Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006907.1 Hibiscus syriacus cultivar Beakdansim tig00017647_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: 557747
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:2281 original size:26 final size:24
Alignment explanation
Indices: 2243--2290 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
2233 GGGTTTGTGA
2243 ATTTTTAATTTTT-TTGCTGTTTGT
1 ATTTTTAATTTTTCTT-CTGTTTGT
2267 ATTTTTAATAATTTTCTTCTGTTT
1 ATTTTTAAT--TTTTCTTCTGTTT
2291 ATAATTCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
26 10 0.48
27 2 0.10
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.69
Consensus pattern (24 bp):
ATTTTTAATTTTTCTTCTGTTTGT
Found at i:4880 original size:15 final size:16
Alignment explanation
Indices: 4855--4884 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4845 CTTTCAGTTC
4855 ATAACTATTGCTGTTT
1 ATAACTATTGCTGTTT
4871 ATAA-TATTGCTGTT
1 ATAACTATTGCTGTT
4885 AGTGCTTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (16 bp):
ATAACTATTGCTGTTT
Found at i:6582 original size:2 final size:2
Alignment explanation
Indices: 6575--6624 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6565 TTTAATGACA
6575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6617 AT AT AT AT
1 AT AT AT AT
6625 TACTGAACCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11161 original size:34 final size:35
Alignment explanation
Indices: 11116--11182 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
11106 AATATGAATT
* *
11116 ACAACTTCTCTCTAT-CTAACAAGGAGAAAACAATA
1 ACAACTTCTCTCT-TGATAAAAAGGAGAAAACAATA
11151 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAACTTCTCTCTTGATAAAAAGGAGAAAACAA
11183 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.03
34 24 0.83
35 4 0.14
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.22
Consensus pattern (35 bp):
ACAACTTCTCTCTTGATAAAAAGGAGAAAACAATA
Found at i:11401 original size:23 final size:23
Alignment explanation
Indices: 11348--11402 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
11338 TCATGTCACT
*
11348 TTTCAACCATTATTGGTGCCAAG
1 TTTCAACCATTATTGGTGCCAAC
* * * *
11371 TATAAACCATTATTGTTGCTAAC
1 TTTCAACCATTATTGGTGCCAAC
11394 TTTCAACCA
1 TTTCAACCA
11403 CCTAAAGTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (23 bp):
TTTCAACCATTATTGGTGCCAAC
Found at i:15074 original size:727 final size:727
Alignment explanation
Indices: 13679--15132 Score: 2721
Period size: 727 Copynumber: 2.0 Consensus size: 727
13669 ATTCATCCGC
*
13679 TCTGCCACTCCATTTTGTTGATGAGTGTTCGCCACTGTGAACTATCTTTTGATGCCTTCTTTCCT
1 TCTGCCACTCCATTTTGTTGAAGAGTGTTCGCCACTGTGAACTATCTTTTGATGCCTTCTTTCCT
*
13744 GCAAAAGTCATCAAATTATTCACTTGTGTATTCTCCTCCATTATCTGTTTGAAAACACTTGATCT
66 GCAAAAGTCATCAAATTATTCACTTGTATATTCTCCTCCATTATCTGTTTGAAAACACTTGATCT
* * *
13809 TATTTCCATAATCAAGTTCCACCCGCGCTTTGAAGTTTTTGAAAGTTGAAAACACATCTGACTTG
131 TATTTCCAGAATCAAGTTCCACCCACGCTTTAAAGTTTTTGAAAGTTGAAAACACATCTGACTTG
* *
13874 TAATATCCCGAAATCCGGTTTAGTGATTAAAATGAGAATTTTTGAAATTTGGTGATAAAAGTAGA
196 TAACATCCCGAAATCCGGGTTAGTGATTAAAATGAGAATTTTTGAAATTTGGTGATAAAAGTAGA
*
13939 ATAGTTAAATAGTTCAATGACTTATTGGAAACATAGTGGAAGGTTTTTTGGTAATTATTGAATGA
261 ATAGTTAAATAGTTCAATGACTTATTGGAAACATAGTGGAAGGTTGTTTGGTAATTATTGAATGA
*
14004 ATTAAAGGGTAAAATGGTCAATTGACAAGTAAGATTTTTTTTATTTCCCTTTATAAGATAAGGGA
326 ATTAAAGAGTAAAATGGTCAATTGACAAGTAAGATTTTTTTTATTTCCCTTTATAAGATAAGGGA
* *
14069 ACCACGTGGGAAGAGAGAAAAGGTTCCAAAGTTCTATTCTCTTCTCTTCTTCCTTCTTAATGCGT
391 ACCACGTGGGAAGAGAGAAAAGGTTCCAAAGTTCTATTCTCTTCTCTTATTCCTTCTTAATACGT
14134 GAAGGCTTGAACAAAAGGTGAGTCTTCTATTTAGATAATTTCTGGTTAAATTTAAGGTTGGGTTA
456 GAAGGCTTGAACAAAAGGTGAGTCTTCTATTTAGATAATTTCTGGTTAAATTTAAGGTTGGGTTA
*
14199 TGATCATTAGATGATAACTAAGCTTAAGGAAAGCTTAAGTTATCTTAAAATCAAAAGATAAAAGA
521 TGATCATTAGATGATAACTAAGCTTAAGGAAAACTTAAGTTATCTTAAAATCAAAAGATAAAAGA
14264 GTTAAGGAAGATTAAAGATTTGGAGTTCTTGAGTGAAATATTGAAATAGAGTTTATAATAAGAAT
586 GTTAAGGAAGATTAAAGATTTGGAGTTCTTGAGTGAAATATTGAAATAGAGTTTATAATAAGAAT
14329 TGAAAGTTGAATTTGACTTGCCATCAATAAGAATAAGAGATTTATGAAGTTAGAAATTATTAATA
651 TGAAAGTTGAATTTGACTTGCCATCAATAAGAATAAGAGATTTATGAAGTTAGAAATTATTAATA
14394 ACAAAGTTGAAA
716 ACAAAGTTGAAA
*
14406 TCTGCCACTCCATTTTGTTGAAGAGTGTTCGCCACTGTGAACTATCTTTTGATGTCTTCTTTCCT
1 TCTGCCACTCCATTTTGTTGAAGAGTGTTCGCCACTGTGAACTATCTTTTGATGCCTTCTTTCCT
14471 GCAAAAGTCATCAAATTATTCACTTGTATATTCTCCTCCATTATCTGTTTGAAAACACTTGATCT
66 GCAAAAGTCATCAAATTATTCACTTGTATATTCTCCTCCATTATCTGTTTGAAAACACTTGATCT
14536 TATTTCCAGAATCAAGTTCCACCCACGCTTTAAAGTTTTTGAAAGTTGAAAACACATCTGACTTG
131 TATTTCCAGAATCAAGTTCCACCCACGCTTTAAAGTTTTTGAAAGTTGAAAACACATCTGACTTG
*
14601 TAACATCCTGAAATCCGGGTTAGTGATTAAAATGAGAATTTTTGAAATTTGGTGATAAAAGTAGA
196 TAACATCCCGAAATCCGGGTTAGTGATTAAAATGAGAATTTTTGAAATTTGGTGATAAAAGTAGA
*
14666 ATAGTTAAATAGTTCAATGACTTATTGGAAATATAGTGGAAGGTTGTTTGGTAATTATTGAATGA
261 ATAGTTAAATAGTTCAATGACTTATTGGAAACATAGTGGAAGGTTGTTTGGTAATTATTGAATGA
14731 ATTAAAGAGTAAAATGGTCAATTGACAAGTAAGATTTTTTTTATTTCCCTTTATAAGATAAGGGA
326 ATTAAAGAGTAAAATGGTCAATTGACAAGTAAGATTTTTTTTATTTCCCTTTATAAGATAAGGGA
* * * *
14796 ACCACGTGGGAAGAGAGAAAAGGTTCCAGAGTTCTCTTTTCTTCTCTTATTCCTTCTTCATACGT
391 ACCACGTGGGAAGAGAGAAAAGGTTCCAAAGTTCTATTCTCTTCTCTTATTCCTTCTTAATACGT
14861 GAAGGCTTGAACAAAAGGTGAGTCTTCTATTTAGATAATTTCTGGTTAAATTTAAGGTTGGGTTA
456 GAAGGCTTGAACAAAAGGTGAGTCTTCTATTTAGATAATTTCTGGTTAAATTTAAGGTTGGGTTA
14926 TGATCATTAGATGATAACTAAGCTTAAGGAAAACTTAAGTTATCTTAAAATCAAAAGAT-AAAGA
521 TGATCATTAGATGATAACTAAGCTTAAGGAAAACTTAAGTTATCTTAAAATCAAAAGATAAAAG-
14990 AGTTAAGGAAGATTAAAGATTTGGAGTTCTTGAGTGAAATATTGAAATAGAGTTTATAATAAGAA
585 AGTTAAGGAAGATTAAAGATTTGGAGTTCTTGAGTGAAATATTGAAATAGAGTTTATAATAAGAA
15055 TTGAAAGTTGAATTTGACTTGCCATCAATAAGAATAAGAGATTTATGAAGTTAGAAATTATTAAT
650 TTGAAAGTTGAATTTGACTTGCCATCAATAAGAATAAGAGATTTATGAAGTTAGAAATTATTAAT
15120 AACAAAGTTGAAA
715 AACAAAGTTGAAA
15133 GTCTAGTAAG
Statistics
Matches: 707, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
726 4 0.01
727 703 0.99
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (727 bp):
TCTGCCACTCCATTTTGTTGAAGAGTGTTCGCCACTGTGAACTATCTTTTGATGCCTTCTTTCCT
GCAAAAGTCATCAAATTATTCACTTGTATATTCTCCTCCATTATCTGTTTGAAAACACTTGATCT
TATTTCCAGAATCAAGTTCCACCCACGCTTTAAAGTTTTTGAAAGTTGAAAACACATCTGACTTG
TAACATCCCGAAATCCGGGTTAGTGATTAAAATGAGAATTTTTGAAATTTGGTGATAAAAGTAGA
ATAGTTAAATAGTTCAATGACTTATTGGAAACATAGTGGAAGGTTGTTTGGTAATTATTGAATGA
ATTAAAGAGTAAAATGGTCAATTGACAAGTAAGATTTTTTTTATTTCCCTTTATAAGATAAGGGA
ACCACGTGGGAAGAGAGAAAAGGTTCCAAAGTTCTATTCTCTTCTCTTATTCCTTCTTAATACGT
GAAGGCTTGAACAAAAGGTGAGTCTTCTATTTAGATAATTTCTGGTTAAATTTAAGGTTGGGTTA
TGATCATTAGATGATAACTAAGCTTAAGGAAAACTTAAGTTATCTTAAAATCAAAAGATAAAAGA
GTTAAGGAAGATTAAAGATTTGGAGTTCTTGAGTGAAATATTGAAATAGAGTTTATAATAAGAAT
TGAAAGTTGAATTTGACTTGCCATCAATAAGAATAAGAGATTTATGAAGTTAGAAATTATTAATA
ACAAAGTTGAAA
Found at i:15524 original size:24 final size:24
Alignment explanation
Indices: 15464--15517 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
15454 GCATGGGTAG
*
15464 TGCATCGATGCATATGTTAATGAA
1 TGCATCGATGCACATGTTAATGAA
15488 TGCATCGATGCACATGTTAATGAA
1 TGCATCGATGCACATGTTAATGAA
15512 TGCATC
1 TGCATC
15518 AGTGCACTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (24 bp):
TGCATCGATGCACATGTTAATGAA
Found at i:16354 original size:47 final size:47
Alignment explanation
Indices: 16300--16392 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
16290 TCGATGGAAC
*
16300 CCTATAGGAACATTAATTGAGTTACTTTATAATAAGTCATAAGGTTT
1 CCTATAGGAACATTAATTGAGTTACTTGATAATAAGTCATAAGGTTT
16347 CCTATAGGAACATTAATTGAGTTACTTGATAATAAGTCATAAGGTT
1 CCTATAGGAACATTAATTGAGTTACTTGATAATAAGTCATAAGGTT
16393 ATATGCATAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (47 bp):
CCTATAGGAACATTAATTGAGTTACTTGATAATAAGTCATAAGGTTT
Found at i:16827 original size:32 final size:31
Alignment explanation
Indices: 16752--16878 Score: 128
Period size: 32 Copynumber: 4.0 Consensus size: 31
16742 AAGAGTCGAG
* * *
16752 GGTTACCTATGACTTTCGAGACATATGGACA
1 GGTTACCTATGTCCTTCGGGACATATGGACA
16783 GTGTTACCTATGTCCTTCGGGACATATGGACA
1 G-GTTACCTATGTCCTTCGGGACATATGGACA
* ** *
16815 GGATTACCTATGTTCTAAGGAACATATGGACA
1 GG-TTACCTATGTCCTTCGGGACATATGGACA
* * * * *
16847 GTTTACCTAGGTTCTTTGGGACCTATGGACA
1 GGTTACCTATGTCCTTCGGGACATATGGACA
16878 G
1 G
16879 TTGCCGAGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
31 27 0.33
32 54 0.67
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGGGACATATGGACA
Found at i:16861 original size:31 final size:31
Alignment explanation
Indices: 16771--16880 Score: 130
Period size: 32 Copynumber: 3.5 Consensus size: 31
16761 TGACTTTCGA
* *
16771 GACATATGGACAGTGTTACCTATGTCCTTCGG
1 GACATATGGACAGT-TTACCTATGTTCTTAGG
* *
16803 GACATATGGACAGGATTACCTATGTTCTAAGG
1 GACATATGGACA-GTTTACCTATGTTCTTAGG
* * *
16835 AACATATGGACAGTTTACCTAGGTTCTTTGG
1 GACATATGGACAGTTTACCTATGTTCTTAGG
*
16866 GACCTATGGACAGTT
1 GACATATGGACAGTT
16881 GCCGAGGTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
31 28 0.42
32 37 0.56
33 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (31 bp):
GACATATGGACAGTTTACCTATGTTCTTAGG
Found at i:16900 original size:30 final size:31
Alignment explanation
Indices: 16839--16905 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
16829 CTAAGGAACA
* *
16839 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
* *
16870 TATGGACAG-TTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
*
16900 TCTGGA
1 TATGGA
16906 TAGGTCATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTTAGGACC
Found at i:21117 original size:30 final size:31
Alignment explanation
Indices: 21059--21117 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
21049 ATGACTTTCG
* *
21059 AGACAGTTTACCTAGGTTCTTTGGGACCTAT
1 AGACAGTTTACCAAGGTTCTTTAGGACCTAT
*
21090 AGACAGTTT-CCAAGGTTCTTTATGACCT
1 AGACAGTTTACCAAGGTTCTTTAGGACCT
21118 CTGGATAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (31 bp):
AGACAGTTTACCAAGGTTCTTTAGGACCTAT
Found at i:25304 original size:21 final size:21
Alignment explanation
Indices: 25253--25305 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
25243 ATTATTACTA
25253 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
* **
25274 TTGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
25295 TCGCAATGCGA
1 TCGCAATGCGA
25306 ATAAGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:25320 original size:20 final size:21
Alignment explanation
Indices: 25295--25346 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
25285 TTTTCCCAAT
*
25295 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
25315 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
25336 TCGCAATGCGA
1 TCGCAATGCGA
25347 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:25359 original size:41 final size:39
Alignment explanation
Indices: 25333--25444 Score: 136
Period size: 41 Copynumber: 2.8 Consensus size: 39
25323 CGAATTTGGA
*
25333 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATATT
1 AAATCGCAACGCGATACTGACTATCGCAACGCG--AATATT
*
25374 AAATCGCAACGCGATACTGACTTTCGCAACGCG-ATACTT
1 AAATCGCAACGCGATACTGACTATCGCAACGCGAATA-TT
** *
25413 ACTTTCGCAACGCGATACTGACTTTCGCAACG
1 A-AATCGCAACGCGATACTGACTATCGCAACG
25445 AGATAATACA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
38 3 0.05
39 3 0.05
40 28 0.43
41 31 0.48
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (39 bp):
AAATCGCAACGCGATACTGACTATCGCAACGCGAATATT
Found at i:25360 original size:20 final size:20
Alignment explanation
Indices: 25335--25449 Score: 133
Period size: 20 Copynumber: 5.7 Consensus size: 20
25325 AATTTGGAAA
*
25335 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
25355 ATCGCAACGCGATAAT-ATT
1 ATCGCAACGCGATACTGACT
25374 AAATCGCAACGCGATACTGACT
1 --ATCGCAACGCGATACTGACT
* *
25396 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
*
25416 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
25436 TTCGCAACGAGATA
1 ATCGCAACGCGATA
25450 ATACATAATC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.77
21 15 0.18
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:25432 original size:40 final size:39
Alignment explanation
Indices: 25335--25452 Score: 157
Period size: 40 Copynumber: 2.9 Consensus size: 39
25325 AATTTGGAAA
* *
25335 ATCGCAATGCGATACTGACTATCGCAACGCGATAATATT
1 ATCGCAACGCGATACTGACTTTCGCAACGCGATAATATT
*
25374 AAATCGCAACGCGATACTGACTTTCGCAACGCGATACTTACTT
1 --ATCGCAACGCGATACTGACTTTCGCAACGCGATA-ATA-TT
*
25417 -TCGCAACGCGATACTGACTTTCGCAACGAGATAATA
1 ATCGCAACGCGATACTGACTTTCGCAACGCGATAATA
25453 CATAATCGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
39 2 0.03
40 32 0.46
41 32 0.46
42 2 0.03
43 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (39 bp):
ATCGCAACGCGATACTGACTTTCGCAACGCGATAATATT
Found at i:25977 original size:20 final size:20
Alignment explanation
Indices: 25928--25986 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
25918 TTTATTCTCT
* **
25928 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
25948 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
25968 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
25987 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:26177 original size:25 final size:24
Alignment explanation
Indices: 26123--26177 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
26113 TGTTTATTAT
* *
26123 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
26147 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
26173 TGTTT
1 TGTTT
26178 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:27924 original size:19 final size:20
Alignment explanation
Indices: 27870--27936 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
27860 TAGTTTACTT
* *
27870 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
27890 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
27910 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
27929 TCGCAACG
1 TCGCAACG
27937 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:27944 original size:14 final size:14
Alignment explanation
Indices: 27925--27981 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
27915 ATGCGAAATG
27925 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
27939 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
27958 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
27972 CAAATCGCAA
1 AAAATCGCAA
27982 TGCGATTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.49, C:0.25, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:27951 original size:33 final size:33
Alignment explanation
Indices: 27909--27986 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
27899 GGAAATGGCT
27909 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
27942 ATCGCAATGCGAAATGAAAATCGCAACGACCAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
27975 ATCGCAATGCGA
1 ATCGCAATGCGA
27987 TTTGTGTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:27963 original size:19 final size:19
Alignment explanation
Indices: 27909--27967 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
27899 GGAAATGGCT
27909 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
27928 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
27942 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
27961 ATCGCAA
1 ATCGCAA
27968 CGACCAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:28019 original size:14 final size:14
Alignment explanation
Indices: 28000--28056 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
27990 GTGTTTCGCG
28000 TTGCGATTTTGTCA
1 TTGCGATTTTGTCA
*
28014 TTGCGATTTTCATTTCGCA
1 TTGCGA-TTT--TGT--CA
*
28033 TTGCGATTTTGTCG
1 TTGCGATTTTGTCA
28047 TTGCGATTTT
1 TTGCGATTTT
28057 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 17 0.49
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 8 0.23
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCA
Found at i:28030 original size:33 final size:33
Alignment explanation
Indices: 27993--28072 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
27983 GCGATTTGTG
*
27993 TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
*
28026 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
*
28059 TTTCGCATTACGAT
1 TTTCGCATTGCGAT
28073 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
Found at i:28036 original size:19 final size:19
Alignment explanation
Indices: 28012--28072 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
28002 GCGATTTTGT
28012 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
28031 CATTGCGA-TTT--TGTCG
1 CATTGCGATTTTCATTTCG
28047 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
28064 CATTACGAT
1 CATTGCGAT
28073 AGCCATTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 6 0.18
15 3 0.09
16 4 0.12
17 4 0.12
18 3 0.09
19 14 0.41
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:28094 original size:20 final size:20
Alignment explanation
Indices: 28069--28131 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
28059 TTTCGCATTA
28069 CGATAGCCATTTCCGCGTTG
1 CGATAGCCATTTCCGCGTTG
28089 CGATAGCCATTTCCGCGTTG
1 CGATAGCCATTTCCGCGTTG
*
28109 CGATAGCCATTTCCGCATTG
1 CGATAGCCATTTCCGCGTTG
28129 CGA
1 CGA
28132 AAGTAAGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.29
Consensus pattern (20 bp):
CGATAGCCATTTCCGCGTTG
Found at i:28149 original size:40 final size:40
Alignment explanation
Indices: 28069--28151 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
28059 TTTCGCATTA
* * *
28069 CGATAGCCATTTCCGCGTTGCGATAGCCATTTCCGCGTTG
1 CGATAGCCATTTCCGCATTGCGAAAGCAATTTCCGCGTTG
* *
28109 CGATAGCCATTTCCGCATTGCGAAAGTAAGTTT-CGTGTTG
1 CGATAGCCATTTCCGCATTGCGAAAGCAA-TTTCCGCGTTG
28149 CGA
1 CGA
28152 AAGTAAACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.30
Consensus pattern (40 bp):
CGATAGCCATTTCCGCATTGCGAAAGCAATTTCCGCGTTG
Found at i:28532 original size:21 final size:21
Alignment explanation
Indices: 28499--28559 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
28489 GACTCACCTG
28499 TCATCCCTCAAGAGTCCCCT-
1 TCATCCCTCAAGAGTCCCCTA
** *
28519 TCAATCGTTCAAGAGGCCCCTA
1 TC-ATCCCTCAAGAGTCCCCTA
28541 TCATCCCTCAAGAGTCCCC
1 TCATCCCTCAAGAGTCCCC
28560 ACCACCGTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.23, C:0.41, G:0.13, T:0.23
Consensus pattern (21 bp):
TCATCCCTCAAGAGTCCCCTA
Found at i:28586 original size:41 final size:42
Alignment explanation
Indices: 28496--28586 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
28486 CCCGACTCAC
* * *
28496 CTGTCATCCCTCAAGAGTCCCCTTCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTACAACCGTTCAAGAGGCCA
* *
28538 CTATCATCCCTCAAGAGTCCCC-ACCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTACAACCGTTCAAGAGGCCA
28579 CTGTCATC
1 CTGTCATC
28587 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 22 0.51
42 21 0.49
ACGTcount: A:0.23, C:0.40, G:0.15, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTACAACCGTTCAAGAGGCCA
Found at i:30031 original size:14 final size:14
Alignment explanation
Indices: 29997--30035 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
29987 TTGATTGTTT
29997 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
30011 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
30025 TGTTGATTTGT
1 AATTGATTTGT
30036 TTAATTGATG
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:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:30199 original size:19 final size:17
Alignment explanation
Indices: 30175--30220 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
30165 ACAACGAGAG
30175 AATCGCAATGCGAAATGAA
1 AATCGCAATGCG-AA-GAA
30194 AATCGCAA--CG-AGAA
1 AATCGCAATGCGAAGAA
30208 AATCGCAATGCGA
1 AATCGCAATGCGA
30221 TTTTCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 2 0.08
17 2 0.08
19 8 0.33
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (17 bp):
AATCGCAATGCGAAGAA
Found at i:30258 original size:20 final size:20
Alignment explanation
Indices: 30233--30274 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30223 TTCATTTCGC
30233 ATAGTCATTTTCGCGTTGCG
1 ATAGTCATTTTCGCGTTGCG
30253 ATAGTCATTTTCGCGTTGCG
1 ATAGTCATTTTCGCGTTGCG
30273 AT
1 AT
30275 TTCCCCGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (20 bp):
ATAGTCATTTTCGCGTTGCG
Found at i:30906 original size:21 final size:21
Alignment explanation
Indices: 30880--30956 Score: 154
Period size: 21 Copynumber: 3.7 Consensus size: 21
30870 CGAAAGTCAG
30880 TATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATTTTGTAT
30901 TATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATTTTGTAT
30922 TATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATTTTGTAT
30943 TATCGCGTTGCGAT
1 TATCGCGTTGCGAT
30957 AGTCAGTATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (21 bp):
TATCGCGTTGCGATTTTGTAT
Found at i:30968 original size:20 final size:20
Alignment explanation
Indices: 30820--30976 Score: 122
Period size: 20 Copynumber: 7.7 Consensus size: 20
30810 GATTCTGTAT
*
30820 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
30840 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
30860 AATCACGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
30880 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
* *
30901 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
* *
30922 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
30943 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
30963 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
30977 TTTCCAAATT
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 3 0.02
20 61 0.50
21 56 0.46
22 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:31009 original size:20 final size:21
Alignment explanation
Indices: 30965--31016 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
30955 ATAGTCAGTA
*
30965 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
30986 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
31006 TCGCATTGCGA
1 TCGCATTGCGA
31017 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:31058 original size:21 final size:22
Alignment explanation
Indices: 31007--31058 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
30997 TTTACTTATT
*
31007 CGCATTGCG-AATTGGGAAAAT
1 CGCATTGCGAAATTGGGAAAAC
**
31028 CGCAACGCGAAATT-GGAAAAC
1 CGCATTGCGAAATTGGGAAAAC
31049 CGCATTGCGA
1 CGCATTGCGA
31059 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (22 bp):
CGCATTGCGAAATTGGGAAAAC
Found at i:34010 original size:598 final size:598
Alignment explanation
Indices: 32875--34075 Score: 2384
Period size: 598 Copynumber: 2.0 Consensus size: 598
32865 TGCTGGTTGA
32875 TTGTGTATATTGTTTAAATACATGGTGCTGCCTTCAGGATAAGGGTTGGTGAAGATTATGTTTCA
1 TTGTGTATATTGTTTAAATACATGGTGCTGCCTTCAGGATAAGGGTTGGTGAAGATTATGTTTCA
32940 CTCTGGTGGAAGGATGAACTAAGGTAAACATTTATTTTCAAAAGCATAATTTTTTTCCTGAAGGA
66 CTCTGGTGGAAGGATGAACTAAGGTAAACATTTATTTTCAAAAGCATAATTTTTTTCCTGAAGGA
33005 GTCAAGATCATAGTTACGATGTGCATGTTTGCCAAAATGTATGCATGCATAGAAGGAATCCATTT
131 GTCAAGATCATAGTTACGATGTGCATGTTTGCCAAAATGTATGCATGCATAGAAGGAATCCATTT
33070 GTATTGATATTAAGTAGTTATAATGCTGCTTCAGCAACTTGATTTCATCCCTTTGGAAGATATAA
196 GTATTGATATTAAGTAGTTATAATGCTGCTTCAGCAACTTGATTTCATCCCTTTGGAAGATATAA
33135 AATTACTCTTCATTTTTAACCTCCTAAAGGATACCGTTTTTAACATATAGCAGTACCAGCTAGCT
261 AATTACTCTTCATTTTTAACCTCCTAAAGGATACCGTTTTTAACATATAGCAGTACCAGCTAGCT
33200 GGATTTGTTCTAAGTTTATGATGTTTTCGGTTCATTGAATTTCTAGGACCATGCATCGATGACGG
326 GGATTTGTTCTAAGTTTATGATGTTTTCGGTTCATTGAATTTCTAGGACCATGCATCGATGACGG
33265 TCACCTGAAACAATGGAATCATTGACTTGACCCTGGATATTTTTAAACTGGCTTCAACCATCTAC
391 TCACCTGAAACAATGGAATCATTGACTTGACCCTGGATATTTTTAAACTGGCTTCAACCATCTAC
33330 AAGGTATCCTGCCTGCCCATCTAACTACTACCCCACCCTTGAAGCTTTGGTTTCACAGAATGTGA
456 AAGGTATCCTGCCTGCCCATCTAACTACTACCCCACCCTTGAAGCTTTGGTTTCACAGAATGTGA
33395 ATTATTCATTTCATGTTCCGGTTTTACAACACATTAATTCAAACAAGCTTGTACTTCTTTCCTCT
521 ATTATTCATTTCATGTTCCGGTTTTACAACACATTAATTCAAACAAGCTTGTACTTCTTTCCTCT
33460 TTCGCAAACAAAC
586 TTCGCAAACAAAC
*
33473 TTGTGTATATTGTTTAAGTACATGGTGCTGCCTTCAGGATAAGGGTTGGTGAAGATTATGTTTCA
1 TTGTGTATATTGTTTAAATACATGGTGCTGCCTTCAGGATAAGGGTTGGTGAAGATTATGTTTCA
33538 CTCTGGTGGAAGGATGAACTAAGGTAAACATTTATTTTCAAAAGCATAATTTTTTTCCTGAAGGA
66 CTCTGGTGGAAGGATGAACTAAGGTAAACATTTATTTTCAAAAGCATAATTTTTTTCCTGAAGGA
*
33603 GTCAAGATCATAGTTACGATGTGCATGTTTGCCAAAATGTATGCATGCATCGAAGGAATCCATTT
131 GTCAAGATCATAGTTACGATGTGCATGTTTGCCAAAATGTATGCATGCATAGAAGGAATCCATTT
33668 GTATTGATATTAAGTAGTTATAATGCTGCTTCAGCAACTTGATTTCATCCCTTTGGAAGATATAA
196 GTATTGATATTAAGTAGTTATAATGCTGCTTCAGCAACTTGATTTCATCCCTTTGGAAGATATAA
33733 AATTACTCTTCATTTTTAACCTCCTAAAGGATACCGTTTTTAACATATAGCAGTACCAGCTAGCT
261 AATTACTCTTCATTTTTAACCTCCTAAAGGATACCGTTTTTAACATATAGCAGTACCAGCTAGCT
33798 GGATTTGTTCTAAGTTTATGATGTTTTCGGTTCATTGAATTTCTAGGACCATGCATCGATGACGG
326 GGATTTGTTCTAAGTTTATGATGTTTTCGGTTCATTGAATTTCTAGGACCATGCATCGATGACGG
33863 TCACCTGAAACAATGGAATCATTGACTTGACCCTGGATATTTTTAAACTGGCTTCAACCATCTAC
391 TCACCTGAAACAATGGAATCATTGACTTGACCCTGGATATTTTTAAACTGGCTTCAACCATCTAC
33928 AAGGTATCCTGCCTGCCCATCTAACTACTACCCCACCCTTGAAGCTTTGGTTTCACAGAATGTGA
456 AAGGTATCCTGCCTGCCCATCTAACTACTACCCCACCCTTGAAGCTTTGGTTTCACAGAATGTGA
33993 ATTATTCATTTCATGTTCCGGTTTTACAACACATTAATTCAAACAAGCTTGTACTTCTTTCCTCT
521 ATTATTCATTTCATGTTCCGGTTTTACAACACATTAATTCAAACAAGCTTGTACTTCTTTCCTCT
34058 TTCGCAAACAAAC
586 TTCGCAAACAAAC
34071 TTGTG
1 TTGTG
34076 CATAAGACAT
Statistics
Matches: 601, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
598 601 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (598 bp):
TTGTGTATATTGTTTAAATACATGGTGCTGCCTTCAGGATAAGGGTTGGTGAAGATTATGTTTCA
CTCTGGTGGAAGGATGAACTAAGGTAAACATTTATTTTCAAAAGCATAATTTTTTTCCTGAAGGA
GTCAAGATCATAGTTACGATGTGCATGTTTGCCAAAATGTATGCATGCATAGAAGGAATCCATTT
GTATTGATATTAAGTAGTTATAATGCTGCTTCAGCAACTTGATTTCATCCCTTTGGAAGATATAA
AATTACTCTTCATTTTTAACCTCCTAAAGGATACCGTTTTTAACATATAGCAGTACCAGCTAGCT
GGATTTGTTCTAAGTTTATGATGTTTTCGGTTCATTGAATTTCTAGGACCATGCATCGATGACGG
TCACCTGAAACAATGGAATCATTGACTTGACCCTGGATATTTTTAAACTGGCTTCAACCATCTAC
AAGGTATCCTGCCTGCCCATCTAACTACTACCCCACCCTTGAAGCTTTGGTTTCACAGAATGTGA
ATTATTCATTTCATGTTCCGGTTTTACAACACATTAATTCAAACAAGCTTGTACTTCTTTCCTCT
TTCGCAAACAAAC
Found at i:35617 original size:21 final size:22
Alignment explanation
Indices: 35591--35631 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
35581 CTAGGATAGG
35591 GAGTATCGGTACTT-CTTTAAT
1 GAGTATCGGTACTTCCTTTAAT
35612 GAGTATCGGTACTTCCTTTA
1 GAGTATCGGTACTTCCTTTA
35632 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (22 bp):
GAGTATCGGTACTTCCTTTAAT
Found at i:37204 original size:14 final size:13
Alignment explanation
Indices: 37164--37202 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
37154 TATTGAAAGC
37164 TAAATA-TTAAAA
1 TAAATATTTAAAA
*
37176 TAATTCATTTAAAA
1 TAAAT-ATTTAAAA
37190 TAAATATTTAAAA
1 TAAATATTTAAAA
37203 ATTTAATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 4 0.17
13 9 0.39
14 10 0.43
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTTAAAA
Found at i:38619 original size:3 final size:3
Alignment explanation
Indices: 38611--38710 Score: 112
Period size: 3 Copynumber: 32.7 Consensus size: 3
38601 GGCCCGTTTG
* * *
38611 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* * *
38658 TTA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38706 TAA TA
1 TAA TA
38711 TTTAAATGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.02
3 73 0.89
4 7 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:39154 original size:113 final size:113
Alignment explanation
Indices: 38960--39841 Score: 1482
Period size: 113 Copynumber: 7.8 Consensus size: 113
38950 TCTTGATGAG
* * *
38960 TTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTC
* * * *
39025 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
62 TCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
* *
39076 TTCTTCTCATTATGAATTTCTTCTTCTTTATTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
39141 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
*
39189 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
39254 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
39302 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
39367 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
39415 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
39480 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
39528 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* **
39593 GCAATGATAATCCATC-AGATGATGGATTTGAACAAAAGGTTGAACAAA
66 GCAATGATAATCCATCAAG-TGATGAATTCAAACAAAAGGTTGAACAAA
* *
39641 TTCTTCTCATTATAAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * * *
39706 GAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGTTAAACAAA
66 GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
*
39754 TTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * *
39818 GAAATGTTAATCCATCAAATGATG
66 GCAATGATAATCCATCAAGTGATG
39842 GATTTGAATC
Statistics
Matches: 735, Mismatches: 28, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
112 63 0.09
113 637 0.87
114 2 0.00
116 33 0.04
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAAA
Found at i:40273 original size:22 final size:22
Alignment explanation
Indices: 40248--40302 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
40238 CATAAAGTTT
*
40248 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
40270 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
40292 TCATCTTTGAA
1 TCATCTTTGAA
40303 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:41878 original size:36 final size:34
Alignment explanation
Indices: 41838--41911 Score: 78
Period size: 35 Copynumber: 2.1 Consensus size: 34
41828 TGTTACTTCT
41838 TATTG-AGATGAACCTCCAAGAATGCCCAAATATTC
1 TATTGCAG-TGAACCTCCAA-AATGCCCAAATATTC
* * * *
41873 ATATTGCTGTGAGCCTTCAAAATGCCCTAATATTC
1 -TATTGCAGTGAACCTCCAAAATGCCCAAATATTC
41908 TATT
1 TATT
41912 TCTGGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 4 0.12
35 14 0.42
36 14 0.42
37 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (34 bp):
TATTGCAGTGAACCTCCAAAATGCCCAAATATTC
Found at i:43069 original size:52 final size:51
Alignment explanation
Indices: 43001--43152 Score: 231
Period size: 47 Copynumber: 3.0 Consensus size: 51
42991 AATTCAATGA
*
43001 TTGGTTCTGTCCAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGC
1 TTGGTTCTGTCTAACCAGA-TAGATAACTCAAAGAACACTTCCAGAAGATGC
* *
43053 TTGGTTTTGTCTAACC----AGATAACTCAAAGAACATTTCCAGAAGATGC
1 TTGGTTCTGTCTAACCAGATAGATAACTCAAAGAACACTTCCAGAAGATGC
43100 TTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
1 TTGGTTCTGTCTAACCAGAT-AGATAACTCAAAGAACACTTCCAGAAGATGC
43152 T
1 T
43153 ATTGAGTCTC
Statistics
Matches: 90, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
47 45 0.50
52 45 0.50
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (51 bp):
TTGGTTCTGTCTAACCAGATAGATAACTCAAAGAACACTTCCAGAAGATGC
Found at i:48244 original size:15 final size:15
Alignment explanation
Indices: 48216--48268 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 15
48206 TGTGCAATAC
* *
48216 AAATGCAAAGATGCT
1 AAATGTAAATATGCT
48231 AAATGTAAATATGC-
1 AAATGTAAATATGCT
48245 AAATGTAAA-ATTG-T
1 AAATGTAAATA-TGCT
48259 AAATGTAAAT
1 AAATGTAAAT
48269 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 20 0.61
15 12 0.36
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (15 bp):
AAATGTAAATATGCT
Found at i:50527 original size:14 final size:13
Alignment explanation
Indices: 50487--50525 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
50477 TATTGAAAGC
50487 TAAATA-TTAAAA
1 TAAATATTTAAAA
*
50499 TAATTCATTTAAAA
1 TAAAT-ATTTAAAA
50513 TAAATATTTAAAA
1 TAAATATTTAAAA
50526 ATTTAATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 4 0.17
13 9 0.39
14 10 0.43
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTTAAAA
Found at i:51531 original size:13 final size:13
Alignment explanation
Indices: 51510--51539 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51500 GGCTGTCCTC
51510 TTTTCTTTTTCTG
1 TTTTCTTTTTCTG
*
51523 TTTTTTTTTTCTG
1 TTTTCTTTTTCTG
51536 TTTT
1 TTTT
51540 GTTTGTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTCTG
Found at i:51945 original size:3 final size:3
Alignment explanation
Indices: 51937--52033 Score: 115
Period size: 3 Copynumber: 31.7 Consensus size: 3
51927 GGCCCGTTTG
* * *
51937 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* *
51984 TTA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
52032 TA
1 TA
52034 TTTAAATGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.02
3 72 0.89
4 7 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:52245 original size:31 final size:31
Alignment explanation
Indices: 52207--52300 Score: 95
Period size: 31 Copynumber: 3.0 Consensus size: 31
52197 CCCGAAGGAC
*
52207 CAGTCCATAGATTCCGAAGAACCTAGGTAAA
1 CAGTCCATAGATTCCGAAGAACATAGGTAAA
*
52238 CAGTCCAT--ATGTCTCGAATAACATAGGTAAA
1 CAGTCCATAGAT-TC-CGAAGAACATAGGTAAA
** *
52269 CAACCCATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATTCCGAAGAACATAGGTAAA
52300 C
1 C
52301 CCTCGACCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 46 0.88
32 1 0.02
33 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (31 bp):
CAGTCCATAGATTCCGAAGAACATAGGTAAA
Found at i:55987 original size:2 final size:2
Alignment explanation
Indices: 55980--56022 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
55970 TTAACTTTTC
55980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56022 A
1 A
56023 CGAGAGTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58446 original size:21 final size:21
Alignment explanation
Indices: 58422--58469 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
58412 GAATCATGTA
58422 GTTCCTATTGAGGAATAGGGG
1 GTTCCTATTGAGGAATAGGGG
58443 GTTCCTATTGAGGAATAGGGG
1 GTTCCTATTGAGGAATAGGGG
*
58464 ATTCCT
1 GTTCCT
58470 CTTTAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.31
Consensus pattern (21 bp):
GTTCCTATTGAGGAATAGGGG
Found at i:68112 original size:2 final size:2
Alignment explanation
Indices: 68107--68152 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
68097 GGAAAAAGAA
68107 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68149 AT AT
1 AT AT
68153 CAAAGTATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68392 original size:25 final size:26
Alignment explanation
Indices: 68339--68393 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
68329 GGTTTTTTTT
*
68339 TAAAAAAAATAAAATAATAATAATGAA
1 TAAAAAAAAGAAAATAATAATAA-GAA
68366 TAAAAAAAACGAAAATAATAA-AA-AA
1 TAAAAAAAA-GAAAATAATAATAAGAA
68391 TAA
1 TAA
68394 TATAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 5 0.19
27 11 0.42
28 10 0.38
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (26 bp):
TAAAAAAAAGAAAATAATAATAAGAA
Found at i:68671 original size:15 final size:15
Alignment explanation
Indices: 68651--68689 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
68641 ATATACATAT
*
68651 AATAATAATAACATG
1 AATAATAATAAAATG
*
68666 AATAATAAAAAAATG
1 AATAATAATAAAATG
68681 AATAA-AATA
1 AATAATAATA
68690 TCCATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (15 bp):
AATAATAATAAAATG
Found at i:69095 original size:37 final size:37
Alignment explanation
Indices: 69045--69148 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
69035 GTGCTTGTGG
* * * * *
69045 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* * *
69082 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
69119 ATCCTATTTTTAGGAGTTTGAATCATAGTA
1 ATCCTATTTTTAGGAGTTTGAATCATAGTA
69149 CGACGAAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:69996 original size:105 final size:105
Alignment explanation
Indices: 69692--70804 Score: 1698
Period size: 105 Copynumber: 10.6 Consensus size: 105
69682 GCATTGTTCC
* * * * ** *
69692 GAGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
* * * * * *
69757 CCAGCCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
69798 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
* * *
69858 CAACGGTCCCTTGGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
69898 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
69963 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
70003 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
70068 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
70108 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
70173 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
70213 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
70278 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
70318 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
70383 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
70423 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT-GTTGTTGACAA
* *
70488 ACAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
70529 GAGTCTAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAAATTGTTGTTGACAA-
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
* * * *
70593 CTAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 C-AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
70634 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
*
70699 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
70740 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAA
70805 CCTCAATTAA
Statistics
Matches: 931, Mismatches: 67, Indels: 18
0.92 0.07 0.02
Matches are distributed among these distances:
100 82 0.09
101 1 0.00
102 7 0.01
104 6 0.01
105 597 0.64
106 237 0.25
107 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:71334 original size:18 final size:18
Alignment explanation
Indices: 71304--71342 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
71294 TGAACCCACC
71304 TTTTTGTTATTTTCT-TT
1 TTTTTGTTATTTTCTCTT
*
71321 TTTTTGTTCTTTTTCTCTT
1 TTTTTGTT-ATTTTCTCTT
71340 TTT
1 TTT
71343 CTATCTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.03, C:0.10, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTGTTATTTTCTCTT
Found at i:81762 original size:2 final size:2
Alignment explanation
Indices: 81744--81782 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
81734 GGAAAAAGAA
*
81744 AT AT A- AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81783 CAAAGTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:82110 original size:16 final size:16
Alignment explanation
Indices: 82085--82116 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
82075 ATAAAAATAA
82085 TTAATAATATATATAT
1 TTAATAATATATATAT
*
82101 TTAATAATATGTATAT
1 TTAATAATATATATAT
82117 AAGTAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTAATAATATATATAT
Found at i:82313 original size:15 final size:15
Alignment explanation
Indices: 82293--82331 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
82283 ATATACATAT
*
82293 AATAATAATAACATG
1 AATAATAATAAAATG
*
82308 AATAATAAAAAAATG
1 AATAATAATAAAATG
82323 AATAA-AATA
1 AATAATAATA
82332 TCCATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (15 bp):
AATAATAATAAAATG
Found at i:82738 original size:37 final size:37
Alignment explanation
Indices: 82688--82791 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
82678 GTGCTTGTGG
* * * * *
82688 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* * *
82725 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
82762 ATCCTATTTTTAGGAGTTTGAATCATAGTA
1 ATCCTATTTTTAGGAGTTTGAATCATAGTA
82792 CGACGAAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:84124 original size:27 final size:27
Alignment explanation
Indices: 84086--84141 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
84076 AAATCTTTGA
84086 GGACTCGCAGCAAGCAATGGCCAATTG
1 GGACTCGCAGCAAGCAATGGCCAATTG
*
84113 GGACTCGCAGCAAGCAATGGCCAGTTG
1 GGACTCGCAGCAAGCAATGGCCAATTG
84140 GG
1 GG
84142 TTTTTGTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.34, T:0.14
Consensus pattern (27 bp):
GGACTCGCAGCAAGCAATGGCCAATTG
Found at i:88984 original size:14 final size:15
Alignment explanation
Indices: 88965--88993 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88955 ACGTTCAGGA
88965 TAATATTTT-TTCTG
1 TAATATTTTCTTCTG
88979 TAATATTTTCTTCTG
1 TAATATTTTCTTCTG
88994 GTTTGGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TAATATTTTCTTCTG
Found at i:91672 original size:21 final size:22
Alignment explanation
Indices: 91642--91683 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
91632 TTATTTCATT
91642 TTTACTTTTTTTTAAAAAAAAA
1 TTTACTTTTTTTTAAAAAAAAA
91664 TTTAC-TTTTTTTAAAAAAAA
1 TTTACTTTTTTTTAAAAAAAA
91684 TCAAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTACTTTTTTTTAAAAAAAAA
Found at i:91691 original size:21 final size:21
Alignment explanation
Indices: 91648--91693 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
91638 CATTTTTACT
**
91648 TTTTTTTAAAAAAAAATTTAC
1 TTTTTTTAAAAAAAAATAAAC
91669 TTTTTTT-AAAAAAAATCAAAC
1 TTTTTTTAAAAAAAAAT-AAAC
91690 TTTT
1 TTTT
91694 CCTATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTTTAAAAAAAAATAAAC
Found at i:92071 original size:24 final size:25
Alignment explanation
Indices: 92023--92076 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
92013 GGGTTTTTAA
*
92023 ATAAAAATAATAATTTT-AATTTTT
1 ATAAAAATAATAATTTTAAAATTTT
*
92047 TTAAAAATAA-AATTTTTAAAATTTT
1 ATAAAAATAATAA-TTTTAAAATTTT
92072 ATAAA
1 ATAAA
92077 GACATCACGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 13 0.52
25 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATAAAAATAATAATTTTAAAATTTT
Found at i:92197 original size:17 final size:18
Alignment explanation
Indices: 92165--92200 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
92155 AAAACGTTAG
92165 ACACTTAAATTAAAAAAA
1 ACACTTAAATTAAAAAAA
*
92183 ACACTTCAA-TAAAAAAA
1 ACACTTAAATTAAAAAAA
92200 A
1 A
92201 TTGTATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (18 bp):
ACACTTAAATTAAAAAAA
Found at i:94962 original size:23 final size:23
Alignment explanation
Indices: 94936--94983 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
94926 ATAAAGTACA
*
94936 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
94959 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
94982 AT
1 AT
94984 TTTACCTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:95391 original size:21 final size:20
Alignment explanation
Indices: 95361--95414 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
95351 GATAGACACT
*
95361 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
95382 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
95405 TTACATTATA
1 TTACATTATA
95415 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:95402 original size:23 final size:23
Alignment explanation
Indices: 95376--95431 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
95366 ATATAACCAT
95376 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
95399 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
95422 TACCTATTAC
1 TACCTATTAC
95432 TCATATGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:95818 original size:21 final size:20
Alignment explanation
Indices: 95788--95841 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
95778 GATAGACACT
*
95788 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
95809 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
95832 TTACATTATA
1 TTACATTATA
95842 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:95829 original size:23 final size:23
Alignment explanation
Indices: 95803--95865 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
95793 ATATAACCAT
95803 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
95826 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
95849 TACCTATTACATCATAT
1 TACCTATTACATTATAT
95866 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:95893 original size:428 final size:430
Alignment explanation
Indices: 95096--95964 Score: 1708
Period size: 428 Copynumber: 2.0 Consensus size: 430
95086 GGATCGATAC
95096 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
95161 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
95226 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
95291 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
95356 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
95421 CTACCTATTACTCATATGTTTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCG
326 CTACCTATTACTCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCG
95485 ATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTT
391 ATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
95524 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
95589 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
95654 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
95719 AAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
95783 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
95848 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTAC-TCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
95913 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
390 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
95954 TTTAACAGTGT
1 TTTAACAGTGT
95965 ACTGCGAATT
Statistics
Matches: 438, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
427 108 0.25
428 263 0.60
429 53 0.12
430 14 0.03
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (430 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
CTACCTATTACTCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCG
ATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
Found at i:96037 original size:14 final size:14
Alignment explanation
Indices: 96014--96045 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
96004 ACATACCTAA
*
96014 ATATGTGCACAAGC
1 ATATGGGCACAAGC
96028 ATATGGGCACAAGC
1 ATATGGGCACAAGC
96042 ATAT
1 ATAT
96046 CTAACCGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (14 bp):
ATATGGGCACAAGC
Found at i:97703 original size:184 final size:184
Alignment explanation
Indices: 97116--98347 Score: 2260
Period size: 184 Copynumber: 6.7 Consensus size: 184
97106 TTTTAAATGG
*
97116 TATGGACAT-AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
97180 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
97245 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
97299 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
97364 TAAGA-CGGTATA-TTATACCGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
97426 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
97480 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
97545 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
97610 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
97664 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
97729 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
97794 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
97848 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
97913 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
97978 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
98032 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGGTTGTAGACCTAT
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCG--ATA-----TAGGTTGTAGACCTAT
98096 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT
59 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTAT
98161 GGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
124 GGGTTCCGATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
98222 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGGTTGTAGACCTAT
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCG--ATA-----TAGGTTGTAGACCTAT
**
98287 TCGCGCATAAGACCGGTATA-TTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
59 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
98348 ATGTTGAAAG
Statistics
Matches: 1033, Mismatches: 4, Indels: 17
0.98 0.00 0.02
Matches are distributed among these distances:
181 156 0.15
182 25 0.02
183 44 0.04
184 540 0.52
185 3 0.00
190 209 0.20
191 56 0.05
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:100772 original size:200 final size:200
Alignment explanation
Indices: 100286--101708 Score: 2615
Period size: 200 Copynumber: 7.1 Consensus size: 200
100276 TTCAAATTAG
* *
100286 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
100351 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * ***
100416 CGACAC-TTTTTATATATGGATCGACACTTTATTGATTCACCTTG-TAAAAATTCATTCT-GGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
100478 AAAAA
196 AAAAA
*
100483 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTTTTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
100548 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
100613 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
100678 AAAAA
196 AAAAA
100683 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
100748 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
100813 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
100877 AAAAA
196 AAAAA
100882 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
100947 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
101012 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTAATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
101077 AAAAA
196 AAAAA
101082 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
101147 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
101212 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
101277 AAAAA
196 AAAAA
101282 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
101347 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
101412 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
101477 AAAAA
196 AAAAA
101482 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
101547 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * ***
101612 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT-GGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
101675 AAAAA
196 AAAAA
*
101680 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
101709 TGACCCTTAA
Statistics
Matches: 1194, Mismatches: 28, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
197 133 0.11
198 72 0.06
199 217 0.18
200 772 0.65
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (200 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
AAAAA
Found at i:101817 original size:19 final size:19
Alignment explanation
Indices: 101795--101851 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
101785 CATAAAAAAA
101795 ATAAATCGTATACAAAATT
1 ATAAATCGTATACAAAATT
101814 ATAAATCGTATAC-AAATT
1 ATAAATCGTATACAAAATT
*
101832 ATAAATCTTATACAAAATT
1 ATAAATCGTATACAAAATT
101851 A
1 A
101852 ACTCGACATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 17 0.47
19 19 0.53
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (19 bp):
ATAAATCGTATACAAAATT
Found at i:101830 original size:18 final size:18
Alignment explanation
Indices: 101795--101847 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
101785 CATAAAAAAA
101795 ATAAATCGTATACAAAATT
1 ATAAATCGTATAC-AAATT
101814 ATAAATCGTATACAAATT
1 ATAAATCGTATACAAATT
*
101832 ATAAATCTTATACAAA
1 ATAAATCGTATACAAA
101848 ATTAACTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 20 0.61
19 13 0.39
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (18 bp):
ATAAATCGTATACAAATT
Found at i:103680 original size:33 final size:33
Alignment explanation
Indices: 103643--103708 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
103633 CATCTTAATA
*
103643 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
103676 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
103709 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:105868 original size:24 final size:24
Alignment explanation
Indices: 105831--105883 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
105821 CCGTTCTATC
105831 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
105855 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
105879 TATTT
1 TATTT
105884 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:106074 original size:20 final size:19
Alignment explanation
Indices: 106028--106074 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
106018 TCCGGTATCA
*
106028 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
106047 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
106068 TTTTACC
1 TTTTACC
106075 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:106239 original size:20 final size:20
Alignment explanation
Indices: 106191--106240 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
106181 TCGACACTTT
106191 TAATTTTACCGGTTTTATCA
1 TAATTTTACCGGTTTTATCA
*
106211 T-TTTGTTACCGGTTTTATCA
1 TAATT-TTACCGGTTTTATCA
106231 TAATTTTACC
1 TAATTTTACC
106241 TGGTATATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (20 bp):
TAATTTTACCGGTTTTATCA
Found at i:106707 original size:228 final size:227
Alignment explanation
Indices: 106305--106752 Score: 790
Period size: 228 Copynumber: 2.0 Consensus size: 227
106295 TTAAAACTGC
*
106305 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTTATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
**
106370 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
* *
106435 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
*
106500 GTATGGACACTTTTATAAAAATGATATATACTT
195 GTATGGACACTTTTATAAAAAGGATATATACTT
106533 TTTTGAAAGTTATGTAATTTATGTTTCAATTT-TTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
*
106597 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
106662 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAA
130 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAA
106727 GTATGGACACTTTTATAAAAAGGATA
195 GTATGGACACTTTTATAAAAAGGATA
106753 GATAATTTAC
Statistics
Matches: 210, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
227 37 0.18
228 146 0.70
229 27 0.13
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (227 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATACTT
Found at i:107307 original size:2 final size:2
Alignment explanation
Indices: 107300--107347 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
107290 TTGTTCTTGA
107300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107342 AT AT AT
1 AT AT AT
107348 GGTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110258 original size:3 final size:3
Alignment explanation
Indices: 110244--110290 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
110234 AAAAGGAGAA
* *
110244 AAT AAC AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
110291 ATGAAATGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:111442 original size:16 final size:15
Alignment explanation
Indices: 111416--111446 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
111406 ATGTATGACC
111416 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
111431 GGTCAGTCCCGGGATG
1 GGTCA-TCCCGGGATG
111447 CCGGCCGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:111610 original size:4 final size:4
Alignment explanation
Indices: 111601--111660 Score: 59
Period size: 4 Copynumber: 15.0 Consensus size: 4
111591 AACAAATAAC
* * * *
111601 AAAT AAAT AAAT GAGAG AAA- AAAT AAAT ATAT AAAT AAAT AAAT AGAT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
111649 AAAT TAAT AAAT
1 AAAT AAAT AAAT
111661 TAATTAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
3 3 0.07
4 40 0.89
5 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:111640 original size:16 final size:16
Alignment explanation
Indices: 111601--111660 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
111591 AACAAATAAC
*
111601 AAATAAATAAATGAGAG
1 AAATAAATAAAT-AGAT
*
111618 AAA-AAATAAATATAT
1 AAATAAATAAATAGAT
111633 AAATAAATAAATAGAT
1 AAATAAATAAATAGAT
*
111649 AAATTAATAAAT
1 AAATAAATAAAT
111661 TAATTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 5 0.13
16 30 0.79
17 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (16 bp):
AAATAAATAAATAGAT
Found at i:111665 original size:12 final size:12
Alignment explanation
Indices: 111621--111667 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
111611 ATGAGAGAAA
111621 AAATAAA-TATAT
1 AAATAAATTA-AT
*
111633 AAATAAATAAAT
1 AAATAAATTAAT
*
111645 AGATAAATTAAT
1 AAATAAATTAAT
*
111657 AAATTAATTAA
1 AAATAAATTAA
111668 AAACATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 28 0.97
13 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:111768 original size:71 final size:75
Alignment explanation
Indices: 111680--111844 Score: 232
Period size: 71 Copynumber: 2.2 Consensus size: 75
111670 ACATTTTTAA
*
111680 AAAAAATAATTTTCAAAACCACATAACATA-TATTTTTAAAAAA-AAATTTCAAAACTATAT-A-
1 AAAAACTAATTTTCAAAACCACATAACATACT-TTTTTAAAAAACAAATTTCAAAACTATATAAT
111741 ATATAT-TTTT
65 ATATATATTTT
* * * *
111751 AAAAACTAATTTTCAAAACTATATAATATACTTTTTTAAAAAACTAATTTTCAAAACTATATAAT
1 AAAAACTAATTTTCAAAACCACATAACATACTTTTTTAAAAAAC-AAATTTCAAAACTATATAAT
111816 ATATATATTTT
65 ATATATATTTT
111827 AAAAACTAATTTTCAAAA
1 AAAAACTAATTTTCAAAA
111845 TTATATAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
71 37 0.45
72 1 0.01
73 16 0.19
74 1 0.01
75 6 0.07
76 22 0.27
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (75 bp):
AAAAACTAATTTTCAAAACCACATAACATACTTTTTTAAAAAACAAATTTCAAAACTATATAATA
TATATATTTT
Found at i:111802 original size:38 final size:36
Alignment explanation
Indices: 111680--112007 Score: 266
Period size: 36 Copynumber: 9.1 Consensus size: 36
111670 ACATTTTTAA
* * * *
111680 AAAAAATAATTTTCAAAACCACATAACATATATTTTT
1 AAAAACTAATTTTCAAAACTATATAATATAT-TTTTT
* *
111717 AAAAA-AAAATTTCAAAACTATATAATATA-TTTTT
1 AAAAACTAATTTTCAAAACTATATAATATATTTTTT
111751 AAAAACTAATTTTCAAAACTATATAATATACTTTTTT
1 AAAAACTAATTTTCAAAACTATATAATATA-TTTTTT
111788 AAAAAACTAATTTTCAAAACTATATAATATATATATTTT
1 -AAAAACTAATTTTCAAAACTATATAATATAT-T-TTTT
* *
111827 AAAAACTAATTTTCAAAATTATATAATATA-TATTT
1 AAAAACTAATTTTCAAAACTATATAATATATTTTTT
* *
111862 AGAAACTAATTTTCAAAA-T-TAT-ATATACGTTTTT
1 AAAAACTAATTTTCAAAACTATATAATATA-TTTTTT
* * * * *
111896 CAAAA-T-GTTTTTAAAAGCTATATATTATATATATTT
1 AAAAACTAATTTTCAAAA-CTATATAATATAT-TTTTT
* * *
111932 AAAAA--AAGTTTTCAAAACAATATAATATGTATTTTC
1 AAAAACTAA-TTTTCAAAACTATATAATATAT-TTTTT
* * * *
111968 AAAAA-T-GTTTTCAAAAATTATATATTATATATTTT
1 AAAAACTAATTTTC-AAAACTATATAATATATTTTTT
*
112003 CAAAA
1 AAAAA
112008 TATTTAAAAA
Statistics
Matches: 240, Mismatches: 34, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
32 13 0.05
33 4 0.02
34 19 0.08
35 57 0.24
36 64 0.27
37 19 0.08
38 60 0.25
39 4 0.02
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (36 bp):
AAAAACTAATTTTCAAAACTATATAATATATTTTTT
Found at i:112021 original size:72 final size:72
Alignment explanation
Indices: 111892--112061 Score: 179
Period size: 72 Copynumber: 2.4 Consensus size: 72
111882 ATATATACGT
* * **
111892 TTTTCAAAATGTTTTTAAAAGCTATATATTATATATATTTAAAAAAAGTTTTCAAAACAATATAA
1 TTTTCAAAATGTTTTCAAAAACTATATATTATATATATTTAAAAAAAGTTTAAAAAACAATATAA
*
111957 TATGT-A
66 TATATAA
* * * *
111963 TTTTCAAAAATGTTTTCAAAAATTATATATTATATAT-TTTCAAAATA-TTTAAAAAAAACCATA
1 TTTTC-AAAATGTTTTCAAAAACTATATATTATATATATTTAAAAAAAGTTT--AAAAAACAATA
*
112026 TATTATATAA
63 TAATATATAA
*
112036 TTTTCAAAATGATTTC--AAACTATATA
1 TTTTCAAAATGTTTTCAAAAACTATATA
112062 AAAAAATGGA
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
70 12 0.14
71 13 0.16
72 52 0.63
73 6 0.07
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (72 bp):
TTTTCAAAATGTTTTCAAAAACTATATATTATATATATTTAAAAAAAGTTTAAAAAACAATATAA
TATATAA
Found at i:112826 original size:84 final size:84
Alignment explanation
Indices: 112705--113406 Score: 789
Period size: 84 Copynumber: 8.4 Consensus size: 84
112695 AGGTCTTTAG
* * * * *
112705 CAGATAACCTTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGGAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
*
112770 CTCGAAGGTCTTTTGGTCA
66 CTCAAAGGTCTTTTGGTCA
* * * * *
112789 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAATCGA
**
112853 ACTCAAAGGTC-TTTGGTTGG
65 ACTCAAAGGTCTTTTGG-TCA
* * *
112873 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAATCGA
***
112938 ACTCGGGGGTC-TTTGG---
65 ACTCAAAGGTCTTTTGGTCA
* * * *
112954 CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
113019 CTCAAAGGTCTTTTGGTCA
66 CTCAAAGGTCTTTTGGTCA
* * * * * *
113038 CAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAATCGA
* * **
113102 ACTCAAAGGTCTTTAGTTGG
65 ACTCAAAGGTCTTTTGGTCA
* * *
113122 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAATCGA
***
113187 ACTCGGGGGTC-TTTGG---
65 ACTCAAAGGTCTTTTGGTCA
* * * *
113203 CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
113268 CTCAAAGGTCTTTTGGTCA
66 CTCAAAGGTCTTTTGGTCA
* * * * * *
113287 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGTCGTT-GAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAATCGA
* * **
113351 ACTCAAAGGTCTTTAGTTGG
65 ACTCAAAGGTCTTTTGGTCA
113371 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
113407 AGTTTGTTTA
Statistics
Matches: 515, Mismatches: 87, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
80 52 0.10
81 88 0.17
83 5 0.01
84 310 0.60
85 60 0.12
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (84 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
CTCAAAGGTCTTTTGGTCA
Found at i:112977 original size:249 final size:249
Alignment explanation
Indices: 112682--113406 Score: 1315
Period size: 249 Copynumber: 2.9 Consensus size: 249
112672 AAGTTGAATA
*** * * * * *
112682 TAATCGAACTCAAAGGTCTTTAGCAGATAACCTTTCTTGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
* * * *
112747 CCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAATCAAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
*
112812 TTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGA
131 TTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGCAGA
112877 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
196 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
112931 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
*
112996 CCTTGGAGCTGAGCGTAATCAAACTCAAAGGTCTTTTGGTCACAGATAACCTTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAATCAAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
113061 TTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGCAGA
131 TTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGCAGA
113126 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
196 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
113180 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
113245 CCTTGGAGCTGAGCGTAATCAAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAATCAAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
*
113310 TTATGCTGTAAATGATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGCAGA
131 TTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGCAGA
113375 TAACCCTTCTCGACTTAAGTTATGCTGCAAAT
196 TAACCCTTCTCGACTTAAGTTATGCTGCAAAT
113407 AGTTTGTTTA
Statistics
Matches: 460, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
249 460 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (249 bp):
TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAATCAAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
TTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGTTGGCAGA
TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:116770 original size:19 final size:20
Alignment explanation
Indices: 116748--116787 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
116738 GTGAATGTAG
116748 AGAAAATAAAAAAATG-AAA
1 AGAAAATAAAAAAATGCAAA
116767 AGAAAATAAAAAAATGCAAA
1 AGAAAATAAAAAAATGCAAA
116787 A
1 A
116788 TGTCTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (20 bp):
AGAAAATAAAAAAATGCAAA
Found at i:118532 original size:3 final size:3
Alignment explanation
Indices: 118518--118561 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
118508 AAAAGGAGAA
*
118518 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
118562 ATGAAATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:119713 original size:16 final size:15
Alignment explanation
Indices: 119687--119717 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
119677 ATGTATGACC
119687 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
119702 GGTCAGTCCCGGGATG
1 GGTCA-TCCCGGGATG
119718 CCGGCCGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:119881 original size:4 final size:4
Alignment explanation
Indices: 119872--119939 Score: 84
Period size: 4 Copynumber: 17.0 Consensus size: 4
119862 AACAAATAAC
* *
119872 AAAT AAAT AAAT GAGAG AAA- AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
119920 AAAT AGAT AAAT TAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT
119940 TAATTAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.05
4 50 0.91
5 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:120032 original size:35 final size:35
Alignment explanation
Indices: 119953--120285 Score: 280
Period size: 35 Copynumber: 9.3 Consensus size: 35
119943 TTAAAAACAT
* *
119953 TTTTTAAAAAAATAATTTTCAAAACCACATAACATATA
1 TTTTT-AAAAAATAATTTTCAAAACTATAT-A-ATATA
* *
119991 TTTTTAAAAAAAAAATTTCAAAACTATATAATATA
1 TTTTTAAAAAATAATTTTCAAAACTATATAATATA
*
120026 TTTTTAAAAACTAATTTTCAAAACTATATAATATA
1 TTTTTAAAAAATAATTTTCAAAACTATATAATATA
120061 CTTTTTTAAAAAACTAATTTTCAAAACTATATAATATATA
1 --TTTTTAAAAAA-TAATTTTCAAAACTATAT-A-ATATA
* *
120101 TATTTTAAAAACTAATTTTCAAAATTATATAATATA
1 T-TTTTAAAAAATAATTTTCAAAACTATATAATATA
* * * * **
120137 TATTTAGAAACTAATTTTCAAAATTATAT-ATACG
1 TTTTTAAAAAATAATTTTCAAAACTATATAATATA
* * * *
120171 TTTTT-CAAAAT-GTTTTTAAAAGCTATATATTATA
1 TTTTTAAAAAATAATTTTCAAAA-CTATATAATATA
* * * *
120205 TATTTAAAAAA-AGTTTTCAAAACAATATAATATG
1 TTTTTAAAAAATAATTTTCAAAACTATATAATATA
* * * *
120239 TATTTTCAAAAAT-GTTTTCAAAAATTATATATTATA
1 T-TTTTAAAAAATAATTTTC-AAAACTATATAATATA
*
120275 TATTTTCAAAA
1 T-TTTTAAAAA
120286 TATTTAAAAA
Statistics
Matches: 247, Mismatches: 35, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
32 8 0.03
33 9 0.04
34 23 0.09
35 90 0.36
36 30 0.12
37 31 0.13
38 41 0.17
39 10 0.04
40 5 0.02
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (35 bp):
TTTTTAAAAAATAATTTTCAAAACTATATAATATA
Found at i:120067 original size:111 final size:111
Alignment explanation
Indices: 119952--120166 Score: 324
Period size: 111 Copynumber: 1.9 Consensus size: 111
119942 ATTAAAAACA
119952 TTTTTTAAAAAAATAATTTTCAAAACCACATAACATATAT-TTTTAAAAAAAAAATTTCAAAACT
1 TTTTTTAAAAAAATAATTTTCAAAACCACATAACATATATATTTTAAAAAAAAAATTTCAAAACT
*
120016 ATATAATATATTTTTAAAAACTAATTTTCAAAACTATATAATATAC
66 ATATAATATATATTTAAAAACTAATTTTCAAAACTATATAATATAC
* * * * ** * *
120062 TTTTTTAAAAAACTAATTTTCAAAACTATATAATATATATATTTTAAAAACTAATTTTCAAAATT
1 TTTTTTAAAAAAATAATTTTCAAAACCACATAACATATATATTTTAAAAAAAAAATTTCAAAACT
* *
120127 ATATAATATATATTTAGAAACTAATTTTCAAAATTATATA
66 ATATAATATATATTTAAAAACTAATTTTCAAAACTATATA
120167 TACGTTTTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 36 0.39
111 57 0.61
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.41
Consensus pattern (111 bp):
TTTTTTAAAAAAATAATTTTCAAAACCACATAACATATATATTTTAAAAAAAAAATTTCAAAACT
ATATAATATATATTTAAAAACTAATTTTCAAAACTATATAATATAC
Found at i:120286 original size:35 final size:35
Alignment explanation
Indices: 120006--120339 Score: 177
Period size: 35 Copynumber: 9.5 Consensus size: 35
119996 AAAAAAAAAA
* * *
120006 TTTC-AAAACTATATAATATAT-TTTTAAAAACTAAT
1 TTTCAAAAACTATATATTATATATTTTCAAAA-T-GT
* * * *
120041 TTTC-AAAACTATATAATATACTTTTTTAAAAAACTAAT
1 TTTCAAAAACTATATATTATA-TATTTT-CAAAA-T-GT
* *
120079 TTTC-AAAACTATATAATATATATATTTTAAAAACTAAT
1 TTTCAAAAACTATAT-AT-TATATATTTTCAAAA-T-GT
* * ** * *
120117 TTTC-AAAATTATATAATATATATTTAGAAACTAAT
1 TTTCAAAAACTATATATTATATATTTTCAAAAT-GT
* **
120152 TTTC-AAAATTATATA-TACGT-TTTTCAAAATGT
1 TTTCAAAAACTATATATTATATATTTTCAAAATGT
* * ** *
120184 TTTTAAAAGCTATATATTATATATTTAAAAAAAGT
1 TTTCAAAAACTATATATTATATATTTTCAAAATGT
* * *
120219 TTTC-AAAACAATATAATATGTATTTTCAAAAATGT
1 TTTCAAAAACTATATATTATATATTTTC-AAAATGT
* *
120254 TTTCAAAAATTATATATTATATATTTTCAAAATAT
1 TTTCAAAAACTATATATTATATATTTTCAAAATGT
** * *
120289 TTAAAAAAAACCATATATTATATAATTTTCAAAATGA
1 TT-TCAAAAACTATATATTATAT-ATTTTCAAAATGT
120326 TTTC--AAACTATATA
1 TTTCAAAAACTATATA
120340 AAAAAAATGG
Statistics
Matches: 244, Mismatches: 43, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
32 4 0.02
33 16 0.07
34 32 0.13
35 69 0.28
36 48 0.20
37 18 0.07
38 47 0.19
39 6 0.02
40 4 0.02
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (35 bp):
TTTCAAAAACTATATATTATATATTTTCAAAATGT
Found at i:121324 original size:26 final size:24
Alignment explanation
Indices: 121299--121379 Score: 63
Period size: 26 Copynumber: 3.2 Consensus size: 24
121289 ACTCTCACCT
121299 TAAAAATCCCTAAACCACTTTAACC
1 TAAAAAT-CCTAAACCACTTTAACC
* ** *
121324 TACAAAATTCTTCACCACTTTCACC
1 TA-AAAATCCTAAACCACTTTAACC
* * *
121349 TTAACAAATCATATACCATTTTAACC
1 -TAA-AAATCCTAAACCACTTTAACC
121375 TAAAA
1 TAAAA
121380 TCACTCAAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
24 2 0.05
25 19 0.44
26 22 0.51
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAAAATCCTAAACCACTTTAACC
Found at i:131585 original size:27 final size:26
Alignment explanation
Indices: 131517--131585 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
131507 TAAATTCTTG
*
131517 ATTTTTATAATATT-AAAATTTATTAA
1 ATTTTT-TAATATTAAAAAATTATTAA
* *
131543 ATAGTTTTAATAATTAAAGAAATTATTAT
1 AT-TTTTTAAT-ATTAAA-AAATTATTAA
131572 ATTTTTTAATATTA
1 ATTTTTTAATATTA
131586 TGAGTTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
26 6 0.17
27 10 0.29
28 9 0.26
29 10 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
ATTTTTTAATATTAAAAAATTATTAA
Found at i:131661 original size:19 final size:19
Alignment explanation
Indices: 131618--131661 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
131608 TAACGTGTAT
* *
131618 ATTTATTAATAACTAAAAA
1 ATTTATGAATAAATAAAAA
*
131637 AATTATGAATAAATAAAAA
1 ATTTATGAATAAATAAAAA
*
131656 CTTTAT
1 ATTTAT
131662 AATCGTGCAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTTATGAATAAATAAAAA
Found at i:133557 original size:3 final size:3
Alignment explanation
Indices: 133549--133578 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
133539 TAATGATCAA
133549 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
133579 TGTGCTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:136601 original size:3 final size:3
Alignment explanation
Indices: 136595--136693 Score: 135
Period size: 3 Copynumber: 32.7 Consensus size: 3
136585 TTTTTACCCA
* ** *
136595 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
136643 TAT TAT CAT TAT TAT TAT TAT TAT TAT TATT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
136689 TAT TA
1 TAT TA
136694 AATATATTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 80 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:149483 original size:12 final size:11
Alignment explanation
Indices: 149468--149544 Score: 82
Period size: 12 Copynumber: 6.5 Consensus size: 11
149458 GCTTGAAGAG
149468 AAAAAAGAAGAA
1 AAAAAAGAA-AA
*
149480 AAAAGAGAAAA
1 AAAAAAGAAAA
149491 AAAAATAGAAAA
1 AAAAA-AGAAAA
*
149503 TGAAAAAGAAAA
1 -AAAAAAGAAAA
149515 AAAAAAGAAGAA
1 AAAAAAGAA-AA
*
149527 AAAAAGGAAAA
1 AAAAAAGAAAA
149538 AAGAAAA
1 AA-AAAA
149545 AGGGGGTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
11 18 0.33
12 33 0.60
13 4 0.07
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:149485 original size:19 final size:18
Alignment explanation
Indices: 149463--149545 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 18
149453 ATTATGCTTG
149463 AAGAGAAAAAAGAAGAAAA
1 AAGAGAAAAAA-AAGAAAA
149482 AAGAGAAAAAAAA-ATAGAA
1 AAGAGAAAAAAAAGA-A-AA
149501 AATGA-AAAAGAAAA-AAAA
1 AA-GAGAAAA-AAAAGAAAA
*
149519 AAGAAGAAAAAAAGGAAAA
1 AAG-AGAAAAAAAAGAAAA
149538 AAGA-AAAA
1 AAGAGAAAA
149546 GGGGGTCAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
17 6 0.11
18 12 0.21
19 31 0.55
20 7 0.12
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (18 bp):
AAGAGAAAAAAAAGAAAA
Found at i:149508 original size:14 final size:12
Alignment explanation
Indices: 149468--149539 Score: 71
Period size: 11 Copynumber: 6.2 Consensus size: 12
149458 GCTTGAAGAG
*
149468 AAAAA-AGAAGA
1 AAAAAGAGAAAA
149479 AAAAAGAGAAAA
1 AAAAAGAGAAAA
*
149491 AAAAATAGAAAA
1 AAAAAGAGAAAA
149503 TGAAAAAGA-AAAA
1 --AAAAAGAGAAAA
*
149516 AAAAAGA-AGAA
1 AAAAAGAGAAAA
149527 AAAAAG-GAAAA
1 AAAAAGAGAAAA
149538 AA
1 AA
149540 GAAAAAGGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
11 26 0.50
12 16 0.31
13 4 0.08
14 6 0.12
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:149514 original size:23 final size:22
Alignment explanation
Indices: 149468--149544 Score: 93
Period size: 24 Copynumber: 3.3 Consensus size: 22
149458 GCTTGAAGAG
149468 AAAAAAGAAGAAAAAAGAGAAAA
1 AAAAAAGAAGAAAAAA-AGAAAA
149491 AAAAATAGAA-AATGAAAAAGAAAA
1 AAAAA-AGAAGAA--AAAAAGAAAA
149515 AAAAAAGAAGAAAAAAAGGAAAA
1 AAAAAAGAAGAAAAAAA-GAAAA
149538 AAGAAAA
1 AA-AAAA
149545 AGGGGGTCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
22 5 0.10
23 18 0.38
24 21 0.44
25 4 0.08
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (22 bp):
AAAAAAGAAGAAAAAAAGAAAA
Found at i:149516 original size:26 final size:26
Alignment explanation
Indices: 149479--149528 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
149469 AAAAAGAAGA
*
149479 AAAAAGAGAAAAAAAAA-TAGAAAATG
1 AAAAAGA-AAAAAAAAAGAAGAAAATG
149505 AAAAAGAAAAAAAAAAGAAGAAAA
1 AAAAAGAAAAAAAAAAGAAGAAAA
149529 AAAGGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (26 bp):
AAAAAGAAAAAAAAAAGAAGAAAATG
Found at i:149544 original size:36 final size:36
Alignment explanation
Indices: 149469--149546 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
149459 CTTGAAGAGA
* * *
149469 AAAAAGAAGAAAAAAGAGAAAAAAAAATAGAAAATG
1 AAAAAGAAGAAAAAAAAGAAAAAAAAAGAGAAAAAG
149505 AAAAAGAA-AAAAAAAAGAAGAAAAAAAG-GAAAAAAG
1 AAAAAGAAGAAAAAAAAGAA-AAAAAAAGAG-AAAAAG
149541 AAAAAG
1 AAAAAG
149547 GGGGTCAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 11 0.30
36 26 0.70
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (36 bp):
AAAAAGAAGAAAAAAAAGAAAAAAAAAGAGAAAAAG
Found at i:150810 original size:83 final size:82
Alignment explanation
Indices: 150671--151096 Score: 699
Period size: 82 Copynumber: 5.2 Consensus size: 82
150661 AAACATTAAA
150671 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
150736 AGAACCAATCATTGAATT
66 AGAA-CAATCATTGAATT
*
150754 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAGC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
150819 AGAACAATCATTGAATT
66 AGAACAATCATTGAATT
* * * * * *
150836 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCGTTGAGTTATTTGATCTGATTTAAC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
150901 AGAACCAATCATTGAATT
66 AGAA-CAATCATTGAATT
**
150919 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTGGAC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
150984 AGAACAATCATTGAATT
66 AGAACAATCATTGAATT
* * ** **
151001 TGGAAGATGAATTTGCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATTTGGTTGGAC
1 TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
151066 AGAACAATCATTGAATT
66 AGAACAATCATTGAATT
151083 TGGAAGATGAATTT
1 TGGAAGATGAATTT
151097 GCTCATAGTA
Statistics
Matches: 322, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
82 180 0.56
83 142 0.44
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (82 bp):
TGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAAC
AGAACAATCATTGAATT
Found at i:150945 original size:165 final size:165
Alignment explanation
Indices: 150673--151096 Score: 726
Period size: 165 Copynumber: 2.6 Consensus size: 165
150663 ACATTAAATG
* *
150673 GAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTTAACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAG
150738 AACCAATCATTGAATTTGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
66 AACCAATCATTGAATTTGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
150803 TCTGACCTGGTTTAG-CAGAACAATCATTGAATTTA
131 TCTGACCTGG-TTAGACAGAACAATCATTGAATTTA
* * *
150838 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCGTTGAGTTATTTGATCTGATTTAACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAG
150903 AACCAATCATTGAATTTGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
66 AACCAATCATTGAATTTGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
* *
150968 TCTGACCTGGTTGGACAGAACAATCATTGAATTTG
131 TCTGACCTGGTTAGACAGAACAATCATTGAATTTA
* * **
151003 GAAGATGAATTTGCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATTTGGTTGGACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAG
151068 AA-CAATCATTGAATTTGGAAGATGAATTT
66 AACCAATCATTGAATTTGGAAGATGAATTT
151097 GCTCATAGTA
Statistics
Matches: 244, Mismatches: 14, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
164 30 0.12
165 214 0.88
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (165 bp):
GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAG
AACCAATCATTGAATTTGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
TCTGACCTGGTTAGACAGAACAATCATTGAATTTA
Found at i:151916 original size:113 final size:113
Alignment explanation
Indices: 151719--152484 Score: 1186
Period size: 113 Copynumber: 6.8 Consensus size: 113
151709 GATTCAAATC
* * *
151719 CATCACTTGATGGAGCAGCTTTT-CCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCA-TTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
151782 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
65 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
* * *
151831 CATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
151896 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
66 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
* * *
151944 CATCATTTGATGGAGCAGCTTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCA-TTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
152008 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
65 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
* * *
152057 CATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
152122 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATC
66 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
*
152170 CATCATTTGGTGGATCATCTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCAT-TTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * *
152234 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
65 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
***
152283 CATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATTTTTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * *
152347 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATT
65 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
***
152396 CATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCATTTTTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
152460 AAGAA-AAAGTTCATAATGAGAAGAA
65 AAGAAGAAA-TTCATAATGAGAAGAA
152485 CTCATCAAGA
Statistics
Matches: 618, Mismatches: 28, Indels: 15
0.93 0.04 0.02
Matches are distributed among these distances:
111 4 0.01
112 30 0.05
113 576 0.93
114 8 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCATTTGATGGATCATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
Found at i:152743 original size:3 final size:3
Alignment explanation
Indices: 152737--152830 Score: 127
Period size: 3 Copynumber: 31.7 Consensus size: 3
152727 TTTTTACCCA
* ** *
152737 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
152785 TAT CA- TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
152831 AATATATTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
2 1 0.01
3 77 0.99
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:155371 original size:27 final size:27
Alignment explanation
Indices: 155333--155388 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
155323 AATATCTAAA
155333 CAGTTTAAACCATCCTGCTTAGAATAT
1 CAGTTTAAACCATCCTGCTTAGAATAT
155360 CAGTTTAAACCATCCTGCTTAGAATAT
1 CAGTTTAAACCATCCTGCTTAGAATAT
155387 CA
1 CA
155389 TAGGTATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (27 bp):
CAGTTTAAACCATCCTGCTTAGAATAT
Found at i:166196 original size:17 final size:19
Alignment explanation
Indices: 166165--166201 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
166155 GGACTTCATC
166165 AAAAAATTATCATTT-AAT
1 AAAAAATTATCATTTGAAT
*
166183 AAAAAA-TATTATTTGAAT
1 AAAAAATTATCATTTGAAT
166201 A
1 A
166202 TTTTTTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAAATTATCATTTGAAT
Found at i:168105 original size:19 final size:21
Alignment explanation
Indices: 168064--168105 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
168054 GTTTGTTTTA
*
168064 TTTAGGTTATATATTAGGTTT
1 TTTAGGTTATATATTAAGTTT
168085 TTTAGGTTA-ATA-TAAGTTT
1 TTTAGGTTATATATTAAGTTT
168104 TT
1 TT
168106 AGTCCTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (21 bp):
TTTAGGTTATATATTAAGTTT
Done.