Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 66 of 193
Found at i:21240702 original size:60 final size:59
Alignment explanation
Indices: 21240602--21240776 Score: 196
Period size: 60 Copynumber: 2.9 Consensus size: 59
21240592 AAGGGGTCGA
* *
21240602 AAAAT-TAAGTTTTAGAGAA-TTTAAGG-TTAAAATGTAATTTTGAAAAAAATTGAGGGTC
1 AAAATGTAA-TTTTAGA-AAGTTTAAGGATTAAAATGTAATTTTGGAAAAATTTGAGGGTC
* ** *
21240660 AAAATGTAATTTTTAGAAAGTTTAAGGATTAAAATGTGATTTTGGAAAGGTTTGGGGGTC
1 AAAATGTAA-TTTTAGAAAGTTTAAGGATTAAAATGTAATTTTGGAAAAATTTGAGGGTC
* * *
21240720 AAAATGTGATTTTAGAAAAGTTT-GGGAGTTAAAATGCAATTTTGGAAAAATTTGAGG
1 AAAATGTAATTTTAG-AAAGTTTAAGGA-TTAAAATGTAATTTTGGAAAAATTTGAGG
21240777 TTAAAATCAC
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
58 7 0.07
59 26 0.27
60 65 0.66
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (59 bp):
AAAATGTAATTTTAGAAAGTTTAAGGATTAAAATGTAATTTTGGAAAAATTTGAGGGTC
Found at i:21242310 original size:26 final size:27
Alignment explanation
Indices: 21242281--21242344 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
21242271 GGTAAAAACA
*
21242281 TCAAAATTTTATCAAGGGT-AAAATTG
1 TCAAAATTTTATCAAGAGTAAAAATTG
*
21242307 TCAAAATTTTATCGAGAGTAAAAATTG
1 TCAAAATTTTATCAAGAGTAAAAATTG
21242334 TCAAAATTTTA
1 TCAAAATTTTA
21242345 ATAGGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 17 0.49
27 18 0.51
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (27 bp):
TCAAAATTTTATCAAGAGTAAAAATTG
Found at i:21242354 original size:26 final size:26
Alignment explanation
Indices: 21242281--21242359 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
21242271 GGTAAAAACA
*
21242281 TCAAAATTTTATCA-AGGGTAAAATTG
1 TCAAAATTTTAT-AGAGAGTAAAATTG
*
21242307 TCAAAATTTTATCGAGAGTAAAAATTG
1 TCAAAATTTTATAGAGAGT-AAAATTG
21242334 TCAAAATTTTAATAG-GA-TAAAATTG
1 TCAAAATTTT-ATAGAGAGTAAAATTG
21242359 T
1 T
21242360 GATGAGAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
25 8 0.17
26 17 0.36
27 19 0.40
28 3 0.06
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTATAGAGAGTAAAATTG
Found at i:21243749 original size:35 final size:37
Alignment explanation
Indices: 21243686--21243764 Score: 108
Period size: 35 Copynumber: 2.2 Consensus size: 37
21243676 ATACTGGCTT
* *
21243686 GTATGAGCTAAAATTTACTAGGAGACTTGAAGAGCTC
1 GTATGAGCTAAAATTTACTAGGAAACTTGAAGAGATC
*
21243723 GTATGAGCT-AAA-TTACTGGGAAACTTGAAGAGATC
1 GTATGAGCTAAAATTTACTAGGAAACTTGAAGAGATC
*
21243758 GTTTGAG
1 GTATGAG
21243765 ACACGAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 26 0.68
36 3 0.08
37 9 0.24
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (37 bp):
GTATGAGCTAAAATTTACTAGGAAACTTGAAGAGATC
Found at i:21250647 original size:18 final size:19
Alignment explanation
Indices: 21250612--21250648 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21250602 TCTCAACAAC
21250612 ATCAATTACCACATCTCAT
1 ATCAATTACCACATCTCAT
*
21250631 ATCAATTTCCA-ATCTCAT
1 ATCAATTACCACATCTCAT
21250649 GGATTCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAATTACCACATCTCAT
Found at i:21255301 original size:33 final size:32
Alignment explanation
Indices: 21255254--21255467 Score: 194
Period size: 33 Copynumber: 6.4 Consensus size: 32
21255244 AGTGTATATA
* *
21255254 GATGTAAGGCCATAGCTGGGCTATGGCATTCT
1 GATGTAAGACCATAGTTGGGCTATGGCATTCT
* *
21255286 GATGATAAGACCATAGTTGAGCTTTGGCATTCT
1 GATG-TAAGACCATAGTTGGGCTATGGCATTCT
* * * * *
21255319 GACGTAAGACCATGGTTGGACCATGGCAGTGTATAT
1 GATGTAAGACCATAGTTGGGCTATGGCA---T-TCT
* *
21255355 ACATGTAAGACCATAGCTGGGCTATGGCATTCT
1 -GATGTAAGACCATAGTTGGGCTATGGCATTCT
*
21255388 GATGATAAGACCATAGTTGGACTATGGCATTCT
1 GATG-TAAGACCATAGTTGGGCTATGGCATTCT
* * * * *
21255421 GATGTTAAGAACATAATTGGGTTTTGGCATTAT
1 GATG-TAAGACCATAGTTGGGCTATGGCATTCT
21255454 GAATGTAAGACCAT
1 G-ATGTAAGACCAT
21255468 GGCCTGGCCA
Statistics
Matches: 145, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
32 26 0.18
33 90 0.62
34 4 0.03
35 1 0.01
36 2 0.01
37 22 0.15
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (32 bp):
GATGTAAGACCATAGTTGGGCTATGGCATTCT
Found at i:21255382 original size:37 final size:35
Alignment explanation
Indices: 21255218--21255418 Score: 114
Period size: 33 Copynumber: 5.8 Consensus size: 35
21255208 CTGCATTATG
* * * *
21255218 ATGTAAGACCATGGTTGGACCATGGCAGTGTATATAG
1 ATGTAAGACCATAGTTGGGCTATGGCA-T-TATATAC
* * * *
21255255 ATGTAAGGCCATAGCTGGGCTATGGCA-T-TCT-G
1 ATGTAAGACCATAGTTGGGCTATGGCATTATATAC
* * * *
21255287 ATGATAAGACCATAGTTGAGCTTTGGCATTCT-GAC
1 ATG-TAAGACCATAGTTGGGCTATGGCATTATATAC
* * *
21255322 --GTAAGACCATGGTTGGACCATGGCAGTGTATATAC
1 ATGTAAGACCATAGTTGGGCTATGGCA-T-TATATAC
* * *
21255357 ATGTAAGACCATAGCTGGGCTATGGCA-T-TCT-G
1 ATGTAAGACCATAGTTGGGCTATGGCATTATATAC
*
21255389 ATGATAAGACCATAGTTGGACTATGGCATT
1 ATG-TAAGACCATAGTTGGGCTATGGCATT
21255419 CTGATGTTAA
Statistics
Matches: 126, Mismatches: 27, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
32 26 0.21
33 48 0.38
34 6 0.05
35 3 0.02
37 43 0.34
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (35 bp):
ATGTAAGACCATAGTTGGGCTATGGCATTATATAC
Found at i:21255386 original size:102 final size:102
Alignment explanation
Indices: 21255210--21255422 Score: 365
Period size: 102 Copynumber: 2.1 Consensus size: 102
21255200 GACACAGGCT
* * * *
21255210 GCATTATGATGTAAGACCATGGTTGGACCATGGCAGTGTATATAGATGTAAGGCCATAGCTGGGC
1 GCATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTATATACATGTAAGACCATAGCTGGGC
*
21255275 TATGGCATTCTGATGATAAGACCATAGTT-GAGCTTTG
66 TATGGCATTCTGATGATAAGACCATAGTTGGA-CTATG
21255312 GCATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTATATACATGTAAGACCATAGCTGGGC
1 GCATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTATATACATGTAAGACCATAGCTGGGC
21255377 TATGGCATTCTGATGATAAGACCATAGTTGGACTATG
66 TATGGCATTCTGATGATAAGACCATAGTTGGACTATG
21255414 GCATTCTGA
1 GCATTCTGA
21255423 TGTTAAGAAC
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 103 0.98
103 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (102 bp):
GCATTCTGACGTAAGACCATGGTTGGACCATGGCAGTGTATATACATGTAAGACCATAGCTGGGC
TATGGCATTCTGATGATAAGACCATAGTTGGACTATG
Found at i:21255713 original size:33 final size:32
Alignment explanation
Indices: 21255670--21255750 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 32
21255660 TACCGTATTC
* *
21255670 TGATGATAAGACCATAGTTG-GACTATGGCATTT
1 TGATG-TAAGACCATAATTGCGA-TATGGCATTA
*
21255703 TGATGTTAAGACCATAATTGCGATTTGGCATTA
1 TGATG-TAAGACCATAATTGCGATATGGCATTA
21255736 TGAATGTAAGACCAT
1 TG-ATGTAAGACCAT
21255751 GGCCTGGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 37 0.88
34 5 0.12
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (32 bp):
TGATGTAAGACCATAATTGCGATATGGCATTA
Found at i:21255890 original size:283 final size:283
Alignment explanation
Indices: 21255383--21255953 Score: 989
Period size: 283 Copynumber: 2.0 Consensus size: 283
21255373 GGGCTATGGC
* *
21255383 ATTCTGATGATAAGACCATAGTTGGACTATGGCATTCTGATGTTAAGAACATAATTGGGTTTTGG
1 ATTCTGATGATAAGACCATAGTTGGACTATGGCATTCTGATGTTAAGAACATAATTGCGATTTGG
* *
21255448 CATTATGAATGTAAGACCATGGCCTGGCCATGACAATACACATATAAGACCATAGTTGGATTATT
66 CATTATGAATGTAAGACCATGGCCTGGCCATGACAATACACATATAAGACCATAGTTGGACTATG
* * *
21255513 GCATAATACGAAACATGTATCGGGGTTCCACTCATCTTTACATTATTCATGGGATGGAAACAAAT
131 GCACAATACGAAACATGTATCGGGGTTCCAATCATCTTTACAGTATTCATGGGATGGAAACAAAT
*
21255578 GAGCTAAACATCTGTTCTGGGCTCAAATGAGCATTAATCTATTCTGGGCTCGAATGAGCTACATT
196 GAGCTAAACATCTGTTCTGGGATCAAATGAGCATTAATCTATTCTGGGCTCGAATGAGCTACATT
* * *
21255643 ATTCGACAACCATAATTTACCGT
261 ATGCGACAACCACAATTAACCGT
* *
21255666 ATTCTGATGATAAGACCATAGTTGGACTATGGCATTTTGATGTTAAGACCATAATTGCGATTTGG
1 ATTCTGATGATAAGACCATAGTTGGACTATGGCATTCTGATGTTAAGAACATAATTGCGATTTGG
21255731 CATTATGAATGTAAGACCATGGCCTGGCCATGACAATACACATATAAGACCATAGTTGGACTATG
66 CATTATGAATGTAAGACCATGGCCTGGCCATGACAATACACATATAAGACCATAGTTGGACTATG
* *
21255796 GCACAATACGAAACATGTATCGGGGTTCCAATCGTCTTTATAGTATTCATGGGATGGAAACAAAT
131 GCACAATACGAAACATGTATCGGGGTTCCAATCATCTTTACAGTATTCATGGGATGGAAACAAAT
* *
21255861 GAGCTAAACATCTGTTTTGGGATCAAATGAGCATTACTCTATTCTGGGCTCGAATGAGCTACATT
196 GAGCTAAACATCTGTTCTGGGATCAAATGAGCATTAATCTATTCTGGGCTCGAATGAGCTACATT
21255926 ATGCGACAACCACAATTAACCGT
261 ATGCGACAACCACAATTAACCGT
21255949 ATTCT
1 ATTCT
21255954 ATTATGACTG
Statistics
Matches: 271, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
283 271 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (283 bp):
ATTCTGATGATAAGACCATAGTTGGACTATGGCATTCTGATGTTAAGAACATAATTGCGATTTGG
CATTATGAATGTAAGACCATGGCCTGGCCATGACAATACACATATAAGACCATAGTTGGACTATG
GCACAATACGAAACATGTATCGGGGTTCCAATCATCTTTACAGTATTCATGGGATGGAAACAAAT
GAGCTAAACATCTGTTCTGGGATCAAATGAGCATTAATCTATTCTGGGCTCGAATGAGCTACATT
ATGCGACAACCACAATTAACCGT
Found at i:21258831 original size:21 final size:21
Alignment explanation
Indices: 21258807--21258854 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21258797 GGAGTTTTTA
**
21258807 GTATCGATAGAGGAGTCACTT
1 GTATCGATAGAACAGTCACTT
* *
21258828 GTATCGGTAGAACTGTCACTT
1 GTATCGATAGAACAGTCACTT
21258849 GTATCG
1 GTATCG
21258855 GTACAAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (21 bp):
GTATCGATAGAACAGTCACTT
Found at i:21262577 original size:327 final size:327
Alignment explanation
Indices: 21261983--21262628 Score: 1283
Period size: 327 Copynumber: 2.0 Consensus size: 327
21261973 CCGTATGTAA
21261983 TCATTGAAATGGTCAGACCTATTGCGTATCGTTTGGCATTGCCGGTTGAGTTGCAAAAAAAAAAA
1 TCATTGAAATGGTCAGACCTATTGCGTATCGTTTGGCATTGCCGGTTGAGTTGCAAAAAAAAAAA
21262048 ACAATACCTTTCATGTGTCAATGCTTAGGAGATATCATTCAGATCCATCTCACGTTATTTCAATG
66 ACAATACCTTTCATGTGTCAATGCTTAGGAGATATCATTCAGATCCATCTCACGTTATTTCAATG
21262113 AAAGAAATTGAAATTTAGCCTGATCTATCTTACAAGGAGGAATCGGTTAAAAGTCTAGCCTGCGA
131 AAAGAAATTGAAATTTAGCCTGATCTATCTTACAAGGAGGAATCGGTTAAAAGTCTAGCCTGCGA
21262178 AGTGAAAGAATTGCGAAACAAACGTGTTCCACTTGTGAAACTCCTGTGGCATAGTCATAGTGTTG
196 AGTGAAAGAATTGCGAAACAAACGTGTTCCACTTGTGAAACTCCTGTGGCATAGTCATAGTGTTG
21262243 AGGAAGCGACTTGGGAGTCGAAAGAGACAATGAGATCATAGTATCCCCACCTCTTTTCAAGTAAA
261 AGGAAGCGACTTGGGAGTCGAAAGAGACAATGAGATCATAGTATCCCCACCTCTTTTCAAGTAAA
21262308 TT
326 TT
*
21262310 TCATTGAAATGGTCAGACCTATTGTGTATCGTTTGGCATTGCCGGTTGAGTTGCAAAAAAAAAAA
1 TCATTGAAATGGTCAGACCTATTGCGTATCGTTTGGCATTGCCGGTTGAGTTGCAAAAAAAAAAA
21262375 ACAATACCTTTCATGTGTCAATGCTTAGGAGATATCATTCAGATCCATCTCACGTTATTTCAATG
66 ACAATACCTTTCATGTGTCAATGCTTAGGAGATATCATTCAGATCCATCTCACGTTATTTCAATG
21262440 AAAGAAATTGAAATTTAGCCTGATCTATCTTACAAGGAGGAATCGGTTAAAAGTCTAGCCTGCGA
131 AAAGAAATTGAAATTTAGCCTGATCTATCTTACAAGGAGGAATCGGTTAAAAGTCTAGCCTGCGA
21262505 AGTGAAAGAATTGCGAAACAAACGTGTTCCACTTGTGAAACTCCTGTGGCATAGTCATAGTGTTG
196 AGTGAAAGAATTGCGAAACAAACGTGTTCCACTTGTGAAACTCCTGTGGCATAGTCATAGTGTTG
21262570 AGGAAGCGACTTGGGAGTCGAAAGAGACAATGAGATCATAGTATCCCCACCTCTTTTCA
261 AGGAAGCGACTTGGGAGTCGAAAGAGACAATGAGATCATAGTATCCCCACCTCTTTTCA
21262629 GGTACTTTCG
Statistics
Matches: 318, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
327 318 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (327 bp):
TCATTGAAATGGTCAGACCTATTGCGTATCGTTTGGCATTGCCGGTTGAGTTGCAAAAAAAAAAA
ACAATACCTTTCATGTGTCAATGCTTAGGAGATATCATTCAGATCCATCTCACGTTATTTCAATG
AAAGAAATTGAAATTTAGCCTGATCTATCTTACAAGGAGGAATCGGTTAAAAGTCTAGCCTGCGA
AGTGAAAGAATTGCGAAACAAACGTGTTCCACTTGTGAAACTCCTGTGGCATAGTCATAGTGTTG
AGGAAGCGACTTGGGAGTCGAAAGAGACAATGAGATCATAGTATCCCCACCTCTTTTCAAGTAAA
TT
Found at i:21269303 original size:31 final size:31
Alignment explanation
Indices: 21269243--21269300 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
21269233 TTTTGATTTA
21269243 ATTAATTTTAGCTCTTATAATTTTTAAATTG
1 ATTAATTTTAGCTCTTATAATTTTTAAATTG
*
21269274 ATTAATTTTAG-TCATTGT-ATTTTTAAA
1 ATTAATTTTAGCTC-TTATAATTTTTAAA
21269301 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (31 bp):
ATTAATTTTAGCTCTTATAATTTTTAAATTG
Found at i:21269647 original size:16 final size:17
Alignment explanation
Indices: 21269622--21269656 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
21269612 AATTAAAATT
*
21269622 AAAATTTCAAAA-TAAA
1 AAAATATCAAAATTAAA
21269638 AAAATATCAAAATTAAA
1 AAAATATCAAAATTAAA
21269655 AA
1 AA
21269657 TGATGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATATCAAAATTAAA
Found at i:21277095 original size:20 final size:21
Alignment explanation
Indices: 21277048--21277119 Score: 96
Period size: 20 Copynumber: 3.5 Consensus size: 21
21277038 AATTAAACAC
21277048 ACAGGGGCACCGAAGTGCAAT
1 ACAGGGGCACCGAAGTGCAAT
21277069 ACAGGGGCACC-AGAGTGC-AT
1 ACAGGGGCACCGA-AGTGCAAT
*
21277089 TCAGGGGCACCGAAGTGCAA-
1 ACAGGGGCACCGAAGTGCAAT
*
21277109 AAAGGGGCACC
1 ACAGGGGCACC
21277120 TCTTCATTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
20 27 0.60
21 18 0.40
ACGTcount: A:0.32, C:0.25, G:0.35, T:0.08
Consensus pattern (21 bp):
ACAGGGGCACCGAAGTGCAAT
Found at i:21282067 original size:29 final size:29
Alignment explanation
Indices: 21282035--21282137 Score: 104
Period size: 28 Copynumber: 3.5 Consensus size: 29
21282025 AAAATTAGAA
21282035 AAAATATATA-AAACTCGTAAAAAAATTAT
1 AAAATATATAGAAA-TCGTAAAAAAATTAT
*
21282064 AAAATATATAGAAAT-ATAAAAAAATTAT
1 AAAATATATAGAAATCGTAAAAAAATTAT
* * *
21282092 AAAATTTTATA-AAGTCGTAAGAAAAATATAC
1 AAAA-TATATAGAAATCGTAA-AAAAAT-TAT
*
21282123 AAAATATAAAGAAAT
1 AAAATATATAGAAAT
21282138 ATAAATTCGT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
28 19 0.32
29 19 0.32
30 13 0.22
31 9 0.15
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (29 bp):
AAAATATATAGAAATCGTAAAAAAATTAT
Found at i:21282159 original size:19 final size:19
Alignment explanation
Indices: 21282033--21282162 Score: 63
Period size: 20 Copynumber: 6.7 Consensus size: 19
21282023 TAAAAATTAG
21282033 AAAAAATATATAAAACTCGTA
1 AAAAAAT-TATAAAA-TCGTA
*
21282054 AAAAAATTATAAAAT-ATA
1 AAAAAATTATAAAATCGTA
* * *
21282072 TAGAAATATAAAAAAAT--TA
1 -A-AAAAATTATAAAATCGTA
** *
21282091 TAAAATTTTATAAAGTCGTA
1 -AAAAAATTATAAAATCGTA
* *
21282111 AGAAAAATATACAAAAT-ATA
1 A-AAAAAT-TATAAAATCGTA
* *
21282131 AAGAAA-TATAAATTCGTA
1 AAAAAATTATAAAATCGTA
21282149 AAAAAATTATAAAA
1 AAAAAATTATAAAA
21282163 ATTATTGTAT
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
17 6 0.07
18 19 0.23
19 17 0.21
20 27 0.33
21 13 0.16
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (19 bp):
AAAAAATTATAAAATCGTA
Found at i:21282686 original size:87 final size:88
Alignment explanation
Indices: 21282532--21282691 Score: 200
Period size: 87 Copynumber: 1.8 Consensus size: 88
21282522 GAGCAAACAC
* **
21282532 TTAATTGCTTTTTTTTGAAAAATTTTGAGAGTATTTTTGATGCATTTTAAAAGTTTAAGTATCCA
1 TTAATTGCTTTTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTAAAAGTCCAAGTATCCA
21282597 ATTGAGTGGGAAAAAATAGGGGT
66 ATTGAGTGGGAAAAAATAGGGGT
* * * * * *
21282620 TTAATTGC-TTTTTTTGAATAAGTTTGAGGGTCCTTTTT-ATGTATTTTGAAAGTCCAAGT-GCT
1 TTAATTGCTTTTTTTTGAAAAAGTTTGAGAGT-ATTTTTGATGCATTTTAAAAGTCCAAGTATC-
21282682 CAATTGAGTG
64 CAATTGAGTG
21282692 CAAAAAAAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
86 1 0.02
87 47 0.77
88 13 0.21
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (88 bp):
TTAATTGCTTTTTTTTGAAAAAGTTTGAGAGTATTTTTGATGCATTTTAAAAGTCCAAGTATCCA
ATTGAGTGGGAAAAAATAGGGGT
Found at i:21289828 original size:16 final size:16
Alignment explanation
Indices: 21289809--21289846 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
21289799 CAACCCTATC
* *
21289809 CCATTACAGCTTTATT
1 CCATTACAGCCTTAGT
21289825 CCATTACAGCCTTAGT
1 CCATTACAGCCTTAGT
21289841 CCATTA
1 CCATTA
21289847 TAGTGAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.37
Consensus pattern (16 bp):
CCATTACAGCCTTAGT
Found at i:21290480 original size:22 final size:22
Alignment explanation
Indices: 21290452--21290507 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
21290442 GATTAATAGG
*
21290452 GGCTAAAATATAAATTTTATGT
1 GGCTAAAATATAAATATTATGT
*
21290474 GGCTAAAATACAAAATATTATGT
1 GGCTAAAATA-TAAATATTATGT
*
21290497 GGTTAAAATAT
1 GGCTAAAATAT
21290508 GAAAATGACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (22 bp):
GGCTAAAATATAAATATTATGT
Found at i:21298199 original size:25 final size:25
Alignment explanation
Indices: 21298171--21298230 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
21298161 TTTGGACTCG
* *
21298171 TAAGAGCTAACTTTACCTAGGCTCA
1 TAAGAGCTAACCTTACATAGGCTCA
* *
21298196 TAAGAGCTAACCTTATATAGGCTCG
1 TAAGAGCTAACCTTACATAGGCTCA
*
21298221 TATGAGCTAA
1 TAAGAGCTAA
21298231 ATTTTGGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (25 bp):
TAAGAGCTAACCTTACATAGGCTCA
Found at i:21302510 original size:28 final size:28
Alignment explanation
Indices: 21302469--21302523 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
21302459 GATATCCAAT
*
21302469 TTACTCCCAGTTGACCTAAAGGTCATGC
1 TTACTCCCAGTTGACCCAAAGGTCATGC
21302497 TTACTCCCTA-TTGACCCAAAGGTCATG
1 TTACTCCC-AGTTGACCCAAAGGTCATG
21302524 ATGCTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (28 bp):
TTACTCCCAGTTGACCCAAAGGTCATGC
Found at i:21305414 original size:34 final size:34
Alignment explanation
Indices: 21305366--21305449 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
21305356 AAAGTTCAAG
**
21305366 TAAACAATATTTGGGTAAGGTAAAAAATAAAAAAA
1 TAAA-AATATTTGGGTAAAATAAAAAATAAAAAAA
** *
21305401 -ATAAAATATTTGGGTAAAATAAAAGGTAAAAAAT
1 TA-AAAATATTTGGGTAAAATAAAAAATAAAAAAA
21305435 TAAAAATATTTGGGT
1 TAAAAATATTTGGGT
21305450 TTAATTTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
34 39 0.93
35 3 0.07
ACGTcount: A:0.56, C:0.01, G:0.15, T:0.27
Consensus pattern (34 bp):
TAAAAATATTTGGGTAAAATAAAAAATAAAAAAA
Found at i:21305605 original size:18 final size:18
Alignment explanation
Indices: 21305582--21305619 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
21305572 TAATATAGTT
21305582 TTATTT-AGTTTATTCGAA
1 TTATTTGAG-TTATTCGAA
21305600 TTATTTGAGTTATTCGAA
1 TTATTTGAGTTATTCGAA
21305618 TT
1 TT
21305620 CGAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (18 bp):
TTATTTGAGTTATTCGAA
Found at i:21305697 original size:14 final size:14
Alignment explanation
Indices: 21305680--21305706 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21305670 TTCGTTTAAC
21305680 TCGAATAATTCGAT
1 TCGAATAATTCGAT
21305694 TCGAATAATTCGA
1 TCGAATAATTCGA
21305707 AATTCGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
TCGAATAATTCGAT
Found at i:21318942 original size:26 final size:27
Alignment explanation
Indices: 21318913--21318969 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
21318903 ATTATTAAAA
21318913 TAAAATT-GAA-ATATTAAATAATTTAT
1 TAAAATTAGAATATATT-AATAATTTAT
21318939 TAAAATTAGAATTTATATTAATAATTTAT
1 TAAAATTAGAA--TATATTAATAATTTAT
21318968 TA
1 TA
21318970 TATGATTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.26
27 3 0.11
29 12 0.44
30 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
TAAAATTAGAATATATTAATAATTTAT
Found at i:21322344 original size:23 final size:23
Alignment explanation
Indices: 21322317--21322393 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 23
21322307 ATTTAAAACA
* *
21322317 AAACATTATGGCAAGATAGTTAC
1 AAACATAATGGCAAGAGAGTTAC
* *
21322340 AAACATAATGACAGGAGAGTTAC
1 AAACATAATGGCAAGAGAGTTAC
* * *
21322363 AAAAATAATGGTATGAGAGTTAC
1 AAACATAATGGCAAGAGAGTTAC
21322386 AAA-ATAAT
1 AAACATAAT
21322394 AATAACTGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
22 5 0.11
23 41 0.89
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.23
Consensus pattern (23 bp):
AAACATAATGGCAAGAGAGTTAC
Found at i:21323160 original size:44 final size:44
Alignment explanation
Indices: 21323112--21323198 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
21323102 AGTTGAGTAA
* * * * *
21323112 AATAGAATTTATTATAATTATACATTTAACAATAATTATAATTT
1 AATAGAAGTTATGATAATTACAAATTTAAAAATAATTATAATTT
* *
21323156 AATAGAAGTTGTGATAATTACAAATTTAAAAATAATTGTAATT
1 AATAGAAGTTATGATAATTACAAATTTAAAAATAATTATAATT
21323199 GGCATTATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.41
Consensus pattern (44 bp):
AATAGAAGTTATGATAATTACAAATTTAAAAATAATTATAATTT
Found at i:21326087 original size:326 final size:326
Alignment explanation
Indices: 21325494--21326149 Score: 1312
Period size: 326 Copynumber: 2.0 Consensus size: 326
21325484 GCCAAAACAA
21325494 CAAGCTGGTCTAAGTTGCATTTAACATCTCATCCCATCCCATCCCATCCCAATTCAGTATTAATT
1 CAAGCTGGTCTAAGTTGCATTTAACATCTCATCCCATCCCATCCCATCCCAATTCAGTATTAATT
21325559 AATTTCATAATAACATTGCATGGTGGATCAATTCAACCATAAATGAGTAGGATGCTGCTATGTAA
66 AATTTCATAATAACATTGCATGGTGGATCAATTCAACCATAAATGAGTAGGATGCTGCTATGTAA
21325624 GACAACATAATGATAACCAAGAAGGGATAATTTACAAACTCACATCATCGTAACCAATCGATTTA
131 GACAACATAATGATAACCAAGAAGGGATAATTTACAAACTCACATCATCGTAACCAATCGATTTA
21325689 GCTTCAATTTCAAATTATTTTGGATTTAAGTCAATCTCATATTTAGTTTCAGGTATCAAACCACT
196 GCTTCAATTTCAAATTATTTTGGATTTAAGTCAATCTCATATTTAGTTTCAGGTATCAAACCACT
21325754 TCAGATTTGGACCATATCAAGATTGGACAATGACAAGTTCAGGACCATTTCTAGTTTGGGATATC
261 TCAGATTTGGACCATATCAAGATTGGACAATGACAAGTTCAGGACCATTTCTAGTTTGGGATATC
21325819 T
326 T
21325820 CAAGCTGGTCTAAGTTGCATTTAACATCTCATCCCATCCCATCCCATCCCAATTCAGTATTAATT
1 CAAGCTGGTCTAAGTTGCATTTAACATCTCATCCCATCCCATCCCATCCCAATTCAGTATTAATT
21325885 AATTTCATAATAACATTGCATGGTGGATCAATTCAACCATAAATGAGTAGGATGCTGCTATGTAA
66 AATTTCATAATAACATTGCATGGTGGATCAATTCAACCATAAATGAGTAGGATGCTGCTATGTAA
21325950 GACAACATAATGATAACCAAGAAGGGATAATTTACAAACTCACATCATCGTAACCAATCGATTTA
131 GACAACATAATGATAACCAAGAAGGGATAATTTACAAACTCACATCATCGTAACCAATCGATTTA
21326015 GCTTCAATTTCAAATTATTTTGGATTTAAGTCAATCTCATATTTAGTTTCAGGTATCAAACCACT
196 GCTTCAATTTCAAATTATTTTGGATTTAAGTCAATCTCATATTTAGTTTCAGGTATCAAACCACT
21326080 TCAGATTTGGACCATATCAAGATTGGACAATGACAAGTTCAGGACCATTTCTAGTTTGGGATATC
261 TCAGATTTGGACCATATCAAGATTGGACAATGACAAGTTCAGGACCATTTCTAGTTTGGGATATC
21326145 T
326 T
21326146 CAAG
1 CAAG
21326150 TTCAGTCAGT
Statistics
Matches: 330, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 330 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (326 bp):
CAAGCTGGTCTAAGTTGCATTTAACATCTCATCCCATCCCATCCCATCCCAATTCAGTATTAATT
AATTTCATAATAACATTGCATGGTGGATCAATTCAACCATAAATGAGTAGGATGCTGCTATGTAA
GACAACATAATGATAACCAAGAAGGGATAATTTACAAACTCACATCATCGTAACCAATCGATTTA
GCTTCAATTTCAAATTATTTTGGATTTAAGTCAATCTCATATTTAGTTTCAGGTATCAAACCACT
TCAGATTTGGACCATATCAAGATTGGACAATGACAAGTTCAGGACCATTTCTAGTTTGGGATATC
T
Found at i:21332301 original size:15 final size:15
Alignment explanation
Indices: 21332281--21332312 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21332271 ATTAGTGTCG
*
21332281 ACCATTTAATGGCTA
1 ACCATTTAATGACTA
21332296 ACCATTTAATGACTA
1 ACCATTTAATGACTA
21332311 AC
1 AC
21332313 ACTCAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (15 bp):
ACCATTTAATGACTA
Found at i:21340181 original size:604 final size:603
Alignment explanation
Indices: 21339063--21340248 Score: 1980
Period size: 604 Copynumber: 2.0 Consensus size: 603
21339053 CCAAATCAGC
* *
21339063 ATTATGCCTTGCCATGTAGGATCAGAAAAAGGACAAACTATCCACATAAAAGTTAAAAATCGGAT
1 ATTATGCCTTGACATGTAGGACCAGAAAAAGGACAAACTATCCACATAAAAGTTAAAAATCGGAT
*
21339128 AACTAATCAATACAAAAGAGAGTACTAGGACAAAGAAAGAGATAGATATAACTTTTTGAGTTGGC
66 AACTAATCAATACAAAAGAAAGTACTAGGACAAAGAAAGAGATAGATATAACTTTTTGAGTTGGC
* *
21339193 AAATTATAGTGTGAGATTGTTTAGTACTATATTCAAGGAGTTAGTGTTTTAAGAACATTCTTTGG
131 AAATTATAGTGTGAGATTGTTTAGTACTATATTCAAGGAGTTAGTATTTTAAGAACATACTTTGG
*
21339258 GAGGGAACTATAATTTGAGGAATATACCTAAATTCTAATGTCAGAAATGTAGAGGAAAAGGCCAC
196 GAGGGAACTATAACTTGAGGAATATACCTAAATTCTAATGTCAGAAATGTAGAGGAAAAGGCCAC
* *
21339323 AGCTATATGCAATTCTACCTTTGTACAGAGATTATGATAACATTCCTGTGGAATCAAGAACATAA
261 AGCTATATGCAACTCTACCTTTGTACAAAGATTATGATAACATTCCTGTGGAATCAAGAACATAA
*
21339388 ATTTTCTAGATGTTTATGTTTTAGAGTAATTTGAGTGAAACAAACCTCAGCAAGAAAATTTCAGA
326 ATTTTCTAGATGTTTATGTTTTAGAGCAATTTGAGTGAAACAAACCTCAGCAAGAAAATTTCAGA
* *
21339453 AAGTAGGATTACATTGACATCAGAATTATTTGATGCTGCTACTGCTGGACCATAATTGGGTCCCT
391 AAGTAGGATTACATTGACATCAGAATTATTGGATGCTGCTACTGCCGGACCATAATTGGGTCCCT
*
21339518 TTATAAGACGTGGAACAAATTTCATTCTATAATGCAGACATCCACTACTGACAAAAGGTCGAAAA
456 TTATAAGACGTGGAACAAATTTCATTCTATAAGGCAGACATCCACTACTGACAAAAGGTCGAAAA
*
21339583 TGATGCTACAACCAAATACAGATAATAAAAATAGGAAGTGTTAAAGGAAGGGTAACTTATTCACA
521 TGATGCTACAAACAAATACAGATAATAAAAATAGGAAGTGTTAAAGGAAGGGTAACTTATTCACA
21339648 TATAATTTATCTCACACT
586 TATAATTTATCTCACACT
* * *
21339666 ATTATGCCTTGACATGTAGGACCAGAAAAAGGACAAACTATCCACATATAAGTTAAAAATTGGGT
1 ATTATGCCTTGACATGTAGGACCAGAAAAAGGACAAACTATCCACATAAAAGTTAAAAATCGGAT
* * *
21339731 AACTAATCAATAGAAAAGAAAGTACTAGGACAAAGGAAGAGATAGAATATAACTTTTTGGGTTGG
66 AACTAATCAATACAAAAGAAAGTACTAGGACAAAGAAAGAGATAG-ATATAACTTTTTGAGTTGG
* * * *
21339796 CAATTTATAGTTTGAGATTGTTTAGTACTATATTCAAGGGGTTAGTATTTTAAGTACATACTTTG
130 CAAATTATAGTGTGAGATTGTTTAGTACTATATTCAAGGAGTTAGTATTTTAAGAACATACTTTG
*
21339861 GGAGGGAACTATAACTTGAGGAATAT-CACTAAATTCTAATGTCAGAAATGTCGAGGAAAAGGCC
195 GGAGGGAACTATAACTTGAGGAATATAC-CTAAATTCTAATGTCAGAAATGTAGAGGAAAAGGCC
* * *
21339925 ACAGTTATATGCAACTCTATCTTTGTACAAAGATTATGATAACATTCCTGTGGGATCAAGAACAT
259 ACAGCTATATGCAACTCTACCTTTGTACAAAGATTATGATAACATTCCTGTGGAATCAAGAACAT
* *
21339990 AATTTTTCTAGATGTTTATGTTTTAGAGCAATTTGAGTGAAACAAACCTCAGCAAGAAATTTTCA
324 AAATTTTCTAGATGTTTATGTTTTAGAGCAATTTGAGTGAAACAAACCTCAGCAAGAAAATTTCA
* *
21340055 GAAAGTAGGATTACATTGAGATCAGAATTATTGGATGCTGGTACTGCCGGACCATAATTGGGTCC
389 GAAAGTAGGATTACATTGACATCAGAATTATTGGATGCTGCTACTGCCGGACCATAATTGGGTCC
* *
21340120 CTTTATAAGAC-TAGGAACAAATTTCATTCTATAAGGCAGACATCCACTATTGACGAAAGGTCGA
454 CTTTATAAGACGT-GGAACAAATTTCATTCTATAAGGCAGACATCCACTACTGACAAAAGGTCGA
* *** * *
21340184 AGATGATGCTACAAACAAATGTGGATAATAAAAATGGGAAGTGTTGAAGGAAGGGTAACTTATTC
518 AAATGATGCTACAAACAAATACAGATAATAAAAATAGGAAGTGTTAAAGGAAGGGTAACTTATTC
21340249 CAGTCTAAGA
Statistics
Matches: 541, Mismatches: 39, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
603 104 0.19
604 437 0.81
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (603 bp):
ATTATGCCTTGACATGTAGGACCAGAAAAAGGACAAACTATCCACATAAAAGTTAAAAATCGGAT
AACTAATCAATACAAAAGAAAGTACTAGGACAAAGAAAGAGATAGATATAACTTTTTGAGTTGGC
AAATTATAGTGTGAGATTGTTTAGTACTATATTCAAGGAGTTAGTATTTTAAGAACATACTTTGG
GAGGGAACTATAACTTGAGGAATATACCTAAATTCTAATGTCAGAAATGTAGAGGAAAAGGCCAC
AGCTATATGCAACTCTACCTTTGTACAAAGATTATGATAACATTCCTGTGGAATCAAGAACATAA
ATTTTCTAGATGTTTATGTTTTAGAGCAATTTGAGTGAAACAAACCTCAGCAAGAAAATTTCAGA
AAGTAGGATTACATTGACATCAGAATTATTGGATGCTGCTACTGCCGGACCATAATTGGGTCCCT
TTATAAGACGTGGAACAAATTTCATTCTATAAGGCAGACATCCACTACTGACAAAAGGTCGAAAA
TGATGCTACAAACAAATACAGATAATAAAAATAGGAAGTGTTAAAGGAAGGGTAACTTATTCACA
TATAATTTATCTCACACT
Found at i:21340844 original size:2 final size:2
Alignment explanation
Indices: 21340839--21340864 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21340829 ATATATATCA
21340839 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
21340865 AGAGAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21340869 original size:2 final size:2
Alignment explanation
Indices: 21340864--21340913 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
21340854 GTGTGTGTGT
21340864 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
21340906 GA GA GA GA
1 GA GA GA GA
21340914 CCTTCGAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21342664 original size:19 final size:17
Alignment explanation
Indices: 21342642--21342693 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
21342632 TTTTTCTTTT
21342642 CTTTTTTCATTTTTCATGC
1 CTTTTTTC-TTTTT-ATGC
*
21342661 CTTTTTAGCTTTTTATGC
1 CTTTTT-TCTTTTTATGC
21342679 CATTTTTTCCTTTTT
1 C-TTTTTT-CTTTTT
21342694 TTTCAAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.10, C:0.19, G:0.06, T:0.65
Consensus pattern (17 bp):
CTTTTTTCTTTTTATGC
Found at i:21347010 original size:11 final size:11
Alignment explanation
Indices: 21346990--21347021 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
21346980 CTAAAAAGAC
21346990 AAATATAAATT
1 AAATATAAATT
*
21347001 AAATACAAATT
1 AAATATAAATT
21347012 AAATATAAAT
1 AAATATAAAT
21347022 AATATCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATATAAATT
Found at i:21347010 original size:17 final size:17
Alignment explanation
Indices: 21346988--21347022 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21346978 ATCTAAAAAG
21346988 ACAAATATAAAT-TAAAT
1 ACAAAT-TAAATATAAAT
21347005 ACAAATTAAATATAAAT
1 ACAAATTAAATATAAAT
21347022 A
1 A
21347023 ATATCCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ACAAATTAAATATAAAT
Found at i:21347359 original size:22 final size:21
Alignment explanation
Indices: 21347331--21347376 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
21347321 ATGAAAGAGA
21347331 TATCAGGCCTTGAGCCGGTGAT
1 TATCAGGCCTTGAGCCGGTG-T
* *
21347353 TATCAGGCTTTGAGTCGGTGT
1 TATCAGGCCTTGAGCCGGTGT
21347374 TAT
1 TAT
21347377 GAACCAACGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.35
Consensus pattern (21 bp):
TATCAGGCCTTGAGCCGGTGT
Found at i:21349907 original size:36 final size:36
Alignment explanation
Indices: 21349864--21349943 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
21349854 CCTTATGTTC
21349864 TATTTATTTAATTTGCATGATTTTAATTATTTATT-T
1 TATTTATTTAATTTGCATGATTTTAATTA-TTATTAT
21349900 TATTTATTTAATTTGCATGATTTTAATTATTATTAT
1 TATTTATTTAATTTGCATGATTTTAATTATTATTAT
21349936 TATTTATT
1 TATTTATT
21349944 ATTCATTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
35 5 0.12
36 38 0.88
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.64
Consensus pattern (36 bp):
TATTTATTTAATTTGCATGATTTTAATTATTATTAT
Found at i:21350027 original size:12 final size:12
Alignment explanation
Indices: 21350010--21350042 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21350000 AGTTATTGTG
21350010 TATTTTTTATGT
1 TATTTTTTATGT
*
21350022 TA-TTTTTATTT
1 TATTTTTTATGT
21350033 TATTTTTTAT
1 TATTTTTTAT
21350043 ATTTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TATTTTTTATGT
Found at i:21350053 original size:23 final size:25
Alignment explanation
Indices: 21349992--21350053 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 25
21349982 CCTTATTAAA
*
21349992 TTATA-TTTAGTTATTGTGTATTTT
1 TTATATTTTAATTATTGTGTATTTT
* *
21350016 TTATGTTATT-TTTATT-T-TATTTT
1 TTATATT-TTAATTATTGTGTATTTT
21350039 TTATATTTTAATTAT
1 TTATATTTTAATTAT
21350054 ATTAATTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
22 2 0.06
23 16 0.52
24 5 0.16
25 6 0.19
26 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (25 bp):
TTATATTTTAATTATTGTGTATTTT
Found at i:21351889 original size:43 final size:43
Alignment explanation
Indices: 21351819--21352008 Score: 233
Period size: 43 Copynumber: 4.4 Consensus size: 43
21351809 TTGGTGATAC
* *
21351819 TAAATAGAAGACTTATGTCTC-GATTAGAGCATAAGATTGTTTA
1 TAAATGGAAGACTTATGTCTCGGA-TAGAGCATAAGATTATTTA
* * *
21351862 TATAA-GGAAGACTTATGTCTCGGTTAGAGTATAAGATTGTTTA
1 TA-AATGGAAGACTTATGTCTCGGATAGAGCATAAGATTATTTA
* *
21351905 TGAAA-GGAAGACTTAAGTCTCGGATAGAGCATGAGATTATTTA
1 T-AAATGGAAGACTTATGTCTCGGATAGAGCATAAGATTATTTA
* * *
21351948 TAAATGGAAGACTTATGACTCGGAAAGAGCATAAGATTATTTG
1 TAAATGGAAGACTTATGTCTCGGATAGAGCATAAGATTATTTA
21351991 TAAATGGAAGAACTTATG
1 TAAATGGAAG-ACTTATG
21352009 ACTGGAAGAG
Statistics
Matches: 129, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
42 3 0.02
43 115 0.89
44 11 0.09
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (43 bp):
TAAATGGAAGACTTATGTCTCGGATAGAGCATAAGATTATTTA
Found at i:21353134 original size:17 final size:17
Alignment explanation
Indices: 21353112--21353148 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
21353102 TATAAACCTA
21353112 TGATAGTGTGATATTGG
1 TGATAGTGTGATATTGG
21353129 TGATAGTGTGATATTGG
1 TGATAGTGTGATATTGG
21353146 TGA
1 TGA
21353149 ATCCGATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (17 bp):
TGATAGTGTGATATTGG
Found at i:21354776 original size:1 final size:1
Alignment explanation
Indices: 21354772--21355020 Score: 138
Period size: 1 Copynumber: 249.0 Consensus size: 1
21354762 AGTGCATAAT
* * * * * * * * * *
21354772 AAAAAAAAATAAAAATAAAAATAAAATAAAAATAAATAAAAGAAAAAAGAAAAAAGAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
21354837 AAAAAAAGAAAAAAGAAAAGAAAAAAGAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAGAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
21354902 AAAGAAAAAGAAAAAGAAAAAAAAGAAAAGAAAAACAAAAACAAAAACAAAAACAAAACAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * * * *
21354967 GAAATGAAAAAGAAAAAGAAAAAGAAAAAAAAAAAAAAAGAATAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21355021 TAAATGTATT
Statistics
Matches: 171, Mismatches: 77, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 171 1.00
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (1 bp):
A
Found at i:21354821 original size:7 final size:7
Alignment explanation
Indices: 21354809--21355002 Score: 167
Period size: 7 Copynumber: 27.6 Consensus size: 7
21354799 AAAAATAAAT
21354809 AAAAGAA
1 AAAAGAA
21354816 AAAAGAA
1 AAAAGAA
21354823 AAAAGAA
1 AAAAGAA
21354830 AAAAGAA
1 AAAAGAA
21354837 AAAA-AA
1 AAAAGAA
*
21354843 AGAAAAAA
1 A-AAAGAA
21354851 GAAAAGAA
1 -AAAAGAA
21354859 AAAAG-A
1 AAAAGAA
21354865 AAAAGAA
1 AAAAGAA
21354872 AAAAGAA
1 AAAAGAA
21354879 AAAAGAA
1 AAAAGAA
21354886 AAAAGAA
1 AAAAGAA
21354893 AAGAA-AA
1 AA-AAGAA
21354900 GAAAAG-A
1 -AAAAGAA
21354907 AAAAG-A
1 AAAAGAA
21354913 AAAAGAA
1 AAAAGAA
21354920 AAAA-AA
1 AAAAGAA
21354926 GAAAAGAA
1 -AAAAGAA
21354934 AAACA-AA
1 AAA-AGAA
21354941 AACAA-AA
1 AA-AAGAA
21354948 ACAAA-AA
1 A-AAAGAA
*
21354955 CAAAACAA
1 -AAAAGAA
*
21354963 AAAGGAA
1 AAAAGAA
*
21354970 ATGAAAAAGA
1 A--AAAGA-A
21354980 AAAAG-A
1 AAAAGAA
21354986 AAAAGAA
1 AAAAGAA
21354993 AAAA-AA
1 AAAAGAA
21354999 AAAA
1 AAAA
21355003 AAAGAATAAA
Statistics
Matches: 162, Mismatches: 6, Indels: 39
0.78 0.03 0.19
Matches are distributed among these distances:
6 34 0.21
7 100 0.62
8 22 0.14
9 4 0.02
10 2 0.01
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.01
Consensus pattern (7 bp):
AAAAGAA
Found at i:21355048 original size:10 final size:10
Alignment explanation
Indices: 21355033--21355057 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21355023 AATGTATTAA
21355033 TTTTTTGAAT
1 TTTTTTGAAT
21355043 TTTTTTGAAT
1 TTTTTTGAAT
21355053 TTTTT
1 TTTTT
21355058 CATTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTGAAT
Found at i:21355067 original size:19 final size:19
Alignment explanation
Indices: 21355031--21355066 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21355021 TAAATGTATT
*
21355031 AATTTTTTGAATTTTTTTG
1 AATTTTTTCAATTTTTTTG
21355050 AATTTTTTC-ATTTTTTT
1 AATTTTTTCAATTTTTTT
21355067 TAAAAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (19 bp):
AATTTTTTCAATTTTTTTG
Found at i:21358897 original size:21 final size:21
Alignment explanation
Indices: 21358863--21358902 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21358853 TGTGATTCTG
* *
21358863 CATACTTGTTTTGGTAGAACC
1 CATACATGTATTGGTAGAACC
21358884 CATACATGTATTGGTAGAA
1 CATACATGTATTGGTAGAA
21358903 GTACAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (21 bp):
CATACATGTATTGGTAGAACC
Found at i:21359079 original size:116 final size:116
Alignment explanation
Indices: 21358884--21359148 Score: 363
Period size: 116 Copynumber: 2.3 Consensus size: 116
21358874 TGGTAGAACC
* ** * * * * * *
21358884 CATACATGTATTGGTAGAAGTACAAAGTAGGAGAGTGGTTGTTTATTGACTTGGATTGTATCGGT
1 CATACTTGTATTGGTAGAAGTACAGGGTAAGAGAGAGGTTATTTACTAACTTGGATTGTATCGAT
**
21358949 ACATGAATAACAAGTATCGGTAGTCATGTGA-TTAGAAGTATCGGTAG-TCTG
66 ACATGAATAACAAGTATCGGTAGTCATGT-ATTTAGAAGTATCAATAGTTC-G
* *
21359000 CATACTTGTATCGGTAGAAGTACAGGGTAAGAGAGAGGTTATTTACTAACTTGGGTTGTATCGAT
1 CATACTTGTATTGGTAGAAGTACAGGGTAAGAGAGAGGTTATTTACTAACTTGGATTGTATCGAT
*
21359065 AGATGAATAACAAGTATCGGTAGTCATGTATTTAGAAGTATCAATAGTTCG
66 ACATGAATAACAAGTATCGGTAGTCATGTATTTAGAAGTATCAATAGTTCG
21359116 CATACTTGTATTGGTAGAAGTAACAGGGTAAGA
1 CATACTTGTATTGGTAGAAGT-ACAGGGTAAGA
21359149 TTTTTAGCTT
Statistics
Matches: 131, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
115 1 0.01
116 117 0.89
117 13 0.10
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (116 bp):
CATACTTGTATTGGTAGAAGTACAGGGTAAGAGAGAGGTTATTTACTAACTTGGATTGTATCGAT
ACATGAATAACAAGTATCGGTAGTCATGTATTTAGAAGTATCAATAGTTCG
Found at i:21359244 original size:21 final size:21
Alignment explanation
Indices: 21359192--21359246 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
21359182 AAGTAAGACT
* * *
21359192 TGTATCGGTAAAAGAGTCACT
1 TGTATCGGTAGAACAGTCACG
*
21359213 TGTATCGGTAGAACTGTCACG
1 TGTATCGGTAGAACAGTCACG
21359234 TGTATCGGTAGAA
1 TGTATCGGTAGAA
21359247 ATCTGCACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
TGTATCGGTAGAACAGTCACG
Found at i:21361232 original size:52 final size:52
Alignment explanation
Indices: 21361162--21361397 Score: 328
Period size: 52 Copynumber: 4.5 Consensus size: 52
21361152 AAATTCATGC
* * * *
21361162 ACTCAAGATGGCACTTAGTCATCGGACCTCACAATCCGTAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCAGACCTCACAATCCGTAAAGGATTCATAT
* *
21361214 ACTCACGATGACACTTAGTCATCAGACCTCATAATCTGTAAAGGATTCATAT
1 ACTCACGATGACACTTAGTCATCAGACCTCACAATCCGTAAAGGATTCATAT
* * * * *
21361266 ATTCACGAAGACTCTTAGTCATCAGACCTCACAATCTGTAAAGGAATCATAT
1 ACTCACGATGACACTTAGTCATCAGACCTCACAATCCGTAAAGGATTCATAT
* * *
21361318 ACTCATGATGACACTTAGTCATCAGACCTCATAATCCGTAAATGATTCATAT
1 ACTCACGATGACACTTAGTCATCAGACCTCACAATCCGTAAAGGATTCATAT
* *
21361370 ACTTACAATGACACTTAGTCATCAGACC
1 ACTCACGATGACACTTAGTCATCAGACC
21361398 CTTTTTCATT
Statistics
Matches: 162, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 162 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (52 bp):
ACTCACGATGACACTTAGTCATCAGACCTCACAATCCGTAAAGGATTCATAT
Found at i:21366029 original size:25 final size:25
Alignment explanation
Indices: 21365981--21366031 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
21365971 GGAAAAGGTT
*
21365981 AAAATATAAAAATTAAATTAAAAATG
1 AAAATATAAAAA-TAAATAAAAAATG
21366007 AAAATAATAAAAA-AAATAAAAAATG
1 AAAAT-ATAAAAATAAATAAAAAATG
21366032 GCTAAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 5 0.22
27 7 0.30
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (25 bp):
AAAATATAAAAATAAATAAAAAATG
Found at i:21368003 original size:19 final size:19
Alignment explanation
Indices: 21367979--21368017 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
21367969 ATTATAAAAG
*
21367979 TATTCAATACGCAATTTTA
1 TATTCAATACGCAAGTTTA
*
21367998 TATTCAATATGCAAGTTTA
1 TATTCAATACGCAAGTTTA
21368017 T
1 T
21368018 TACATTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (19 bp):
TATTCAATACGCAAGTTTA
Found at i:21368049 original size:24 final size:24
Alignment explanation
Indices: 21368014--21368184 Score: 227
Period size: 24 Copynumber: 7.2 Consensus size: 24
21368004 ATATGCAAGT
* *
21368014 TTAT-TACATTTACGCTTGTCAGC
1 TTATATACGTTTACGCTCGTCAGC
*
21368037 TTATATACGTTTACGCTTGTCAGC
1 TTATATACGTTTACGCTCGTCAGC
*
21368061 TTATATACGTTTATGCTCGTCAGC
1 TTATATACGTTTACGCTCGTCAGC
*
21368085 TTATATACGTCTACGCTCGTCAGC
1 TTATATACGTTTACGCTCGTCAGC
*
21368109 TTATATACGTCTACGCTCGTCAGC
1 TTATATACGTTTACGCTCGTCAGC
* *
21368133 TTATATATGTTTATGCTCGTCAGC
1 TTATATACGTTTACGCTCGTCAGC
* * * *
21368157 TTATATATGTTCACGCTCATTAGC
1 TTATATACGTTTACGCTCGTCAGC
21368181 TTAT
1 TTAT
21368185 CAAATAAGAA
Statistics
Matches: 135, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 4 0.03
24 131 0.97
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (24 bp):
TTATATACGTTTACGCTCGTCAGC
Found at i:21387144 original size:7 final size:7
Alignment explanation
Indices: 21387129--21387162 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
21387119 TCTTGATTAT
21387129 TTCTTCA
1 TTCTTCA
*
21387136 TTCTACA
1 TTCTTCA
*
21387143 TTATTCA
1 TTCTTCA
21387150 TTCTTCA
1 TTCTTCA
21387157 TTCTTC
1 TTCTTC
21387163 TATTTATAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (7 bp):
TTCTTCA
Found at i:21387593 original size:20 final size:20
Alignment explanation
Indices: 21387570--21387607 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21387560 AAATAGATAA
21387570 AAATAACAA-GAAATTAAACT
1 AAATAACAATG-AATTAAACT
21387590 AAATAACAATGAATTAAA
1 AAATAACAATGAATTAAA
21387608 AAATGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATAACAATGAATTAAACT
Found at i:21387990 original size:16 final size:17
Alignment explanation
Indices: 21387969--21388016 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
21387959 TTATAAAAAA
21387969 TTTCTTTCTTTTTCT-T
1 TTTCTTTCTTTTTCTAT
*
21387985 TTTCTTCCTTTTTCTCAT
1 TTTCTTTCTTTTTCT-AT
*
21388003 TTTGTTTCTTTTTC
1 TTTCTTTCTTTTTC
21388017 AAATGACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTCTTTCTTTTTCTAT
Found at i:21388637 original size:17 final size:18
Alignment explanation
Indices: 21388600--21388639 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
21388590 AACAAAAGGG
21388600 ATGCAATAACAAAATAAA
1 ATGCAATAACAAAATAAA
* *
21388618 ATGCAATGACAATA-AAA
1 ATGCAATAACAAAATAAA
21388635 ATGCA
1 ATGCA
21388640 TGGAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.17
Consensus pattern (18 bp):
ATGCAATAACAAAATAAA
Found at i:21390958 original size:20 final size:21
Alignment explanation
Indices: 21390933--21390972 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21390923 GCAAGGAATT
21390933 TGAAAC-AACAAAAGTAAATG
1 TGAAACAAACAAAAGTAAATG
*
21390953 TGAAACAAATAAAAGTAAAT
1 TGAAACAAACAAAAGTAAAT
21390973 AAACAAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.62, C:0.07, G:0.12, T:0.17
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAATG
Found at i:21399677 original size:13 final size:13
Alignment explanation
Indices: 21399659--21399687 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21399649 AAGTTCTTTC
21399659 ATCTTCTCATTCA
1 ATCTTCTCATTCA
21399672 ATCTTCTCATTCA
1 ATCTTCTCATTCA
21399685 ATC
1 ATC
21399688 GATTGCTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (13 bp):
ATCTTCTCATTCA
Found at i:21418050 original size:24 final size:24
Alignment explanation
Indices: 21418023--21418125 Score: 107
Period size: 24 Copynumber: 4.3 Consensus size: 24
21418013 TATGTTCTTT
* *
21418023 AGCTTATATACGTTTACGCTCATC
1 AGCTTATATACATTTACGCTCGTC
* *
21418047 AGCTTATATATATTTATGCTCGTC
1 AGCTTATATACATTTACGCTCGTC
* * * *
21418071 AACTTATAAACGTTTATGCTCGTC
1 AGCTTATATACATTTACGCTCGTC
* *
21418095 AGCTTATATACATTTACACTCGAC
1 AGCTTATATACATTTACGCTCGTC
*
21418119 AGTTTAT
1 AGCTTAT
21418126 CAGATAAGAA
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (24 bp):
AGCTTATATACATTTACGCTCGTC
Found at i:21432354 original size:95 final size:95
Alignment explanation
Indices: 21432183--21432356 Score: 251
Period size: 95 Copynumber: 1.8 Consensus size: 95
21432173 TTTATTTTGG
* **
21432183 TTATTTATTTATTTTTAGCACTCTTATTTTCGGGTATTTACATTTTTGTCCCATTAAATTTCTTT
1 TTATTTATTTATTTCTAGCACTCTTATTTTCGAATATTTACATTTTTGTCCCATTAAATTTCTTT
* **
21432248 TAATTTTCAATTTAGTCTTTTTTACTTTTA
66 TAAGTGACAATTTAGTCTTTTTTACTTTTA
* * *
21432278 TTATTTATTTATTTCTAGCAC-CTTTATTTTCTAATCTTTACATTTTTGTCCCTTTAAATTTCTT
1 TTATTTATTTATTTCTAGCACTC-TTATTTTCGAATATTTACATTTTTGTCCCATTAAATTTCTT
21432342 TTAAGTGACAATTTA
65 TTAAGTGACAATTTA
21432357 ATCCTTTGCT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 1 0.01
95 68 0.99
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (95 bp):
TTATTTATTTATTTCTAGCACTCTTATTTTCGAATATTTACATTTTTGTCCCATTAAATTTCTTT
TAAGTGACAATTTAGTCTTTTTTACTTTTA
Found at i:21432389 original size:15 final size:15
Alignment explanation
Indices: 21432366--21432399 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21432356 AATCCTTTGC
*
21432366 TTATCTATTCATTTT
1 TTATATATTCATTTT
*
21432381 TTATATATTTATTTT
1 TTATATATTCATTTT
21432396 TTAT
1 TTAT
21432400 TTTATTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATATATTCATTTT
Found at i:21432417 original size:4 final size:4
Alignment explanation
Indices: 21432366--21432426 Score: 63
Period size: 4 Copynumber: 15.5 Consensus size: 4
21432356 AATCCTTTGC
* * * *
21432366 TTAT CTAT TCAT TT-T TTAT ATAT TTAT TT-T TTATT TTAT TTGT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT
21432413 TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TT
21432427 CTTGCACTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 6 0.13
4 36 0.78
5 4 0.09
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:21433795 original size:72 final size:72
Alignment explanation
Indices: 21433617--21433795 Score: 180
Period size: 72 Copynumber: 2.5 Consensus size: 72
21433607 TAAATAAGTT
* ** *
21433617 ACAGTGAGTTACACGGGCTGGGTACACTGGCGTGTGCTAGACCGTGTGAACATGCTGCTTTGTGA
1 ACAGTGAGTTACACGGGTTGGACACAC-GGCGTGTGCTAGACCGTGTGAACATGCTACTTTGTGA
*
21433682 AATCAGAA
65 AATCAAAA
* ** * * * * * * *
21433690 ACAATGAGTTACATAGGTTGGACATAAGGGCGTGTGCTAGATCGTGTGGATAT-TTATTTTGTGA
1 ACAGTGAGTTACACGGGTTGGACA-CACGGCGTGTGCTAGACCGTGTGAACATGCTACTTTGTGA
21433754 AATCAAAA
65 AATCAAAA
*
21433762 ATAGTGAGTTACACGGGTTGGACACACGAGCGTG
1 ACAGTGAGTTACACGGGTTGGACACACG-GCGTG
21433796 GGGGAGGCCG
Statistics
Matches: 83, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
71 2 0.02
72 40 0.48
73 40 0.48
74 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (72 bp):
ACAGTGAGTTACACGGGTTGGACACACGGCGTGTGCTAGACCGTGTGAACATGCTACTTTGTGAA
ATCAAAA
Found at i:21433958 original size:39 final size:39
Alignment explanation
Indices: 21433904--21434084 Score: 220
Period size: 39 Copynumber: 4.7 Consensus size: 39
21433894 CAAAATACTA
* *
21433904 AACTGGTAATGACACTGTAAACACTGCAATACGATACAG
1 AACTGGCAGTGACACTGTAAACACTGCAATACGATACAG
* * *
21433943 AACTGGCAATGACACTGTAAACACTACAATACGATACTG
1 AACTGGCAGTGACACTGTAAACACTGCAATACGATACAG
* * * *
21433982 AACTAGCAGTGACACTGTAAACACTGGAATACTATACTG
1 AACTGGCAGTGACACTGTAAACACTGCAATACGATACAG
* * *
21434021 AACTGGCAGTGACACTGTAAACACTACAATACAATATA-
1 AACTGGCAGTGACACTGTAAACACTGCAATACGATACAG
* * *
21434059 AATTGACAGTGACACTATAAACACTG
1 AACTGGCAGTGACACTGTAAACACTG
21434085 TAATGCTATA
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
38 22 0.18
39 102 0.82
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (39 bp):
AACTGGCAGTGACACTGTAAACACTGCAATACGATACAG
Found at i:21434002 original size:78 final size:77
Alignment explanation
Indices: 21433913--21434124 Score: 266
Period size: 78 Copynumber: 2.7 Consensus size: 77
21433903 AAACTGGTAA
* * *
21433913 TGACACTGTAAACACTGCAATACGATACAGAACTGGCAATGACACTGTAAACACTACAATACGAT
1 TGACACTGTAAACACTGCAATACTATACTGAACTGGCAATGACACTGTAAACACTACAATACAAT
*
21433978 ACTGAACTAG-CAG
66 A-T-AAATAGACAG
* *
21433991 TGACACTGTAAACACTGGAATACTATACTGAACTGGCAGTGACACTGTAAACACTACAATACAAT
1 TGACACTGTAAACACTGCAATACTATACTGAACTGGCAATGACACTGTAAACACTACAATACAAT
*
21434056 ATAAATTGACAG
66 ATAAATAGACAG
* * * * * *
21434068 TGACACTATAAACACTGTAATGCTATACTG-AGTAGGTAATGAGACTGTAAACACTAC
1 TGACACTGTAAACACTGCAATACTATACTGAACT-GGCAATGACACTGTAAACACTAC
21434125 CAAATTGATA
Statistics
Matches: 118, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
76 6 0.05
77 51 0.43
78 61 0.52
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (77 bp):
TGACACTGTAAACACTGCAATACTATACTGAACTGGCAATGACACTGTAAACACTACAATACAAT
ATAAATAGACAG
Found at i:21441349 original size:31 final size:31
Alignment explanation
Indices: 21441253--21441361 Score: 143
Period size: 30 Copynumber: 3.6 Consensus size: 31
21441243 ATTTTCTTTG
* *
21441253 AAAATTACATTTTGACCCC-CAAACTTTTCC
1 AAAATTACATTTTAACCCCTCAAACTTTTCT
*
21441283 AAAATTACATTTTGA-CCCTCAAACTTTT-T
1 AAAATTACATTTTAACCCCTCAAACTTTTCT
*
21441312 AAAATTACATTTTAACCCCTTAAACTTTTCT
1 AAAATTACATTTTAACCCCTCAAACTTTTCT
**
21441343 AAAATTATGTTTTAACCCC
1 AAAATTACATTTTAACCCC
21441362 GTATCCTCCG
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.24
30 36 0.51
31 18 0.25
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.39
Consensus pattern (31 bp):
AAAATTACATTTTAACCCCTCAAACTTTTCT
Found at i:21441396 original size:14 final size:15
Alignment explanation
Indices: 21441372--21441400 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21441362 GTATCCTCCG
21441372 AAACTTCATTTTTTC
1 AAACTTCATTTTTTC
21441387 AAAC-TCATTTTTTC
1 AAACTTCATTTTTTC
21441401 CTTTCTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (15 bp):
AAACTTCATTTTTTC
Found at i:21442953 original size:39 final size:39
Alignment explanation
Indices: 21442809--21442946 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
21442799 TGAATTAGTG
* * * *
21442809 GTGACACTGTAAACATTGCAATATGATACAGAATTGGAA
1 GTGACACTGTAAACACTGCAATACGATACAGAACTGGCA
*
21442848 GTGATACTGT-AA-ACTGCAATACGATACAGAACTGGCA
1 GTGACACTGTAAACACTGCAATACGATACAGAACTGGCA
* *
21442885 GTGACACTGTAAACACTGCAATACCATACTGAACTGGCA
1 GTGACACTGTAAACACTGCAATACGATACAGAACTGGCA
21442924 GTGACACTGTAAACACTGCAATA
1 GTGACACTGTAAACACTGCAATA
21442947 AAATACTAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
37 30 0.34
38 4 0.04
39 55 0.62
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (39 bp):
GTGACACTGTAAACACTGCAATACGATACAGAACTGGCA
Found at i:21442967 original size:39 final size:39
Alignment explanation
Indices: 21442883--21442978 Score: 120
Period size: 39 Copynumber: 2.5 Consensus size: 39
21442873 ACAGAACTGG
** * **
21442883 CAGTGACACTGTAAACACTGCAATACCATACTGAACTGG
1 CAGTGACACTGTAAACACTGCAATAAAATACTAAACTAA
*
21442922 CAGTGACACTGTAAACACTGCAATAAAATACTAAATTAA
1 CAGTGACACTGTAAACACTGCAATAAAATACTAAACTAA
**
21442961 TGGTGACACTGTAAACAC
1 CAGTGACACTGTAAACAC
21442979 CGTAATGCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (39 bp):
CAGTGACACTGTAAACACTGCAATAAAATACTAAACTAA
Found at i:21450873 original size:27 final size:27
Alignment explanation
Indices: 21450818--21450874 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
21450808 TAAAAAATAA
*
21450818 ATACATTAATTTATTTTTATATTGAAT
1 ATACATTAATTTATTTTTATATAGAAT
*
21450845 ATACA-TAA-TTATTTGTGTATATAGTAT
1 ATACATTAATTTATTT-T-TATATAGAAT
21450872 ATA
1 ATA
21450875 AACTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 6 0.23
26 4 0.15
27 16 0.62
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (27 bp):
ATACATTAATTTATTTTTATATAGAAT
Found at i:21454429 original size:41 final size:41
Alignment explanation
Indices: 21454363--21454718 Score: 595
Period size: 41 Copynumber: 8.7 Consensus size: 41
21454353 TATGCTCTAT
* *
21454363 CGAGTCATAAGTCTTCCTTTAAATATAATCTCATGCTCATCC
1 CGAGACATGAGTCTTCCTTT-AATATAATCTCATGCTCATCC
* * *
21454405 CGAGTCACGAGTCTTCCTTTAATATAATCTAATGCTCATCC
1 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
21454446 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
1 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
21454487 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
1 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
* * *
21454528 CTAGACATGGGTCTTCCTTTAATATAATCTCATGGTCATCC
1 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
21454569 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
1 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
* *
21454610 CGAGACATGAGTCTTCCTTTAGTATAATCTAATGCTCATCC
1 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
*
21454651 CGAGACAAGAGTCTTCCTTTAATATAATCTCATGCTCATCC
1 CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
*
21454692 CGAGACATGAGTTTTCCTTTAATATAA
1 CGAGACATGAGTCTTCCTTTAATATAA
21454719 CAAGTGATTT
Statistics
Matches: 295, Mismatches: 19, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
41 277 0.94
42 18 0.06
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (41 bp):
CGAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCC
Found at i:21458938 original size:41 final size:41
Alignment explanation
Indices: 21458881--21459019 Score: 233
Period size: 41 Copynumber: 3.4 Consensus size: 41
21458871 CCAAGTCATA
* * * *
21458881 AGTCTTCCTTTAAATATAATCTCATGCTTATCTCGAGTCACG
1 AGTCTTCCTTT-AATATAATCTCATGCTCATCCCGAGACATG
21458923 AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATG
21458964 AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATG
21459005 AGTCTTCCTTTAATA
1 AGTCTTCCTTTAATA
21459020 CAACAAGTGA
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 82 0.88
42 11 0.12
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (41 bp):
AGTCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATG
Found at i:21463564 original size:41 final size:41
Alignment explanation
Indices: 21463507--21463731 Score: 342
Period size: 41 Copynumber: 5.4 Consensus size: 41
21463497 CCGAGTCATA
* *
21463507 AGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGTCACG
1 AGTCTTCCTTT-AATATAATCTCATGCTCATCCCAAGACATG
* * * *
21463549 AGTCATCCGTTAATATAATCTCATGCTTATCCCGAGACATG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCCCAAGACATG
*
21463590 AGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGATATG
1 AGTCTTCCTTT-AATATAATCTCATGCTCATCCCAAGACATG
* * *
21463632 AGTCTTCCTTTAATATAATCTCACGCTTATCCCGAGACATG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCCCAAGACATG
21463673 AGTCTTCCTTTAATATAATCTCATGCTCATCCCAAGACATG
1 AGTCTTCCTTTAATATAATCTCATGCTCATCCCAAGACATG
21463714 AGTCTTCCTTTAATATAA
1 AGTCTTCCTTTAATATAA
21463732 CAAGTGATTT
Statistics
Matches: 164, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
41 117 0.71
42 47 0.29
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (41 bp):
AGTCTTCCTTTAATATAATCTCATGCTCATCCCAAGACATG
Found at i:21463603 original size:83 final size:83
Alignment explanation
Indices: 21463497--21463731 Score: 384
Period size: 83 Copynumber: 2.8 Consensus size: 83
21463487 TTATGCTCTA
* * * * *
21463497 CCGAGTCATAAGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGTCACGAGTCATCCGTTAA
1 CCGAGACATGAGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGTCATGAGTCTTCCTTTAA
*
21463562 TATAATCTCATGCTTATC
66 TATAATCTCACGCTTATC
21463580 CCGAGACATGAGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGAT-ATGAGTCTTCCTTTA
1 CCGAGACATGAGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAG-TCATGAGTCTTCCTTTA
21463644 ATATAATCTCACGCTTATC
65 ATATAATCTCACGCTTATC
*
21463663 CCGAGACATGAGTCTTCCTTT-AATATAATCTCATGCTCATCCCAAGACATGAGTCTTCCTTTAA
1 CCGAGACATGAGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGTCATGAGTCTTCCTTTAA
21463727 TATAA
66 TATAA
21463732 CAAGTGATTT
Statistics
Matches: 143, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
82 46 0.32
83 96 0.67
84 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (83 bp):
CCGAGACATGAGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGTCATGAGTCTTCCTTTAA
TATAATCTCACGCTTATC
Found at i:21463676 original size:124 final size:124
Alignment explanation
Indices: 21463507--21463731 Score: 353
Period size: 124 Copynumber: 1.8 Consensus size: 124
21463497 CCGAGTCATA
* *
21463507 AGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGTCACGAGTCATCCGTTAATATAATCTCA
1 AGTCTTCCTTTAAATATAATCTCACGCTCATCCCAAGACACGAGTCATCCGTTAATATAATCTCA
* *
21463572 TGCTTATCCCGAGACATGAGTCTTCCTTTAAATATAATCTCATGCTCATCCCAAGATATG
66 TGCTCATCCCAAGACATGAGTCTTCCTTT-AATATAATCTCATGCTCATCCCAAGATATG
* * * * *
21463632 AGTCTTCCTTT-AATATAATCTCACGCTTATCCCGAGACATGAGTCTTCCTTTAATATAATCTCA
1 AGTCTTCCTTTAAATATAATCTCACGCTCATCCCAAGACACGAGTCATCCGTTAATATAATCTCA
21463696 TGCTCATCCCAAGACATGAGTCTTCCTTTAATATAA
66 TGCTCATCCCAAGACATGAGTCTTCCTTTAATATAA
21463732 CAAGTGATTT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
123 7 0.08
124 73 0.80
125 11 0.12
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (124 bp):
AGTCTTCCTTTAAATATAATCTCACGCTCATCCCAAGACACGAGTCATCCGTTAATATAATCTCA
TGCTCATCCCAAGACATGAGTCTTCCTTTAATATAATCTCATGCTCATCCCAAGATATG
Found at i:21468230 original size:41 final size:41
Alignment explanation
Indices: 21468147--21468421 Score: 390
Period size: 41 Copynumber: 6.7 Consensus size: 41
21468137 TTCCTTTTTA
* * * *
21468147 ATAATCTTATGCTC-TACCGAGTCATAAGTCTTCCTTTAAAT
1 ATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTT-AAT
*
21468188 ATAATCTCATGCTCATCCCGAGTCATGAGTCTTCCTTTAAT
1 ATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTAAT
* *
21468229 ATAATCTCATACTCATCCTGAGACATGAGTCTTCCTTTAAT
1 ATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTAAT
* * *
21468270 AAAATCTCATGCTCATCCTGAGATATGAGTCTTCCTTTAAT
1 ATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTAAT
* * *
21468311 ATAATCTCATGCTCATCCCAAGACATGATTCTCCCTTTAAT
1 ATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTAAT
* *
21468352 ATAATCTCATGCTCATCTCAAGACATGAGTCTTCCTTTAAT
1 ATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTAAT
*
21468393 ATAATCTCATGCTCATCCTGAGACATGAG
1 ATAATCTCATGCTCATCCCGAGACATGAG
21468422 GTTTTCATTT
Statistics
Matches: 212, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 191 0.90
42 21 0.10
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (41 bp):
ATAATCTCATGCTCATCCCGAGACATGAGTCTTCCTTTAAT
Found at i:21471677 original size:52 final size:51
Alignment explanation
Indices: 21471599--21471839 Score: 347
Period size: 52 Copynumber: 4.6 Consensus size: 51
21471589 TTCCCATTTA
*
21471599 ATACTCACGATGACACAAAGTCATCGGACCTTTAATCCATAATAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTAATCCATAA-AGGATTCAT
* *
21471651 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCT-TTAATCCATAAAGGATTCAT
* * *
21471703 ATACTCATGATGACACATAGTCATCAGACGTTATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTT-TAATCCATAAAGGATTCAT
* * * *
21471755 ATACTCACGATGACACATAGTCATCAGACATCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCT-TTAATCCATAAAGGATTCAT
*
21471807 ATACTCACAATGACACATAGTCATCGGACCTTT
1 ATACTCACGATGACACATAGTCATCGGACCTTT
21471840 TTCATTTATG
Statistics
Matches: 170, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.01
52 160 0.94
53 9 0.05
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (51 bp):
ATACTCACGATGACACATAGTCATCGGACCTTTAATCCATAAAGGATTCAT
Found at i:21471779 original size:104 final size:104
Alignment explanation
Indices: 21471599--21471839 Score: 394
Period size: 104 Copynumber: 2.3 Consensus size: 104
21471589 TTCCCATTTA
* *
21471599 ATACTCACGATGACACAAAGTCATCGGACCTTTAATCCATAATAGGATTCATATACTCACGATGA
1 ATACTCACGATGACACATAGTCATCAGACCTTTAATCCATAATAGGATTCATATACTCACGATGA
* *
21471664 CACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
66 CACATAGTCATCAGACATCATAATCCGTAAAGGATTCAT
* *
21471703 ATACTCATGATGACACATAGTCATCAGACGTTATAATCCATAA-AGGATTCATATACTCACGATG
1 ATACTCACGATGACACATAGTCATCAGACCTT-TAATCCATAATAGGATTCATATACTCACGATG
21471767 ACACATAGTCATCAGACATCATAATCCGTAAAGGATTCAT
65 ACACATAGTCATCAGACATCATAATCCGTAAAGGATTCAT
* *
21471807 ATACTCACAATGACACATAGTCATCGGACCTTT
1 ATACTCACGATGACACATAGTCATCAGACCTTT
21471840 TTCATTTATG
Statistics
Matches: 126, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
103 1 0.01
104 115 0.91
105 10 0.08
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (104 bp):
ATACTCACGATGACACATAGTCATCAGACCTTTAATCCATAATAGGATTCATATACTCACGATGA
CACATAGTCATCAGACATCATAATCCGTAAAGGATTCAT
Found at i:21482892 original size:18 final size:18
Alignment explanation
Indices: 21482843--21482885 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21482833 GTAGGCACAT
* * *
21482843 CATGATCAGATGTAGTCA
1 CATGCTCAGATGCAATCA
21482861 CATGCTCAGATGCAATCA
1 CATGCTCAGATGCAATCA
21482879 CATGCTC
1 CATGCTC
21482886 CTATGCAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (18 bp):
CATGCTCAGATGCAATCA
Found at i:21487102 original size:5 final size:5
Alignment explanation
Indices: 21487092--21487137 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
21487082 AAAAAAAGGA
*
21487092 AAAAG AAAAG AAAAG GAAAG -AAA- AAAAG AAAA- AAAGAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG AAAAG AAA
21487138 CGGAGAGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
4 9 0.25
5 24 0.67
6 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21487117 original size:23 final size:23
Alignment explanation
Indices: 21487091--21487137 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
21487081 AAAAAAAAGG
*
21487091 AAAAAGAAAAGAAA-AGGAAAGAA
1 AAAAAGAAAA-AAAGAGAAAAGAA
21487114 AAAAAGAAAAAAAGAGAAAAGAA
1 AAAAAGAAAAAAAGAGAAAAGAA
21487137 A
1 A
21487138 CGGAGAGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAAAGAGAAAAGAA
Found at i:21487131 original size:18 final size:18
Alignment explanation
Indices: 21487082--21487133 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
21487072 AATTTTGCCA
*
21487082 AAAAAAAGGAAAAAGAAAAG
1 AAAAAAA-GAGAAA-AAAAG
*
21487102 AAAAGGAA-AGAAAAAAAG
1 AAAA-AAAGAGAAAAAAAG
21487120 AAAAAAAGAGAAAA
1 AAAAAAAGAGAAAA
21487134 GAAACGGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.07
18 15 0.56
19 4 0.15
20 4 0.15
21 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAGAAAAAAAG
Found at i:21487714 original size:102 final size:101
Alignment explanation
Indices: 21487423--21487874 Score: 566
Period size: 102 Copynumber: 4.4 Consensus size: 101
21487413 ACCTTGTGTT
*
21487423 TAGCAGATCTCAATCTTCCTAAAGTTGCACTGGAATGGAGTGAAACCACAACACCAAATCCTATA
1 TAGCAGATCTCAATC-TCCTAAAGTTGCAATGGAATGGAGTGAAACCACAACACCAAATCCTATA
* *
21487488 TCCCTGAAGTTGTAGTGGATCGGATTAAAACTAACAG
65 TCCCTGAAGTTGCAGTGGATCGAATTAAAACTAACAG
** * * *
21487525 TAGCAGATCTTTATCTCCCTAAAGTTGCAGT-GAATAGAGTGAGTGAAGCCACAACACCAAATCT
1 TAGCAGATCTCAATCT-CCTAAAGTTGCAATGGAAT---G-GAGTGAAACCACAACACCAAATCC
21487589 TATATCCCTGAAGTTGCAGTGGATCGAATTAAAACTAACAG
61 TATATCCCTGAAGTTGCAGTGGATCGAATTAAAACTAACAG
* ** * * *
21487630 TAGTAGATCTCAATCTCCATGGAGTTGTAATGGAATGGAGAGAAGCCACAACACCAAATCCTATA
1 TAGCAGATCTCAATCTCC-TAAAGTTGCAATGGAATGGAGTGAAACCACAACACCAAATCCTATA
*
21487695 TCCCTGAAGTTGCAGTGGATCGGATTAAAACTAACAG
65 TCCCTGAAGTTGCAGTGGATCGAATTAAAACTAACAG
* * * * *
21487732 TGGCAGATCTCAATCTCCCGAAAGTTGCAATGGAATAGAGTGAAATCATAACACCAAATCCTATA
1 TAGCAGATCTCAATCT-CCTAAAGTTGCAATGGAATGGAGTGAAACCACAACACCAAATCCTATA
* * *
21487797 TCCTTGAATTTGCAATGGATC-AGATTAAAACTAACAG
65 TCCCTGAAGTTGCAGTGGATCGA-ATTAAAACTAACAG
* * *
21487834 TAGCATATCTCAATCTCCCTAAAGTTACTATGGAATGGAGT
1 TAGCAGATCTCAATCT-CCTAAAGTTGCAATGGAATGGAGT
21487875 TACAAACCCA
Statistics
Matches: 303, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
101 5 0.02
102 206 0.68
103 3 0.01
104 3 0.01
105 82 0.27
106 4 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (101 bp):
TAGCAGATCTCAATCTCCTAAAGTTGCAATGGAATGGAGTGAAACCACAACACCAAATCCTATAT
CCCTGAAGTTGCAGTGGATCGAATTAAAACTAACAG
Found at i:21489746 original size:16 final size:15
Alignment explanation
Indices: 21489725--21489754 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
21489715 AGTCCTTTGC
21489725 ATATTTATTTTATTTT
1 ATATTTA-TTTATTTT
21489741 ATATTTATTTATTT
1 ATATTTATTTATTT
21489755 ATTTTTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATATTTATTTATTTT
Found at i:21489900 original size:98 final size:97
Alignment explanation
Indices: 21489732--21489910 Score: 265
Period size: 98 Copynumber: 1.8 Consensus size: 97
21489722 TGCATATTTA
*
21489732 TTTTATTTTATATTTATTTATTTATTTTTAACACTCTTATTTTTAGGTATTTACATTTTCGCCCC
1 TTTTATTTTATATTTATTTATTTATTTGTAACACTCTTATTTTTAGGTATTTACATTTTCGCCCC
21489797 ATTAAATTTCTTTTAATTTTTAATTTAGTCTT
66 ATTAAATTTCTTTTAATTTTTAATTTAGTCTT
* *
21489829 TTTTACTTTTATTATTTATTTATTTATTTGTAGCAC-CTTTATTTTCT-GGT-TTTACATTTTTG
1 TTTTA-TTTTA-TATTTATTTATTTATTTGTAACACTC-TTATTTT-TAGGTATTTACATTTTCG
*
21489891 CCCCTTTAAATTTCTTTTAA
62 CCCCATTAAATTTCTTTTAA
21489911 GTGTCAATTA
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
97 5 0.07
98 36 0.49
99 32 0.43
100 1 0.01
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (97 bp):
TTTTATTTTATATTTATTTATTTATTTGTAACACTCTTATTTTTAGGTATTTACATTTTCGCCCC
ATTAAATTTCTTTTAATTTTTAATTTAGTCTT
Found at i:21489966 original size:15 final size:15
Alignment explanation
Indices: 21489946--21489984 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21489936 TATTCATTGT
21489946 TTTTTTATATATTTA
1 TTTTTTATATATTTA
* *
21489961 TTTTTTATTTGTTTA
1 TTTTTTATATATTTA
21489976 TTTATTTAT
1 TTT-TTTAT
21489985 TTCTTGCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTTTATATATTTA
Found at i:21489979 original size:4 final size:4
Alignment explanation
Indices: 21489949--21489986 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
21489939 TCATTGTTTT
* *
21489949 TTTA TATA TTTA TTT- TTTA TTTG TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
21489987 CTTGCACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:21491478 original size:14 final size:14
Alignment explanation
Indices: 21491454--21491487 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21491444 CTCATATTAA
21491454 GGAAG-AGAAAGAG
1 GGAAGAAGAAAGAG
21491467 GGAAGAAGAAAGAG
1 GGAAGAAGAAAGAG
*
21491481 GAAAGAA
1 GGAAGAA
21491488 TTTAGGGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
GGAAGAAGAAAGAG
Found at i:21491972 original size:25 final size:24
Alignment explanation
Indices: 21491928--21491987 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
21491918 CATTTTATTA
*
21491928 TTATTTTTATTTATGATATTAATT
1 TTATTTTTATTAATGATATTAATT
* *
21491952 TTATTATTTATTAATGTTATTTATT
1 TTATT-TTTATTAATGATATTAATT
*
21491977 TGA-TTTTATTA
1 TTATTTTTATTA
21491988 TTCATGAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 7 0.23
24 6 0.19
25 18 0.58
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (24 bp):
TTATTTTTATTAATGATATTAATT
Found at i:21495548 original size:5 final size:5
Alignment explanation
Indices: 21495538--21495571 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
21495528 ATAATTACAT
* *
21495538 ATATC ATATC ACATC ATATC ATGTC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
21495572 GACAAGGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (5 bp):
ATATC
Found at i:21495558 original size:15 final size:15
Alignment explanation
Indices: 21495534--21495571 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
21495524 AAATATAATT
21495534 ACAT-ATATCATATC
1 ACATCATATCATATC
*
21495548 ACATCATATCATGTC
1 ACATCATATCATATC
*
21495563 ATATCATAT
1 ACATCATAT
21495572 GACAAGGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (15 bp):
ACATCATATCATATC
Found at i:21496826 original size:16 final size:16
Alignment explanation
Indices: 21496805--21496855 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
21496795 AAGAAAGAGC
21496805 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
21496821 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
* *
21496837 AAACACACTAGTAAAT
1 AAATACGCTAGTAAAT
21496853 AAA
1 AAA
21496856 ATACTAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:21496871 original size:13 final size:15
Alignment explanation
Indices: 21496812--21496871 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
21496802 AGCAAATACG
21496812 CTAGTAAAT-AAATA
1 CTAGTAAATAAAATA
*
21496826 CGCTAGTAAATAAACACA
1 --CTAGTAAATAAA-ATA
21496844 CTAGTAAATAAAATA
1 CTAGTAAATAAAATA
21496859 CTAG-AAA-AAAATA
1 CTAGTAAATAAAATA
21496872 AGCTTTCTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.15
14 3 0.08
15 6 0.15
16 21 0.52
17 2 0.05
18 2 0.05
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (15 bp):
CTAGTAAATAAAATA
Found at i:21500910 original size:24 final size:23
Alignment explanation
Indices: 21500878--21500938 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 23
21500868 CAAGTATGCA
*
21500878 AACTACCGATACATCTATACATAT-
1 AACTACCGATACATCTACA-AT-TC
21500902 AACTACCGATAC-TC-ACAATTC
1 AACTACCGATACATCTACAATTC
21500923 AACTACCGATACATCT
1 AACTACCGATACATCT
21500939 TAAGTCAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 1 0.03
21 14 0.42
22 4 0.12
23 2 0.06
24 12 0.36
ACGTcount: A:0.39, C:0.30, G:0.05, T:0.26
Consensus pattern (23 bp):
AACTACCGATACATCTACAATTC
Found at i:21501638 original size:52 final size:52
Alignment explanation
Indices: 21501506--21501640 Score: 182
Period size: 52 Copynumber: 2.6 Consensus size: 52
21501496 ATTTCACTTC
* *
21501506 ATTCATATACTCACGATGACACATAGCCATCGGACCTTATAATCCGTAAGGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGG
* * *
21501558 ATTCATATACTCACGATGGCGCAGAGTCATCGGACCTCT-TAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCT-TATAATCCGTAAAGG
* * *
21501610 ATTCATATAATCATGATGACACTTAGTCATC
1 ATTCATATACTCACGATGACACATAGTCATC
21501641 AGACTTCTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 70 0.99
53 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGG
Found at i:21511095 original size:15 final size:15
Alignment explanation
Indices: 21511054--21511099 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
21511044 TCAGTCACTT
*
21511054 GAAAAAGAA-AAATGA
1 GAAAAAGAAGAAA-AA
21511069 GAAAAAGAAAGAAAAA
1 GAAAAAG-AAGAAAAA
21511085 GAAAAAGAAGAAAAA
1 GAAAAAGAAGAAAAA
21511100 ATTTATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.54
16 10 0.36
17 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
GAAAAAGAAGAAAAA
Found at i:21511710 original size:21 final size:21
Alignment explanation
Indices: 21511685--21511741 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 21
21511675 GACTTAAGTT
21511685 GTATCGGTAGTTGCATAAT-AA
1 GTATCGGTAGTTGC-TAATAAA
*
21511706 GTATCGATAGTTCTGCTAATAGAA
1 GTATCGGTAG-T-TGCTAATA-AA
21511730 GTATCGGTAGTT
1 GTATCGGTAGTT
21511742 TATGTACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 9 0.30
22 6 0.20
23 4 0.13
24 11 0.37
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGTTGCTAATAAA
Found at i:21511865 original size:21 final size:21
Alignment explanation
Indices: 21511818--21511865 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
21511808 TAGAAGAATG
* *
21511818 ATTTGTTTCGGTAGAATCTTC
1 ATTTGTATCGGTAGAATCTGC
*
21511839 ACTTGTATCGGTAGAAATCTGC
1 ATTTGTATCGGTAG-AATCTGC
21511861 -TTTGT
1 ATTTGT
21511866 TTCATGAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (21 bp):
ATTTGTATCGGTAGAATCTGC
Found at i:21513162 original size:2 final size:2
Alignment explanation
Indices: 21513155--21513190 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
21513145 GAAAAACATT
21513155 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21513191 AATAATTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21515945 original size:36 final size:36
Alignment explanation
Indices: 21515898--21515997 Score: 155
Period size: 36 Copynumber: 2.8 Consensus size: 36
21515888 TGGTAACAGG
21515898 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
*
21515934 CATGACCTTTGGGTCAATAGGGAGCAAAATGAGCAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
* * * *
21515970 CATAACCTTTAGGTCAACATGGAGTAAA
1 CATGACCTTTGGGTCAATAGGGAGTAAA
21515998 TCGAATATCG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (36 bp):
CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
Found at i:21518182 original size:31 final size:32
Alignment explanation
Indices: 21518138--21518231 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 32
21518128 GAAATCCATT
*
21518138 ATTAACTTAATTTAATTACATCATATAAAAT-
1 ATTAATTTAATTTAATTACATCATATAAAATA
* *
21518169 TTTAATTTAATTTAATTTA-ATCACATTATATAATA
1 ATTAATTTAATTTAA-TTACAT--CA-TATAAAATA
*
21518204 ATTAATTTAATTTAATTATCATAATATA
1 ATTAATTTAATTTAATTA-CATCATATA
21518232 TACCTCACTA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
31 15 0.29
32 3 0.06
33 6 0.12
34 11 0.22
35 14 0.27
36 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (32 bp):
ATTAATTTAATTTAATTACATCATATAAAATA
Found at i:21518200 original size:36 final size:35
Alignment explanation
Indices: 21518139--21518220 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 35
21518129 AAATCCATTA
* *
21518139 TTAACTTAATTTAATTACATCATATAA-AATTTTAAT
1 TTAATTTAATTTAATCACATCATATAATAA--TTAAT
*
21518175 TTAATTTAATTTAATCACATTATATAATAATTAAT
1 TTAATTTAATTTAATCACATCATATAATAATTAAT
21518210 TTAATTTAATT
1 TTAATTTAATT
21518221 ATCATAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 16 0.38
36 24 0.57
37 2 0.05
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (35 bp):
TTAATTTAATTTAATCACATCATATAATAATTAAT
Found at i:21518221 original size:25 final size:26
Alignment explanation
Indices: 21518180--21518229 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
21518170 TTAATTTAAT
21518180 TTAATTTAATCACATTAT-ATAATAA
1 TTAATTTAATCACATTATCATAATAA
*
21518205 TTAATTTAATTTA-ATTATCATAATA
1 TTAATTTAA-TCACATTATCATAATA
21518230 TATACCTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTAATTTAATCACATTATCATAATAA
Found at i:21519128 original size:20 final size:20
Alignment explanation
Indices: 21519092--21519129 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21519082 AAAAGACCAT
**
21519092 TTGACCGTTAACTTTAACAG
1 TTGACCGTTAAAGTTAACAG
21519112 TTGACCGTTAAAGTTAAC
1 TTGACCGTTAAAGTTAAC
21519130 TGTCACTAAT
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:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
TTGACCGTTAAAGTTAACAG
Found at i:21519249 original size:9 final size:9
Alignment explanation
Indices: 21519204--21519330 Score: 98
Period size: 9 Copynumber: 13.7 Consensus size: 9
21519194 AAAAAAAAAA
*
21519204 ATAAAAATCA
1 ATAAAAAT-T
21519214 ATAAAAATT
1 ATAAAAATT
* *
21519223 ATTAAATTT
1 ATAAAAATT
21519232 AATAAAAAAATT
1 -AT--AAAAATT
*
21519244 TTAAAAATT
1 ATAAAAATT
*
21519253 -TAAAAAAT
1 ATAAAAATT
21519261 ATAAAAA-T
1 ATAAAAATT
21519269 ATAAAAATCGT
1 ATAAAAAT--T
21519280 A-AAAAATT
1 ATAAAAATT
21519288 ATAAAAATT
1 ATAAAAATT
* *
21519297 GTAAAATTTT
1 ATAAAA-ATT
*
21519307 ATAAAAATC
1 ATAAAAATT
21519316 ATAAAAATT
1 ATAAAAATT
21519325 ATAAAA
1 ATAAAA
21519331 TAGAAAAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
8 17 0.18
9 47 0.49
10 23 0.24
11 3 0.03
12 5 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:21519256 original size:19 final size:19
Alignment explanation
Indices: 21519234--21519330 Score: 67
Period size: 19 Copynumber: 5.3 Consensus size: 19
21519224 TTAAATTTAA
*
21519234 TAAAAAAATTTTAAAAATT
1 TAAAAAAATTATAAAAATT
21519253 T-AAAAAA-TATAAAAA--
1 TAAAAAAATTATAAAAATT
* ** *
21519268 TATAAAAATCGTAAAAAAT
1 TAAAAAAATTATAAAAATT
* * *
21519287 TATAAAAATTGTAAAATTT
1 TAAAAAAATTATAAAAATT
* *
21519306 TATAAAAATCATAAAAATT
1 TAAAAAAATTATAAAAATT
21519325 ATAAAA
1 -TAAAA
21519331 TAGAAAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.02
16 5 0.08
17 13 0.21
18 6 0.10
19 33 0.53
20 4 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAAAATTATAAAAATT
Found at i:21519352 original size:10 final size:11
Alignment explanation
Indices: 21519327--21519351 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21519317 TAAAAATTAT
21519327 AAAATAGAAAA
1 AAAATAGAAAA
21519338 AAAATAGAAAA
1 AAAATAGAAAA
21519349 AAA
1 AAA
21519352 TTTATAAAAC
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAATAGAAAA
Found at i:21519648 original size:17 final size:18
Alignment explanation
Indices: 21519617--21519706 Score: 96
Period size: 17 Copynumber: 4.9 Consensus size: 18
21519607 TTTTTTTATG
*
21519617 ATTTTTATAAATTTTACA
1 ATTTTTATAATTTTTACA
21519635 ATTTTTAT-ATTTTTACA
1 ATTTTTATAATTTTTACA
*
21519652 ATTTTTATAATTTTATTCTA
1 ATTTTTATAATTTT-TAC-A
21519672 ATTTTTAATAAATTTTTA-A
1 ATTTTT-AT-AATTTTTACA
21519691 TATTTTTAT-ATTTTTA
1 -ATTTTTATAATTTTTA
21519707 TTAAAATTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
17 23 0.37
18 13 0.21
19 5 0.08
20 13 0.21
21 3 0.05
22 6 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTATAATTTTTACA
Found at i:21519701 original size:8 final size:9
Alignment explanation
Indices: 21519609--21519760 Score: 98
Period size: 9 Copynumber: 16.7 Consensus size: 9
21519599 TGTTATAATT
*
21519609 TTTTTATGA
1 TTTTTATAA
21519618 TTTTTATAA
1 TTTTTATAA
* *
21519627 ATTTTACAA
1 TTTTTATAA
21519636 TTTTTAT-A
1 TTTTTATAA
*
21519644 TTTTTACAA
1 TTTTTATAA
21519653 TTTTTATAA
1 TTTTTATAA
*
21519662 TTTTATTCTAA
1 -TTT-TTATAA
21519673 TTTTTAATAAA
1 TTTTT-AT-AA
21519684 TTTTTA-ATA
1 TTTTTATA-A
21519693 TTTTTAT-A
1 TTTTTATAA
21519701 TTTTTATTAAA
1 TTTTTA-T-AA
* *
21519712 ATTTAATAA
1 TTTTTATAA
*
21519721 TGTTTATAA
1 TTTTTATAA
*
21519730 CTTTTAT--
1 TTTTTATAA
* *
21519737 TTTTTTTAT
1 TTTTTATAA
*
21519746 TTTTTATAT
1 TTTTTATAA
21519755 TTTTTA
1 TTTTTA
21519761 CCACATGTCA
Statistics
Matches: 112, Mismatches: 19, Indels: 24
0.72 0.12 0.15
Matches are distributed among these distances:
7 5 0.04
8 15 0.13
9 66 0.59
10 9 0.08
11 17 0.15
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:21519705 original size:18 final size:18
Alignment explanation
Indices: 21519601--21519760 Score: 57
Period size: 17 Copynumber: 8.7 Consensus size: 18
21519591 TTGATGTATG
*
21519601 TTATAATTTTTTTATGATTT
1 TTAT-ATTTTTTAAT-ATTT
**
21519621 TTATAAATTTTACA-ATTT
1 TTATATTTTTTA-ATATTT
21519639 TTATA-TTTTTACA-ATTT
1 TTATATTTTTTA-ATATTT
21519656 TTATAATTTTATTCTAAT-TTT
1 TTAT-A-TTT-TT-TAATATTT
* *
21519677 TAATAAATTTTTAATATTT
1 TTAT-ATTTTTTAATATTT
*
21519696 TTATATTTTTATTAA-AATT
1 TTATA-TTTT-TTAATATTT
* * * *
21519715 TAATAATGTTT-ATAACTT
1 TTATATTTTTTAAT-ATTT
*
21519733 TTAT-TTTTTTTAT-TTT
1 TTATATTTTTTAATATTT
21519749 TTATATTTTTTA
1 TTATATTTTTTA
21519761 CCACATGTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
16 7 0.06
17 27 0.25
18 25 0.23
19 23 0.21
20 13 0.12
21 11 0.10
22 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATATTTTTTAATATTT
Found at i:21519726 original size:28 final size:29
Alignment explanation
Indices: 21519670--21519737 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
21519660 AATTTTATTC
* * *
21519670 TAATTTTTAATAAATTTTTAATATTTTTA
1 TAATTTTTATTAAATATTTAATATGTTTA
21519699 T-ATTTTTATTAAA-ATTTAATAATGTTTA
1 TAATTTTTATTAAATATTTAAT-ATGTTTA
*
21519727 TAACTTTTATT
1 TAATTTTTATT
21519738 TTTTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 6 0.18
28 18 0.55
29 9 0.27
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (29 bp):
TAATTTTTATTAAATATTTAATATGTTTA
Found at i:21520051 original size:91 final size:90
Alignment explanation
Indices: 21519857--21520093 Score: 241
Period size: 91 Copynumber: 2.6 Consensus size: 90
21519847 TTAATGGTCA
* * * **
21519857 AAGGATCTTTTTGATGTATTTTAACAGTTCAAGTACCCAATTGAGTG---TAAAAAAAAGCTGGA
1 AAGGA-CTTTTTGATGCATTTTAA-AGTTCAAGTACTCAATTGAGTGCAAAAAAAAAAAGCAAGA
**
21519919 GCTTAATTTTTTTTTAAAAAACGTTTG
64 GCTTAATGCTTTTTTAAAAAACGTTTG
* * *
21519946 AGGGGCTTTTTGATGCATTTTGAAAGTTCAAGTATTCAATTGAGTGCAAAAAAAAAAAGCAAGAG
1 AAGGACTTTTTGATGCATTTT-AAAGTTCAAGTACTCAATTGAGTGCAAAAAAAAAAAGCAAGAG
*
21520011 CTTAATGGCTTTTTTGAAAAA-GTTT-
65 CTTAAT-GCTTTTTTAAAAAACGTTTG
* * * * *
21520036 AAGGACATTTTTGATGCATTATAAAAGTTTAAATACTCAAGTGAGAGCAAAAAAAAAA
1 AAGGAC-TTTTTGATGCATT-TTAAAGTTCAAGTACTCAATTGAGTGCAAAAAAAAAA
21520094 CAGGGGCTTA
Statistics
Matches: 122, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
88 35 0.29
89 5 0.04
90 4 0.03
91 66 0.54
92 12 0.10
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (90 bp):
AAGGACTTTTTGATGCATTTTAAAGTTCAAGTACTCAATTGAGTGCAAAAAAAAAAAGCAAGAGC
TTAATGCTTTTTTAAAAAACGTTTG
Found at i:21520115 original size:91 final size:93
Alignment explanation
Indices: 21519905--21520115 Score: 211
Period size: 91 Copynumber: 2.3 Consensus size: 93
21519895 AATTGAGTGT
** * * * *
21519905 AAAAAAAAGCTGGAGCTTAA--TTTTTTTTTAAAAAACGTTTGAGGGGCTTTTTGATGCATTTTG
1 AAAAAAAAGCAAGAGCTTAATGTTTTTTTTTAAAAAACGTTTGAAGGACTTTTTGATGCATTATA
* * * *
21519968 AAAGTTCAAGTATTCAATTGAGTGCAAA
66 AAAGTTCAAATACTCAAGTGAGAGCAAA
** *
21519996 AAAAAAAAGCAAGAGCTTAATG-GCTTTTTTGAAAAA-GTTT-AAGGACATTTTTGATGCATTAT
1 AAAAAAAAGCAAGAGCTTAATGTTTTTTTTTAAAAAACGTTTGAAGGAC-TTTTTGATGCATTAT
*
21520058 AAAAGTTTAAATACTCAAGTGAGAGC-AA
65 AAAAGTTCAAATACTCAAGTGAGAGCAAA
* *
21520086 AAAAAAAA-CAGGGGCTTAACTGTTTTTTTT
1 AAAAAAAAGCAAGAGCTTAA-TGTTTTTTTT
21520116 AAATGTTTGA
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
89 9 0.09
90 16 0.16
91 61 0.63
92 11 0.11
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (93 bp):
AAAAAAAAGCAAGAGCTTAATGTTTTTTTTTAAAAAACGTTTGAAGGACTTTTTGATGCATTATA
AAAGTTCAAATACTCAAGTGAGAGCAAA
Found at i:21520629 original size:9 final size:9
Alignment explanation
Indices: 21520587--21520636 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
21520577 GTCAACAAAT
21520587 AATT-TTAA
1 AATTATTAA
21520595 AATTATTAA
1 AATTATTAA
*
21520604 TTATT-TTAA
1 -AATTATTAA
21520613 AA-TA-TAA
1 AATTATTAA
21520620 AATTATTAA
1 AATTATTAA
21520629 AATTATTA
1 AATTATTA
21520637 TTTTTTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 19 0.54
10 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTATTAA
Found at i:21520658 original size:33 final size:34
Alignment explanation
Indices: 21520587--21520662 Score: 113
Period size: 33 Copynumber: 2.3 Consensus size: 34
21520577 GTCAACAAAT
21520587 AATT-TTAAAATTATTAATTATTTTAAAATATAA
1 AATTATTAAAATTATTAATTATTTTAAAATATAA
*
21520620 AATTATTAAAATTATT-ATT-TTTTGAAATAATAA
1 AATTATTAAAATTATTAATTATTTTAAAAT-ATAA
21520653 AATTATTAAA
1 AATTATTAAA
21520663 TAATTTTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
32 8 0.20
33 21 0.52
34 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (34 bp):
AATTATTAAAATTATTAATTATTTTAAAATATAA
Found at i:21521934 original size:9 final size:9
Alignment explanation
Indices: 21521896--21521969 Score: 55
Period size: 9 Copynumber: 9.6 Consensus size: 9
21521886 ATTAAAATTA
21521896 TTTAATAAT
1 TTTAATAAT
*
21521905 TTT-ATTAT
1 TTTAATAAT
21521913 TTTAA-AA-
1 TTTAATAAT
21521920 --TAATAAT
1 TTTAATAAT
21521927 TTTAATAAT
1 TTTAATAAT
21521936 TTT-AT-AT
1 TTTAATAAT
21521943 TTTAA-AA-
1 TTTAATAAT
21521950 ---AATAAT
1 TTTAATAAT
21521956 TTTAATAAT
1 TTTAATAAT
21521965 TTTAA
1 TTTAA
21521970 AATCATTTGC
Statistics
Matches: 51, Mismatches: 2, Indels: 24
0.66 0.03 0.31
Matches are distributed among these distances:
4 2 0.04
5 5 0.10
6 2 0.04
7 5 0.10
8 12 0.24
9 25 0.49
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTAATAAT
Found at i:21521955 original size:20 final size:22
Alignment explanation
Indices: 21521930--21521971 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
21521920 TAATAATTTT
21521930 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
21521950 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
21521972 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:21521963 original size:29 final size:31
Alignment explanation
Indices: 21521896--21521968 Score: 132
Period size: 29 Copynumber: 2.4 Consensus size: 31
21521886 ATTAAAATTA
21521896 TTTAATAATTTTATTATTTTAAAATAATAAT
1 TTTAATAATTTTATTATTTTAAAATAATAAT
21521927 TTTAATAATTTTA-TATTTTAAAA-AATAAT
1 TTTAATAATTTTATTATTTTAAAATAATAAT
21521956 TTTAATAATTTTA
1 TTTAATAATTTTA
21521969 AAATCATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 19 0.45
30 10 0.24
31 13 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTAATAATTTTATTATTTTAAAATAATAAT
Found at i:21521972 original size:20 final size:20
Alignment explanation
Indices: 21521920--21521977 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
21521910 TATTTTAAAA
21521920 TAATAATTTT--AATAATTT
1 TAATAATTTTAAAATAATTT
21521938 T-AT-ATTTTAAAAAATAATTT
1 TAATAATTTT--AAAATAATTT
*
21521958 TAATAATTTTAAAATCATTT
1 TAATAATTTTAAAATAATTT
21521978 GCTGATATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
16 5 0.15
17 2 0.06
18 1 0.03
20 18 0.55
21 2 0.06
22 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATAATTTTAAAATAATTT
Done.