 AGCATGGGAG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
33 1 0.02
34 45 0.79
35 10 0.18
36 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (34 bp):
TATATATGTATATGCTGAATTGAATTATTATTTG
Found at i:16975141 original size:44 final size:43
Alignment explanation
Indices: 16975065--16975228 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
16975055 CATAGGATTC
* * *
16975065 CGATATGTGATTTCGTGTAAGACCATTTCTGGGACGTTGGCAT
1 CGATATGTGATTTCGTGTAAGACCATGTCTGGGACATCGGCAT
* * **
16975108 CGATTTGTTATTTACGTGTAAGTTCATGTCTGGGACATCGGCAT
1 CGATATGTGATTT-CGTGTAAGACCATGTCTGGGACATCGGCAT
* * * * *
16975152 CG-TATATGAGTTCGTATAAGACCCTGTATGGGACAGT-GGCAT
1 CGATATGTGATTTCGTGTAAGACCATGTCTGGGACA-TCGGCAT
* * **
16975194 CGATATGTGATTACATGTAAGACCACATCTGGGAC
1 CGATATGTGATTTCGTGTAAGACCATGTCTGGGAC
16975229 GTTGGCATTG
Statistics
Matches: 93, Mismatches: 25, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 25 0.27
43 41 0.44
44 27 0.29
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
CGATATGTGATTTCGTGTAAGACCATGTCTGGGACATCGGCAT
Found at i:16989354 original size:47 final size:47
Alignment explanation
Indices: 16989301--16989923 Score: 1005
Period size: 47 Copynumber: 13.3 Consensus size: 47
16989291 ACAAGATATG
16989301 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16989348 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16989395 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16989442 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16989489 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16989536 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16989583 TATATGTGATAAGG-CGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
16989629 TATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16989676 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16989723 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
16989770 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATGTG
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
16989817 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16989864 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16989911 TAAATGTGATAAG
1 TATATGTGATAAG
16989924 TCCCGAAGGG
Statistics
Matches: 528, Mismatches: 47, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
46 43 0.08
47 485 0.92
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:16989682 original size:25 final size:25
Alignment explanation
Indices: 16989654--16989731 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
16989644 CTAATGGCCG
16989654 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
16989679 ATGTGAT-AAAGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
16989701 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
16989726 ATGTGA
1 ATGTGA
16989732 CAAGGCCTAA
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:16991257 original size:26 final size:27
Alignment explanation
Indices: 16991184--16991273 Score: 121
Period size: 27 Copynumber: 3.3 Consensus size: 27
16991174 TTTAGTTTAC
*
16991184 TAAAATTACCGAAATACCCTT-AGTTTG
1 TAAAATTACTGAAATACCCTTGA-TTTG
*
16991211 TAAAAATACTGAAATACCCTTGATTTG
1 TAAAATTACTGAAATACCCTTGATTTG
*
16991238 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTT-GATTTG
16991265 TAAAATTAC
1 TAAAATTAC
16991274 CAAAGTACCC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.07
27 52 0.91
28 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTTGATTTG
Found at i:16991290 original size:54 final size:54
Alignment explanation
Indices: 16991179--16991302 Score: 126
Period size: 54 Copynumber: 2.3 Consensus size: 54
16991169 AATACTTTAG
* * **
16991179 TTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTTGA
1 TTTA-TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGA
* * * *
16991234 TTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGA
1 TTTATAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGA
*
16991288 TTTATAGAATTACCG
1 TTTATAAAATTACCG
16991303 TTTTACCCCC
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
53 8 0.14
54 45 0.80
55 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTATAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGA
Found at i:16991309 original size:27 final size:27
Alignment explanation
Indices: 16991279--16991489 Score: 244
Period size: 27 Copynumber: 7.8 Consensus size: 27
16991269 ATTACCAAAG
* *
16991279 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
16991306 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
16991333 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
16991360 TACCCTCGACTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
16991387 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
16991414 TACGCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
16991441 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
16991468 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
16991490 TAAAATACCT
Statistics
Matches: 160, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 158 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:16991491 original size:54 final size:54
Alignment explanation
Indices: 16991286--16991489 Score: 273
Period size: 54 Copynumber: 3.8 Consensus size: 54
16991276 AAGTACCCCC
* * * * * *
16991286 GATTTATAGAATTACCGTTTTACCCCCAATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTT
* * *
16991340 GATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTT
* * *
16991394 GATTTACAGAATTACCGTTTTACGCTCGATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTT
** *
16991448 GATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC
16991490 TAAAATACCT
Statistics
Matches: 130, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 130 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (54 bp):
GATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTT
Found at i:16991498 original size:27 final size:27
Alignment explanation
Indices: 16991441--16991688 Score: 139
Period size: 27 Copynumber: 9.1 Consensus size: 27
16991431 ATTACTATTT
* ***
16991441 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
16991468 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* **
16991495 TACCTTTTG-TTTGTAAAATTA-TCAAAA
1 TACC-CTTGATTTACAAAATTACT-AAAA
* ** *
16991522 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACTAAAA
* *** **
16991549 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
16991576 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *
16991603 TACCCCTGATTTACAAAGTTAC-AAAA
1 TACCCTTGATTTACAAAATTACTAAAA
16991629 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * * *
16991658 TATCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
16991685 TACC
1 TACC
16991689 TTTGGTTTGT
Statistics
Matches: 176, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
26 15 0.09
27 138 0.78
28 13 0.07
29 10 0.06
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:16991526 original size:54 final size:54
Alignment explanation
Indices: 16991468--16991634 Score: 167
Period size: 54 Copynumber: 3.1 Consensus size: 54
16991458 ATTACTATTT
* ** * * * *
16991468 TACCCTCGATTTACAAAATTACTAAAATACCTTTTGTTTGTAAAATTATCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
16991522 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * ** *
16991576 TACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
16991629 TACCCT
1 TACCCT
16991635 TGACTTTCTA
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
53 11 0.12
54 81 0.88
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:16991553 original size:81 final size:80
Alignment explanation
Indices: 16991468--16991634 Score: 185
Period size: 81 Copynumber: 2.1 Consensus size: 80
16991458 ATTACTATTT
* * ** * *
16991468 TACCCTCGATTTACAAAATTACTAAAATACCTTTTGTTTGTAAAATTATCAAAATACCCCTAGTT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCT-GAT
16991533 TGTA-AAA-TTACCAAAA
65 T-TACAAAGTTA-CAAAA
* * *** *
16991549 TACCCTTGGTTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATT
16991614 TACAAAGTTACAAAA
66 TACAAAGTTACAAAA
16991629 TACCCT
1 TACCCT
16991635 TGACTTTCTA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
79 2 0.03
80 17 0.24
81 53 0.74
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATT
TACAAAGTTACAAAA
Found at i:16991780 original size:27 final size:27
Alignment explanation
Indices: 16991750--16991814 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
16991740 ACCCTTATTA
*
16991750 GGTAAAGTGACCGTACA-GCCCCTGTAG
1 GGTAAAGTGACCGTA-ATACCCCTGTAG
*
16991777 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAGTGACCGTAATACCCCTGTAG
*
16991804 GGTAAAATGAC
1 GGTAAAGTGAC
16991815 GAATATGCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTAAAGTGACCGTAATACCCCTGTAG
Found at i:16993071 original size:9 final size:9
Alignment explanation
Indices: 16993059--16993115 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
16993049 TTTGATAAAC
16993059 ATGATATGT
1 ATGATATGT
*
16993068 ATGATATGAAC
1 ATGATATG--T
*
16993079 ATGACATGT
1 ATGATATGT
*
16993088 ATGATATGCAC
1 ATGATATG--T
16993099 ATGATATGT
1 ATGATATGT
16993108 ATGATATG
1 ATGATATG
16993116 AACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:16993081 original size:20 final size:20
Alignment explanation
Indices: 16993056--16993127 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
16993046 GATTTTGATA
16993056 AACATGATATGTATGATATG
1 AACATGATATGTATGATATG
*
16993076 AACATGACATGTATGATATG
1 AACATGATATGTATGATATG
*
16993096 CACATGATATGTATGATATG
1 AACATGATATGTATGATATG
*
16993116 AACATGAGATGT
1 AACATGATATGT
16993128 TCATAAATGC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (20 bp):
AACATGATATGTATGATATG
Found at i:16993229 original size:24 final size:24
Alignment explanation
Indices: 16993172--16993311 Score: 230
Period size: 24 Copynumber: 5.9 Consensus size: 24
16993162 GGAGGAAGTG
16993172 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
16993196 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
16993219 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
16993243 CAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
16993267 C-AAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
16993290 TAAAAGGGCTTTTGCCCCAGTT
1 CAAAAGGGCTTATGCCCCAGTT
16993312 CTTAAAAGAG
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 43 0.40
24 65 0.60
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:16993241 original size:47 final size:47
Alignment explanation
Indices: 16993172--16993311 Score: 228
Period size: 47 Copynumber: 3.0 Consensus size: 47
16993162 GGAGGAAGTG
16993172 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
16993219 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
16993267 C-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTT
16993312 CTTAAAAGAG
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 64 0.74
48 22 0.26
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:16993319 original size:71 final size:71
Alignment explanation
Indices: 16993172--16993311 Score: 244
Period size: 71 Copynumber: 2.0 Consensus size: 71
16993162 GGAGGAAGTG
* *
16993172 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
16993237 AGTTAT
66 AGTTAT
* *
16993243 CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
16993308 AGTT
66 AGTT
16993312 CTTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:16993567 original size:31 final size:31
Alignment explanation
Indices: 16993532--16993595 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
16993522 CGTTTACAGT
*
16993532 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
16993563 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
16993594 AA
1 AA
16993596 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:16995353 original size:15 final size:15
Alignment explanation
Indices: 16995335--16995372 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
16995325 CACCCCGAAT
16995335 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
16995350 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
16995365 TTGGGCCT
1 TTGGGCCT
16995373 TGAGTGTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (15 bp):
TTGGGCCTAGAAGTA
Found at i:16996384 original size:27 final size:27
Alignment explanation
Indices: 16996331--16996437 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 27
16996321 TTTAGTTTAC
* *
16996331 TAAAATTACCGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
* *
16996358 AAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * * *
16996385 TAAGATTACTAAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
16996412 TAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACTGAAA-TACCCTCGATTT
16996438 ACAGAATTAC
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 3 0.05
27 59 0.94
28 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:16996638 original size:27 final size:27
Alignment explanation
Indices: 16996426--16996637 Score: 273
Period size: 27 Copynumber: 7.9 Consensus size: 27
16996416 ATTACCAAAG
*
16996426 TACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
16996453 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
16996480 TACCC-CTGATTTACATAATTATTGTTT
1 TACCCTC-GATTTACAGAATTACTGTTT
* *
16996507 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
16996534 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
16996561 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
16996588 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
16996615 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
16996638 AAAATACCCT
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 161 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:16996645 original size:27 final size:27
Alignment explanation
Indices: 16996359--16996836 Score: 115
Period size: 27 Copynumber: 17.6 Consensus size: 27
16996349 CTTAGTTTGA
* * **
16996359 AAAAATACTGAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * * **
16996386 AAGATTACTAAAATACCTTCGACTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * *
16996413 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* **** *
16996440 AGAATTACTGTTTTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* *****
16996467 ATAATTACCGTTTTACCC-CTGATTTAC
1 AAAATTACTAAAATACCCTC-GATTTAC
* * **** *
16996494 ATAATTATTGTTTTACCCTCGACTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ***** *
16996521 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* * *** *
16996548 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTCGATTTAC
* **** *
16996575 AGAATTACTGTTTTACCCTTGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ***
16996602 AGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* **
16996629 AAAATTACTAAAATACCCTTTG-TTTGT
1 AAAATTACTAAAATACCC-TCGATTTAC
* * **
16996656 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACTAAAATACCCTCGA-TTTAC
* * * **
16996683 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* ** * **
16996710 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
*
16996737 AAAATTACCAAAATACCC-CTGATTTAC
1 AAAATTACTAAAATACCCTC-GATTTAC
* *
16996764 AAAGTTAC-AGAAATACCCTTGACTTT-C
1 AAAATTACTA-AAATACCCTCGA-TTTAC
* * *
16996791 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCCTCGATTTAC
*
16996820 AAAATTACTGAAATACC
1 AAAATTACTAAAATACC
16996837 TTTGGTTTGT
Statistics
Matches: 369, Mismatches: 67, Indels: 30
0.79 0.14 0.06
Matches are distributed among these distances:
26 3 0.01
27 337 0.91
28 10 0.03
29 19 0.05
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTAC
Found at i:16996662 original size:54 final size:54
Alignment explanation
Indices: 16996550--16996754 Score: 157
Period size: 54 Copynumber: 3.8 Consensus size: 54
16996540 TGATTTACAG
* **** *
16996550 AATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCC-TTGATT-TACA
1 AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTTGTTTGTA-A
* *
16996603 GAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTTGTTTGTAA
1 -AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTTGTTTGTAA
*** * * * * *
16996658 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGA
1 AATTACCATTTTACCCTCGA-TTTATAAAATTACTAAAATACCCTTTGTTTGTAA
** * * *
16996712 AATTACCGA-AATACCCTCAATTTGTAAAATTACCAAAATACCC
1 AATTACC-ATTTTACCCTCGATTTATAAAATTACTAAAATACCC
16996755 CTGATTTACA
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 114 0.90
55 9 0.07
56 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTTGTTTGTAA
Found at i:16996662 original size:81 final size:79
Alignment explanation
Indices: 16996426--16996663 Score: 251
Period size: 81 Copynumber: 2.9 Consensus size: 79
16996416 ATTACCAAAG
* * * * * *
16996426 TACCCCCGATTTACAGAATTACTGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGTTT
*
16996491 TACATAATTATTGTTT
66 TA-A-AATTACTGTTT
* * * * *
16996507 TACCCTCGACTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTTG-TT
*
16996572 TATAGAATTACTGTTT
65 T-TAAAATTACTGTTT
* * * ***
16996588 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTTGTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCC-TTGTT
16996653 TGTAAAATTAC
65 T-TAAAATTAC
16996664 CAAAATACCC
Statistics
Matches: 129, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
81 123 0.95
82 4 0.03
83 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (79 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGTTT
TAAAATTACTGTTT
Found at i:16996841 original size:27 final size:27
Alignment explanation
Indices: 16996628--16996867 Score: 162
Period size: 27 Copynumber: 8.8 Consensus size: 27
16996618 CCTCGATTTA
* *
16996628 CAAAATTACTAAAATACCCTTTGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * *
16996655 TAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
*
16996682 TAAAATTACCAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
** * ***
16996709 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * * *
16996736 TAAAATTACCAAAATACCCCTGATTTA
1 CAAAATTACCAAAATACCCTTGGTTTG
* *
16996763 CAAAGTTA-CAGAAATACCCTTGACTTT-
1 CAAAATTACCA-AAATACCCTTG-GTTTG
* * *
16996790 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACCA-AAATACCCTTGGTTTG
** *
16996819 CAAAATTACTGAAATACCTTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * * *
16996846 TAGATTTACCAAAACACCCTTG
1 CAAAATTACCAAAATACCCTTG
16996868 TAGGATGAAA
Statistics
Matches: 172, Mismatches: 35, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 144 0.84
28 7 0.04
29 19 0.11
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTTGGTTTG
Found at i:16996919 original size:27 final size:27
Alignment explanation
Indices: 16996898--16996962 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
16996888 ACCCCTATTA
16996898 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
*
16996925 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAGTGACCGTAA-AGCCCCTGTAG
*
16996952 GGTAAAATGAC
1 GGTAAAGTGAC
16996963 GAATATGCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTAAAGTGACCGTAAAGCCCCTGTAG
Found at i:16997694 original size:16 final size:17
Alignment explanation
Indices: 16997665--16997699 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
16997655 TCATAAGCTT
16997665 AAAGCGATAAATGCCGA
1 AAAGCGATAAATGCCGA
16997682 AAAGCGA-AAATGCCGA
1 AAAGCGATAAATGCCGA
16997698 AA
1 AA
16997700 TTCTGGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (17 bp):
AAAGCGATAAATGCCGA
Found at i:16998218 original size:9 final size:9
Alignment explanation
Indices: 16998206--16998262 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
16998196 TTTGATAAAC
16998206 ATGATATGT
1 ATGATATGT
*
16998215 ATGATATGCAC
1 ATGATATG--T
*
16998226 ATGACATGT
1 ATGATATGT
*
16998235 ATGATATGCAC
1 ATGATATG--T
16998246 ATGATATGT
1 ATGATATGT
16998255 ATGATATG
1 ATGATATG
16998263 AACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:16998229 original size:20 final size:20
Alignment explanation
Indices: 16998204--16998274 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
16998194 ATTTTGATAA
16998204 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
16998224 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
16998244 ACATGATATGTATGATATGA
1 ACATGATATGTATGATATGC
*
16998264 ACATGAGATGT
1 ACATGATATGT
16998275 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:16998376 original size:24 final size:24
Alignment explanation
Indices: 16998319--16998471 Score: 238
Period size: 24 Copynumber: 6.4 Consensus size: 24
16998309 GGAGGAAGTG
16998319 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
16998343 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
16998366 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
16998390 CAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
16998414 C-AAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
16998437 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
16998461 TAAAAGAGGCT
1 CAAAAG-GGCT
16998472 AGGCCTCCAG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
23 43 0.36
24 73 0.61
25 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:16998388 original size:47 final size:47
Alignment explanation
Indices: 16998319--16998471 Score: 236
Period size: 47 Copynumber: 3.2 Consensus size: 47
16998309 GGAGGAAGTG
16998319 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
16998366 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
16998414 C-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
*
16998461 TAAAAGAGGCT
1 CAAAAG-GGCT
16998472 AGGCCTCCAG
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
47 66 0.69
48 26 0.27
49 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:16998435 original size:71 final size:71
Alignment explanation
Indices: 16998319--16998471 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 71
16998309 GGAGGAAGTG
* *
16998319 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
16998384 AGTTAT
66 AGTTAT
* *
16998390 CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
16998455 AGTTAT
66 AGTTAT
*
16998461 TAAAAGAGGCT
1 CAAAAG-GGCT
16998472 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 72 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:16998708 original size:31 final size:31
Alignment explanation
Indices: 16998673--16998736 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
16998663 CGTTTAAAGT
*
16998673 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
16998704 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
16998735 AA
1 AA
16998737 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17001463 original size:46 final size:46
Alignment explanation
Indices: 17001413--17001585 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
17001403 TGGTTGAGCA
17001413 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17001459 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17001504 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17001552 -CCCAAGCTCGTTGAGTTGAGTTCAAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
17001586 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 55 0.51
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17001580 original size:93 final size:93
Alignment explanation
Indices: 17001410--17001580 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
17001400 GGATGGTTGA
* *
17001410 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
*
17001475 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
17001503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
*
17001567 TTGAGTTCAAGTTC
65 TTGAGTCCAAGTTC
17001581 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:17003952 original size:47 final size:45
Alignment explanation
Indices: 17003848--17003971 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 45
17003838 CTCGAGCCCG
*
17003848 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCT
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-CTCAATGCCA
*
17003894 ATGCCAAGTCCCAGACATGGTCTTACACTAGCTCTCG-T-AATGTGGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGCTCAA--T-GCCA
*
17003942 ATGCATGTCCCAGACATGTCTTACATTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
17003972 ACACAATTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
45 2 0.03
46 16 0.23
47 27 0.39
48 24 0.35
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGCTCAATGCCA
Found at i:17004688 original size:13 final size:13
Alignment explanation
Indices: 17004670--17004694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17004660 TTTAAAATGC
17004670 AAAAATCATCAAG
1 AAAAATCATCAAG
17004683 AAAAATCATCAA
1 AAAAATCATCAA
17004695 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:17029141 original size:30 final size:30
Alignment explanation
Indices: 17029105--17029164 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17029095 TCTTTAATAC
* *
17029105 AAACTTTGGAAAAATTATATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
17029135 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
17029165 GGGCTCGGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:17044284 original size:29 final size:29
Alignment explanation
Indices: 17044251--17044308 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
17044241 CACAGAGAAA
17044251 GAGCAAAAGGATGATACTTCCACCACAAC
1 GAGCAAAAGGATGATACTTCCACCACAAC
17044280 GAGCAAAAGGATGATACTTCCACCACAAC
1 GAGCAAAAGGATGATACTTCCACCACAAC
17044309 CGAGGAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.28, G:0.17, T:0.14
Consensus pattern (29 bp):
GAGCAAAAGGATGATACTTCCACCACAAC
Found at i:17052077 original size:50 final size:48
Alignment explanation
Indices: 17051962--17052090 Score: 158
Period size: 50 Copynumber: 2.7 Consensus size: 48
17051952 GATAATGTCA
*
17051962 ATGCCATGTCCCAGACATGGTCATACACTG--GCTCATCTATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATCTATC-AGTCG
*
17052009 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCA-CATATTC-GTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATC-TA-TCAGT-C-G
*
17052059 ATGCCATGTCCCAGACATGGTCTTACATTGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC
17052091 AATTTTGTAG
Statistics
Matches: 73, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
47 29 0.40
48 3 0.04
49 7 0.10
50 34 0.47
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATCTATCAGTCG
Found at i:17052174 original size:46 final size:47
Alignment explanation
Indices: 17052108--17052229 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 47
17052098 TAGCCATTGA
* * * *
17052108 ATGT-CCAGACATGTCTTACACTGGCT-TAGATCTCGATGCCGATG-C
1 ATGTCCCAGACAAGTCTTACACTAGCTCTAG-TCTCAATACCGATGCC
*
17052153 ATGTCCCAGACAAGTCTTACACTAGCTCTCGTCTCAATACCGATGCC
1 ATGTCCCAGACAAGTCTTACACTAGCTCTAGTCTCAATACCGATGCC
* *
17052200 ATGTCCCAGACATGGTCTTACACTTGCTCT
1 ATGTCCCAGACA-AGTCTTACACTAGCTCT
17052230 CGTAATTTGG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 4 0.06
46 32 0.48
47 15 0.23
48 15 0.23
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGTCCCAGACAAGTCTTACACTAGCTCTAGTCTCAATACCGATGCC
Found at i:17052250 original size:47 final size:49
Alignment explanation
Indices: 17051962--17052269 Score: 178
Period size: 47 Copynumber: 6.6 Consensus size: 49
17051952 GATAATGTCA
* * **
17051962 ATGCCATGTCCCAGACATGGTCATACACTGGCTCATC-T-ATCAAGT--CG
1 ATGCCATGTCCCAGACATGGTCTTACACTTGCTC-TCGTAAT-TTGTGCCG
** * *
17052009 ATGCCATGTCCCAGACATGGTCTTACAC-TGACTCTCACATATTCGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTTG-CTCTCGTA-ATTTGTGCCG
*
17052059 ATGCCATGTCCCAGACATGGTCTTACA-TTG---AC--AATTTTGTAGCC-
1 ATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCGTAA-TTTGT-GCCG
* * * *
17052103 ATTG-AATGT-CCAGACAT-GTCTTACACTGGCT-TAG--ATCTCGATGCCG
1 A-TGCCATGTCCCAGACATGGTCTTACACTTGCTCTCGTAAT-TTG-TGCCG
* * * *** *
17052149 ATG-CATGTCCCAGACA-AGTCTTACACTAGCTCTCGT-CTCAATACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCGTAATTTGTGCCG
17052195 ATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCGTAATTTG-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCGTAATTTGTGCCG
*
17052243 ATG-CATGTCCCAAACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
17052270 AGCACACAAT
Statistics
Matches: 207, Mismatches: 30, Indels: 49
0.72 0.10 0.17
Matches are distributed among these distances:
42 8 0.04
43 11 0.05
44 11 0.05
45 16 0.08
46 43 0.21
47 58 0.28
48 27 0.13
49 3 0.01
50 30 0.14
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCGTAATTTGTGCCG
Found at i:17052994 original size:13 final size:13
Alignment explanation
Indices: 17052976--17053000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17052966 TCTAAAATGC
17052976 AAAAATCATCAAG
1 AAAAATCATCAAG
17052989 AAAAATCATCAA
1 AAAAATCATCAA
17053001 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:17055430 original size:43 final size:43
Alignment explanation
Indices: 17055347--17055442 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
17055337 CGAAGGAAAG
* **
17055347 ATACTGGCACACATAGTGCATCATCAGACAAACTGGAGCAATT
1 ATACTGGCACACATAATGCATCATCAGACAAACTAAAGCAATT
* * ** * *
17055390 ATACTGGTACGCATAATGCATCATTGGATAAACTAAAGCAATC
1 ATACTGGCACACATAATGCATCATCAGACAAACTAAAGCAATT
*
17055433 ATGCTGGCAC
1 ATACTGGCAC
17055443 GTAAGTGCAT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (43 bp):
ATACTGGCACACATAATGCATCATCAGACAAACTAAAGCAATT
Found at i:17055482 original size:42 final size:42
Alignment explanation
Indices: 17055436--17055572 Score: 139
Period size: 42 Copynumber: 3.3 Consensus size: 42
17055426 AGCAATCATG
* *
17055436 CTGGCACGTAAGTGCATCATCGGATGTACTGAATAAAATATA
1 CTGGCACATAAGTGCATCATCGGATATACTGAATAAAATATA
* * * * *
17055478 CTGGCACTTAAGTACATCATTGGATATACTGAATTAATTATA
1 CTGGCACATAAGTGCATCATCGGATATACTGAATAAAATATA
* * * * * **
17055520 TTGACACATAAGTGCATCATCAGATAAACCGAAGCAAATATA
1 CTGGCACATAAGTGCATCATCGGATATACTGAATAAAATATA
*
17055562 CTGGCATATAA
1 CTGGCACATAA
17055573 ATAGGGTAAC
Statistics
Matches: 75, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (42 bp):
CTGGCACATAAGTGCATCATCGGATATACTGAATAAAATATA
Found at i:17056563 original size:6 final size:6
Alignment explanation
Indices: 17056526--17056601 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 6
17056516 TATTTTTAAA
*
17056526 AATATAT AATAATT AAT-TT AAGT-TT TATATT AATATT AATATT AATATT
1 AATAT-T AAT-ATT AATATT AA-TATT AATATT AATATT AATATT AATATT
*
17056575 AA-ATA AATATT ATTATATT AATATT AA
1 AATATT AATATT A--ATATT AATATT AA
17056602 ATAAAGTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
5 9 0.15
6 35 0.59
7 7 0.12
8 8 0.14
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
AATATT
Found at i:17064645 original size:40 final size:40
Alignment explanation
Indices: 17064601--17064712 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
17064591 CAGGGGAATG
17064601 AATGTGCTGTCAAGTGCACCGAAGTGTATTCAGGGGCACA
1 AATGTGCTGTCAAGTGCACCGAAGTGTATTCAGGGGCACA
* * * * ** * *
17064641 AATGTGCTGCCAGGGGTACTAAAGTGCATTTAGGGGCACA
1 AATGTGCTGTCAAGTGCACCGAAGTGTATTCAGGGGCACA
* *
17064681 AAAGTGCTATC-AGTGACACCGAAGTGTATTCA
1 AATGTGCTGTCAAGTG-CACCGAAGTGTATTCA
17064713 AAGACACCGA
Statistics
Matches: 53, Mismatches: 18, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
39 2 0.04
40 51 0.96
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (40 bp):
AATGTGCTGTCAAGTGCACCGAAGTGTATTCAGGGGCACA
Found at i:17071410 original size:37 final size:37
Alignment explanation
Indices: 17071361--17071433 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
17071351 CTAGGAAAAC
* *
17071361 TTAGTTAGTTCACGGAGTGATAGGATTTTTTTATGTG
1 TTAGTTAGTTCACGGAGCGATAGGATTGTTTTATGTG
17071398 TTAGTTAGTTCACGGAGCGATAGGATTGTTTTATGT
1 TTAGTTAGTTCACGGAGCGATAGGATTGTTTTATGT
17071434 AGAAATGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (37 bp):
TTAGTTAGTTCACGGAGCGATAGGATTGTTTTATGTG
Found at i:17073646 original size:6 final size:6
Alignment explanation
Indices: 17073637--17073671 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
17073627 TGTTTATTTA
* *
17073637 ATTAAT ATTAAT ATGAAT ACTAAT ATTAAT ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA
17073672 CATAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (6 bp):
ATTAAT
Found at i:17073737 original size:23 final size:23
Alignment explanation
Indices: 17073682--17073737 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
17073672 CATAAAATTT
17073682 AATTTTATTATTATATTTTTTTGA
1 AATTTT-TTATTATATTTTTTTGA
* * *
17073706 AAATATTTATGTATTTTTTTTTG-
1 AATTTTTTAT-TATATTTTTTTGA
17073729 AATTTTTTA
1 AATTTTTTA
17073738 GAATTAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
AATTTTTTATTATATTTTTTTGA
Found at i:17074014 original size:13 final size:13
Alignment explanation
Indices: 17073998--17074025 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17073988 ACTATGTAAC
17073998 TTCGTTTGTGATT
1 TTCGTTTGTGATT
17074011 TTCGTTTGTGATT
1 TTCGTTTGTGATT
17074024 TT
1 TT
17074026 AACGAGAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.21, T:0.64
Consensus pattern (13 bp):
TTCGTTTGTGATT
Found at i:17074690 original size:13 final size:13
Alignment explanation
Indices: 17074672--17074696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17074662 CAAAATACAC
17074672 ACTTAATATTTAT
1 ACTTAATATTTAT
17074685 ACTTAATATTTA
1 ACTTAATATTTA
17074697 ATATTTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ACTTAATATTTAT
Found at i:17074801 original size:14 final size:14
Alignment explanation
Indices: 17074771--17074829 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
17074761 TATTTAAGGT
* *
17074771 TTTAAGATCTAATG
1 TTTAAGATTTAAAG
*
17074785 TTTAATATTTAAAG
1 TTTAAGATTTAAAG
*
17074799 TTTAA-AGTTTAAGG
1 TTTAAGA-TTTAAAG
*
17074813 TTTAGGATTTAAAG
1 TTTAAGATTTAAAG
17074827 TTT
1 TTT
17074830 TTGTGTAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 1 0.03
14 35 0.95
15 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (14 bp):
TTTAAGATTTAAAG
Found at i:17074816 original size:21 final size:21
Alignment explanation
Indices: 17074763--17074829 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
17074753 AAACTTAGTA
* *
17074763 TTTAAGGTTTTAAGATCTAATG
1 TTTAAGG-TTTAAGATTTAAAG
**
17074785 TTTAATATTTAA-AGTTTAAAG
1 TTTAAGGTTTAAGA-TTTAAAG
*
17074806 TTTAAGGTTTAGGATTTAAAG
1 TTTAAGGTTTAAGATTTAAAG
17074827 TTT
1 TTT
17074830 TTGTGTAGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.81
22 6 0.17
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (21 bp):
TTTAAGGTTTAAGATTTAAAG
Found at i:17075280 original size:8 final size:8
Alignment explanation
Indices: 17075267--17075296 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
17075257 TTGCTGCTGC
17075267 TTTTTTCT
1 TTTTTTCT
17075275 TTTTTTCT
1 TTTTTTCT
17075283 TTTTTTCT
1 TTTTTTCT
17075291 TTTTTT
1 TTTTTT
17075297 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTCT
Found at i:17087720 original size:23 final size:23
Alignment explanation
Indices: 17087690--17087738 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
17087680 GTCGGTGAAG
17087690 ATGGCTTGAATTATTGAAAAATT
1 ATGGCTTGAATTATTGAAAAATT
17087713 ATGGCTTGAATTATTGAAAAATT
1 ATGGCTTGAATTATTGAAAAATT
17087736 ATG
1 ATG
17087739 ATCTAATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (23 bp):
ATGGCTTGAATTATTGAAAAATT
Found at i:17088169 original size:22 final size:19
Alignment explanation
Indices: 17088151--17088189 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
17088141 GCTCGTGTGA
17088151 GCACAAGGACACACCCGTGT
1 GCAC-AGGACACACCCGTGT
*
17088171 GCGCAGGACACACCCGTGT
1 GCACAGGACACACCCGTGT
17088190 CCTCAGGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.26, C:0.36, G:0.28, T:0.10
Consensus pattern (19 bp):
GCACAGGACACACCCGTGT
Found at i:17088196 original size:19 final size:19
Alignment explanation
Indices: 17088156--17088196 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
17088146 TGTGAGCACA
*
17088156 AGGACACACCCGTGTGCGC
1 AGGACACACCCGTGTCCGC
*
17088175 AGGACACACCCGTGTCCTC
1 AGGACACACCCGTGTCCGC
17088194 AGG
1 AGG
17088197 CCGTGTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.12
Consensus pattern (19 bp):
AGGACACACCCGTGTCCGC
Found at i:17088835 original size:15 final size:15
Alignment explanation
Indices: 17088815--17088864 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
17088805 AATTTGGCTA
17088815 ATCATAACAACATCT
1 ATCATAACAACATCT
17088830 ATCATAA-AA-A-CT
1 ATCATAACAACATCT
*
17088842 AATCGTAACAACATCT
1 -ATCATAACAACATCT
17088858 ATCATAA
1 ATCATAA
17088865 AAACTAAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.07
13 7 0.24
14 4 0.14
15 14 0.48
16 2 0.07
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (15 bp):
ATCATAACAACATCT
Found at i:17088844 original size:28 final size:28
Alignment explanation
Indices: 17088812--17088871 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
17088802 ATAAATTTGG
17088812 CTAATCATAACAACATCTATCATAAAAA
1 CTAATCATAACAACATCTATCATAAAAA
*
17088840 CTAATCGTAACAACATCTATCATAAAAA
1 CTAATCATAACAACATCTATCATAAAAA
17088868 CTAA
1 CTAA
17088872 GTCCCTATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.52, C:0.22, G:0.02, T:0.25
Consensus pattern (28 bp):
CTAATCATAACAACATCTATCATAAAAA
Found at i:17090829 original size:31 final size:30
Alignment explanation
Indices: 17090777--17090835 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
17090767 TAATTCATAA
*
17090777 TTTAGAAAAATGATTGTTTTGCCCTTAGAC
1 TTTACAAAAATGATTGTTTTGCCCTTAGAC
*
17090807 TTTACAAAAATTATTGATTTTGCCCTTAG
1 TTTACAAAAATGATTG-TTTTGCCCTTAG
17090836 GCTCGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTACAAAAATGATTGTTTTGCCCTTAGAC
Found at i:17090950 original size:12 final size:12
Alignment explanation
Indices: 17090933--17090966 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
17090923 ATTTCATACA
17090933 TTTACAACTTAT
1 TTTACAACTTAT
17090945 TTTACAACTTAT
1 TTTACAACTTAT
17090957 TTTACAACTT
1 TTTACAACTT
17090967 TACAAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTACAACTTAT
Found at i:17099431 original size:19 final size:19
Alignment explanation
Indices: 17099409--17099452 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17099399 TCTCAAAATT
17099409 ATATATAAACTTTAATTTA
1 ATATATAAACTTTAATTTA
*
17099428 ATATATAAATTTTAATTTA
1 ATATATAAACTTTAATTTA
*
17099447 GTATAT
1 ATATAT
17099453 TTATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATATAAACTTTAATTTA
Found at i:17103642 original size:67 final size:68
Alignment explanation
Indices: 17103554--17103720 Score: 166
Period size: 67 Copynumber: 2.5 Consensus size: 68
17103544 AACGAGCTCT
* * * *
17103554 ATATGCTGCCATAACTGAGCTATGGTCTTACAC-CATACAT-CCC-CTGTTTACTATCTCAG-TG
1 ATATGCTGCCAT-AGTAAGCTATGGTCTTACACACA-AAATACCCTATGTTTACTATC-CAGATG
17103615 AACTCC
63 AACTCC
* * *
17103621 ATATGCTGCCATAGTAAAGCTATGGT-TT-CACACAAAATACCCTATGTTTACTGTCCCGATGGA
1 ATATGCTGCCATAGT-AAGCTATGGTCTTACACACAAAATACCCTATGTTTACTATCCAGATGAA
*
17103684 CTCT
65 CTCC
*
17103688 ATATGCTGCCATAGTCAAGCTATGGTCGTACAC
1 ATATGCTGCCATAGT-AAGCTATGGTCTTACAC
17103721 TCTAAACCTC
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
65 6 0.07
66 11 0.13
67 62 0.75
68 1 0.01
69 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (68 bp):
ATATGCTGCCATAGTAAGCTATGGTCTTACACACAAAATACCCTATGTTTACTATCCAGATGAAC
TCC
Found at i:17106108 original size:40 final size:40
Alignment explanation
Indices: 17106039--17106244 Score: 351
Period size: 40 Copynumber: 5.2 Consensus size: 40
17106029 AACCCAAGTA
* * *
17106039 CCTTCGGGATTTAG-CCGGATATAGCAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
17106078 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
17106118 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
17106158 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
17106198 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
17106238 CCTTCGG
1 CCTTCGG
17106245 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.08
40 145 0.92
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:17108982 original size:41 final size:41
Alignment explanation
Indices: 17108901--17109257 Score: 409
Period size: 41 Copynumber: 8.8 Consensus size: 41
17108891 AATTGTACAT
* *
17108901 TAGCGGCGTTTTTGCTAAAACGCTGCTAAAAA-CAAAGCAA
1 TAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACCAGAGCAA
*
17108941 TAGCGGCGTTTTTGGTAAAATCGCCGCTAAAAA-CAGAGCAA
1 TAGCGGCGTTTTTGCTAAAA-CGCCGCTAAAAACCAGAGCAA
** * * *
17108982 TAGCGGCGTTTTCCCAAAAATGCCGCT-AAAA-CAGAACAA
1 TAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACCAGAGCAA
* * *
17109021 TAGCGGCG-TTTTACAAAAAACACCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGC-TAAAACGCCGCTAAAAACCAGAGCAA
*
17109062 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACCAGAGCAA
** * *
17109103 TAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGTAA
1 TAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACCAGAGCAA
* * ** *
17109144 TAGCGACATTTTACCAAAAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACCAGAGCAA
* * *
17109185 TAGCGGCGTTTTTGGTAAAATGCCGCTAAAAACCAGAGTAA
1 TAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACCAGAGCAA
* * *
17109226 TAGTGGCGTTTATGGTCAAAACGCCGCTAAAA
1 TAGCGGCGTTTTTGCT-AAAACGCCGCTAAAA
17109258 GTCATATAAC
Statistics
Matches: 274, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
38 4 0.01
39 29 0.11
40 29 0.11
41 194 0.71
42 18 0.07
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (41 bp):
TAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACCAGAGCAA
Found at i:17109131 original size:82 final size:81
Alignment explanation
Indices: 17108861--17109257 Score: 408
Period size: 82 Copynumber: 4.9 Consensus size: 81
17108851 ACAGCATTTT
* ** *
17108861 TAGCGGCGTTTTATCAAAAAACACCGC-AAAAA-TTGTA-CATTAGCGGCGTTTTTGCTAAAACG
1 TAGCGGCGTTTTA-CAAAAAACGCCGCTAAAAACCAG-AGCAATAGCGGCGTTTTTGCTAAAACG
* *
17108923 CTGCTAAAAACAAAGCAA
64 CCGCTAAAAACAGAGCAA
*** * ** * *
17108941 TAGCGGCGTTTTTGGTAAAATCGCCGCTAAAAA-CAGAGCAATAGCGGCGTTTTCCCAAAAATGC
1 TAGCGGCG-TTTTACAAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGCTAAAACGC
*
17109005 CGCT-AAAACAGAACAA
65 CGCTAAAAACAGAGCAA
* *
17109021 TAGCGGCGTTTTACAAAAAACACCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCC
1 TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGCTAAAACGCC
17109086 GCTAAAAACCAGAGCAA
66 GCTAAAAA-CAGAGCAA
* * * * ** *
17109103 TAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGTAATAGCGACATTTTACCAAAAACGCC
1 TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGCTAAAACGCC
17109168 GCTAAAAACCAGAGCAA
66 GCTAAAAA-CAGAGCAA
**** * * * * *
17109185 TAGCGGCGTTTTTGGTAAAATGCCGCTAAAAACCAGAGTAATAGTGGCGTTTATGGTCAAAACGC
1 TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGCT-AAAACGC
17109250 CGCTAAAA
65 CGCTAAAA
17109258 GTCATATAAC
Statistics
Matches: 262, Mismatches: 48, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
79 19 0.07
80 66 0.25
81 38 0.15
82 124 0.47
83 15 0.06
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (81 bp):
TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGCTAAAACGCC
GCTAAAAACAGAGCAA
Found at i:17109202 original size:123 final size:121
Alignment explanation
Indices: 17108917--17109236 Score: 482
Period size: 123 Copynumber: 2.6 Consensus size: 121
17108907 CGTTTTTGCT
* *
17108917 AAAACGCTGCTAAAAA-CAAAGCAATAGCGGCGTTTTTGGTAAAATCGCCGCTAAAAA-CAGAGC
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAA-CGCCGCTAAAAACCAGAGC
* * * *
17108980 AATAGCGGCGTTTTCCCAAAAATGCCGCTAAAACAGAACAATAGCGGCGTTTTACAA
65 AATAGCGGCGTTTTACCAAAAACGCCGCTAAAACAGAACAATAGCGACATTTTACAA
*
17109037 AAAACACCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
** *
17109102 ATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGTAATAGCGACATTTTACCA
66 ATAGCGGCGTTTTACCAAAAACGCCGCT-AAAA-CAGAACAATAGCGACATTTTACAA
* *
17109160 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAATGCCGCTAAAAACCAGAGTA
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
*
17109225 ATAGTGGCGTTT
66 ATAGCGGCGTTT
17109237 ATGGTCAAAA
Statistics
Matches: 182, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
120 26 0.14
121 60 0.33
122 4 0.02
123 92 0.51
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (121 bp):
AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
ATAGCGGCGTTTTACCAAAAACGCCGCTAAAACAGAACAATAGCGACATTTTACAA
Found at i:17109360 original size:38 final size:38
Alignment explanation
Indices: 17109276--17109365 Score: 128
Period size: 37 Copynumber: 2.4 Consensus size: 38
17109266 ACCCCTAAAA
* * * *
17109276 CCCTAAACCCCCAAAAATCATAAACACTAATCTATAAC
1 CCCTAAAACCCTAAAAACCATAAACACTAAACTATAAC
17109314 CCCT-AAACCCTAAAAACCATAAACACTAAACTATAAC
1 CCCTAAAACCCTAAAAACCATAAACACTAAACTATAAC
*
17109351 CCCTAAAACCTTAAA
1 CCCTAAAACCCTAAA
17109366 CCCCAAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 33 0.72
38 13 0.28
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (38 bp):
CCCTAAAACCCTAAAAACCATAAACACTAAACTATAAC
Found at i:17109489 original size:7 final size:7
Alignment explanation
Indices: 17109474--17109535 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
17109464 TTAAATTTAT
*
17109474 TTTAGGG
1 TTTAAGG
17109481 TTTAAGG
1 TTTAAGG
**
17109488 TTTAATA
1 TTTAAGG
17109495 TTTAAGG
1 TTTAAGG
* *
17109502 TCTATGG
1 TTTAAGG
*
17109509 TTTAGGG
1 TTTAAGG
*
17109516 TTTTATGG
1 -TTTAAGG
17109524 TTTAAGG
1 TTTAAGG
17109531 TTTAA
1 TTTAA
17109536 TGGCCATGGG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:17109524 original size:15 final size:15
Alignment explanation
Indices: 17109473--17109538 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
17109463 ATTAAATTTA
*
17109473 TTTTAGGGTTTAAGG
1 TTTTATGGTTTAAGG
* *
17109488 TTTAAT-ATTTAAGG
1 TTTTATGGTTTAAGG
* *
17109502 -TCTATGGTTTAGGG
1 TTTTATGGTTTAAGG
17109516 TTTTATGGTTTAAGG
1 TTTTATGGTTTAAGG
*
17109531 TTTAATGG
1 TTTTATGG
17109539 CCATGGGTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
13 3 0.08
14 13 0.33
15 23 0.59
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (15 bp):
TTTTATGGTTTAAGG
Found at i:17110542 original size:3 final size:3
Alignment explanation
Indices: 17110534--17110568 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17110524 CATTTTAGTA
17110534 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17110569 AAGAGGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17112416 original size:3 final size:3
Alignment explanation
Indices: 17112408--17112432 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17112398 AGCAACTGCA
17112408 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
17112433 GAGCTCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Done.