Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 52 of 186
Found at i:15915729 original size:24 final size:24
Alignment explanation
Indices: 15915697--15915770 Score: 139
Period size: 24 Copynumber: 3.1 Consensus size: 24
15915687 TCTTTTTGTA
15915697 GGCAAGTGGGGTAATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
*
15915721 GGCAAGTGGGGTGATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
15915745 GGCAAGTGGGGTAATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
15915769 GG
1 GG
15915771 GATGGTTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.24
Consensus pattern (24 bp):
GGCAAGTGGGGTAATGGAGTTAGT
Found at i:15915832 original size:30 final size:30
Alignment explanation
Indices: 15915749--15915841 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
15915739 GTTAGTGGCA
* *
15915749 AGTGGGGTAATGGAGTTAGT-GGGATGGTTT
1 AGTGGGGTGATGGAGTTAGTGGGGA-GATTT
* *
15915779 AATTGGGTGATGGAGTTAGTGGGGAGATTT
1 AGTGGGGTGATGGAGTTAGTGGGGAGATTT
*
15915809 AGTGGGGTGATGGAGTTAGTGGGGTGATTT
1 AGTGGGGTGATGGAGTTAGTGGGGAGATTT
15915839 AGT
1 AGT
15915842 AGGGCGTAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 51 0.93
31 4 0.07
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.33
Consensus pattern (30 bp):
AGTGGGGTGATGGAGTTAGTGGGGAGATTT
Found at i:15915834 original size:17 final size:17
Alignment explanation
Indices: 15915749--15915836 Score: 75
Period size: 17 Copynumber: 5.6 Consensus size: 17
15915739 GTTAGTGGCA
*
15915749 AGTGGGGTAATGGAGTT
1 AGTGGGGTGATGGAGTT
*
15915766 AGT--GG-GATGG-TTT
1 AGTGGGGTGATGGAGTT
* *
15915779 AATTGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
*
15915796 AGT-GGG-GA--GATTT
1 AGTGGGGTGATGGAGTT
15915809 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
15915826 AGTGGGGTGAT
1 AGTGGGGTGAT
15915837 TTAGTAGGGC
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
13 11 0.20
14 7 0.12
15 8 0.14
16 8 0.14
17 22 0.39
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (17 bp):
AGTGGGGTGATGGAGTT
Found at i:15919366 original size:79 final size:82
Alignment explanation
Indices: 15919272--15919444 Score: 192
Period size: 89 Copynumber: 2.1 Consensus size: 82
15919262 CTTTATCTTC
*
15919272 CTACTCGACACATGTTCA-ATATTTT-TCTTTT-TGTTTTTGCAATTT-ATATAAAATTGGTCAA
1 CTACTCGACACATGTTCATATATTTTATCTTTTATGTTTTTGC-ATTTGATAGAAAATTGGTCAA
15919333 ATATCACATTTGGTCCCT
65 ATATCACATTTGGTCCCT
* * * *
15919351 CTACTTGACACATGTTCAGTCTTTCTATTTTTTATTTTTTATTTTTTTGCATTTGATAGAAAATT
1 CTACTCGACACATGTTCA-------TATATTTTATCTTTTATGTTTTTGCATTTGATAGAAAATT
*
15919416 GGTCAAATATCACTTTTGGTCCCT
59 GGTCAAATATCACATTTGGTCCCT
15919440 CTACT
1 CTACT
15919445 ATGCCTAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
79 17 0.22
87 6 0.08
88 9 0.12
89 45 0.58
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.48
Consensus pattern (82 bp):
CTACTCGACACATGTTCATATATTTTATCTTTTATGTTTTTGCATTTGATAGAAAATTGGTCAAA
TATCACATTTGGTCCCT
Found at i:15935790 original size:47 final size:46
Alignment explanation
Indices: 15935656--15935798 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 46
15935646 NNNNNNNNNN
* *
15935656 AAATTATATATCATTATTAAATTATATTTAATATTAATTA-TTT-T
1 AAATTATATATAATTATTAAATTATATTTAATAATAATTATTTTAT
* * * **
15935700 AAATTGTATA-AATTCATATAAGA--AAATTT-ATTATCAAGAATTTTAT
1 AAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATTATTTTAT
*
15935746 GAAATTATATATTATTATTAAATTATATTTAATAATAATTA-TTT-T
1 -AAATTATATATAATTATTAAATTATATTTAATAATAATTATTTTAT
15935791 AAATTATA
1 AAATTATA
15935799 CAAATTCATA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.08
44 27 0.36
45 8 0.11
46 8 0.11
47 19 0.25
48 7 0.09
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (46 bp):
AAATTATATATAATTATTAAATTATATTTAATAATAATTATTTTAT
Found at i:15935833 original size:47 final size:46
Alignment explanation
Indices: 15935690--15935857 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 46
15935680 TATTTAATAT
* *
15935690 TAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAA
1 TAATTATTTTAAATTATATAAATTCATATAAGATAATTTATTAT-AA
* * *
15935737 GAATT-TTATGAAATTATATATTATT-AT-TAA-ATTATATTTA--ATAA
1 TAATTATT-TTAAATTATATA-AATTCATATAAGA-TA-ATTTATTATAA
* *
15935781 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATTATATAAATTCATATAAGATAATTTATTA-TAA
*
15935828 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAATTATA-TAAATTCATATA
15935858 TTTTAATTAA
Statistics
Matches: 97, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
43 3 0.03
44 23 0.24
45 10 0.10
46 8 0.08
47 47 0.48
48 6 0.06
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (46 bp):
TAATTATTTTAAATTATATAAATTCATATAAGATAATTTATTATAA
Found at i:15935842 original size:91 final size:91
Alignment explanation
Indices: 15935656--15935823 Score: 291
Period size: 91 Copynumber: 1.8 Consensus size: 91
15935646 NNNNNNNNNN
* * *
15935656 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTGTATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
15935721 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
*
15935747 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
*
15935812 GATAATTTATTA
66 GAAAATTTATTA
15935824 GTTATAATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:15936005 original size:25 final size:26
Alignment explanation
Indices: 15935973--15936027 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
15935963 TTATTAAGTT
*
15935973 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
15935998 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
15936023 A-ATAT
1 ATATAT
15936028 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:15942126 original size:20 final size:20
Alignment explanation
Indices: 15942103--15942168 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
15942093 ATATCTAACG
15942103 ATATTGGTAAATCCTTAGAA
1 ATATTGGTAAATCCTTAGAA
* *
15942123 ATATTGGAAAAGCC-----A
1 ATATTGGTAAATCCTTAGAA
*
15942138 ATATTGGTAAATCGTTAGAA
1 ATATTGGTAAATCCTTAGAA
*
15942158 ATATTAGTAAA
1 ATATTGGTAAA
15942169 AGCTTTTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
15 12 0.34
20 23 0.66
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.32
Consensus pattern (20 bp):
ATATTGGTAAATCCTTAGAA
Found at i:15942149 original size:35 final size:36
Alignment explanation
Indices: 15942103--15942171 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
15942093 ATATCTAACG
15942103 ATATTGGTAAATCCTTAGAAATATT-GGAAAAGCCA
1 ATATTGGTAAATCCTTAGAAATATTAGGAAAAGCCA
* *
15942138 ATATTGGTAAATCGTTAGAAATATTAGTAAAAGC
1 ATATTGGTAAATCCTTAGAAATATTAGGAAAAGC
15942172 TTTTTCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 24 0.77
36 7 0.23
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (36 bp):
ATATTGGTAAATCCTTAGAAATATTAGGAAAAGCCA
Found at i:15943556 original size:117 final size:117
Alignment explanation
Indices: 15943319--15944255 Score: 1838
Period size: 117 Copynumber: 8.0 Consensus size: 117
15943309 TGTAACCCTG
*
15943319 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCATACAGTTC
1 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTC-GACAGTTC
* *
15943384 AAACCACATGCATGTGTATTCGTGTGAGCCTTTTTTAGTCAGGAATAAATTAT
65 GAACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
15943437 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
1 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
15943502 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
66 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
15943554 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
1 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
15943619 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
66 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
15943671 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
1 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
15943736 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
66 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
15943788 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
1 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
15943853 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
66 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
15943905 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
1 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
15943970 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
66 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
15944022 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
1 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
15944087 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
66 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
15944139 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
1 GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
15944204 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
66 AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
15944256 TGTGCACAAT
Statistics
Matches: 816, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
117 760 0.93
118 56 0.07
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (117 bp):
GTTAGAATTGGGAAATAGGTTTACAACTGTTTGGAAACATGACCATTTACTATGTCGACAGTTCG
AACCACATGCATGTGTATTCGTGCGAGCCTTTTTTAGTCAGGAATAAATTAT
Found at i:15952289 original size:18 final size:18
Alignment explanation
Indices: 15952255--15952292 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15952245 TTAATAATGC
*
15952255 ATATATTTTTATGTTTTT
1 ATATATTTTTATATTTTT
15952273 ATAT-TTTTTAGTATTTTT
1 ATATATTTTTA-TATTTTT
15952291 AT
1 AT
15952293 GTAGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
ATATATTTTTATATTTTT
Found at i:15952609 original size:8 final size:8
Alignment explanation
Indices: 15952596--15952620 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15952586 GGTGTTCGGC
15952596 GCAAGTGG
1 GCAAGTGG
15952604 GCAAGTGG
1 GCAAGTGG
15952612 GCAAGTGG
1 GCAAGTGG
15952620 G
1 G
15952621 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:15956395 original size:60 final size:60
Alignment explanation
Indices: 15956323--15956439 Score: 225
Period size: 60 Copynumber: 1.9 Consensus size: 60
15956313 AAATTTTCCA
15956323 GAGTAATGTGCAAAACTTCTTTCCTGAAAGTTTCATTAGTTCGTTAATCATTATTCCCCC
1 GAGTAATGTGCAAAACTTCTTTCCTGAAAGTTTCATTAGTTCGTTAATCATTATTCCCCC
*
15956383 GAGTAATGTGCAAAACTTCTTTCCTGAAAGTTTTATTAGTTCGTTAATCATTATTCC
1 GAGTAATGTGCAAAACTTCTTTCCTGAAAGTTTCATTAGTTCGTTAATCATTATTCC
15956440 TATGAGACAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (60 bp):
GAGTAATGTGCAAAACTTCTTTCCTGAAAGTTTCATTAGTTCGTTAATCATTATTCCCCC
Found at i:15956932 original size:66 final size:66
Alignment explanation
Indices: 15956826--15956957 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
15956816 CAAATCCTGA
15956826 TGTTCCAATCCTGCCCAGTACTTGAGTCGCCTTTTTCGGGTTTTCGACTCCAGCCCTCTTTCGTC
1 TGTTCCAATCCTGCCCAGTACTTGAGTCGCCTTTTTCGGGTTTTCGACTCCAGCCCTCTTTCGTC
15956891 T
66 T
*
15956892 TGTTCCAATCCTGCCCAGTACTTGAGTCGCCTTTTTCGGGTTTTCGACTCCAGCCCTCTTTGGTC
1 TGTTCCAATCCTGCCCAGTACTTGAGTCGCCTTTTTCGGGTTTTCGACTCCAGCCCTCTTTCGTC
15956957 T
66 T
15956958 CAAAGTGCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.11, C:0.33, G:0.19, T:0.38
Consensus pattern (66 bp):
TGTTCCAATCCTGCCCAGTACTTGAGTCGCCTTTTTCGGGTTTTCGACTCCAGCCCTCTTTCGTC
T
Found at i:15957382 original size:79 final size:79
Alignment explanation
Indices: 15957251--15957408 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
15957241 TTAGTACCAA
15957251 GTCCCCTTCACGAAATTCTCGGGGGCGAACCTTTTTATTATAGGCTCGCATCATTCGTTTCTGGT
1 GTCCCCTTCACGAAATTCTCGGGGGCGAACCTTTTTATTATAGGCTCGCATCATTCGTTTCTGGT
*
15957316 CCATTTGCCCATGG
66 ACATTTGCCCATGG
15957330 GTCCCCTTCACGAAATTCTCGGGGGCGAACCTTTTTATTATAGGCTCGCATCATTCGTTTCTGGT
1 GTCCCCTTCACGAAATTCTCGGGGGCGAACCTTTTTATTATAGGCTCGCATCATTCGTTTCTGGT
15957395 ACATTTGCCCATGG
66 ACATTTGCCCATGG
15957409 TGAATAGCTC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (79 bp):
GTCCCCTTCACGAAATTCTCGGGGGCGAACCTTTTTATTATAGGCTCGCATCATTCGTTTCTGGT
ACATTTGCCCATGG
Found at i:15963269 original size:69 final size:69
Alignment explanation
Indices: 15963158--15963295 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
15963148 TTGAACCGTG
* *
15963158 TAGGGCACTTGGCTGGAAGTAACAATTATAATAACAGATTCATAATCTGGAGAAAGTCCATTGAG
1 TAGGGAACTTGGCTGGAAGTAACAATGATAATAACAGATTCATAATCTGGAGAAAGTCCATTGAG
15963223 AATT
66 AATT
* * * *
15963227 TAGGGAACTTGGCTGGAAGTAACAATGGTAATAATAGATTCATAGTCTGGAGGAAGTCCATTGAG
1 TAGGGAACTTGGCTGGAAGTAACAATGATAATAACAGATTCATAATCTGGAGAAAGTCCATTGAG
15963292 AATT
66 AATT
15963296 GCAGTGATGT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (69 bp):
TAGGGAACTTGGCTGGAAGTAACAATGATAATAACAGATTCATAATCTGGAGAAAGTCCATTGAG
AATT
Found at i:15965223 original size:26 final size:27
Alignment explanation
Indices: 15965194--15965261 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
15965184 TTTTGTAAAA
15965194 AAATATAAAAAAATAAACATAA-TGTG
1 AAATATAAAAAAATAAACATAAGTGTG
* * * * *
15965220 AAATTTTAAAAAATATATATAAGTGTT
1 AAATATAAAAAAATAAACATAAGTGTG
15965247 AAATTATAAAAAAAT
1 AAA-TATAAAAAAAT
15965262 TTAAAAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
26 18 0.55
27 6 0.18
28 9 0.27
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATATAAAAAAATAAACATAAGTGTG
Found at i:15965250 original size:27 final size:26
Alignment explanation
Indices: 15965201--15965259 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
15965191 AAAAAATATA
*
15965201 AAAAAATAAACATAATGTGAAATTTT
1 AAAAAATAAACATAATGTGAAATTAT
* * *
15965227 AAAAAATATATATAAGTGTTAAATTAT
1 AAAAAATAAACATAA-TGTGAAATTAT
15965254 AAAAAA
1 AAAAAA
15965260 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAAAATAAACATAATGTGAAATTAT
Found at i:15965281 original size:30 final size:30
Alignment explanation
Indices: 15965245--15965309 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
15965235 TATATAAGTG
15965245 TTAAATTATAAAAAAATTTAAAAATATTAT
1 TTAAATTATAAAAAAATTTAAAAATATTAT
15965275 TTAAATTATAAAAAAATTTAAAAATATTAT
1 TTAAATTATAAAAAAATTTAAAAATATTAT
*
15965305 CTAAA
1 TTAAA
15965310 ATAATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
TTAAATTATAAAAAAATTTAAAAATATTAT
Found at i:15967618 original size:63 final size:63
Alignment explanation
Indices: 15967540--15967665 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
15967530 TAAATAAGTT
** *
15967540 TGGTTTCAAACTTGTTTTTGAGGCAGATAAGTTTATTTTGTCTAGGGGAGGAATTTTTGTAGG
1 TGGTTTCAAACTTGTTTTTGAGGCAGATAAGTTTATTTTGTCTAAAGGAGGAATTTTTATAGG
15967603 TGGTTTCAAACTTGTTTTTGAGGCAGATAAGTTTATTTTGTCTAAAGGAGGAATTTTTATAGG
1 TGGTTTCAAACTTGTTTTTGAGGCAGATAAGTTTATTTTGTCTAAAGGAGGAATTTTTATAGG
15967666 GAAAGGGTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.43
Consensus pattern (63 bp):
TGGTTTCAAACTTGTTTTTGAGGCAGATAAGTTTATTTTGTCTAAAGGAGGAATTTTTATAGG
Found at i:15971301 original size:75 final size:75
Alignment explanation
Indices: 15971178--15971328 Score: 284
Period size: 75 Copynumber: 2.0 Consensus size: 75
15971168 TTCATTTGGA
*
15971178 AATCATACCAACAAATTCTACTATTCTTTCTTTCCTTCCTTCATTTTCTAATATTATTAGATTAT
1 AATCATACCAACAAATTCTACCATTCTTTCTTTCCTTCCTTCATTTTCTAATATTATTAGATTAT
15971243 TCTATAAAGT
66 TCTATAAAGT
*
15971253 AATCATACCAACAAATTCTACCATTCTTTCTTTCCTTCCTTGATTTTCTAATATTATTAGATTAT
1 AATCATACCAACAAATTCTACCATTCTTTCTTTCCTTCCTTCATTTTCTAATATTATTAGATTAT
15971318 TCTATAAAGT
66 TCTATAAAGT
15971328 A
1 A
15971329 TTACTGCAGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (75 bp):
AATCATACCAACAAATTCTACCATTCTTTCTTTCCTTCCTTCATTTTCTAATATTATTAGATTAT
TCTATAAAGT
Found at i:15978609 original size:5 final size:5
Alignment explanation
Indices: 15978599--15978636 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
15978589 CAATTTGTGA
15978599 AAAAT AAAAT AAAAAT AAAA- AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAA
15978637 GAACACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.71
6 5 0.16
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:15978623 original size:20 final size:19
Alignment explanation
Indices: 15978598--15978636 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
15978588 TCAATTTGTG
15978598 AAAAATAAAATAAAAATAAA
1 AAAAATAAAAT-AAAATAAA
15978618 AAAAATAAAATAAAATAAA
1 AAAAATAAAATAAAATAAA
15978637 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATAAAATAAAATAAA
Found at i:15979942 original size:30 final size:30
Alignment explanation
Indices: 15979906--15979965 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15979896 AACAAAGTAA
15979906 GCAGGGATACAAACCAAGTCAGAATGAAAC
1 GCAGGGATACAAACCAAGTCAGAATGAAAC
15979936 GCAGGGATACAAACCAAGTCAGAATGAAAC
1 GCAGGGATACAAACCAAGTCAGAATGAAAC
15979966 CAGTTCTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (30 bp):
GCAGGGATACAAACCAAGTCAGAATGAAAC
Found at i:15996151 original size:105 final size:105
Alignment explanation
Indices: 15995969--15996191 Score: 329
Period size: 105 Copynumber: 2.1 Consensus size: 105
15995959 AAATAGAGGA
* * * * * *
15995969 CACACGACCCTGTGTCACAGCCCAGGCCGTGTAGATATTTAAAATTCAAACACACGGTCGTGTCT
1 CACACGGCCGTGTGTCACAACCCAGACCGTGTAGACATTTAAAATTCAAACACACGGTCGTGTCC
15996034 CAGCCCGTGTGTCCACCCATGTGTGCATTCAATGTCGGGT
66 CAGCCCGTGTGTCCACCCATGTGTGCATTCAATGTCGGGT
***
15996074 CACACGGCCGTGTGTCACAACCCAGACCGTGTAGACATTTAAAATTTGGACACACGGTCGTGTCC
1 CACACGGCCGTGTGTCACAACCCAGACCGTGTAGACATTTAAAATTCAAACACACGGTCGTGTCC
** * *
15996139 CAGCCCGTGTGTCTGCCCGTGTGTGCATTCAATGTTGGGT
66 CAGCCCGTGTGTCCACCCATGTGTGCATTCAATGTCGGGT
15996179 CACACGGCCGTGT
1 CACACGGCCGTGT
15996192 CGCAAGCCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (105 bp):
CACACGGCCGTGTGTCACAACCCAGACCGTGTAGACATTTAAAATTCAAACACACGGTCGTGTCC
CAGCCCGTGTGTCCACCCATGTGTGCATTCAATGTCGGGT
Found at i:15997415 original size:75 final size:75
Alignment explanation
Indices: 15997281--15997453 Score: 170
Period size: 75 Copynumber: 2.3 Consensus size: 75
15997271 GATAGATGTG
* * * * ** * * *
15997281 CCCAGCGCTAGTCGGGTAAACCGACAAATATAATGGTGTGCCTAGCACTAGTTAAATAAACT-GA
1 CCCAACGCTAGTTGGATAAATCGACAAATATAATAATGTGCCCAGCACTAGTCAAATAAA-TAAA
*
15997345 AAAAGGTTGCA
65 AAAAGATTGCA
* * **
15997356 CCCAACGCTAGTTGGATAAATCGACAAGTCTAATAATGTGCCCAGCACTAGTCGGATAAATAAAA
1 CCCAACGCTAGTTGGATAAATCGACAAATATAATAATGTGCCCAGCACTAGTCAAATAAATAAAA
**
15997421 AAAGATTGTG
66 AAAGATTGCA
*
15997431 CCCATCGCTAGTTGGAT-AATCGA
1 CCCAACGCTAGTTGGATAAATCGA
15997454 TAATAGTTGT
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
74 7 0.09
75 73 0.91
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (75 bp):
CCCAACGCTAGTTGGATAAATCGACAAATATAATAATGTGCCCAGCACTAGTCAAATAAATAAAA
AAAGATTGCA
Found at i:15998172 original size:42 final size:42
Alignment explanation
Indices: 15998111--15998195 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
15998101 ATATACATAT
15998111 AATTCACTATCAATACCTGAATTTTGTTAAATTTGTAATTTA
1 AATTCACTATCAATACCTGAATTTTGTTAAATTTGTAATTTA
* *
15998153 AATTCACTATTAATCCCTGAATTTTGTTAAATTTGTAATTTA
1 AATTCACTATCAATACCTGAATTTTGTTAAATTTGTAATTTA
15998195 A
1 A
15998196 CACCATGACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (42 bp):
AATTCACTATCAATACCTGAATTTTGTTAAATTTGTAATTTA
Found at i:16003870 original size:15 final size:15
Alignment explanation
Indices: 16003836--16003870 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16003826 TAACATGAAA
*
16003836 GAGGTCGTTAAGGCT
1 GAGGTCGTTAAAGCT
*
16003851 TAGGTCGTTAAAGCT
1 GAGGTCGTTAAAGCT
16003866 GAGGT
1 GAGGT
16003871 AATTATACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.37, T:0.29
Consensus pattern (15 bp):
GAGGTCGTTAAAGCT
Found at i:16006761 original size:42 final size:42
Alignment explanation
Indices: 16006695--16006788 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
16006685 CCTGGTGACA
* * *
16006695 TGGCCATGTAACCCACACTGCCTGGACACAG-GAGCGTGTCCT
1 TGGCCATGTGACCAACACTGCCTGGACACAGAG-GCCTGTCCT
* *
16006737 TGGCCATGTGACCAACAC-GTCCTGGTCACATAGGCCTGTCCT
1 TGGCCATGTGACCAACACTG-CCTGGACACAGAGGCCTGTCCT
16006779 TGGCCATGTG
1 TGGCCATGTG
16006789 GATCCTAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 43 0.96
43 1 0.02
ACGTcount: A:0.19, C:0.32, G:0.27, T:0.22
Consensus pattern (42 bp):
TGGCCATGTGACCAACACTGCCTGGACACAGAGGCCTGTCCT
Found at i:16007391 original size:19 final size:19
Alignment explanation
Indices: 16007369--16007406 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16007359 TTATTTTGTC
16007369 TTCTTCTTTATCTTTCCCT
1 TTCTTCTTTATCTTTCCCT
16007388 TTCTTCTTTATCTTTCCCT
1 TTCTTCTTTATCTTTCCCT
16007407 ACCAACCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (19 bp):
TTCTTCTTTATCTTTCCCT
Found at i:16007835 original size:33 final size:33
Alignment explanation
Indices: 16007790--16007884 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
16007780 ACTGTTTGCA
* *
16007790 TATT-TTATTTATTTATTTCTTATTTCTTATTAT
1 TATTATTA-TTATTTATTTATTATTTATTATTAT
* * *
16007823 TATTATTATTATTTCTTTATTGTTTATTATTCT
1 TATTATTATTATTTATTTATTATTTATTATTAT
*
16007856 TATTTTCATTATTATTTATTTATTTTTTA
1 TA--TT-ATTATTATTTATTTATTATTTA
16007885 CTATACTTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 26 0.51
34 3 0.06
35 2 0.04
36 20 0.39
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (33 bp):
TATTATTATTATTTATTTATTATTTATTATTAT
Found at i:16007843 original size:30 final size:29
Alignment explanation
Indices: 16007802--16007859 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
16007792 TTTTATTTAT
16007802 TTATTTCTTATT-TCTTATTATTATTATTA
1 TTATTTCTTATTGT-TTATTATTATTATTA
*
16007831 TTATTTCTTTATTGTTTATTATTCTTATT
1 TTATTTC-TTATTGTTTATTATTATTATT
16007860 TTCATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 18 0.69
31 1 0.04
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.71
Consensus pattern (29 bp):
TTATTTCTTATTGTTTATTATTATTATTA
Found at i:16007851 original size:18 final size:18
Alignment explanation
Indices: 16007797--16007884 Score: 72
Period size: 18 Copynumber: 4.6 Consensus size: 18
16007787 GCATATTTTA
*
16007797 TTTATTTATTTCTTATTTC
1 TTTATTT-TTTATTATTTC
16007816 TTATTATTATTATTATTATTTC
1 -T-TTATT-TT-TTATTATTTC
*
16007838 TTTATTGTTTATTA-TTC
1 TTTATTTTTTATTATTTC
*
16007855 -TTATTTTCATTATTATTTA
1 TTTATTTT--TTATTATTTC
16007874 TTTATTTTTTA
1 TTTATTTTTTA
16007885 CTATACTTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
16 6 0.11
17 3 0.05
18 15 0.26
19 3 0.05
20 13 0.23
21 7 0.12
22 10 0.18
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.72
Consensus pattern (18 bp):
TTTATTTTTTATTATTTC
Found at i:16010484 original size:11 final size:11
Alignment explanation
Indices: 16010468--16010492 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16010458 AAATATATAT
16010468 ATAAATAAAAA
1 ATAAATAAAAA
16010479 ATAAATAAAAA
1 ATAAATAAAAA
16010490 ATA
1 ATA
16010493 CATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:16013237 original size:19 final size:19
Alignment explanation
Indices: 16013201--16013239 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16013191 TTTTCATCAT
* *
16013201 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
16013220 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
16013239 A
1 A
16013240 AAATAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:16013745 original size:55 final size:56
Alignment explanation
Indices: 16013680--16013794 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
16013670 AGCATGGCTG
* *
16013680 CCAGAAACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGAAACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
16013736 CCAG-AACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGAAACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
16013791 CCAG
1 CCAG
16013795 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGAAACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:16013757 original size:27 final size:27
Alignment explanation
Indices: 16013705--16013794 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
16013695 GTGACAGAGT
16013705 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
16013734 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
16013761 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
16013789 CACCAG
1 CACCAG
16013795 GATGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:16013947 original size:28 final size:28
Alignment explanation
Indices: 16013900--16013965 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
16013890 AAATTAACCC
*
16013900 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
16013928 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
16013956 TAGGGGTATA
1 TAGGGGTATA
16013966 TTAGCACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:16017456 original size:21 final size:21
Alignment explanation
Indices: 16017432--16017473 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16017422 AGTAAATTAC
16017432 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
16017453 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
16017474 CGAGATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:16026880 original size:21 final size:21
Alignment explanation
Indices: 16026806--16026882 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
16026796 CCGAAGGCTG
* *
16026806 AACAGAAGCACATAAGTGCTA
1 AACAGAAACTCATAAGTGCTA
* * *
16026827 AACAGAAACCCATAAGGGTTA
1 AACAGAAACTCATAAGTGCTA
* * *
16026848 AACAGAAGCTCAAAAGTGCTG
1 AACAGAAACTCATAAGTGCTA
16026869 AACAGAAACTCATA
1 AACAGAAACTCATA
16026883 TAAGTAGAAC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.48, C:0.19, G:0.18, T:0.14
Consensus pattern (21 bp):
AACAGAAACTCATAAGTGCTA
Found at i:16026894 original size:42 final size:43
Alignment explanation
Indices: 16026805--16026900 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
16026795 CCCGAAGGCT
* * *
16026805 GAACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTA
1 GAACAGAAGCTCAAAAGTGCTAAACAGAAACCCATAAGAGTTA
* *
16026848 -AACAGAAGCTCAAAAGTGCTGAACAGAAACTCATATA-AG-TA
1 GAACAGAAGCTCAAAAGTGCTAAACAGAAACCCATA-AGAGTTA
16026889 GAACAGAAGCTC
1 GAACAGAAGCTC
16026901 GTGATAGCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.04
42 43 0.93
43 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.15
Consensus pattern (43 bp):
GAACAGAAGCTCAAAAGTGCTAAACAGAAACCCATAAGAGTTA
Found at i:16028925 original size:4 final size:4
Alignment explanation
Indices: 16028916--16028944 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
16028906 TTACTACTTG
16028916 GTGA GTGA GTGA GTGA GTGA GTGA GTGA G
1 GTGA GTGA GTGA GTGA GTGA GTGA GTGA G
16028945 GAGGCGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (4 bp):
GTGA
Found at i:16039853 original size:16 final size:16
Alignment explanation
Indices: 16039834--16039864 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16039824 TATTTCTAAT
16039834 TTTCAACCTTTCAATA
1 TTTCAACCTTTCAATA
*
16039850 TTTCATCCTTTCAAT
1 TTTCAACCTTTCAAT
16039865 TTTATTTTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTCAACCTTTCAATA
Found at i:16048116 original size:12 final size:12
Alignment explanation
Indices: 16048099--16048123 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16048089 TTGTGTGGTC
16048099 TTTATTTTATTT
1 TTTATTTTATTT
16048111 TTTATTTTATTT
1 TTTATTTTATTT
16048123 T
1 T
16048124 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:16055404 original size:3 final size:3
Alignment explanation
Indices: 16055398--16056197 Score: 1591
Period size: 3 Copynumber: 266.7 Consensus size: 3
16055388 TGCAAAAAAA
*
16055398 AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055446 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055494 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055542 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055590 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055638 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055686 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055734 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055782 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055830 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055878 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055926 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16055974 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16056022 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16056070 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16056118 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16056166 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16056198 AGCAAGTTTA
Statistics
Matches: 795, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 795 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16061135 original size:3 final size:3
Alignment explanation
Indices: 16061115--16061166 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
16061105 TCTGGTAGGC
* * * * * *
16061115 TCA TCT TCA TCA TAA TCA TCA TCA CCA TCG TCA TCC TCA TCA TCA CCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
16061163 TCA T
1 TCA T
16061167 TTTCATCCTC
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.29, C:0.37, G:0.02, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:16068039 original size:47 final size:48
Alignment explanation
Indices: 16067985--16068116 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 48
16067975 CACAATTGAT
** *
16067985 AAGTACCTATACCATGGCTTGTAGCCAAATCAAGGTAACTTATC-CTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* *
16068032 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
* * * *
16068080 AAATACCCATACCATGGCCCATAGCGAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
16068117 TCACTCGTAC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 39 0.53
48 35 0.47
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:16071926 original size:60 final size:60
Alignment explanation
Indices: 16071857--16071970 Score: 219
Period size: 60 Copynumber: 1.9 Consensus size: 60
16071847 TGCTTGGCCA
*
16071857 AATTTAACATGTATTACTAGTAGCCCATATTTTCAATTTATTCACACTTTTAACTAGCCG
1 AATTTAACATGTATTACTAGCAGCCCATATTTTCAATTTATTCACACTTTTAACTAGCCG
16071917 AATTTAACATGTATTACTAGCAGCCCATATTTTCAATTTATTCACACTTTTAAC
1 AATTTAACATGTATTACTAGCAGCCCATATTTTCAATTTATTCACACTTTTAAC
16071971 CACCACATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.40
Consensus pattern (60 bp):
AATTTAACATGTATTACTAGCAGCCCATATTTTCAATTTATTCACACTTTTAACTAGCCG
Found at i:16082713 original size:47 final size:47
Alignment explanation
Indices: 16082652--16082768 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
16082642 ACCCATACTG
* * ** *
16082652 TGGCCCGCAGCCAAATCAAGGTAACTTATGC-CGGAGTACCTATACCA
1 TGGCCCGTAGCCAAATCAAGGTAACTCAT-CTCAAAATACCTATACCA
* * *
16082699 TGGCTCGTAGCCAAATCAAGGTAACTCCTCTCAAAATACCTATATCA
1 TGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAATACCTATACCA
*
16082746 TGGCCCGTAGCCAAGTCAAGGTA
1 TGGCCCGTAGCCAAATCAAGGTA
16082769 TTAGTCACAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 58 0.98
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (47 bp):
TGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAATACCTATACCA
Found at i:16087079 original size:27 final size:25
Alignment explanation
Indices: 16087035--16087217 Score: 134
Period size: 27 Copynumber: 6.8 Consensus size: 25
16087025 GACCCTTAAC
* *
16087035 TTGTAAAATTACTAAAATACCTCCGAG
1 TTGTAAAATTAC-GAAATACC-CCGAT
*
16087062 TTGTAAAATTATCGAAATACCCCTAAT
1 TTGTAAAATTA-CGAAATACCCC-GAT
* **
16087089 TTGTGAAATTACCGAAATACCCTTATT
1 TTGTAAAATTA-CGAAATACCCCGA-T
* *
16087116 TTGTGAAATTATCGAAATACCCTCGAC
1 TTGTAAAATTA-CGAAATACCC-CGAT
*
16087143 TTGTAAAATTACTAAAATACCCCTGAT
1 TTGTAAAATTAC-GAAATACCCC-GAT
*
16087170 TTGTAAAATTACTGAAATACCCTTG-T
1 TTGTAAAATTAC-GAAATACCC-CGAT
*
16087196 AGTGTAAAATTACCGAAATACC
1 -TTGTAAAATTA-CGAAATACC
16087218 TTGTAGGATA
Statistics
Matches: 130, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
26 6 0.05
27 121 0.93
28 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (25 bp):
TTGTAAAATTACGAAATACCCCGAT
Found at i:16087152 original size:54 final size:52
Alignment explanation
Indices: 16087035--16087217 Score: 172
Period size: 54 Copynumber: 3.4 Consensus size: 52
16087025 GACCCTTAAC
** * * *
16087035 TTGTAAAATTACTAAAATACCTCCGAGTTGTAAAATTATCGAAATACCC-CTAA
1 TTGTAAAATTACCGAAATACC-CTGATTTGTAAAATTATCGAAATACCCTC-GA
* * *
16087088 TTTGTGAAATTACCGAAATACCCTTATTTTGTGAAATTATCGAAATACCCTCGA
1 -TTGTAAAATTACCGAAATACCCTGA-TTTGTAAAATTATCGAAATACCCTCGA
** *
16087142 CTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATTA-CTGAAATACCCTTGTA
1 -TTGTAAAATTACCGAAATA-CCCTGATTTGTAAAATTATC-GAAATACCCTCG-A
*
16087197 GTGTAAAATTACCGAAATACC
1 TTGTAAAATTACCGAAATACC
16087218 TTGTAGGATA
Statistics
Matches: 106, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
53 5 0.05
54 94 0.89
55 7 0.07
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (52 bp):
TTGTAAAATTACCGAAATACCCTGATTTGTAAAATTATCGAAATACCCTCGA
Found at i:16087161 original size:81 final size:82
Alignment explanation
Indices: 16087036--16087217 Score: 226
Period size: 81 Copynumber: 2.2 Consensus size: 82
16087026 ACCCTTAACT
** * * *
16087036 TGTAAAATTACTAAAATA-CCTCCGAGTTGTAAAATTATCGAAATACCCCTAATTTGTGAAATTA
1 TGTAAAATTACCGAAATACCCTCCGACTTGTAAAATTATCAAAATACCCCTAATTTGTAAAATTA
**
16087100 CCGAAATACCCTTATTT
66 CCGAAATACCCTTATAG
* * *
16087117 TGTGAAATTATCGAAATACCCT-CGACTTGTAAAATTA-CTAAAATACCCCTGATTTGTAAAATT
1 TGTAAAATTACCGAAATACCCTCCGACTTGTAAAATTATC-AAAATACCCCTAATTTGTAAAATT
* *
16087180 ACTGAAATACCCTTGTAG
65 ACCGAAATACCCTTATAG
16087198 TGTAAAATTACCGAAATACC
1 TGTAAAATTACCGAAATACC
16087218 TTGTAGGATA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 81 0.95
82 3 0.04
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (82 bp):
TGTAAAATTACCGAAATACCCTCCGACTTGTAAAATTATCAAAATACCCCTAATTTGTAAAATTA
CCGAAATACCCTTATAG
Found at i:16087732 original size:32 final size:32
Alignment explanation
Indices: 16087661--16087734 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
16087651 CTGTGTGCCG
*
16087661 ATTATAATACCGTCACTGATGGCTATGTACCA
1 ATTATAATACAGTCACTGATGGCTATGTACCA
** * * * *
16087693 AACATAATACAGTTACTGATGGCTTTGTGCTA
1 ATTATAATACAGTCACTGATGGCTATGTACCA
16087725 ATTATAATAC
1 ATTATAATAC
16087735 CGCTATTGAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (32 bp):
ATTATAATACAGTCACTGATGGCTATGTACCA
Found at i:16092689 original size:38 final size:39
Alignment explanation
Indices: 16092585--16092698 Score: 160
Period size: 39 Copynumber: 2.9 Consensus size: 39
16092575 AAAGAATAGT
* *
16092585 GTTAGTGAAAGTATTATGGCATCGACAC-GGCCTTAAAGA
1 GTTAGTGAAAGTATTATGGCATCGACACAGG-ATTGAAGA
*
16092624 GTTAGTGAAAGTATTATGGCATCGACACAGGATTGAAGC
1 GTTAGTGAAAGTATTATGGCATCGACACAGGATTGAAGA
* *
16092663 GTTAGTGAAAG-ATTATGGCATGGACACAGGGTTGAA
1 GTTAGTGAAAGTATTATGGCATCGACACAGGATTGAA
16092699 TAAGCTACGT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
38 23 0.33
39 44 0.64
40 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (39 bp):
GTTAGTGAAAGTATTATGGCATCGACACAGGATTGAAGA
Found at i:16093581 original size:43 final size:44
Alignment explanation
Indices: 16093532--16093703 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 44
16093522 GATTATCGAG
* *
16093532 ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATATAAGACCATATCTGGGACATTGGCATCGTAT
* * * *
16093576 -TGTGATTACTTGTAAGACCATGTTTGGGACATTGGCATCGT-T
1 ATGTGATTACATATAAGACCATATCTGGGACATTGGCATCGTAT
* * * * *
16093618 ATATGATTTCGTATAAGACCCTATCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATATAAGACCATATCTGGGACATTGGCATCGTAT
* * * * *
16093661 ATGTGATAACATGTAACACCATATCTGGGATA-TGGCATTGTAT
1 ATGTGATTACATATAAGACCATATCTGGGACATTGGCATCGTAT
16093704 TTGCTTTATG
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
42 8 0.08
43 96 0.92
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATATAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:16094471 original size:22 final size:20
Alignment explanation
Indices: 16094446--16094494 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
16094436 GTTGTGTAAG
*
16094446 TTTGATGATTTTGGCATATTGA
1 TTTGATG-TTTTGGC-TATGGA
16094468 TTTGGTATGTTTTGGCTATGGA
1 TTT-G-ATGTTTTGGCTATGGA
16094490 TTTGA
1 TTTGA
16094495 ATAGTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 11 0.46
23 8 0.33
24 3 0.12
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (20 bp):
TTTGATGTTTTGGCTATGGA
Found at i:16096506 original size:45 final size:45
Alignment explanation
Indices: 16096342--16096509 Score: 178
Period size: 45 Copynumber: 3.7 Consensus size: 45
16096332 TAGGATTTCG
* * *
16096342 ATATGT-GTTTTCGTGTAAGCCCACGTTTGGGACGTTGGCATCGAT
1 ATATGTGGTTTT-GTGTAAGACCACATCTGGGACGTTGGCATCGAT
* * * * * *
16096387 ATATGTGTTTTTGTCTAAGACTACATCTAGGATGTTGGCATCAAT
1 ATATGTGGTTTTGTGTAAGACCACATCTGGGACGTTGGCATCGAT
*
16096432 ATATGT-GTTTTCGTGTAAGAACACATCTGGGACGTTGGCATCGAT
1 ATATGTGGTTTT-GTGTAAGACCACATCTGGGACGTTGGCATCGAT
* * **
16096477 ATACGTGGTTATGTGTAAGACCATGTCTGGGAC
1 ATATGTGGTTTTGTGTAAGACCACATCTGGGAC
16096510 ATCGGTATCG
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
44 4 0.04
45 87 0.88
46 8 0.08
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (45 bp):
ATATGTGGTTTTGTGTAAGACCACATCTGGGACGTTGGCATCGAT
Found at i:16096945 original size:22 final size:23
Alignment explanation
Indices: 16096920--16096965 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16096910 CAACCAAATC
16096920 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16096942 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16096965 A
1 A
16096966 CGTCATCAGA
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:16096971 original size:23 final size:23
Alignment explanation
Indices: 16096927--16096971 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16096917 ATCAATTCAA
*
16096927 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16096950 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16096972 CAGATATCTA
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:16100590 original size:8 final size:8
Alignment explanation
Indices: 16100577--16100602 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
16100567 TTGTAAGATA
16100577 GTTTTAAG
1 GTTTTAAG
16100585 GTTTTAAG
1 GTTTTAAG
16100593 GTTTTAAG
1 GTTTTAAG
16100601 GT
1 GT
16100603 GAGTACTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (8 bp):
GTTTTAAG
Found at i:16109705 original size:43 final size:42
Alignment explanation
Indices: 16109548--16109703 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
16109538 ATGTGTTCTT
* * *
16109548 GTGTAATACCACGTCTGGGACGTTTGCATCGATATGTGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGA-TAC
* * * * *
16109591 GTGTAAGACCATGTATAGGACATTGGCATCG-TATTTGATTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATAC
* * *
16109632 GTCTAAGACTC-TGTCTGGGACAGTT-GCATTGATATGTGATAGC
1 GTGTAAGAC-CACGTCTGGGACA-TTGGCATCGATATGTGATA-C
*
16109675 ATGTAAGACCACGTCTGGGACATTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
16109704 TGTACGATAT
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 24 0.27
42 19 0.21
43 47 0.52
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATAC
Found at i:16114244 original size:16 final size:16
Alignment explanation
Indices: 16114223--16114256 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16114213 TCTAGGGCAT
16114223 GTTGTATCAGCATCGA
1 GTTGTATCAGCATCGA
16114239 GTTGTATCAGCATCGA
1 GTTGTATCAGCATCGA
16114255 GT
1 GT
16114257 ATTCGGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (16 bp):
GTTGTATCAGCATCGA
Found at i:16118889 original size:17 final size:19
Alignment explanation
Indices: 16118867--16118903 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
16118857 TTGAGATTAA
16118867 TGGGCC-ACACGGG-CGTG
1 TGGGCCTACACGGGCCGTG
*
16118884 TGGGCCTACATGGGCCGTG
1 TGGGCCTACACGGGCCGTG
16118903 T
1 T
16118904 TATGGGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.11, C:0.27, G:0.43, T:0.19
Consensus pattern (19 bp):
TGGGCCTACACGGGCCGTG
Found at i:16120754 original size:44 final size:44
Alignment explanation
Indices: 16120706--16120850 Score: 154
Period size: 44 Copynumber: 3.3 Consensus size: 44
16120696 AACGATTCTG
*
16120706 CACACTTAGTGCCATTTCAATTAACTGAAGCTATCTCGGTATCA
1 CACACTTAGTGCCATTTCAATTAACCGAAGCTATCTCGGTATCA
* * *** *
16120750 CACACTTAGTG-C-TTT-AAGGGTTAGCCAAAGCTAGAACGAT-TCTA
1 CACACTTAGTGCCATTTCAA---TTAACCGAAGCTATCTCGGTATC-A
*
16120794 CACACTTAGTGCCATTTCAATTAACCGAAGCTATCTCGGTATCT
1 CACACTTAGTGCCATTTCAATTAACCGAAGCTATCTCGGTATCA
16120838 CACACTTAGTGCC
1 CACACTTAGTGCC
16120851 TCAGATAGCC
Statistics
Matches: 79, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 3 0.04
44 63 0.80
45 3 0.04
46 3 0.04
47 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
CACACTTAGTGCCATTTCAATTAACCGAAGCTATCTCGGTATCA
Found at i:16120811 original size:88 final size:88
Alignment explanation
Indices: 16120662--16120849 Score: 331
Period size: 88 Copynumber: 2.1 Consensus size: 88
16120652 TTAAGATCCG
* * *
16120662 CACACTTAGTGCTTTAAGGGTTAGCCGAGGCTAGAACGATTCTGCACACTTAGTGCCATTTCAAT
1 CACACTTAGTGCTTTAAGGGTTAGCCAAAGCTAGAACGATTCTACACACTTAGTGCCATTTCAAT
*
16120727 TAACTGAAGCTATCTCGGTATCA
66 TAACCGAAGCTATCTCGGTATCA
16120750 CACACTTAGTGCTTTAAGGGTTAGCCAAAGCTAGAACGATTCTACACACTTAGTGCCATTTCAAT
1 CACACTTAGTGCTTTAAGGGTTAGCCAAAGCTAGAACGATTCTACACACTTAGTGCCATTTCAAT
*
16120815 TAACCGAAGCTATCTCGGTATCT
66 TAACCGAAGCTATCTCGGTATCA
16120838 CACACTTAGTGC
1 CACACTTAGTGC
16120850 CTCAGATAGC
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (88 bp):
CACACTTAGTGCTTTAAGGGTTAGCCAAAGCTAGAACGATTCTACACACTTAGTGCCATTTCAAT
TAACCGAAGCTATCTCGGTATCA
Found at i:16122816 original size:43 final size:41
Alignment explanation
Indices: 16122714--16122816 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
16122704 TGTGATTACG
* * * * **
16122714 TGTAAAACCATGTTTGGGACATTGGCATCGTATTTGATTCA
1 TGTAAGACCATGTTTGGGACAGTGACATCGTATGTGATGAA
16122755 TGTAAGACTC-TGTTTGGGACAGTGACATCGATATGTGATAGAA
1 TGTAAGAC-CATGTTTGGGACAGTGACATCG-TATGTGAT-GAA
*
16122798 TGTAAGACCATGTCTGGGA
1 TGTAAGACCATGTTTGGGA
16122817 TGTTGGCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
41 25 0.49
42 9 0.18
43 17 0.33
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTTTGGGACAGTGACATCGTATGTGATGAA
Found at i:16132039 original size:19 final size:19
Alignment explanation
Indices: 16132015--16132051 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16132005 TAAGGGGTAG
16132015 CTGTTCTATGATGAACTTA
1 CTGTTCTATGATGAACTTA
16132034 CTGTTCTATGATGAACTT
1 CTGTTCTATGATGAACTT
16132052 CGTATTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (19 bp):
CTGTTCTATGATGAACTTA
Found at i:16141065 original size:66 final size:66
Alignment explanation
Indices: 16140994--16141123 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
16140984 ACGTATCATG
*
16140994 TACTCGTATTTGAATTTTGATTTGGATTGAATTATAAGGGTATAATTGATGCAATTTTGAAAGAT
1 TACTCGTATTTGAATTTTGATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAT
16141059 A
66 A
* *
16141060 TACTCGTATTTGAATTTTTATTTGGATTGAATTATAATGGTATAAGTGATGCAATTTTGAAAGA
1 TACTCGTATTTGAATTTTGATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGA
16141124 GTGTTACGAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (66 bp):
TACTCGTATTTGAATTTTGATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAT
A
Found at i:16141327 original size:40 final size:40
Alignment explanation
Indices: 16141274--16141512 Score: 352
Period size: 40 Copynumber: 6.0 Consensus size: 40
16141264 TTGAGAGTTA
* *
16141274 TATATTCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
16141314 TATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
16141354 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * *
16141394 TATGTCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
16141434 TATATCAGGGTTAAGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
16141474 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
16141513 ATGTGTATTC
Statistics
Matches: 176, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:16153122 original size:68 final size:68
Alignment explanation
Indices: 16153044--16153174 Score: 210
Period size: 68 Copynumber: 1.9 Consensus size: 68
16153034 TTTAACTCTG
*
16153044 AATCAAACGATTTATTCATTTGACTTGACCCATAGGAATCCCTAAGTTATATTA-TACTCTCTCT
1 AATCAAACGATCTATTCATTTGACTTGACCCATAGGAATCCCTAAGTTATATTATTA-TCTCTCT
16153108 CGAA
65 CGAA
* * *
16153112 AATCAGACGATCTATTCATTTGACTTGACCCGTAGGAATTCCTAAGTTATATTATTATCTCTC
1 AATCAAACGATCTATTCATTTGACTTGACCCATAGGAATCCCTAAGTTATATTATTATCTCTC
16153175 CCGAGACTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
68 56 0.97
69 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (68 bp):
AATCAAACGATCTATTCATTTGACTTGACCCATAGGAATCCCTAAGTTATATTATTATCTCTCTC
GAA
Found at i:16160960 original size:46 final size:46
Alignment explanation
Indices: 16160889--16160980 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
16160879 CGTGTTAGTG
*
16160889 TGAGAGCTAGTGATCAAGAGAATGGTACATCCTCTTCACCTCCTGT
1 TGAGAGCTAGTGATCAAGAGAATGGTACATCCTCTGCACCTCCTGT
*
16160935 TGAGAGCTAGTGATCAAGAGGATGGTACATCCTCTGCACCTCCTGT
1 TGAGAGCTAGTGATCAAGAGAATGGTACATCCTCTGCACCTCCTGT
16160981 ACCTCCATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (46 bp):
TGAGAGCTAGTGATCAAGAGAATGGTACATCCTCTGCACCTCCTGT
Found at i:16162556 original size:66 final size:66
Alignment explanation
Indices: 16162479--16162610 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
16162469 GTAGATGAGC
* *
16162479 CCATCATTCATCATCTTATTGACATACATCATATTAATCCCTTTGAGTTTCTAGGAAATCTCGAT
1 CCATCATTCATCATCTTATTAACATACATCATATTAATCCCGTTGAGTTTCTAGGAAATCTCGAT
16162544 G
66 G
16162545 CCATCATTCATCATCTTATTAACATACATCATATTAATCCCGTTGAGTTTCTAGGAAATCTCGAT
1 CCATCATTCATCATCTTATTAACATACATCATATTAATCCCGTTGAGTTTCTAGGAAATCTCGAT
16162610 G
66 G
16162611 GAATAACCAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (66 bp):
CCATCATTCATCATCTTATTAACATACATCATATTAATCCCGTTGAGTTTCTAGGAAATCTCGAT
G
Found at i:16170188 original size:70 final size:69
Alignment explanation
Indices: 16170074--16170213 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 69
16170064 GTAAACTTAC
* * *
16170074 CGAGTAATTAGCATACATCCATATTTAAATCATGAAATCATCAATTATGAGATGCTTTCCTATCA
1 CGAGTAATTAGCATACATCCATATTTAAATCATGAAATCATCAATTATGAAATGATTCCCTATCA
*
16170139 TATG
66 CATG
16170143 CNGAGTAATTAGCATACATCCATATTTAAATCATGAAATCATCAATTATGAAATGATTCCCTATC
1 C-GAGTAATTAGCATACATCCATATTTAAATCATGAAATCATCAATTATGAAATGATTCCCTATC
16170208 ACATG
65 ACATG
16170213 C
1 C
16170214 ACTCAATCAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
69 1 0.02
70 65 0.98
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (69 bp):
CGAGTAATTAGCATACATCCATATTTAAATCATGAAATCATCAATTATGAAATGATTCCCTATCA
CATG
Found at i:16172235 original size:75 final size:75
Alignment explanation
Indices: 16172112--16172261 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
16172102 GGCTGATTAA
16172112 GAGGCTAAGTTTGAGCGACTTAGTCAGCATGCTTCTGAAATGGTTCTTTTTTAGATGGACCATTG
1 GAGGCTAAGTTTGAGCGACTTAGTCAGCATGCTTCTGAAATGGTTCTTTTTTAGATGGACCATTG
16172177 TAAGTGTAAC
66 TAAGTGTAAC
*
16172187 GAGGCTAAGTTTGAGCGACTTAGTCAGCATGCTTCTGAAATGGTTCTTTTTTAGATGTACCATTG
1 GAGGCTAAGTTTGAGCGACTTAGTCAGCATGCTTCTGAAATGGTTCTTTTTTAGATGGACCATTG
16172252 TAAGTGTAAC
66 TAAGTGTAAC
16172262 ACCCTTAGCT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (75 bp):
GAGGCTAAGTTTGAGCGACTTAGTCAGCATGCTTCTGAAATGGTTCTTTTTTAGATGGACCATTG
TAAGTGTAAC
Found at i:16175944 original size:11 final size:12
Alignment explanation
Indices: 16175917--16175945 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16175907 ACAACAAGAA
16175917 CATTCAAATATT
1 CATTCAAATATT
16175929 CATTCAAATA-T
1 CATTCAAATATT
16175940 CATTCA
1 CATTCA
16175946 CCATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (12 bp):
CATTCAAATATT
Found at i:16184708 original size:20 final size:20
Alignment explanation
Indices: 16184683--16184720 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16184673 GTATCTCGTG
*
16184683 TATATATTTTAATATTATAA
1 TATATATATTAATATTATAA
*
16184703 TATATATATTCATATTAT
1 TATATATATTAATATTAT
16184721 GTATATACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATATATTAATATTATAA
Found at i:16185268 original size:22 final size:22
Alignment explanation
Indices: 16185243--16185289 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
16185233 TATGTGTTAT
*
16185243 ATATTATGTATATATGCTCTCA
1 ATATTATATATATATGCTCTCA
* * *
16185265 ATATTATATTTTTATGCTCTTA
1 ATATTATATATATATGCTCTCA
16185287 ATA
1 ATA
16185290 CCATCTTATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (22 bp):
ATATTATATATATATGCTCTCA
Found at i:16192319 original size:23 final size:23
Alignment explanation
Indices: 16192277--16192325 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
16192267 TTTTTATAAA
*
16192277 TAATAGTTTTTATTAATATTTAT
1 TAATAGTTTTAATTAATATTTAT
*
16192300 TAATA-TTTTAATTAATTATTTTT
1 TAATAGTTTTAATTAA-TATTTAT
16192323 TAA
1 TAA
16192326 AAAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TAATAGTTTTAATTAATATTTAT
Found at i:16199643 original size:54 final size:53
Alignment explanation
Indices: 16199559--16199669 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
16199549 AGGAAGCGTC
16199559 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATATATATGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACAT-TATATGTT
* * * *
16199613 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATATGTT
16199666 CTGG
1 CTGG
16199670 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 11 0.21
54 42 0.79
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATATGTT
Found at i:16199666 original size:26 final size:26
Alignment explanation
Indices: 16199569--16199669 Score: 130
Period size: 27 Copynumber: 3.8 Consensus size: 26
16199559 CTGGTGGCTA
*
16199569 TGCCACAATTATCTGATCTGGTGACAC
1 TGCCAC-ATTATCTGTTCTGGTGACAC
* * *
16199596 TGCCACATATATATGTTCTGGTGGCTC
1 TGCCACAT-TATCTGTTCTGGTGACAC
16199623 TGCCACAATTATCTGTTCTGGTGACAC
1 TGCCAC-ATTATCTGTTCTGGTGACAC
*
16199650 TGTCACATTATCTGTTCTGG
1 TGCCACATTATCTGTTCTGG
16199670 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
26 16 0.25
27 46 0.72
28 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
TGCCACATTATCTGTTCTGGTGACAC
Found at i:16218736 original size:40 final size:40
Alignment explanation
Indices: 16218636--16218900 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
16218626 GCTCCTCGTT
* * * *
16218636 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
16218676 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
16218715 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
16218755 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
16218795 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
16218835 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16218876 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16218901 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16218860 original size:80 final size:80
Alignment explanation
Indices: 16218603--16218900 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
16218593 AAATCACGTA
* ** * * *
16218603 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
16218665 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
16218681 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
16218744 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
16218761 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
16218825 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
16218841 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
16218901 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:16218909 original size:41 final size:41
Alignment explanation
Indices: 16218832--16218909 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
16218822 TTTGTATCTC
* * *
16218832 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
16218873 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
16218910 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:16220585 original size:43 final size:46
Alignment explanation
Indices: 16220537--16220632 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 46
16220527 AGCCCCAAGC
**
16220537 CTTATCTCTC-GGAGGTAGCAA-GAGAGCAGGTTAAAGATTG-AG-T
1 CTTATCTCTCTGGAGGTAGCAAGGA-AGCAGACTAAAGATTGAAGAT
* *
16220580 CTTATCT-TCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGAT
16220625 CTTATCTC
1 CTTATCTC
16220633 CCTGAAGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.05
43 30 0.68
44 4 0.09
45 8 0.18
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (46 bp):
CTTATCTCTCTGGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGAT
Found at i:16229382 original size:19 final size:17
Alignment explanation
Indices: 16229336--16229388 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
16229326 ATATGTAAAG
16229336 AATATAAAATAAAAATA
1 AATATAAAATAAAAATA
*
16229353 AATAAATAAATAAAACATA
1 AATATA-AAATAAAA-ATA
*
16229372 ACGTATAAAATATAAAA
1 A-ATATAAAATA-AAAA
16229389 AAGGGTTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 5 0.17
18 8 0.28
19 10 0.34
20 6 0.21
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (17 bp):
AATATAAAATAAAAATA
Found at i:16231060 original size:38 final size:38
Alignment explanation
Indices: 16231018--16231115 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 38
16231008 CATCTCCGTT
* * *
16231018 CAACCCAACACACCATGTGGGGATAAAATCGACCCACC
1 CAACCCTACACACCAAGTGGGGATAAAATCAACCCACC
* * *
16231056 CAACCCTACACACCAAGCATGAGGATAAAATCAACCTATC
1 CAACCCTACACACCAAG--TGGGGATAAAATCAACCCACC
16231096 CAACCCTACACACCAAGTGG
1 CAACCCTACACACCAAGTGG
16231116 TACTGTATAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
38 17 0.33
40 34 0.67
ACGTcount: A:0.39, C:0.36, G:0.13, T:0.12
Consensus pattern (38 bp):
CAACCCTACACACCAAGTGGGGATAAAATCAACCCACC
Found at i:16232736 original size:35 final size:35
Alignment explanation
Indices: 16232697--16232769 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
16232687 ACACATTCTT
16232697 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
16232732 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
16232767 TAT
1 TAT
16232770 CACATACCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCACATAAATAATATA
Found at i:16246026 original size:44 final size:45
Alignment explanation
Indices: 16245919--16246342 Score: 389
Period size: 44 Copynumber: 9.6 Consensus size: 45
16245909 NNCAATACAT
* * * * *
16245919 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGG
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * * *
16245964 GAAGACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATATAG
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * * * *
16246007 GAAGATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACAT
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * * * *
16246051 GAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * * *
16246096 GAAGACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATATAG
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * * * *
16246139 GAAGATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACAT
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * * * *
16246183 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGG
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * * *
16246228 GAAGACAAGATCTG-TATCTTGGATCCACTTC-CTATCAATATAG
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * * *
16246271 GAAGATAGGATCTGCTATCTTCGATCTACTTC-CTGCCAATACAT
1 GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
* * *
16246315 GAAGACAAGATCTGCTTTCTGCGATCTA
1 GAAGATAAGATCTGCTATCTTCGATCTA
16246343 TTCCACTGCC
Statistics
Matches: 303, Mismatches: 69, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
43 60 0.20
44 188 0.62
45 55 0.18
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
GAAGATAAGATCTGCTATCTTCGATCTACTTCACTACCAATATAG
Found at i:16246148 original size:132 final size:132
Alignment explanation
Indices: 16245911--16246342 Score: 794
Period size: 132 Copynumber: 3.3 Consensus size: 132
16245901 NNNNNNNNNN
* * *
16245911 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATC
1 CAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
16245976 TGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
66 TGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
16246041 GC
131 GC
*
16246043 CAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
1 CAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
16246108 TGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
66 TGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
16246173 GC
131 GC
*
16246175 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
1 CAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
*
16246240 TGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTC-C
66 TGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
16246304 TGC
131 -GC
16246307 CAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
1 CAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
16246343 TTCCACTGCC
Statistics
Matches: 291, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
131 1 0.00
132 290 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
CAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
TGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
GC
Found at i:16246554 original size:95 final size:95
Alignment explanation
Indices: 16246338--16247001 Score: 1202
Period size: 95 Copynumber: 7.0 Consensus size: 95
16246328 GCTTTCTGCG
*
16246338 ATCTATTCCACTGCCAAATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAC
1 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT--C
*
16246403 ATGGAGGTAAAATCTGCCATCTTTGATCTTCA
64 AGGGAGGTAAAATCTGCCATCTTTGATCTTCA
*
16246435 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAG
1 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
16246500 GGAGGTAAAATCTGCCATCTTTGATCTTCA
66 GGAGGTAAAATCTGCCATCTTTGATCTTCA
*
16246530 ATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
1 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
16246595 GGAGGTAAAATCTGCCATCTTTGATCTTCA
66 GGAGGTAAAATCTGCCATCTTTGATCTTCA
16246625 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
1 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
** *
16246690 GGAGGTAAAATCTGTAATATTTGATCTTCA
66 GGAGGTAAAATCTGCCATCTTTGATCTTCA
* *
16246720 ATCTATTCCACTGCCAGATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
1 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
16246785 GGAGGTAAAATCTGCCATCTTTGATCTTCA
66 GGAGGTAAAATCTGCCATCTTTGATCTTCA
16246815 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
1 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
16246880 GGAGGTAAAATCTGCCATCTTTGATCTTCA
66 GGAGGTAAAATCTGCCATCTTTGATCTTCA
*
16246910 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAG
1 ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
* *
16246975 GGAGGTAAAATCTTCCATCTTCGATCT
66 GGAGGTAAAATCTGCCATCTTTGATCT
16247002 GCTTCGCTGC
Statistics
Matches: 548, Mismatches: 19, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
95 488 0.89
97 60 0.11
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAG
GGAGGTAAAATCTGCCATCTTTGATCTTCA
Found at i:16247070 original size:229 final size:229
Alignment explanation
Indices: 16246808--16247364 Score: 1042
Period size: 229 Copynumber: 2.4 Consensus size: 229
16246798 GCCATCTTTG
16246808 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
16246873 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
* *
16246938 TAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTTCCATCTTCGATCTG
131 TAGAGTTATCGGCTTCAATGTACCCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
16247003 CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
196 CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
*
16247037 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
16247102 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATGCAGGGAGA
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
16247167 TAGAGTTATCGGCTTCAATGTACCCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
131 TAGAGTTATCGGCTTCAATGTACCCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
16247232 CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
196 CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
* *
16247266 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
16247331 TGGTCAGGGAGGTAAAATCTGCCATCTCTGATCT
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
16247365 GCTTCGCTGC
Statistics
Matches: 319, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
229 319 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (229 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
TAGAGTTATCGGCTTCAATGTACCCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
CTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
Found at i:16247099 original size:45 final size:45
Alignment explanation
Indices: 16247039--16247196 Score: 115
Period size: 45 Copynumber: 3.4 Consensus size: 45
16247029 GATCTGCAAT
*
16247039 CTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATGCAGGGAGATAGAGTTATCGG
* *** * * * *
16247084 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAATGCAGGGAGATAGAGT-T---ATC---G-G
*
16247134 CTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATGCAGGGAGATAGAGTTATCGG
* *
16247179 CTTCAATGTACCCCACTG
1 CTTCAATCTACTCCACTG
16247197 TGGTCAGGGA
Statistics
Matches: 81, Mismatches: 21, Indels: 22
0.65 0.17 0.18
Matches are distributed among these distances:
42 11 0.14
43 2 0.02
45 31 0.38
46 4 0.05
49 4 0.05
50 16 0.20
52 2 0.02
53 11 0.14
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATGCAGGGAGATAGAGTTATCGG
Found at i:16247142 original size:95 final size:95
Alignment explanation
Indices: 16247037--16247230 Score: 370
Period size: 95 Copynumber: 2.0 Consensus size: 95
16247027 AAGATCTGCA
*
16247037 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACCCCACTG
*
16247102 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TGGTCAGGGAGGTAAAATCTGCCATCTTCG
16247132 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACCCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACCCCACTG
16247197 TGGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TGGTCAGGGAGGTAAAATCTGCCATCTTCG
16247227 ATCT
1 ATCT
16247231 GCTTCGCTGC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACCCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:16247297 original size:134 final size:134
Alignment explanation
Indices: 16247132--16247410 Score: 497
Period size: 134 Copynumber: 2.1 Consensus size: 134
16247122 GCCATCTTTG
* *
16247132 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACCCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACCCCACTG
16247197 TGGTCAGGGAGGTAAAATCTGCCATCT-TCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
66 TGGTCAGGGAGGTAAAATCTGCCATCTCT-GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
16247261 CTGCA
130 CTGCA
* *
16247266 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACCCCACTG
*
16247331 TGGTCAGGGAGGTAAAATCTGCCATCTCTGATCTGCTTCGCTGCCAAGTACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTCTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
16247396 TGCA
131 TGCA
16247400 ATCTTCAATCT
1 ATCTTCAATCT
16247411 GCTCTACTAC
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
134 138 0.99
135 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACCCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTCTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:16247479 original size:86 final size:87
Alignment explanation
Indices: 16247360--16247532 Score: 224
Period size: 86 Copynumber: 2.0 Consensus size: 87
16247350 TGCCATCTCT
* * *
16247360 GATCTGCTTCGCTGCCAAGTACAGGAAGGCAAGATCT-GCAATCTTCAATCTGCTCTACTACAAA
1 GATCTACTTCGCTGCCAAGTACAGGAAGGCAAGATCTGGCAA-CTTCAACCAGCTCTACTACAAA
* *
16247424 CGAGAGTGGCAAGGTTTGTCTTC
65 CGAGAGAGGCAAGGTTTATCTTC
* * * * * *
16247447 GATCTACTTCGCTGTCAA-TGCAGGAAGGCAAGATCTGGTAACTTCAACCAGCTCTGCTACGACC
1 GATCTACTTCGCTGCCAAGTACAGGAAGGCAAGATCTGGCAACTTCAACCAGCTCTACTACAAAC
16247511 GAGAGAGGCAAGGTTTATCTTC
66 GAGAGAGGCAAGGTTTATCTTC
16247533 AATTTTTACT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
86 55 0.74
87 19 0.26
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (87 bp):
GATCTACTTCGCTGCCAAGTACAGGAAGGCAAGATCTGGCAACTTCAACCAGCTCTACTACAAAC
GAGAGAGGCAAGGTTTATCTTC
Found at i:16248818 original size:25 final size:24
Alignment explanation
Indices: 16248763--16248816 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
16248753 TGGCCTCTCC
*
16248763 TTTTTTCACTCATTTTTCTTTTCT
1 TTTTTTCACTAATTTTTCTTTTCT
* *
16248787 TCTTTTTCATTAA-TTTTCTCTTCT
1 T-TTTTTCACTAATTTTTCTTTTCT
16248811 TTTTTT
1 TTTTTT
16248817 TTAAGTGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.19
24 12 0.46
25 9 0.35
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTTCACTAATTTTTCTTTTCT
Found at i:16251695 original size:19 final size:20
Alignment explanation
Indices: 16251671--16251714 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
16251661 CGTGAAAGTC
* *
16251671 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
16251690 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
16251710 -AATGC
1 TAATGC
16251715 CTAAAGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:16278245 original size:26 final size:26
Alignment explanation
Indices: 16278216--16278299 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
16278206 TGATACAAAT
16278216 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16278242 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16278268 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16278294 TGATAA
1 TGATAA
16278300 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16279967 original size:27 final size:27
Alignment explanation
Indices: 16279926--16280047 Score: 181
Period size: 27 Copynumber: 4.5 Consensus size: 27
16279916 GAGGAAGCGT
*
16279926 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
16279953 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
16279980 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
16280007 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
16280035 TCTGGTGACTCTG
1 TCTGGTGGCTCTG
16280048 TCTTATTATC
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 74 0.86
28 12 0.14
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:16280011 original size:54 final size:55
Alignment explanation
Indices: 16279926--16280065 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
16279916 GAGGAAGCGT
* * *
16279926 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
16279980 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * **
16280035 TCTGGTGACTCTGTCTTAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
16280066 CAGCTATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 60 0.79
55 16 0.21
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:16280055 original size:27 final size:26
Alignment explanation
Indices: 16279924--16280065 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 26
16279914 TGGAGGAAGC
* *
16279924 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
16279951 GATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
16279978 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
16280005 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* * **
16280032 GTATCTGGTGACTCTGTCTTATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
16280059 GTTCTGG
1 GTTCTGG
16280066 CAGCTATGCT
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 6 0.06
27 83 0.80
28 15 0.14
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:16281137 original size:46 final size:45
Alignment explanation
Indices: 16281084--16281256 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
16281074 TTGGGCATCT
* *
16281084 GAACTCGTTGAGTTGAGTTCGAGCTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
16281130 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* * *
16281177 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
16281223 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16281257 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 63 0.61
47 32 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:16281236 original size:93 final size:93
Alignment explanation
Indices: 16281077--16281248 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
16281067 AGGATATTTG
* * * * *
16281077 GGCATCTGAACTCGTTGAGTTGAGTTCGAGCTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
16281142 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
16281170 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
16281235 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16281249 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16284907 original size:56 final size:54
Alignment explanation
Indices: 16284846--16284955 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 54
16284836 TTTTAGCTAC
*
16284846 TTAAATAAATAGTTAAGAATAAGTTAAGTGGTTGTCCCATAAATTTAATTAAATAA
1 TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAA--TAATTAAATAA
*
16284902 TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCGTAAATAATTAAATAA
1 TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAATAATTAAATAA
16284956 ATTTAATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 11 0.21
56 41 0.79
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (54 bp):
TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCATAAATAATTAAATAA
Found at i:16284979 original size:56 final size:54
Alignment explanation
Indices: 16284846--16284997 Score: 148
Period size: 56 Copynumber: 2.8 Consensus size: 54
16284836 TTTTAGCTAC
* *
16284846 TTAAATAAATAGTTAAGAATAAGTTAAGTGGTTGTCCCATAAATTTAATTAAATAA
1 TTAAATAAATAGCTAAAAATAAG-TAAGTGGTTGTCCCATAAA-TTAATTAAATAA
* * *
16284902 TTAAATAAATAGTTAAGAATAAGTCAAGTGGTTGTCCCGTAAA-TAATTAAATAAA
1 TTAAATAAATAGCTAAAAATAAGT-AAGTGGTTGTCCCATAAATTAATTAAAT-AA
* ** *
16284957 TTTAAT-TTTAGCTAATTAAATAAAT-AGTGGTTGTCCCATAA
1 TTAAATAAATAGCTAA--AAATAAGTAAGTGGTTGTCCCATAA
16284998 GTCAAGTGGT
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
54 30 0.36
55 8 0.10
56 46 0.55
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (54 bp):
TTAAATAAATAGCTAAAAATAAGTAAGTGGTTGTCCCATAAATTAATTAAATAA
Found at i:16295813 original size:29 final size:31
Alignment explanation
Indices: 16295765--16295828 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
16295755 TTTATAGTTA
*
16295765 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
16295796 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
16295825 TTTA
1 TTTA
16295829 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:16295817 original size:8 final size:8
Alignment explanation
Indices: 16295806--16295830 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16295796 TTTAATAAGA
16295806 TATTTTAT
1 TATTTTAT
16295814 TATTTTAT
1 TATTTTAT
16295822 TATTTTAT
1 TATTTTAT
16295830 T
1 T
16295831 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:16296326 original size:99 final size:99
Alignment explanation
Indices: 16296155--16296550 Score: 783
Period size: 99 Copynumber: 4.0 Consensus size: 99
16296145 TATTAGTGAA
16296155 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
1 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
16296220 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
66 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
16296254 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
1 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
16296319 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
66 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
16296353 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
1 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
16296418 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
66 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
16296452 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
1 GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
*
16296517 AATCAATATGTTGCACTAAAGTAGTTTTGGACAG
66 AATCAATATGTTGCACTAAAATAGTTTTGGACAG
16296551 CAGCAATAGG
Statistics
Matches: 296, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 296 1.00
ACGTcount: A:0.41, C:0.05, G:0.28, T:0.26
Consensus pattern (99 bp):
GGGAAATGAGAGAAAATAATGGGGAATATGGTAGAGAATGGAAATAAGAGTGTTATAAACTTGGT
AATCAATATGTTGCACTAAAATAGTTTTGGACAG
Found at i:16304649 original size:46 final size:46
Alignment explanation
Indices: 16304596--16304765 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 46
16304586 GGCATCTGAA
16304596 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
* * **** * * *
16304642 CTCATTGAGTTAAGTCCAAGTTCGGGAGATGTAACTAG-GCAT-T-CGAA
1 CTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCGAG
* * * *
16304689 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAG
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
*
16304735 CTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCATTGAGTTGAGTCCGAGTTCACTTATGG
16304766 GCGGGTTATA
Statistics
Matches: 93, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 55 0.59
47 26 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAG
Found at i:16311360 original size:33 final size:33
Alignment explanation
Indices: 16311323--16311388 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
16311313 ATTACATATC
16311323 ATTATATAAAATTATGAGTCCAAAACTTTACTA
1 ATTATATAAAATTATGAGTCCAAAACTTTACTA
16311356 ATTATATAAAATTATGAGTCCAAAACTTTACTA
1 ATTATATAAAATTATGAGTCCAAAACTTTACTA
16311389 TCTTATCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (33 bp):
ATTATATAAAATTATGAGTCCAAAACTTTACTA
Found at i:16316258 original size:6 final size:7
Alignment explanation
Indices: 16316243--16316268 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16316233 CGCTTTGAAA
16316243 TTTTATT
1 TTTTATT
16316250 TTTTATT
1 TTTTATT
16316257 TTTTATT
1 TTTTATT
16316264 TTTTA
1 TTTTA
16316269 AAAGGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:16317288 original size:19 final size:20
Alignment explanation
Indices: 16317255--16317294 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
16317245 ATATATGTAT
16317255 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
16317274 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
16317294 A
1 A
16317295 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:16317588 original size:13 final size:13
Alignment explanation
Indices: 16317556--16317581 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16317546 CTTTTTCTTC
16317556 ATTTTTTTATTTT
1 ATTTTTTTATTTT
16317569 ATTTTTTTATTTT
1 ATTTTTTTATTTT
16317582 TTATTTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:16320717 original size:24 final size:21
Alignment explanation
Indices: 16320670--16320721 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
16320660 TCACGGAGTT
16320670 GAAGAAGCTACTTGGAAACTA
1 GAAGAAGCTACTTGGAAACTA
* *
16320691 GAAGAAGCTACTTGGGAACTG
1 GAAGAAGCTACTTGGAAACTA
16320712 GAAGAAGCTA
1 GAAGAAGCTA
16320722 TAAAAGGGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.17
Consensus pattern (21 bp):
GAAGAAGCTACTTGGAAACTA
Found at i:16324407 original size:27 final size:27
Alignment explanation
Indices: 16324377--16324772 Score: 238
Period size: 27 Copynumber: 14.7 Consensus size: 27
16324367 TATAGGGTAG
* *
16324377 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTATAA
* *
16324404 AATTACT-GAATACCCTT-AGTTTACAA
1 AATTACTAAAATACCCTTGA-TTTATAA
* * *
16324430 AATTACCAAAATACCC-TCAATTAGTAA
1 AATTACTAAAATACCCTTGATTTA-TAA
* * *
16324457 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACTAAAATACCCTTGA-TTTATAA
* * * *
16324484 AATTACCAAAATACCCTCGACTTGTAA
1 AATTACTAAAATACCCTTGATTTATAA
* * *
16324511 AATTACCAAAATACCCTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTATAA
** * *
16324538 AATTA-TCAAAATACCCTCAACTTGTAA
1 AATTACT-AAAATACCCTTGATTTATAA
* * *
16324565 AATTACTCAAATACCCTCGATTT-TTA
1 AATTACTAAAATACCCTTGATTTATAA
* * *
16324591 AATTACCAAAATA-CCTCTAATTTAGAA
1 AATTACTAAAATACCCT-TGATTTATAA
* * * *
16324618 AATTATTGAAATACCCATGATTTAGAA
1 AATTACTAAAATACCCTTGATTTATAA
* *
16324645 AATTA-TAGAAATACCCCTGATTTACAA
1 AATTACTA-AAATACCCTTGATTTATAA
*
16324672 AATTACAAAAATACCCTTGACTTTCA-AA
1 AATTACTAAAATACCCTTGA-TTT-ATAA
* *
16324700 AATTA-TAGAAATACCATTGGTTTGA-AA
1 AATTACTA-AAATACCCTTGATTT-ATAA
* * * *
16324727 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACTAAAATACCCTTGATTTATAA
* * *
16324754 ATTTACCAAAACACCCTTG
1 AATTACTAAAATACCCTTG
16324773 TAGGGTGAAA
Statistics
Matches: 303, Mismatches: 47, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.01
26 44 0.15
27 226 0.75
28 29 0.10
29 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTATAA
Found at i:16325521 original size:22 final size:22
Alignment explanation
Indices: 16325496--16325549 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
16325486 ATTGCTGTGA
16325496 TGTTTACGGCTATGTGTTGTCC
1 TGTTTACGGCTATGTGTTGTCC
*
16325518 TGTTTACGGTTATGTGTTGTCC
1 TGTTTACGGCTATGTGTTGTCC
* *
16325540 TATCTACGGC
1 TGTTTACGGC
16325550 GTTGAGCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.11, C:0.19, G:0.26, T:0.44
Consensus pattern (22 bp):
TGTTTACGGCTATGTGTTGTCC
Found at i:16329055 original size:281 final size:281
Alignment explanation
Indices: 16328552--16329113 Score: 1018
Period size: 281 Copynumber: 2.0 Consensus size: 281
16328542 GATATGATGC
16328552 TGATTATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTA
1 TGATTATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTA
16328617 CTTGATGAGTATGAACTATCACCGAAGTATCAATTTCGATATTCCGTGGAAGATGGCAAAGATGT
66 CTTGATGAGTATGAACTATCACCGAAGTATCAATTTCGATATTCCGTGGAAGATGGCAAAGATGT
16328682 GTGATCGAGGAAAACGCCCGTTTGAACCTCAGGAATAGATTAGGATACAAGTGACATGTCACTAG
131 GTGATCGAGGAAAACGCCCGTTTGAACCTCAGGAATAGATTAGGATACAAGTGACATGTCACTAG
** * * * * *
16328747 GATATTTGGGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAAC
196 GATAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAAC
16328812 TCGTTGAGTTGAGTCCGAGTT
261 TCGTTGAGTTGAGTCCGAGTT
16328833 TGATTATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTA
1 TGATTATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTA
16328898 CTTGATGAGTATGAACTATCACCGAAGTATCAATTTCGATATTCCGTGGAAGATGGCAAAGATGT
66 CTTGATGAGTATGAACTATCACCGAAGTATCAATTTCGATATTCCGTGGAAGATGGCAAAGATGT
16328963 GTGATCGAGGAAAACGCCCGTTTGAACCTCAGGAATAGATTAGGATACAAGTGACATGTCACTAG
131 GTGATCGAGGAAAACGCCCGTTTGAACCTCAGGAATAGATTAGGATACAAGTGACATGTCACTAG
* *
16329028 TG-TAACTAGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
196 -GATAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAA
*
16329092 CTCGTTGAGTTGAGTCTGAGTT
260 CTCGTTGAGTTGAGTCCGAGTT
16329114 CACTTATGGG
Statistics
Matches: 270, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
281 269 1.00
282 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (281 bp):
TGATTATTATCATGAAATATTATGCTTTGTGGTTATTGTTGAATAATATGTAATTATGTGAATTA
CTTGATGAGTATGAACTATCACCGAAGTATCAATTTCGATATTCCGTGGAAGATGGCAAAGATGT
GTGATCGAGGAAAACGCCCGTTTGAACCTCAGGAATAGATTAGGATACAAGTGACATGTCACTAG
GATAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAAC
TCGTTGAGTTGAGTCCGAGTT
Found at i:16332430 original size:15 final size:15
Alignment explanation
Indices: 16332410--16332478 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
16332400 ATATCTTGGG
16332410 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
16332425 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
16332440 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
16332455 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
16332470 TTTCTTTAT
1 TTTCTTTAT
16332479 TCGATTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:16332479 original size:30 final size:30
Alignment explanation
Indices: 16332401--16332480 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
16332391 CATAGTATCA
* * *
16332401 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
16332431 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
16332461 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
16332481 GATTTTCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Done.