Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000572.1 Hibiscus syriacus cultivar Beakdansim tig00001120_pilon, whole genome shotgun sequence
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: 2399138
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:322872 original size:867 final size:873
Alignment explanation
Indices: 321820--323560 Score: 3392
Period size: 867 Copynumber: 2.0 Consensus size: 873
321810 TTAATGTTGA
321820 TTTATCAATGTGTTTATTAGTAATAATATTTTCTGATTTCTTGTGTATGCCAATCTCCTTGATCC
1 TTTATCAATGTGTTTATTAGTAATAATATTTTCTGATTTCTTGTGTATGCCAATCTCCTTGATCC
321885 TTTAGTATTTTTTTGTGTGTGTGTGTGTGTAAAAAGGGAATTGAAAGAACTGGTCATTGTGACTA
66 TTTAGTATTTTTTTGTGTGTGTGTGTGTGTAAAAAGGGAATTGAAAGAACTGGTCATTGTGACTA
321950 TTTTCAATTAATATGTATTTACTATGTTCTCTTGCTCCATTTTTCTATAATAATTTAATTCTGGA
131 TTTTCAATTAATATGTATTTACTATGTTCTCTTGCTCCATTTTTCTATAATAATTTAATTCTGGA
322015 TTTGTATGGTTACTCTACGTGTTTTATAGTTTTAAATGGGAAAGTTATGCATAAGGTGGGTGTTG
196 TTTGTATGGTTACTCTACGTGTTTTATAGTTTTAAATGGGAAAGTTATGCATAAGGTGGGTGTTG
322080 AAGTCATTGGGCTGGGAGCATTGAAACTCACAGGATACCTCAAGGAGCTCTTGCAGCAGAACAAC
261 AAGTCATTGGGCTGGGAGCATTGAAACTCACAGGATACCTCAAGGAGCTCTTGCAGCAGAACAAC
322145 ATTAACTTTGAATCGTTGTACACTGTGCGGACACTGAAAGAGGTATGCTGTAATCCTCTGCAACT
326 ATTAACTTTGAATCGTTGTACACTGTGCGGACACTGAAAGAGGTATGCTGTAATCCTCTGCAACT
322210 TGGGGTTAATGCAATTTCCTTTATATGATTTAAGTAGTAGAAAGATAACCACCCTTTGATTGTTT
391 TGGGGTTAATGCAATTTCCTTTATATGATTTAAGTAGTAGAAAGATAACCACCCTTTGATTGTTT
322275 CCTTGCCATGAGTCAAGAAAAACAAATCCAACTTATATATATAACTTATCATTGCATACATTCTG
456 CCTTGCCATGAGTCAAGAAAAACAAATCCAACTTATATATATAACTTATCATTGCATACATTCTG
322340 TGCTTAATTTGATATTTTCAAAGGTTTTT-AAATTGATAAATTTACTTTGGTGCCTTTGCTCCAT
521 TGCTTAATTTGATATTTTCAAAGGTTTTTAAAATTGATAAATTTACTTTGGTGCCTTTGCTCCAT
322404 TTTGGAATCAATGACTAG-TAACCTTTGGAGACTCCAGACCTTCACTCTGATGTTCATGC-A-AT
586 TTTGGAATCAATGACTAGTTAACCTTTGGAGACTCCAGACCTTCACTCTGATGTTCATGCAAGAT
322466 CATTTCTTTTTTGCTTTCTTGCTGTAAATT-GCAACATGCTCATTCAATTTTCTTGATACTCTTT
651 CATTTC-TTTTTGCTTTCTTGCTGTAAATTGGCAACATGCTCATTCAATTTTCTTGATACTCTTT
322530 TAGTTTGATTAAAATACAGAACCTATGCTACGTTGCTACTGATTTATAAAACAGAACTA-CAAAA
715 TAGTTTGATTAAAATACAGAACCTATGCTACGTTGCTACTGA-TTATAAAACAGAACTATCAAAA
322594 GATACTCGA-CATCATTGGATGTTCCAGCTGTGGGCTGGTTTACTCTGTCAAAGGAACGCTTTCA
779 GATACTCGAGCATCATTGGATGTTCCAGCTGTGGGCTGGTTTACTCTGTCAAAGGAACGCTTTCA
322658 AACTGGAGAG-TCTTATTCCAGCCACGTAT
844 AACTGGAGAGATCTTATTCCAGCCACGTAT
322687 TTTATCAATGTGTTTATTAGTAATAATATTTTCTGATTTCTTGTGTATGCCAATCTCCTTGATCC
1 TTTATCAATGTGTTTATTAGTAATAATATTTTCTGATTTCTTGTGTATGCCAATCTCCTTGATCC
322752 TTTAGTA-TTTTTTGTGTGTGTGTGTGTGTTAAAAAGGGAATTGAAAGAACTGGTCATTGTGACT
66 TTTAGTATTTTTTTGTGTGTGTGTGTGTG-TAAAAAGGGAATTGAAAGAACTGGTCATTGTGACT
322816 ATTTTCAATTAATATGTATTTACTATGTTCTCTTGCTCCATTTTTCTATAATAATTTAATTCTGG
130 ATTTTCAATTAATATGTATTTACTATGTTCTCTTGCTCCATTTTTCTATAATAATTTAATTCTGG
322881 ATTTGTATGGTTACTCTACGTGTTTTATAGTTTTAAATGGGAAAGTTATGCATAAGGTGGGTGTT
195 ATTTGTATGGTTACTCTACGTGTTTTATAGTTTTAAATGGGAAAGTTATGCATAAGGTGGGTGTT
322946 GAAGTCATTGGGCTGGGAGCATTGAAACTCACAGGATACCTCAAGGAGCTCTTGCAGCAGAACAA
260 GAAGTCATTGGGCTGGGAGCATTGAAACTCACAGGATACCTCAAGGAGCTCTTGCAGCAGAACAA
323011 CATTAACTTTGAATCGTTGTACACTGTGCGGACACTGAAAGAGGTATGCTGTAATCCTCTGCAAC
325 CATTAACTTTGAATCGTTGTACACTGTGCGGACACTGAAAGAGGTATGCTGTAATCCTCTGCAAC
323076 TTGGGGTTAATGCAATTTCCTTTATATGATTTAAGTAGTAGAAAGATAACCACCCTTTGATTGTT
390 TTGGGGTTAATGCAATTTCCTTTATATGATTTAAGTAGTAGAAAGATAACCACCCTTTGATTGTT
323141 TCCTTGCCATGAGTCAAGAAAAACAAATCCAACTTATATATATAACTTATCATTGCATACATTCT
455 TCCTTGCCATGAGTCAAGAAAAACAAATCCAACTTATATATATAACTTATCATTGCATACATTCT
323206 GTGCTTAATTTGATATTTTCAAAGGTTTTTAAAATTGATAAATTTACTTTGGTGCCTTTGCTCCA
520 GTGCTTAATTTGATATTTTCAAAGGTTTTTAAAATTGATAAATTTACTTTGGTGCCTTTGCTCCA
323271 TTTTGGAATCAATGACTAGTTAACCTTTGGAGACTCCAGACCTTCACTCTGATGTTCATGCAAGA
585 TTTTGGAATCAATGACTAGTTAACCTTTGGAGACTCCAGACCTTCACTCTGATGTTCATGCAAGA
323336 TCATTTCTTTTTGCTTTCTTGCTGTAAATTGGCAACATGCTCATTCAATTTTCTTGATACTCTTT
650 TCATTTCTTTTTGCTTTCTTGCTGTAAATTGGCAACATGCTCATTCAATTTTCTTGATACTCTTT
323401 TAGTTTGATTAAAATACAGAACCTATGCTACGTTGCTACTGATTATAAAACAGAACTATCAAAAG
715 TAGTTTGATTAAAATACAGAACCTATGCTACGTTGCTACTGATTATAAAACAGAACTATCAAAAG
323466 ATACTCGAGCATCATTGGATGTTCCAGCTGTGGGCTGGTTTACTCTGTCAAAGGAACGCTTTCAA
780 ATACTCGAGCATCATTGGATGTTCCAGCTGTGGGCTGGTTTACTCTGTCAAAGGAACGCTTTCAA
323531 ACTGGAGAGATCTTATTCCAGCCACGTAT
845 ACTGGAGAGATCTTATTCCAGCCACGTAT
323560 T
1 T
323561 GCAGGAGTGT
Statistics
Matches: 865, Mismatches: 0, Indels: 12
0.99 0.00 0.01
Matches are distributed among these distances:
866 21 0.02
867 527 0.61
868 53 0.06
869 41 0.05
870 40 0.05
871 98 0.11
872 65 0.08
873 20 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (873 bp):
TTTATCAATGTGTTTATTAGTAATAATATTTTCTGATTTCTTGTGTATGCCAATCTCCTTGATCC
TTTAGTATTTTTTTGTGTGTGTGTGTGTGTAAAAAGGGAATTGAAAGAACTGGTCATTGTGACTA
TTTTCAATTAATATGTATTTACTATGTTCTCTTGCTCCATTTTTCTATAATAATTTAATTCTGGA
TTTGTATGGTTACTCTACGTGTTTTATAGTTTTAAATGGGAAAGTTATGCATAAGGTGGGTGTTG
AAGTCATTGGGCTGGGAGCATTGAAACTCACAGGATACCTCAAGGAGCTCTTGCAGCAGAACAAC
ATTAACTTTGAATCGTTGTACACTGTGCGGACACTGAAAGAGGTATGCTGTAATCCTCTGCAACT
TGGGGTTAATGCAATTTCCTTTATATGATTTAAGTAGTAGAAAGATAACCACCCTTTGATTGTTT
CCTTGCCATGAGTCAAGAAAAACAAATCCAACTTATATATATAACTTATCATTGCATACATTCTG
TGCTTAATTTGATATTTTCAAAGGTTTTTAAAATTGATAAATTTACTTTGGTGCCTTTGCTCCAT
TTTGGAATCAATGACTAGTTAACCTTTGGAGACTCCAGACCTTCACTCTGATGTTCATGCAAGAT
CATTTCTTTTTGCTTTCTTGCTGTAAATTGGCAACATGCTCATTCAATTTTCTTGATACTCTTTT
AGTTTGATTAAAATACAGAACCTATGCTACGTTGCTACTGATTATAAAACAGAACTATCAAAAGA
TACTCGAGCATCATTGGATGTTCCAGCTGTGGGCTGGTTTACTCTGTCAAAGGAACGCTTTCAAA
CTGGAGAGATCTTATTCCAGCCACGTAT
Found at i:325244 original size:35 final size:34
Alignment explanation
Indices: 325198--325272 Score: 105
Period size: 35 Copynumber: 2.2 Consensus size: 34
325188 AAAACAGTCA
*
325198 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAA-TAAT
** *
325233 TCAATTTCATTCTAAATTCTAAATTCCAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAATAAT
325267 TCAATT
1 TCAATT
325273 AAATTCATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.28
35 26 0.72
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAATAAT
Found at i:325796 original size:127 final size:128
Alignment explanation
Indices: 325663--325902 Score: 369
Period size: 127 Copynumber: 1.9 Consensus size: 128
325653 TTTATATATC
** *
325663 ATTTGGTCATAAATT-AATAGAATTAAATAAATTAATCATTTAATTAGGATCTGATATGT-TTAA
1 ATTTGGTCATAAATTAAATA-AATTAAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAA
325726 CACATGATCATGACACGTGTCA-TTGGTGACACATGTCACCACCTAATTATTATATATGCTATTA
65 -ACATGATCATGACACGTGTCATTTGGTGACACATGTCACCACCTAATTATTATATATGCTATTA
* *
325790 ATTTGGTCCTAAATTAAATAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAAA
1 ATTTGGTCATAAATTAAATAAATTAAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAAA
* * *
325855 CATGATCATGATATGTGTTATTTGGTGACACATGTCACCACCTAATTA
66 CATGATCATGACACGTGTCATTTGGTGACACATGTCACCACCTAATTA
325903 GAAGAAAATT
Statistics
Matches: 102, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
127 67 0.66
128 35 0.34
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (128 bp):
ATTTGGTCATAAATTAAATAAATTAAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAAA
CATGATCATGACACGTGTCATTTGGTGACACATGTCACCACCTAATTATTATATATGCTATTA
Found at i:327234 original size:7 final size:7
Alignment explanation
Indices: 327222--327249 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
327212 TCAAGCAATA
327222 GGAGAAG
1 GGAGAAG
327229 GGAGAAG
1 GGAGAAG
327236 GGAGAAG
1 GGAGAAG
327243 GGAGAAG
1 GGAGAAG
327250 AAGGTTGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (7 bp):
GGAGAAG
Found at i:331891 original size:74 final size:74
Alignment explanation
Indices: 331736--331891 Score: 269
Period size: 74 Copynumber: 2.1 Consensus size: 74
331726 GCTGGCCATC
331736 TCATTAATCGTCTGCCGTCATCAGCGATAGGAGGAAAAACACCATTGGAGGTATGGTCTGGAAAA
1 TCATT-ATCGTCTGCCGTCATCAGCGATAGGAGGAAAAACACCATTGGAGGTATGGTCTGGAAAA
*
331801 TCTGCTACTC
65 TCTGCTACTA
331811 TCATTATCGTCTGCCGTCATCAGCGATAGGAGGAAAAACACCA-TGGAGGTATGGTCTGGAAAAT
1 TCATTATCGTCTGCCGTCATCAGCGATAGGAGGAAAAACACCATTGGAGGTATGGTCTGGAAAAT
331875 CTGCTACTGA
66 CTGCTACT-A
*
331885 TTATTAT
1 TCATTAT
331892 TCATTACATA
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
73 29 0.37
74 44 0.56
75 5 0.06
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (74 bp):
TCATTATCGTCTGCCGTCATCAGCGATAGGAGGAAAAACACCATTGGAGGTATGGTCTGGAAAAT
CTGCTACTA
Found at i:333407 original size:67 final size:68
Alignment explanation
Indices: 333318--333469 Score: 243
Period size: 67 Copynumber: 2.2 Consensus size: 68
333308 ACCCATTCAA
* * * *
333318 GGGGAACTGATACCCCCTCAACGAATATGAATTTGCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
333383 -GG
66 GGG
*
333385 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
333450 GGG
66 GGG
*
333453 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
333470 ATGAGAAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 60 0.77
68 18 0.23
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCCA
GGG
Found at i:333496 original size:13 final size:13
Alignment explanation
Indices: 333473--333504 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
333463 TTCCCCCATG
333473 AGAAA-AAAAGAA
1 AGAAAGAAAAGAA
333485 AGAAAGAAAAGAA
1 AGAAAGAAAAGAA
333498 AGAAAGA
1 AGAAAGA
333505 CTAAGCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAGAA
Found at i:334120 original size:23 final size:23
Alignment explanation
Indices: 334076--334120 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
334066 ATCATTATAT
*
334076 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
334099 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
334121 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:340158 original size:21 final size:21
Alignment explanation
Indices: 340116--340158 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
340106 TTTCTGGGTT
* * *
340116 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
340137 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
340158 A
1 A
340159 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:340225 original size:67 final size:67
Alignment explanation
Indices: 340138--340287 Score: 239
Period size: 67 Copynumber: 2.2 Consensus size: 67
340128 ACCCATTCAA
* * *
340138 GGGGAACCGATACCCCCTCAACGAATATGAATTTGCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGA-GGGAACCGATACCCCCA
340203 -GG
65 GGG
*
340205 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATGCTAGAGGGAACCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGAACCGATACCCCCAG
340270 GG
66 GG
*
340272 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
340288 ATGAGAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
66 16 0.21
67 61 0.79
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.15
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGAACCGATACCCCCAG
GG
Found at i:340942 original size:23 final size:23
Alignment explanation
Indices: 340898--340942 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
340888 ATCATTATAT
*
340898 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
340921 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
340943 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:348974 original size:105 final size:104
Alignment explanation
Indices: 348798--349209 Score: 445
Period size: 105 Copynumber: 3.9 Consensus size: 104
348788 GTGCTGTACA
* * * *
348798 TGACAACATTAGGCTCAATGACTTGCTTTCTCATTGTACCGACAATATCTTCAGCTTTAGAAACC
1 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCGACAATATCTTCAGCTTCAGAAACC
* * * *
348863 ACCCCTTTCTTGCAATGTGCATCAACCAATGTGTTGTACG
66 ATCCCTTTCTTGCAATATGCATCAACCAATATG-TATACG
* * *
348903 TGACAACATCAGGCTCAATGTCTTGCTTTCTGATTGTGTCGACAATATCTTCAGCTTCAGAAACC
1 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCGACAATATCTTCAGCTTCAGAAACC
**
348968 ATCCCTTTCTTGCAATATGCATCAACCAATATACCATACG
66 ATCCCTTTCTTGCAATATGCATCAACCAATAT-GTATACG
* * * *
349008 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTTTATCAACAATATCTTTAGCTTCA-AATAT
1 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCGACAATATCTTCAGCTTCAGAA-AC
* *
349072 CATTCCCTTT-TTGCAATACGCATCAACCAATATAGTATAAG
65 CA-TCCCTTTCTTGCAATATGCATCAACCAATAT-GTATACG
* * * * * *
349113 TGACAACATTAGGCTTAA-GCCCTTGCTTTCTCATTGTGT-GAACAGTATCTACAGCTTCAAAAA
1 TGACAACATCAGGCTCAATG-CCTTGCTTTCTCATTGTATCG-ACAATATCTTCAGCTTCAGAAA
** * * * * *
349176 TAAGCCCCTCCTTGCAAAACGCATCAACCAATAT
64 CCATCCCTTTCTTGCAATATGCATCAACCAATAT
349210 ATTATATGCG
Statistics
Matches: 264, Mismatches: 36, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
104 7 0.03
105 248 0.94
106 9 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (104 bp):
TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTATCGACAATATCTTCAGCTTCAGAAACC
ATCCCTTTCTTGCAATATGCATCAACCAATATGTATACG
Found at i:349170 original size:210 final size:210
Alignment explanation
Indices: 348798--349210 Score: 494
Period size: 210 Copynumber: 2.0 Consensus size: 210
348788 GTGCTGTACA
* * *
348798 TGACAACATTAGGCTCAATGACTTGCTTTCTCATTGTACCGACAATATCTTCAGCTTTAGAAACC
1 TGACAACATCAGGCTCAATGACTTGCTTTCTCATTGTACCAACAATATCTTCAGCTTCAGAAACC
** * * * *
348863 ACCCCTTTCTTGCAATGTGCATCAACCAATGTGTTGTACGTGACAACATCAGGCTCAATGTCTTG
66 ACCCCTTTCTTGCAATACGCATCAACCAATATGTTATAAGTGACAACATCAGGCTCAATGCCTTG
* * * * * * * * *
348928 CTTTCTGATTGTGTCGACAATATCTTCAGCTTCAGAAACCATCCCTTTCTTGCAATATGCATCAA
131 CTTTCTCATTGTGTCGACAATATCTACAGCTTCAAAAACAAGCCCCTCCTTGCAAAACGCATCAA
348993 CCAATATACCATACG
196 CCAATATACCATACG
* * * * *
349008 TGACAACATCAGGCTCAATGCCTTGCTTTCTCATTTTATCAACAATATCTTTAGCTTCA-AATAT
1 TGACAACATCAGGCTCAATGACTTGCTTTCTCATTGTACCAACAATATCTTCAGCTTCAGAA-AC
* * *
349072 CATTCCCTTT-TTGCAATACGCATCAACCAATATAG-TATAAGTGACAACATTAGGCTTAA-GCC
65 CA-CCCCTTTCTTGCAATACGCATCAACCAATAT-GTTATAAGTGACAACATCAGGCTCAATG-C
* *
349134 CTTGCTTTCTCATTGTGT-GAACAGTATCTACAGCTTCAAAAATAAGCCCCTCCTTGCAAAACGC
127 CTTGCTTTCTCATTGTGTCG-ACAATATCTACAGCTTCAAAAACAAGCCCCTCCTTGCAAAACGC
349198 ATCAACCAATATA
191 ATCAACCAATATA
349211 TTATATGCGA
Statistics
Matches: 170, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
209 4 0.02
210 159 0.94
211 7 0.04
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (210 bp):
TGACAACATCAGGCTCAATGACTTGCTTTCTCATTGTACCAACAATATCTTCAGCTTCAGAAACC
ACCCCTTTCTTGCAATACGCATCAACCAATATGTTATAAGTGACAACATCAGGCTCAATGCCTTG
CTTTCTCATTGTGTCGACAATATCTACAGCTTCAAAAACAAGCCCCTCCTTGCAAAACGCATCAA
CCAATATACCATACG
Found at i:351092 original size:36 final size:36
Alignment explanation
Indices: 351022--351139 Score: 168
Period size: 35 Copynumber: 3.3 Consensus size: 36
351012 TCTCATTATC
* * *
351022 ATTTTTC-AACAAACATCTACCAAACTTTAAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTT-GAAAACT
*
351058 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
*
351094 A-TTTTCAAATAAACATTTACCAAACTTTGAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
351129 ATTTTTCAAAG
1 ATTTTTCAAAG
351140 TTGGTTACTA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
35 33 0.45
36 21 0.29
37 19 0.26
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
Found at i:351096 original size:21 final size:21
Alignment explanation
Indices: 351072--351132 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
351062 TTCAAAGAAA
351072 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
351093 CATTT-TCAAA---T--AAA-
1 CATTTACCAAACTTTGAAAAC
351107 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
351128 TATTT
1 CATTT
351133 TTCAAAGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
17 1 0.03
18 1 0.03
20 7 0.23
21 9 0.30
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:354806 original size:19 final size:19
Alignment explanation
Indices: 354782--354820 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
354772 TCGAATGCAT
354782 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
354801 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
354820 T
1 T
354821 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:354943 original size:64 final size:65
Alignment explanation
Indices: 354768--354945 Score: 207
Period size: 65 Copynumber: 2.8 Consensus size: 65
354758 GAATTAATTG
* * * * *
354768 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
354833 AACATCGAATGCATTTGATGCATCGATGCACAAGTCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATA-TTTTCA
354896 A
65 A
* ** *
354897 AACATCGAGTGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCA
354946 TCAAGTGTTC
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
64 47 0.49
65 48 0.51
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTTCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:360752 original size:44 final size:44
Alignment explanation
Indices: 360696--360797 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
360686 TTTGTGCTTC
* * * *
360696 ATGCACCGATGCATTTAACA-ATGCATCGATGCATCGCTTTGAAT
1 ATGCATCGATGCATTCAACAGATGCACCGATGCAT-GCCTTGAAT
* *
360740 ATGTATCGATGCA-TCACCATGATGCACCGATGCATGCCTTGAAT
1 ATGCATCGATGCATTCAACA-GATGCACCGATGCATGCCTTGAAT
360784 ATGCATCGATGCAT
1 ATGCATCGATGCAT
360798 AAGACCATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.08
44 31 0.65
45 13 0.27
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
ATGCATCGATGCATTCAACAGATGCACCGATGCATGCCTTGAAT
Found at i:361558 original size:31 final size:31
Alignment explanation
Indices: 361487--361566 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
361477 ATTTAACAAA
* * **
361487 AAGGGGGAGAAAATTTAAGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
361518 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
1 AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
361549 AAGGGGGAGTAAGTTTTT
1 AAGGGGGAGTAAGTTTTT
361567 CAAAATCGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.03, G:0.35, T:0.31
Consensus pattern (31 bp):
AAGGGGGAGTAAGTTTTTGATGTGCTATAGT
Found at i:361969 original size:19 final size:19
Alignment explanation
Indices: 361933--362002 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
361923 ATTAATTGAA
361933 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
*
361951 CACCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
361970 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
361989 CATCGATGCACTCT
1 CATCGATGCACTCT
362003 GAATATTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
17 5 0.10
18 5 0.10
19 38 0.79
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.26
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:362107 original size:64 final size:66
Alignment explanation
Indices: 361966--362110 Score: 199
Period size: 64 Copynumber: 2.2 Consensus size: 66
361956 ATGCACTCTC
* *
361966 CATGCATCGATGCAC-TCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATT
1 CATGCATCGATGCACAACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATT
362030 T
66 T
* * **
362031 GATGCATCGATGCACAAGT-CATGCATCGATGCAC-CAGGCTATTTTTC-AAACATCGAATGCAT
1 CATGCATCGATGCACAACTCCATGCATCGATGCACTCAGAATA-TTTTCAAAACATCGAATGCAT
362093 TT
65 TT
362095 CATGCATCGATGCACA
1 CATGCATCGATGCACA
362111 CTTGGTGCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
64 36 0.51
65 34 0.48
66 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (66 bp):
CATGCATCGATGCACAACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATT
T
Found at i:364037 original size:36 final size:36
Alignment explanation
Indices: 363967--364114 Score: 214
Period size: 35 Copynumber: 4.2 Consensus size: 36
363957 TCCCATTATC
* *
363967 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACT
364003 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC-
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
*
364038 AATTTTCAAAGAAACATTTACCAAACTTTGAAAA-T
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
*
364073 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAGACT
1 -ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
364109 ATTTTT
1 ATTTTT
364115 TTAAAGTTGG
Statistics
Matches: 103, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
35 65 0.63
36 18 0.17
37 20 0.19
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
Found at i:368532 original size:22 final size:23
Alignment explanation
Indices: 368497--368540 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
368487 TTTTTATCCA
368497 TAAATTTATCGAAT-ATATAAAAT
1 TAAATTTATCGAATCA-ATAAAAT
*
368520 TAAA-TTATTGAATCAATAAAA
1 TAAATTTATCGAATCAATAAAA
368541 AGAACAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (23 bp):
TAAATTTATCGAATCAATAAAAT
Found at i:368666 original size:13 final size:13
Alignment explanation
Indices: 368648--368672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
368638 TCATTTTATA
368648 CGTAAAGACTATG
1 CGTAAAGACTATG
368661 CGTAAAGACTAT
1 CGTAAAGACTAT
368673 TACGATTCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
CGTAAAGACTATG
Found at i:369427 original size:18 final size:18
Alignment explanation
Indices: 369401--369446 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
369391 GCAGCGTGTT
*
369401 GAAGTAAAACACAATGGC
1 GAAGCAAAACACAATGGC
*
369419 GAAGCAAAACACAATGGT
1 GAAGCAAAACACAATGGC
*
369437 GAATCAAAAC
1 GAAGCAAAAC
369447 CTTCTCACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.52, C:0.17, G:0.20, T:0.11
Consensus pattern (18 bp):
GAAGCAAAACACAATGGC
Found at i:369649 original size:30 final size:30
Alignment explanation
Indices: 369615--369671 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
369605 AAAAAAACAT
* *
369615 AAAAGATAAAATAAGATAAC-AAAGAAAAGG
1 AAAAGA-AAAAGAAAATAACAAAAGAAAAGG
369645 AAAAGAAAAAGAAAATAACAAAAGAAA
1 AAAAGAAAAAGAAAATAACAAAAGAAA
369672 TTAAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.07
Consensus pattern (30 bp):
AAAAGAAAAAGAAAATAACAAAAGAAAAGG
Found at i:370293 original size:2 final size:2
Alignment explanation
Indices: 370286--370336 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
370276 TTTGTTGGTT
370286 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
370328 TA TA TA TA T
1 TA TA TA TA T
370337 TTCTCACTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:371647 original size:104 final size:105
Alignment explanation
Indices: 371354--371703 Score: 479
Period size: 105 Copynumber: 3.3 Consensus size: 105
371344 AAGAGTGTTG
* * *
371354 TACGTGACAACATTAGGCTCAATGTCTTGCTTTCTCATTGTGTCGACAATATCTTCAGCTTCAGA
1 TACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAGA
* *
371419 AACCATTCCTTTCTTGCAATGTGCATCAACCAAAATACTA
66 AACCATTCCCTTCTTGCAATGTGCATCAACCAATATACTA
* **
371459 TACGTGACAACATTAGGCTCGATGATTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAGA
1 TACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAGA
* * *
371524 AACCA-TCCCTTTCTCGCAATGTGCATCAACCAATGTATTA
66 AACCATTCCC-TTCTTGCAATGTGCATCAACCAATATACTA
* * * * *
371564 TACGTGACAACATCAGG-TCAATCCCTTGCTTTCTCATTTTATCAACAATATCTTTAGCTTCAAA
1 TACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAGA
* * *
371628 AACCATTCCCTTCTTGCAATGAGGATCAACCAATATAGTA
66 AACCATTCCCTTCTTGCAATGTGCATCAACCAATATACTA
* * *
371668 TATGTGACAACATTAGGCTTAAGGCCTTGCTTTCTC
1 TACGTGACAACATTAGGCTCAATGCCTTGCTTTCTC
371704 GTTAGGCTTA
Statistics
Matches: 214, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
104 88 0.41
105 126 0.59
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (105 bp):
TACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCAGA
AACCATTCCCTTCTTGCAATGTGCATCAACCAATATACTA
Found at i:372859 original size:5 final size:5
Alignment explanation
Indices: 372851--372877 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
372841 ATTTCATTTT
372851 ATTAA ATTAA ATTAA ATTAA ATTAA AT
1 ATTAA ATTAA ATTAA ATTAA ATTAA AT
372878 AAAAATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:377575 original size:18 final size:19
Alignment explanation
Indices: 377552--377592 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
377542 GAATTTGTTA
*
377552 ATTTTTACTTTTAAAAAAT
1 ATTTTAACTTTTAAAAAAT
*
377571 ATTTTAGATTTTTAAAAAAT
1 ATTTTA-ACTTTTAAAAAAT
377591 AT
1 AT
377593 AAAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTTAACTTTTAAAAAAT
Found at i:388039 original size:9 final size:9
Alignment explanation
Indices: 388025--388055 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
388015 ATCTGAAATA
388025 TTATTATTT
1 TTATTATTT
388034 TTATTATTT
1 TTATTATTT
388043 TTATTATTAT
1 TTATTATT-T
388053 TTA
1 TTA
388056 ACGTTTTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTATTT
Found at i:395454 original size:30 final size:29
Alignment explanation
Indices: 395415--395502 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 29
395405 CAAAATTGAG
395415 AAAA-AAAAAACAAAAACTTAAAAGACTA
1 AAAATAAAAAACAAAAACTTAAAAGACTA
* * *
395443 AAACATTAAAAACAAAAATTTAAAGGACT-
1 AAA-ATAAAAAACAAAAACTTAAAAGACTA
* * *
395472 AAAATAAAAAATAGAAACTTAAAAGGCTA
1 AAAATAAAAAACAAAAACTTAAAAGACTA
395501 AA
1 AA
395503 CCACAAATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 22 0.46
29 6 0.12
30 20 0.42
ACGTcount: A:0.68, C:0.09, G:0.07, T:0.16
Consensus pattern (29 bp):
AAAATAAAAAACAAAAACTTAAAAGACTA
Found at i:397152 original size:91 final size:93
Alignment explanation
Indices: 396995--397163 Score: 279
Period size: 91 Copynumber: 1.8 Consensus size: 93
396985 TGTTGAAGAC
*
396995 GACACTGCTCATCCGCGATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACATGGTTCCA
1 GACACTGCTCATCCGCGATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACACGGTTCCA
*
397060 CTCTGCTGGGGACATCTGGCCGAGGGAT
66 CTCTGCTGCGGACATCTGGCCGAGGGAT
* * *
397088 GACACTGCTCATCCGCGATGAAGAG-TTC-TGGCCATCTTTAGGAATGATGCTAACACGGTTCCA
1 GACACTGCTCATCCGCGATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACACGGTTCCA
397151 CTCTGCTGCGGAC
66 CTCTGCTGCGGAC
397164 GGCTGGTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 44 0.62
92 2 0.03
93 25 0.35
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (93 bp):
GACACTGCTCATCCGCGATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACACGGTTCCA
CTCTGCTGCGGACATCTGGCCGAGGGAT
Found at i:397496 original size:40 final size:41
Alignment explanation
Indices: 397270--397505 Score: 133
Period size: 40 Copynumber: 5.6 Consensus size: 41
397260 AAAGGTGATA
* *
397270 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTG
1 ACACGGTTCCTACGTGATGAGGATGGTTGG-T-TCTAAGGGTG
* * * *
397313 ACACGGCTCCTACGTGATGAAGA-GGTCTGG-TC-GAGAGATG
1 ACACGGTTCCTACGTGATGAGGATGGT-TGGTTCTAAG-GGTG
* * * * * ** * *
397353 ACACTGCTCATACGTGGTGAAGAGTTCTTGGCCATCTAAAGGTGATA
1 ACACGGTTCCTACGTGATGAGGA-TGGTTGG--TTCT-AAGG-G-TG
*
397400 ACACGGTTCCTACGTGATGAAGATGGTTGGTTATCTAAGGGTG
1 ACACGGTTCCTACGTGATGAGGATGGTTGG-T-TCTAAGGGTG
** *
397443 ACACGACTCCTACGTGATGAGGA-GGTCTGG-TC-AGGGGATG
1 ACACGGTTCCTACGTGATGAGGATGGT-TGGTTCTAAGGG-TG
397483 ACACGGTTCCTACGTGATGAGGA
1 ACACGGTTCCTACGTGATGAGGA
397506 CGGCTGGACA
Statistics
Matches: 151, Mismatches: 28, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
39 6 0.04
40 50 0.33
41 3 0.02
42 6 0.04
43 48 0.32
44 3 0.02
45 5 0.03
46 10 0.07
47 20 0.13
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.25
Consensus pattern (41 bp):
ACACGGTTCCTACGTGATGAGGATGGTTGGTTCTAAGGGTG
Found at i:397497 original size:130 final size:130
Alignment explanation
Indices: 397083--397500 Score: 518
Period size: 130 Copynumber: 3.2 Consensus size: 130
397073 ATCTGGCCGA
* * * * *
397083 GGGATGACACTGCTCATCCGCGATGAAGAGTTC-TGGCCATCTTTAGGAATGATGCTAACACGGT
1 GGGATGACACTGCTCATACGTGATAAAGAGTTCTTGGCCATC--TA--AA-GGTGATAACACGGT
* * ** * * *
397147 TCC-ACTCTGCTGCGGACGGCTGGTTATCTGAGGTTGACACGGCTCCTACGTGATGAAGAGTTCT
61 TCCTAC-GTGATGAAGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGGTCT
397211 GGTCAG
125 GGTCAG
* * *
397217 GGGATGACATTACTCATACATGATAAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTA
1 GGGATGACACTGCTCATACGTGATAAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTA
*
397282 CGTGATGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTC-G
66 CGTGATGAAGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTCAG
* * *
397346 AGAGATGACACTGCTCATACGTGGTGAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCT
1 -GGGATGACACTGCTCATACGTGATAAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCT
* * * *
397411 ACGTGATGAAGATGGTTGGTTATCTAAGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCA
65 ACGTGATGAAGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTCA
397476 G
130 G
* * *
397477 GGGATGACACGGTTCCTACGTGAT
1 GGGATGACACTGCTCATACGTGAT
397501 GAGGACGGCT
Statistics
Matches: 250, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
129 1 0.00
130 207 0.83
131 5 0.02
133 2 0.01
134 27 0.11
135 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (130 bp):
GGGATGACACTGCTCATACGTGATAAAGAGTTCTTGGCCATCTAAAGGTGATAACACGGTTCCTA
CGTGATGAAGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGGTCTGGTCAG
Found at i:397572 original size:28 final size:28
Alignment explanation
Indices: 397532--397601 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
397522 GGGATTATGG
* * * *
397532 TTTCAAGAGAAACCGATTCAAAGATTTA
1 TTTCAAAAGAAACAGACTCAAAGATGTA
*
397560 TTTCAAAAGAAACAGACTCAAAGATGTG
1 TTTCAAAAGAAACAGACTCAAAGATGTA
397588 TTTCAAGAA-AAACA
1 TTTCAA-AAGAAACA
397602 AGTTCAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.24
Consensus pattern (28 bp):
TTTCAAAAGAAACAGACTCAAAGATGTA
Found at i:397954 original size:29 final size:28
Alignment explanation
Indices: 397914--397987 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
397904 GAGATAAAAT
* * *
397914 TTTGTTTTAAAAGAAATAGACTCAAAGA
1 TTTGTTTCAAAAGAAACAAACTCAAAGA
* *
397942 TTTTTATTCAAAAGGAACAAACTCAAAGA
1 TTTGT-TTCAAAAGAAACAAACTCAAAGA
*
397971 TTTGTTTCAAGAGAAAC
1 TTTGTTTCAAAAGAAAC
397988 TGTCTCAAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (28 bp):
TTTGTTTCAAAAGAAACAAACTCAAAGA
Found at i:398362 original size:29 final size:30
Alignment explanation
Indices: 398296--398362 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
398286 CAAATGAGAC
* * *
398296 AAAGTTTTGTTTTAAAAGAAATAAACTCAA
1 AAAGTTTTATTTCAAAAGAAATAAACCCAA
* * *
398326 AGATTTTTATTTCAAAAGAAA-CAACCCAA
1 AAAGTTTTATTTCAAAAGAAATAAACCCAA
398355 AAAGTTTT
1 AAAGTTTT
398363 TCAGGAAATT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (30 bp):
AAAGTTTTATTTCAAAAGAAATAAACCCAA
Found at i:398440 original size:64 final size:64
Alignment explanation
Indices: 398335--398493 Score: 234
Period size: 64 Copynumber: 2.5 Consensus size: 64
398325 AAGATTTTTA
* * *
398335 TTTCAAAAGAAACA-ACCCAAA-AAG-TTTTTCAGGAAATTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAAAGAAACAGACTCAAAGATGTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTG
* * *
398396 TTTCAAAAGAAATATACTCAAAGATTTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAAAGAAACAGACTCAAAGATGTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTG
*
398460 TTTCAAAAGAAACAGACTTAAAGATGTTTTTTCA
1 TTTCAAAAGAAACAGACTCAAAGATGTTTTTTCA
398494 AAACTCAAAG
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
61 13 0.15
62 6 0.07
63 1 0.01
64 66 0.77
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (64 bp):
TTTCAAAAGAAACAGACTCAAAGATGTTTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTG
Found at i:398508 original size:50 final size:48
Alignment explanation
Indices: 398450--398543 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 48
398440 TCAAGAGAGA
* *
398450 CAAAACTTTGT-TTCAAAAGAAACAGACTTAAAGATGTTTTTTCAAAACT
1 CAAAACTTT-TATTCAAAAGAAACAGACTCAAAGAT-TTGTTTCAAAACT
*
398499 CAAAGACTTTTATTCAAAAGGAACAGACTCAAAGATTTGTTTCAA
1 CAAA-ACTTTTATTCAAAAGAAACAGACTCAAAGATTTGTTTCAA
398544 GAGAAACTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
49 13 0.32
50 27 0.68
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (48 bp):
CAAAACTTTTATTCAAAAGAAACAGACTCAAAGATTTGTTTCAAAACT
Found at i:398900 original size:104 final size:105
Alignment explanation
Indices: 398720--399148 Score: 461
Period size: 116 Copynumber: 3.9 Consensus size: 105
398710 TTTGAAAATA
* * * ** ** *
398720 TCAAGTGATATTAATTTTGTTTCAAGTAAAACAACTTTGAAATTTGTATTCTGAGGGAAAATGTC
1 TCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATTCAAAGGAAAAATGTC
* * *
398785 TCAAGTGAGACGAAATTTG-TTTTGAAATAAACAACAATC
66 TCAAGCGAGACGAAATTTGTTTTTGAAAGAAATAACAATC
*
398824 TCAAGTGAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTA-TCAAAGGAAAAAATGT
1 TCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATTCAAAGG-AAAAATGT
* **
398888 CTCAAGCGAGACGAAGTTTGTTTGTTTGTTTTTTTTTTGAGAAATAACAATC
65 CTCAAGCGAGACGAAATTTG-TT-TTTG---------AAAGAAATAACAATC
398940 TCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTA-TCAAAGGAAAAAATGT
1 TCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATTCAAAGG-AAAAATGT
* ***
399004 CTCAAGCGAGACGAAGTTTGTTTTTTTTTTTTTGAGAAATAACAATC
65 CTCAAGCGAGACGAAATTTG------TTTTTGAAAGAAATAACAATC
399051 TCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAAATGT
1 TCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTAT-TCAAAGGAAAAATGT
* *
399116 CTCAAGCGAGATGAAATTTG-TTTTGAAATAAAT
65 CTCAAGCGAGACGAAATTTGTTTTTGAAAGAAAT
399149 TGTCTTAAGC
Statistics
Matches: 282, Mismatches: 23, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
103 5 0.02
104 67 0.24
105 9 0.03
106 1 0.00
107 4 0.01
111 63 0.22
112 26 0.09
113 7 0.02
116 94 0.33
120 3 0.01
121 3 0.01
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (105 bp):
TCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATTCAAAGGAAAAATGTC
TCAAGCGAGACGAAATTTGTTTTTGAAAGAAATAACAATC
Found at i:398955 original size:116 final size:114
Alignment explanation
Indices: 398817--399138 Score: 553
Period size: 116 Copynumber: 2.8 Consensus size: 114
398807 TGAAATAAAC
*
398817 AACAATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCAAAGGAAA
1 AACAATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCAAAGGAAA
398882 AAATGTCTCAAGCGAGACGAAGTTTGTTTGTTTGTTTTTTTTTTGAGAAAT
66 AAATGTCTCAAGCGAGACGAA-TTTGTTTGTTT-TTTTTTTTTTGAGAAAT
398933 AACAATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCAAAGGAAA
1 AACAATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCAAAGGAAA
398998 AAATGTCTCAAGCGAGACGAA---GTTTGTTTTTTTTTTTTTGAGAAAT
66 AAATGTCTCAAGCGAGACGAATTTGTTTGTTTTTTTTTTTTTGAGAAAT
399044 AACAATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCTCAAAGG-
1 AACAATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTA--TCAAAGGA
*
399108 AAAAATGTCTCAAGCGAGATGAAATTTGTTT
64 AAAAATGTCTCAAGCGAGACG-AATTTGTTT
399139 TGAAATAAAT
Statistics
Matches: 198, Mismatches: 2, Indels: 12
0.93 0.01 0.06
Matches are distributed among these distances:
111 72 0.36
112 28 0.14
113 9 0.05
116 89 0.45
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (114 bp):
AACAATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCAAAATTTGTATCAAAGGAAA
AAATGTCTCAAGCGAGACGAATTTGTTTGTTTTTTTTTTTTTGAGAAAT
Found at i:399208 original size:36 final size:36
Alignment explanation
Indices: 399113--399210 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 36
399103 AAAGGAAAAA
** *
399113 TGTCTCAAGCGAGATGAAATTTGTTTTGAAATAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTGAAATAAAC
* ** *
399149 TGTCTTAAGCGAGACAAAATTTGTTTTTCAA-GAAC
1 TGTCTCAAGCGAGACAAAATTTGTTTTGAAATAAAC
399184 TGTCTCAAGCGAGACAAAATTTTGTTT
1 TGTCTCAAGCGAGACAAAA-TTTGTTT
399211 CAAGCAAACA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 20 0.38
36 33 0.62
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTGAAATAAAC
Found at i:405024 original size:15 final size:15
Alignment explanation
Indices: 405006--405081 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
404996 GAAAAAAACA
405006 AAAACTTAAAAGACT
1 AAAACTTAAAAGACT
*
405021 AAAACATTAAAA-ACA
1 AAAAC-TTAAAAGACT
* *
405036 AAAATTTAAAGGACT
1 AAAACTTAAAAGACT
*
405051 AAAA--TAAAA-AAT
1 AAAACTTAAAAGACT
*
405063 AGAAACTTAAAAGGCT
1 A-AAACTTAAAAGACT
405079 AAA
1 AAA
405082 CCACAAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
12 3 0.06
13 7 0.15
14 5 0.11
15 24 0.51
16 8 0.17
ACGTcount: A:0.64, C:0.09, G:0.08, T:0.18
Consensus pattern (15 bp):
AAAACTTAAAAGACT
Found at i:405035 original size:30 final size:29
Alignment explanation
Indices: 404998--405081 Score: 98
Period size: 30 Copynumber: 2.9 Consensus size: 29
404988 AAAATTGAGA
404998 AAAAAACAAAAACTTAAAAGACTAAAACAT
1 AAAAAACAAAAACTTAAAAGACTAAAA-AT
* * *
405028 TAAAAACAAAAATTTAAAGGACT-AAAAT
1 AAAAAACAAAAACTTAAAAGACTAAAAAT
* * *
405056 AAAAAATAGAAACTTAAAAGGCTAAA
1 AAAAAACAAAAACTTAAAAGACTAAA
405082 CCACAAATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
28 19 0.43
29 5 0.11
30 20 0.45
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (29 bp):
AAAAAACAAAAACTTAAAAGACTAAAAAT
Found at i:423985 original size:21 final size:20
Alignment explanation
Indices: 423899--424056 Score: 88
Period size: 21 Copynumber: 7.8 Consensus size: 20
423889 AAATGACCAA
**
423899 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
423918 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
423938 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
423958 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
423979 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
424000 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
424020 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
424042 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
424057 ACACATAAAT
Statistics
Matches: 105, Mismatches: 27, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
19 17 0.16
20 40 0.38
21 44 0.42
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:424047 original size:20 final size:20
Alignment explanation
Indices: 423959--424075 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
423949 ATCAGTTTCC
* *
423959 AAAATCGCAACGCGATTCTT
1 AAAATCGCAACGCGAATATT
* *
423979 GAAAATCGCAATGCG-ATAGT
1 -AAAATCGCAACGCGAATATT
** *
423999 ACAAATTCGCATTGCG-ATTTT
1 A-AAA-TCGCAACGCGAATATT
424020 CCAAAATCGCAACGCGAATATT
1 --AAAATCGCAACGCGAATATT
* *
424042 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATT
424061 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
424076 TATCCGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 35 0.45
21 33 0.42
22 7 0.09
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATT
Found at i:424085 original size:20 final size:19
Alignment explanation
Indices: 424062--424212 Score: 149
Period size: 20 Copynumber: 7.6 Consensus size: 19
424052 CGCGAACACA
424062 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
424082 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
424102 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
424122 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
424142 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
424162 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
424182 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
424202 TAAATCACAAC
1 TAAATCGCAAC
424213 ACTGAAATTT
Statistics
Matches: 108, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.01
20 107 0.99
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.20
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:424087 original size:40 final size:40
Alignment explanation
Indices: 424023--424212 Score: 267
Period size: 40 Copynumber: 4.8 Consensus size: 40
424013 CGATTTTCCA
* * ** *
424023 AAATCGCAACGCGAATAT-TAAAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATCTGT-AAATCGCAACGATAATC-CGT
* * *
424063 AAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
424103 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
424143 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
*
424183 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCTGTAAATCGCAAC
424213 ACTGAAATTT
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
40 136 0.99
41 2 0.01
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
Found at i:424107 original size:60 final size:60
Alignment explanation
Indices: 424043--424212 Score: 209
Period size: 60 Copynumber: 2.8 Consensus size: 60
424033 GCGAATATTA
* * *
424043 AAATCGCAACGCGAA-CACATAAATCGCAACGCGT-ATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATC-CATAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCCGT
** *
424103 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGT
* * * * *
424163 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCATAAATCGCAACGATAATCCGTAAATCGCAAC
424213 ACTGAAATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
59 1 0.01
60 95 0.98
61 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (60 bp):
AAATCGCAACGAGAATCCATAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCCGT
Found at i:424909 original size:23 final size:24
Alignment explanation
Indices: 424874--424927 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
424864 GTGAGTACTA
* * *
424874 GTCAGTATTCGAAATTTG-TCTTG
1 GTCAATATCCGAAATTTGATATTG
*
424897 GTCAATATCCGAACTTTGATATTG
1 GTCAATATCCGAAATTTGATATTG
424921 GTCAATA
1 GTCAATA
424928 CACGGATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (24 bp):
GTCAATATCCGAAATTTGATATTG
Found at i:425129 original size:12 final size:12
Alignment explanation
Indices: 425112--425136 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
425102 CATATATCCT
425112 GAAGAAGAAAAA
1 GAAGAAGAAAAA
425124 GAAGAAGAAAAA
1 GAAGAAGAAAAA
425136 G
1 G
425137 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:427457 original size:33 final size:34
Alignment explanation
Indices: 427406--427617 Score: 235
Period size: 33 Copynumber: 6.2 Consensus size: 34
427396 CGGAAATTAC
*
427406 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
427439 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
427473 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
427506 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
427539 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
427577 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
427610 AATCGCAA
1 AATCGCAA
427618 TGCGAAATGA
Statistics
Matches: 158, Mismatches: 8, Indels: 26
0.82 0.04 0.14
Matches are distributed among these distances:
32 1 0.01
33 95 0.60
34 31 0.20
35 5 0.03
36 4 0.03
37 2 0.01
38 20 0.13
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:427511 original size:19 final size:19
Alignment explanation
Indices: 427420--427635 Score: 240
Period size: 19 Copynumber: 12.4 Consensus size: 19
427410 GCAACGAGAG
427420 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
427439 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
427453 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
427473 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
427487 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
427506 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
427525 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
427539 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
427558 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
427577 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
427591 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
427610 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
427628 AATCGCAA
1 AATCGCAA
427636 CGAGAGAATC
Statistics
Matches: 168, Mismatches: 8, Indels: 43
0.77 0.04 0.20
Matches are distributed among these distances:
14 42 0.25
15 3 0.02
16 7 0.04
17 6 0.04
18 13 0.08
19 84 0.50
20 13 0.08
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:427533 original size:52 final size:52
Alignment explanation
Indices: 427448--427657 Score: 404
Period size: 52 Copynumber: 4.0 Consensus size: 52
427438 AAATCCCAAC
427448 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
427501 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
427553 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
427605 ATGAAAATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
427656 AT
1 AT
427658 TATAAACGCA
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
51 31 0.20
52 110 0.70
53 16 0.10
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:427596 original size:14 final size:15
Alignment explanation
Indices: 427473--427654 Score: 66
Period size: 19 Copynumber: 10.8 Consensus size: 15
427463 CGGAAATGAA
427473 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
427487 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
*
427506 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
427525 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
427539 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
*
427558 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
427577 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
427591 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
*
427610 AATCGCAATGCGAAATG
1 AATCGCAA-GCGAGA-G
427627 AAATCGCAA-CGAGAG
1 -AATCGCAAGCGAGAG
427642 AATCGCAATGCGA
1 AATCGCAA-GCGA
427655 AATTATAAAC
Statistics
Matches: 141, Mismatches: 8, Indels: 36
0.76 0.04 0.19
Matches are distributed among these distances:
14 36 0.26
15 3 0.02
16 14 0.10
17 5 0.04
18 11 0.08
19 72 0.51
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (15 bp):
AATCGCAAGCGAGAG
Found at i:427776 original size:52 final size:53
Alignment explanation
Indices: 427664--427779 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
427654 AAATTATAAA
427664 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
427717 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
427769 CGCATTGCGAT
1 CGCATTGCGAT
427780 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:427787 original size:19 final size:19
Alignment explanation
Indices: 427682--427779 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
427672 GATTCTCTCG
427682 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
427702 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
427721 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
427735 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
427754 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
427773 TTGCGAT
1 TTGCGAT
427780 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:427905 original size:14 final size:14
Alignment explanation
Indices: 427886--427922 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
427876 CATCAATTAC
427886 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
427900 ACAAATCATCTTTT
1 ACAAATCAACTTTT
427914 ACAAATCAA
1 ACAAATCAA
427923 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:429916 original size:33 final size:33
Alignment explanation
Indices: 429879--429971 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
429869 GCGAAACCAA
* *
429879 AATCGCAACGCGAAATGAAAAACGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
429912 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
429945 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
429972 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:429918 original size:14 final size:14
Alignment explanation
Indices: 429901--429954 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
429891 AAATGAAAAA
*
429901 CGCAACGACAGAAT
1 CGCAACGAAAGAAT
429915 CGCAATGCGAAATGAAAAT
1 CGCAA--CGAAA-G--AAT
429934 CGCAACGAAAGAAT
1 CGCAACGAAAGAAT
429948 CGCAACG
1 CGCAACG
429955 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 15 0.44
16 5 0.15
17 6 0.18
19 8 0.24
ACGTcount: A:0.44, C:0.24, G:0.22, T:0.09
Consensus pattern (14 bp):
CGCAACGAAAGAAT
Found at i:429936 original size:19 final size:19
Alignment explanation
Indices: 429842--429976 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
429832 TAGTTTACTT
* *
429842 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
429862 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
429881 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
429900 ACGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
429914 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
429933 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
429947 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
429966 TCGCAATGCGA
1 TCGCAACGCGA
429977 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:429994 original size:19 final size:19
Alignment explanation
Indices: 429972--430100 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
429962 AAAATCGCAA
429972 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
429991 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
430005 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
430024 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
430038 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
430057 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
430076 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
430096 TGCGA
1 TGCGA
430101 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:430014 original size:33 final size:33
Alignment explanation
Indices: 429972--430063 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
429962 AAAATCGCAA
429972 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
430005 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
430038 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
430064 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:430264 original size:93 final size:93
Alignment explanation
Indices: 430148--430987 Score: 1612
Period size: 93 Copynumber: 9.1 Consensus size: 93
430138 ATGGATTGCA
430148 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430212 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
430240 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430305 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
**** *
430333 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATTCTATACATAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430398 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
430426 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430491 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
430519 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430584 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
430612 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430677 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
430704 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430769 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
430797 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430862 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
430890 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
430955 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
430983 TTACT
1 TTACT
430988 AAGCAATCTA
Statistics
Matches: 735, Mismatches: 11, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
92 96 0.13
93 639 0.87
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:430920 original size:278 final size:278
Alignment explanation
Indices: 430148--430987 Score: 1601
Period size: 278 Copynumber: 3.0 Consensus size: 278
430138 ATGGATTGCA
430148 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430212 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
430277 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
**** *
430342 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATTCTATACATAGTTTAGCAGAAT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
430407 TGGCAGCAACCGAACAAAT
261 TGGCAGCAACCGAAC-AAT
430426 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430491 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
430556 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
430621 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
430686 TGGCAGCAACCGAACAAT
261 TGGCAGCAACCGAACAAT
430704 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
430769 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
430834 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
430899 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
*
430964 TGGCAGCAACCGAATAAAT
261 TGGCAGCAACCGAA-CAAT
430983 TTACT
1 TTACT
430988 AAGCAATCTA
Statistics
Matches: 554, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
278 281 0.51
279 273 0.49
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
TGGCAGCAACCGAACAAT
Found at i:432726 original size:33 final size:33
Alignment explanation
Indices: 432681--432795 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
432671 TCTTTTGGTT
*
432681 GAAATGAAAATCGCAACGAGAGAATCGAAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
432714 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
432747 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
432780 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
432796 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:432731 original size:19 final size:19
Alignment explanation
Indices: 432703--432800 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
432693 GCAACGAGAG
* *
432703 AATCGAAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
432722 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
432736 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
432755 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
432769 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
432788 AATCGCAATGCGA
1 AATCGCAACGCGA
432801 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:432741 original size:14 final size:14
Alignment explanation
Indices: 432689--432778 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
432679 TTGAAATGAA
432689 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
432703 AATCGAAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
432722 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
432736 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
432755 AATCGCAACGAGAG
1 AATCGCAACGAGAG
432769 AATCGCAACG
1 AATCGCAACG
432779 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:432831 original size:14 final size:14
Alignment explanation
Indices: 432812--432868 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
432802 TTTGGTTTCG
432812 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
432826 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
432845 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
432859 CGTTGCGATT
1 CGTTGCGATT
432869 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:432844 original size:33 final size:33
Alignment explanation
Indices: 432796--432876 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
432786 AAAATCGCAA
**
432796 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
432829 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
432862 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
432877 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:432879 original size:21 final size:21
Alignment explanation
Indices: 432853--432928 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
432843 CGCGTTGCGA
432853 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
432874 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
432894 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* *
432915 TTATCTTGTTGCGA
1 TTCTCTCGTTGCGA
432929 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:432909 original size:41 final size:41
Alignment explanation
Indices: 432852--432929 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
432842 TCGCGTTGCG
*
432852 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
*
432893 ATTCTCTCGTTGCGATTTTCATTTATCTTGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
432930 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:433050 original size:33 final size:33
Alignment explanation
Indices: 433008--433078 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
432998 AATACTAACT
*
433008 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
433041 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
433074 TGAAA
1 TGAAA
433079 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:433311 original size:22 final size:22
Alignment explanation
Indices: 433259--433313 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
433249 TGGTTGTGAG
**
433259 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
433281 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
433303 GGATTTCTTCG
1 GGATTTCTTCG
433314 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:433485 original size:20 final size:20
Alignment explanation
Indices: 433460--433633 Score: 181
Period size: 20 Copynumber: 8.7 Consensus size: 20
433450 CTTTAAATAT
433460 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
433480 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
433502 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
433521 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
433541 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
433561 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
433581 CACGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
433601 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
433621 CGCGTTGCGATTT
1 CGCGTTGCGATTT
433634 TGGAAAATCG
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.02
20 108 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:433650 original size:21 final size:21
Alignment explanation
Indices: 433620--433702 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
433610 ATTTTCATAT
*
433620 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
433641 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
**
433662 TCGCATTGCG-TTTTTCAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
433683 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
433703 CTGATTTGCG
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
20 4 0.09
21 35 0.78
22 6 0.13
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:442542 original size:37 final size:37
Alignment explanation
Indices: 442482--442566 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
442472 ATTATTATGT
*
442482 TGATG-TGAGATTCAATAATATTGACATAACAACCTA
1 TGATGTTGACATTCAATAATATTGACATAACAACCTA
* * * *
442518 TGATGTTGACATTTAATAGTATTGACATAACGATCTA
1 TGATGTTGACATTCAATAATATTGACATAACAACCTA
*
442555 TAATGTTGACAT
1 TGATGTTGACAT
442567 GATATTTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 5 0.12
37 37 0.88
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (37 bp):
TGATGTTGACATTCAATAATATTGACATAACAACCTA
Found at i:443150 original size:11 final size:12
Alignment explanation
Indices: 443127--443155 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
443117 GAAAATGTTC
443127 ACGAACGGTTAA
1 ACGAACGGTTAA
443139 ACGAAC-GTTAA
1 ACGAACGGTTAA
443150 ACGAAC
1 ACGAAC
443156 ATAACATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.14
Consensus pattern (12 bp):
ACGAACGGTTAA
Found at i:446241 original size:18 final size:18
Alignment explanation
Indices: 446194--446238 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
446184 TCAATTTACA
* *
446194 AAATTT-TTTAAAATTTT
1 AAATTTATTTATATTTTT
446211 AAATTTATTTATATTTTT
1 AAATTTATTTATATTTTT
446229 AAATATTATT
1 AAAT-TTATT
446239 ATACAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 13 0.54
19 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATTTATTTATATTTTT
Found at i:480451 original size:22 final size:21
Alignment explanation
Indices: 480425--480488 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
480415 AGGCCATCAG
480425 TAAGTCTTTCGAGCATGATGA
1 TAAGTCTTTCGAGCATGATGA
* * *
480446 TGAAGTCCTTCGGGTCATCA-G-
1 T-AAGTCTTTCGAG-CATGATGA
480467 TAAGTCTTTCGAGCATGATGA
1 TAAGTCTTTCGAGCATGATGA
480488 T
1 T
480489 TAAATCATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.12
20 11 0.33
21 3 0.09
22 11 0.33
23 4 0.12
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (21 bp):
TAAGTCTTTCGAGCATGATGA
Found at i:480465 original size:42 final size:42
Alignment explanation
Indices: 480406--480502 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
480396 CTATCAAAGT
* *
480406 AAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATG
1 AAGTCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATG
*
480448 AAGTCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATT
1 AAGTCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATG
* *
480490 AAATCATTCGGGT
1 AAGTCCTTCGGGT
480503 AACTTGTAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
AAGTCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATG
Found at i:480477 original size:20 final size:19
Alignment explanation
Indices: 480403--480482 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 19
480393 CATCTATCAA
*
480403 AGTAAGTCCTTCAGGCCATC
1 AGTAAGTCCTTC-GGGCATC
* * *
480423 AGTAAGTCTTTCGAGCATG
1 AGTAAGTCCTTCGGGCATC
480442 ATGATGAAGTCCTTCGGGTCATC
1 A-G-T-AAGTCCTTCGGG-CATC
* *
480465 AGTAAGTCTTTCGAGCAT
1 AGTAAGTCCTTCGGGCAT
480483 GATGATTAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
19 8 0.17
20 22 0.47
21 2 0.04
22 11 0.23
23 4 0.09
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (19 bp):
AGTAAGTCCTTCGGGCATC
Found at i:480561 original size:80 final size:80
Alignment explanation
Indices: 480461--480870 Score: 689
Period size: 80 Copynumber: 5.1 Consensus size: 80
480451 TCCTTCGGGT
* *
480461 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAACTTGTAAGCCTTCACCGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTAAGCCTTCACCGAAGA
*
480526 GTAGTGAAGAAAATC
66 GTAGTGAAGCAAATC
480541 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTAAGCCTTCACCGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTAAGCCTTCACCGAAGA
480606 GTAGTGAAGCAAATC
66 GTAGTGAAGCAAATC
* * *
480621 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTC-GGTAATTTTTAAGCCTTCACGGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTAAGCCTTCACCGAAGA
*
480685 GTAGTGAAGCAAACC
66 GTAGTGAAGCAAATC
* *
480700 CATCAGTAAGTCTTTCGAGTATGATGATTAAATCATTCGGGTAATTTGTAAGCCTTCACCGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTAAGCCTTCACCGAAGA
480765 GTAGTGAAGCAAATC
66 GTAGTGAAGCAAATC
* *
480780 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCA-CGAAAG
1 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTAAGCCTTCACCG-AAG
480844 AGTAGTGAAGCAAATC
65 AGTAGTGAAGCAAATC
*
480860 CGTCAGTAAGT
1 CATCAGTAAGT
480871 GCCATCAATA
Statistics
Matches: 310, Mismatches: 18, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
79 75 0.24
80 235 0.76
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (80 bp):
CATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTAAGCCTTCACCGAAGA
GTAGTGAAGCAAATC
Found at i:480751 original size:159 final size:160
Alignment explanation
Indices: 480461--480870 Score: 714
Period size: 159 Copynumber: 2.6 Consensus size: 160
480451 TCCTTCGGGT
* * * * *
480461 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAACTTGTAAGCCTTCACCGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAGA
*
480526 GTAGTGAAGAAAATCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTA
66 GTAGTGAAGCAAATCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTA
480591 AGCCTTCACCGAAGAGTAGTGAAGCAAATC
131 AGCCTTCACCGAAGAGTAGTGAAGCAAATC
480621 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTC-GGTAATTTTTAAGCCTTCACGGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAGA
* * *
480685 GTAGTGAAGCAAACCCATCAGTAAGTCTTTCGAGTATGATGATTAAATCATTCGGGTAATTTGTA
66 GTAGTGAAGCAAATCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTA
480750 AGCCTTCACCGAAGAGTAGTGAAGCAAATC
131 AGCCTTCACCGAAGAGTAGTGAAGCAAATC
*
480780 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGAAAGA
1 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAGA
*
480845 GTAGTGAAGCAAATCCGTCAGTAAGT
66 GTAGTGAAGCAAATCCATCAGTAAGT
480871 GCCATCAATA
Statistics
Matches: 237, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
159 152 0.64
160 85 0.36
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (160 bp):
CATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAGA
GTAGTGAAGCAAATCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCATTCGGGTAATTTGTA
AGCCTTCACCGAAGAGTAGTGAAGCAAATC
Found at i:480935 original size:42 final size:41
Alignment explanation
Indices: 480873--481001 Score: 152
Period size: 42 Copynumber: 3.1 Consensus size: 41
480863 CAGTAAGTGC
* *
480873 CATCAATAAGTCTTTTGAGCATGATGATGAAATCCTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGAT-AAATCCTTCGGGT
*
480915 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCTTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGA-TAAATCCTTCGGGT
** * * *
480957 CATTTGTGAGT-TTCTCGAACAAGATGATAAATCCTTCGGGT
1 CATCAGTAAGTCTT-TCGAGCATGATGATAAATCCTTCGGGT
480998 CATC
1 CATC
481002 CATAAGACCT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 18 0.24
42 56 0.75
43 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (41 bp):
CATCAGTAAGTCTTTCGAGCATGATGATAAATCCTTCGGGT
Found at i:480950 original size:22 final size:22
Alignment explanation
Indices: 480883--480953 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
480873 CATCAATAAG
* *
480883 TCTTTTGAGCATGATGATGAAA
1 TCTTTCGAGCATGATGATTAAA
* * * *
480905 TCCTTCGGGTCATCA-G--TAAG
1 TCTTTCGAG-CATGATGATTAAA
480925 TCTTTCGAGCATGATGATTAAA
1 TCTTTCGAGCATGATGATTAAA
480947 TCTTTCG
1 TCTTTCG
480954 GGTCATTTGT
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
19 4 0.11
20 10 0.29
22 17 0.49
23 4 0.11
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (22 bp):
TCTTTCGAGCATGATGATTAAA
Found at i:481507 original size:53 final size:53
Alignment explanation
Indices: 481427--481733 Score: 463
Period size: 53 Copynumber: 5.8 Consensus size: 53
481417 GAATCACACT
*
481427 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGC
* *
481480 AGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGC
481533 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGC
* *
481586 AGAACATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAAC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGC
* * * ****
481639 AGAAGAGTGTTCGAGTTCTACTCCCTGAAGCAATAGGGAACGAACCCGTTTTT
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGC
* *
481692 AGAAGATTGTTCAAGTTTCTTAATCCCTGAA-CAAGAGGGAGC
1 AGAAGATTGTTCGAG-TTC-TACTCCCTGAAGCAAGAGGGAGC
481734 AGGCCTGTCA
Statistics
Matches: 234, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
53 212 0.91
54 12 0.05
55 10 0.04
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (53 bp):
AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGC
Found at i:488090 original size:31 final size:31
Alignment explanation
Indices: 488048--488115 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
488038 AATGTTTTAG
*
488048 TGATCATTTTATAATAAATTGATAATATAAA
1 TGATCAGTTTATAATAAATTGATAATATAAA
* * *
488079 TGATCAGTTTATGATTACTTGATAATATAAA
1 TGATCAGTTTATAATAAATTGATAATATAAA
488110 TGATCA
1 TGATCA
488116 AAATATAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (31 bp):
TGATCAGTTTATAATAAATTGATAATATAAA
Found at i:494791 original size:5 final size:5
Alignment explanation
Indices: 494781--494806 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
494771 TGACTTAGAA
494781 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
494807 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:500426 original size:14 final size:14
Alignment explanation
Indices: 500407--500441 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
500397 GGAAGATTAT
500407 TTCAGTTTGGGGAG
1 TTCAGTTTGGGGAG
500421 TTCAGTTTGGGGAG
1 TTCAGTTTGGGGAG
500435 TTCAGTT
1 TTCAGTT
500442 CAGGGGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.09, G:0.37, T:0.40
Consensus pattern (14 bp):
TTCAGTTTGGGGAG
Found at i:509640 original size:14 final size:14
Alignment explanation
Indices: 509621--509656 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
509611 GTTTGGTCAC
509621 CCATTCACCTTTAG
1 CCATTCACCTTTAG
509635 CCATTCACCTTTAG
1 CCATTCACCTTTAG
509649 CCATTCAC
1 CCATTCAC
509657 GATGAGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.39, G:0.06, T:0.33
Consensus pattern (14 bp):
CCATTCACCTTTAG
Found at i:522075 original size:25 final size:25
Alignment explanation
Indices: 522047--522124 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
522037 AATATAATAT
522047 TAACTCTTAGAAAGTTAGATAAAGA
1 TAACTCTTAGAAAGTTAGATAAAGA
* * * *
522072 TAACTACTAAG-TAGTTTAGTTTAAA-T
1 TAACT-CTTAGAAAG-TTAG-ATAAAGA
*
522098 TAACTCTTAGAAAGTTAGATAAGGA
1 TAACTCTTAGAAAGTTAGATAAAGA
522123 TA
1 TA
522125 TCTACTAAGT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
24 3 0.08
25 17 0.44
26 15 0.38
27 4 0.10
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (25 bp):
TAACTCTTAGAAAGTTAGATAAAGA
Found at i:522107 original size:51 final size:51
Alignment explanation
Indices: 522045--522151 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
522035 TTAATATAAT
*
522045 ATTAACTCTTAGAAAGTTAGATAAAGATAACTACTAAGTAGTTTAGTTTAA
1 ATTAACTCTTAGAAAGTTAGATAAAGATAACTACTAAGTAGCTTAGTTTAA
* *
522096 ATTAACTCTTAGAAAGTTAGATAAGGATATCTACTAAGTAGCTTAGTTTAA
1 ATTAACTCTTAGAAAGTTAGATAAAGATAACTACTAAGTAGCTTAGTTTAA
522147 ATTAA
1 ATTAA
522152 ATACTTGTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (51 bp):
ATTAACTCTTAGAAAGTTAGATAAAGATAACTACTAAGTAGCTTAGTTTAA
Found at i:528190 original size:2 final size:2
Alignment explanation
Indices: 528183--528207 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
528173 ATAATTTATG
528183 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
528208 ATTTATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:543127 original size:31 final size:31
Alignment explanation
Indices: 543099--543167 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
543089 TAATTAAATT
*
543099 TTATCAAACTATTATAAAA-GATCGTTAAAC
1 TTATCAAACTATTACAAAATGATCGTTAAAC
* * *
543129 GTATCAGACTATTACAAAATGATCTTTAAAC
1 TTATCAAACTATTACAAAATGATCGTTAAAC
543160 TTATCAAA
1 TTATCAAA
543168 ATCTCTCACT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (31 bp):
TTATCAAACTATTACAAAATGATCGTTAAAC
Found at i:553235 original size:21 final size:21
Alignment explanation
Indices: 553210--553269 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
553200 GAAAGTATTA
553210 AAATGGTTTTTAAAGTTTGGT
1 AAATGGTTTTTAAAGTTTGGT
* *
553231 AAAT-G--TTT---CTTT-GA
1 AAATGGTTTTTAAAGTTTGGT
553245 AAATGGTTTTTAAAGTTTGGT
1 AAATGGTTTTTAAAGTTTGGT
553266 AAAT
1 AAAT
553270 ATTTCTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 14
0.61 0.09 0.30
Matches are distributed among these distances:
14 5 0.18
15 4 0.14
17 3 0.11
18 3 0.11
20 4 0.14
21 9 0.32
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (21 bp):
AAATGGTTTTTAAAGTTTGGT
Found at i:553255 original size:35 final size:35
Alignment explanation
Indices: 553209--553318 Score: 150
Period size: 35 Copynumber: 3.1 Consensus size: 35
553199 TGAAAGTATT
553209 AAAATGGTTTTTAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTTAAAGTTTGGTAAATGTTTCTTTG
* *
553244 AAAATGGTTTTTAAAGTTTGGTAAATATTTCTTTAA
1 AAAATGGTTTTTAAAGTTTGGTAAATGTTTCTTT-G
* * *
553280 AAAATAGTTTTTTAAAGTTTGGTAGATGTTT-GTTG
1 AAAAT-GGTTTTTAAAGTTTGGTAAATGTTTCTTTG
553315 AAAA
1 AAAA
553319 ATGATAATGA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
35 37 0.56
36 7 0.11
37 22 0.33
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (35 bp):
AAAATGGTTTTTAAAGTTTGGTAAATGTTTCTTTG
Found at i:557829 original size:21 final size:21
Alignment explanation
Indices: 557804--557864 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
557794 GAAATTATTA
557804 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
557825 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
557839 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
557860 AAATG
1 AAATG
557865 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:557895 original size:37 final size:36
Alignment explanation
Indices: 557803--557915 Score: 176
Period size: 35 Copynumber: 3.2 Consensus size: 36
557793 TGAAATTATT
557803 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG-
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
557838 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
* * *
557874 AAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTGA
1 AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
557910 AAAATG
1 AAAATG
557916 ATAATGGGAT
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
35 36 0.49
36 14 0.19
37 23 0.32
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.43
Consensus pattern (36 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
Found at i:561868 original size:16 final size:17
Alignment explanation
Indices: 561835--561872 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
561825 TTCTTGAAAA
561835 TTTTAAATTATTATATT
1 TTTTAAATTATTATATT
* *
561852 TTTTAATTTTTTA-ATT
1 TTTTAAATTATTATATT
561868 TTTTA
1 TTTTA
561873 TTATAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAAATTATTATATT
Found at i:562247 original size:6 final size:6
Alignment explanation
Indices: 562236--562612 Score: 727
Period size: 6 Copynumber: 62.8 Consensus size: 6
562226 TAAGTGCTGA
562236 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
562284 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
562332 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
562380 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
562428 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAC
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* *
562476 ATACAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
562524 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
562572 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATA
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATA
562613 AATATGAAAT
Statistics
Matches: 365, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 365 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:566041 original size:21 final size:21
Alignment explanation
Indices: 566017--566073 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
566007 CAATGGTGCG
566017 TTACGTGATGAGGTA-CGGT-CT
1 TTACGTGATGAGGTATC--TACT
*
566038 TTACGTGGTGAGGTATCTACT
1 TTACGTGATGAGGTATCTACT
566059 TTACGTGATGAGGTA
1 TTACGTGATGAGGTA
566074 GCCGCTCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (21 bp):
TTACGTGATGAGGTATCTACT
Found at i:566084 original size:21 final size:20
Alignment explanation
Indices: 566017--566087 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
566007 CAATGGTGCG
*
566017 TTACGTGATGAGGTACGGTCT
1 TTACGTGATGAGGTACCG-CT
* **
566038 TTACGTGGTGAGGTATCTACT
1 TTACGTGATGAGGTA-CCGCT
566059 TTACGTGATGAGGTAGCCGCT
1 TTACGTGATGAGGTA-CCGCT
*
566080 CTACGTGA
1 TTACGTGA
566088 GATTGTTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (20 bp):
TTACGTGATGAGGTACCGCT
Found at i:566392 original size:21 final size:20
Alignment explanation
Indices: 566366--566461 Score: 104
Period size: 21 Copynumber: 4.6 Consensus size: 20
566356 TGCACCTGTC
566366 ATCGTTCAAGAGGCGCCTCCT
1 ATCGTTCAAGAGGC-CCTCCT
566387 ATCGTTCAAGAGGCCC-CTCT
1 ATCGTTCAAGAGGCCCTC-CT
**
566407 CATCGTTCAAGAGGCCCATGTT
1 -ATCGTTCAAGAGGCCC-TCCT
*
566429 ATCGTTCAAGAGGTCCCTCCC
1 ATCGTTCAAGAGG-CCCTCCT
*
566450 ACCGTTCAAGAG
1 ATCGTTCAAGAG
566462 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.02
20 4 0.06
21 55 0.86
22 4 0.06
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (20 bp):
ATCGTTCAAGAGGCCCTCCT
Found at i:566411 original size:42 final size:42
Alignment explanation
Indices: 566364--566461 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
566354 GATGCACCTG
566364 TCATCGTTCAAGAGGCGCC-TCCTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGC-CCATCCTATCGTTCAAGAGGCCCCTC
** *
566406 TCATCGTTCAAGAGGCCCATGTTATCGTTCAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCATCCTATCGTTCAAGAGGCCCCTC
* *
566448 CCACCGTTCAAGAG
1 TCATCGTTCAAGAG
566462 CCCGATTCAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCATCCTATCGTTCAAGAGGCCCCTC
Found at i:568035 original size:14 final size:15
Alignment explanation
Indices: 568000--568035 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
567990 GAAAGTCAAA
568000 TTCGCG-TTGCGATT
1 TTCGCGTTTGCGATT
568014 TTCG-GTTTGCGA-T
1 TTCGCGTTTGCGATT
568027 TTCGCGTTT
1 TTCGCGTTT
568036 CGAATTTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.06, C:0.19, G:0.28, T:0.47
Consensus pattern (15 bp):
TTCGCGTTTGCGATT
Found at i:568416 original size:18 final size:18
Alignment explanation
Indices: 568393--568428 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
568383 AAGCCGGTTG
568393 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
568411 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
568429 CCTTTTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:571734 original size:21 final size:20
Alignment explanation
Indices: 571686--571740 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
571676 AATTAAATTT
*
571686 GTGTTGCGAATTCGAAAATC
1 GTGTTGCGAATTTGAAAATC
* *
571706 GAGTTGCGAATTTGAAATTC
1 GTGTTGCGAATTTGAAAATC
571726 AGTGTTGCGAATTTG
1 -GTGTTGCGAATTTG
571741 GCAAACGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (20 bp):
GTGTTGCGAATTTGAAAATC
Found at i:573266 original size:20 final size:20
Alignment explanation
Indices: 573241--573283 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
573231 TCTAAAAGCT
*
573241 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
573261 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
573281 CAT
1 CAT
573284 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:585714 original size:34 final size:34
Alignment explanation
Indices: 585675--585742 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
585665 ATCCAAAAGG
585675 GCTTAATTTTAGTTTCTGTTTTTCTCATTTACAC
1 GCTTAATTTTAGTTTCTGTTTTTCTCATTTACAC
585709 GCTTAATTTTAGTTTCTGTTTTTCTCATTTACAC
1 GCTTAATTTTAGTTTCTGTTTTTCTCATTTACAC
585743 TTCAATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.56
Consensus pattern (34 bp):
GCTTAATTTTAGTTTCTGTTTTTCTCATTTACAC
Found at i:586645 original size:3 final size:3
Alignment explanation
Indices: 586637--586683 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
586627 GTCAATGGGT
586637 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
586684 CAATGTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:598598 original size:5 final size:5
Alignment explanation
Indices: 598588--598617 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
598578 TTTCTCCCCC
598588 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
598618 TCTGGGTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:606066 original size:3 final size:3
Alignment explanation
Indices: 606058--606083 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
606048 AACACAAGAG
606058 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
606084 AACCCAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:606316 original size:14 final size:14
Alignment explanation
Indices: 606297--606335 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
606287 TAATGGGGAG
606297 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
606311 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
606325 GAATCTCTGCA
1 TAATCCCTGCA
606336 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:608950 original size:27 final size:25
Alignment explanation
Indices: 608897--608981 Score: 97
Period size: 27 Copynumber: 3.5 Consensus size: 25
608887 CCGGTTTTAA
*
608897 AAAAAAACCGGATTTTT-T-CGGTT
1 AAAAAAACCGGTTTTTTATCCGGTT
608920 -AAAAAACCGGTTTTTTATCCGGTTT
1 AAAAAAACCGGTTTTTTATCCGG-TT
* *
608945 GAAAAAAACCGATTTTTAATCCGG-T
1 -AAAAAAACCGGTTTTTTATCCGGTT
608970 AAAAAAACCGGT
1 AAAAAAACCGGT
608982 CATTCAATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
22 15 0.28
23 1 0.02
24 14 0.26
25 3 0.06
27 20 0.38
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (25 bp):
AAAAAAACCGGTTTTTTATCCGGTT
Found at i:609212 original size:31 final size:32
Alignment explanation
Indices: 609155--609217 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
609145 TTATTAAATG
*
609155 TTAATAACTTATAAAGATAAGATGAGATAAAA
1 TTAATAACTTATAAAGATAAGATGAGAAAAAA
609187 TTAATAA-TT-TAAAGGATAA-ATTGAGAAAAAA
1 TTAATAACTTATAAA-GATAAGA-TGAGAAAAAA
609218 AAAGTAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 5 0.18
31 16 0.57
32 7 0.25
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.29
Consensus pattern (32 bp):
TTAATAACTTATAAAGATAAGATGAGAAAAAA
Found at i:611494 original size:36 final size:37
Alignment explanation
Indices: 611424--611496 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
611414 TCATCCCTTC
*
611424 AAATGCTTAAAGTCTTTCAATAATGACCAGTTATCGT
1 AAATGCTTAAAGTCTTTCAATAATGACCAATTATCGT
* *
611461 AAATGCTTAACGTCTTTC-ATAATGACTAATTATCGT
1 AAATGCTTAAAGTCTTTCAATAATGACCAATTATCGT
611497 TGATCCTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 16 0.48
37 17 0.52
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (37 bp):
AAATGCTTAAAGTCTTTCAATAATGACCAATTATCGT
Found at i:614428 original size:17 final size:16
Alignment explanation
Indices: 614373--614429 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
614363 TATAAAGATT
*
614373 TATTTATAATTAATT-
1 TATTTAAAATTAATTA
*
614388 TATTTAAAATTAATCA
1 TATTTAAAATTAATTA
*
614404 TTTATTAAAATTAATTA
1 TAT-TTAAAATTAATTA
614421 TAATTTAAA
1 T-ATTTAAA
614430 CTTATATAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 13 0.38
16 2 0.06
17 18 0.53
18 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTAAAATTAATTA
Found at i:616206 original size:19 final size:19
Alignment explanation
Indices: 616178--616215 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
616168 TATAGACTAT
616178 ATTATAATAATAATAATTA
1 ATTATAATAATAATAATTA
* *
616197 ATTATCATAATTATAATTA
1 ATTATAATAATAATAATTA
616216 TAATCGCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTATAATAATAATAATTA
Done.