Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 83 of 343
Found at i:27451491 original size:47 final size:47
Alignment explanation
Indices: 27451429--27451550 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
27451419 GCATTAGCAC
*
27451429 TAAGACAAGGTTACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
27451476 TAAGACAAGGATACCATGTAAGATCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
27451523 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
27451551 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:27451658 original size:55 final size:54
Alignment explanation
Indices: 27451529--27451722 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
27451519 TTGGTAAGAT
* *
27451529 AAGGATATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTTCTATAAGGC
* * *
27451583 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTT-CTATAAGGC
* * * * * *
27451638 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCACTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTTCTATAAGGC
* *
27451691 AAGGATACCACGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
27451723 GCAATGGTAA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 43 0.36
55 40 0.33
56 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACATTGATAAGTTCTATAAGGC
Found at i:27451734 original size:108 final size:109
Alignment explanation
Indices: 27451537--27451735 Score: 301
Period size: 108 Copynumber: 1.8 Consensus size: 109
27451527 ATAAGGATAT
* * *
27451537 CATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGACACTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
27451602 ATGTCAAGACATGACATTGATAAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTCC
* * * *
27451646 CATGTAAGACCATGCCAAGGCATGGCACTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGACACTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* *
27451710 ATGTCAAGACATGGCAATGGTAAGTT
66 ATGTCAAGACATGACAATGATAAGTT
27451736 TAGAAAGGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 46 0.57
109 34 0.43
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGACACTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:27455820 original size:29 final size:29
Alignment explanation
Indices: 27455734--27455848 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
27455724 TACCTGTATC
* * * *
27455734 TGGCCCACTAAGCCC-AATCATATTCATT
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
27455762 TGGCCCATTAGACCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
27455791 TGGCCCATTAGGCCCAAATCACATTGATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
27455820 TGGCTCAATAGG-CCAAGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
27455848 T
1 T
27455849 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 28 0.39
29 43 0.60
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:27457228 original size:8 final size:8
Alignment explanation
Indices: 27457212--27457262 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
27457202 ATAAAGAAAA
27457212 TTTGGGAT
1 TTTGGGAT
*
27457220 TTCGGGAT
1 TTTGGGAT
*
27457228 TTTTGGAT
1 TTTGGGAT
*
27457236 TTTAGGAT
1 TTTGGGAT
*
27457244 TTTTGGAT
1 TTTGGGAT
*
27457252 TTCGGGAT
1 TTTGGGAT
27457260 TTT
1 TTT
27457263 TGGGGCATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.14, C:0.04, G:0.29, T:0.53
Consensus pattern (8 bp):
TTTGGGAT
Found at i:27457237 original size:16 final size:16
Alignment explanation
Indices: 27457216--27457265 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
27457206 AGAAAATTTG
27457216 GGATTTCGGGATTTTT
1 GGATTTCGGGATTTTT
**
27457232 GGATTTTAGGATTTTT
1 GGATTTCGGGATTTTT
27457248 GGATTTCGGGATTTTT
1 GGATTTCGGGATTTTT
27457264 GG
1 GG
27457266 GGCATTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.14, C:0.04, G:0.32, T:0.50
Consensus pattern (16 bp):
GGATTTCGGGATTTTT
Found at i:27462574 original size:29 final size:29
Alignment explanation
Indices: 27462537--27462613 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
27462527 AACCATATTC
* *
27462537 ATATGGCCCATTAGTCCCAAATCACCTAT
1 ATATGGCCCATTAGGCCCAAATCACATAT
*
27462566 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATAT
*
27462595 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
27462614 GTCACATTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATAT
Found at i:27463994 original size:16 final size:16
Alignment explanation
Indices: 27463973--27464016 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
27463963 GAAAATTTGG
27463973 GATTTCGGGATTTTTA
1 GATTTCGGGATTTTTA
* * *
27463989 GATTTCAGGACTTTTG
1 GATTTCGGGATTTTTA
*
27464005 GATTTCGAGATT
1 GATTTCGGGATT
27464017 CTTGGGGCGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.25, T:0.45
Consensus pattern (16 bp):
GATTTCGGGATTTTTA
Found at i:27464152 original size:16 final size:16
Alignment explanation
Indices: 27464131--27464163 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27464121 AAGTAGCCTC
27464131 CTCAACCTTGGGATTA
1 CTCAACCTTGGGATTA
27464147 CTCAACCTTGGGATTA
1 CTCAACCTTGGGATTA
27464163 C
1 C
27464164 GCCAAAGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (16 bp):
CTCAACCTTGGGATTA
Found at i:27469340 original size:29 final size:29
Alignment explanation
Indices: 27469303--27469385 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
27469293 AACCATATTC
* *
27469303 ATATGGCCCATTAGGTCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
27469332 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
27469361 ATATGG-CCGTTAGGCCC-AATCACAT
1 ATATGGCCCATTAGGCCCAAATCACAT
27469386 TCATATTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.16
28 10 0.20
29 32 0.64
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:27469629 original size:24 final size:24
Alignment explanation
Indices: 27469602--27469652 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
27469592 GTAGCCAAAC
*
27469602 TTTCGACTTTTCGGCATTTTGGCT
1 TTTCGACTTTTCGGCATTTCGGCT
*
27469626 TTTCGCCTTTTCGGCATTTCGGCT
1 TTTCGACTTTTCGGCATTTCGGCT
27469650 TTT
1 TTT
27469653 GCCGATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.06, C:0.24, G:0.20, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCGGCATTTCGGCT
Found at i:27469637 original size:8 final size:8
Alignment explanation
Indices: 27469602--27469652 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
27469592 GTAGCCAAAC
*
27469602 TTTCGACT
1 TTTCGGCT
27469610 TTTCGGCAT
1 TTTCGGC-T
27469619 TTT-GGCT
1 TTTCGGCT
*
27469626 TTTCGCCT
1 TTTCGGCT
*
27469634 TTTCGGCA
1 TTTCGGCT
27469642 TTTCGGCT
1 TTTCGGCT
27469650 TTT
1 TTT
27469653 GCCGATACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 4 0.11
8 28 0.78
9 4 0.11
ACGTcount: A:0.06, C:0.24, G:0.20, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:27470605 original size:12 final size:12
Alignment explanation
Indices: 27470588--27470622 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
27470578 ATTGGGCTTT
27470588 TGTGTCCAAATA
1 TGTGTCCAAATA
27470600 TGTGTCACCAAATA
1 TGTGT--CCAAATA
27470614 TGTGTCCAA
1 TGTGTCCAA
27470623 GTGGTTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.43
14 12 0.57
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (12 bp):
TGTGTCCAAATA
Found at i:27470612 original size:14 final size:14
Alignment explanation
Indices: 27470593--27470619 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27470583 GCTTTTGTGT
27470593 CCAAATATGTGTCA
1 CCAAATATGTGTCA
27470607 CCAAATATGTGTC
1 CCAAATATGTGTC
27470620 CAAGTGGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CCAAATATGTGTCA
Found at i:27472145 original size:9 final size:8
Alignment explanation
Indices: 27472112--27472141 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
27472102 GAAAATTCAA
*
27472112 GATTTTGA
1 GATTTTGG
27472120 GATTTTGG
1 GATTTTGG
27472128 GATTTTGG
1 GATTTTGG
27472136 GATTTT
1 GATTTT
27472142 TGGGGCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (8 bp):
GATTTTGG
Found at i:27473732 original size:15 final size:15
Alignment explanation
Indices: 27473709--27473739 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27473699 TCCAAAATTC
27473709 CAATACAAAACATAT
1 CAATACAAAACATAT
*
27473724 CAATCCAAAACATAT
1 CAATACAAAACATAT
27473739 C
1 C
27473740 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:27479599 original size:28 final size:28
Alignment explanation
Indices: 27479575--27479649 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
27479565 AATATGGAAA
*
27479575 TTAGTGTGCGAAATATTGAGAATGGCAC
1 TTAGTGTGCAAAATATTGAGAATGGCAC
* * *
27479603 TTAGGGTGCCAGATATTGAGAATGGCAC
1 TTAGTGTGCAAAATATTGAGAATGGCAC
27479631 TTAGTGTGCAAAATATTGA
1 TTAGTGTGCAAAATATTGA
27479650 ATGATTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (28 bp):
TTAGTGTGCAAAATATTGAGAATGGCAC
Found at i:27484514 original size:40 final size:40
Alignment explanation
Indices: 27484450--27484528 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
27484440 ATACGGTACC
* *
27484450 ACTTGGTGTGTAGGGTTGGATGGGTTGATTCTATCCCCAT
1 ACTTGGTGTGTAGGGTAGGATGGGTCGATTCTATCCCCAT
*
27484490 ACTTGGTGTGTAGGGCTAGG-TGGGTCGATTTTATCCCCA
1 ACTTGGTGTGTAGGG-TAGGATGGGTCGATTCTATCCCCA
27484529 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 32 0.91
41 3 0.09
ACGTcount: A:0.15, C:0.16, G:0.33, T:0.35
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGTAGGATGGGTCGATTCTATCCCCAT
Found at i:27487432 original size:48 final size:48
Alignment explanation
Indices: 27487361--27487462 Score: 177
Period size: 48 Copynumber: 2.1 Consensus size: 48
27487351 TTTCGAATGA
* * *
27487361 TATGAGTAAAGTTCTGACATGAAATAATCTGAACTCGAGATGAACTAT
1 TATGAATAAAGTTCAGACATGAAATAATCTGAACTCGAGATAAACTAT
27487409 TATGAATAAAGTTCAGACATGAAATAATCTGAACTCGAGATAAACTAT
1 TATGAATAAAGTTCAGACATGAAATAATCTGAACTCGAGATAAACTAT
27487457 TATGAA
1 TATGAA
27487463 GTTATACTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (48 bp):
TATGAATAAAGTTCAGACATGAAATAATCTGAACTCGAGATAAACTAT
Found at i:27493450 original size:23 final size:23
Alignment explanation
Indices: 27493422--27493476 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
27493412 ACCACTCTTT
* *
27493422 CTCTTTCTCCT-TCCATTTTTCTC
1 CTCTTTCTCCTCTCC-TTTATCCC
*
27493445 CTCTTTTTCCTCTCCTTTATCCC
1 CTCTTTCTCCTCTCCTTTATCCC
27493468 CT-TTTCTCC
1 CTCTTTCTCC
27493477 CCTTGCGCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.22
23 18 0.67
24 3 0.11
ACGTcount: A:0.04, C:0.42, G:0.00, T:0.55
Consensus pattern (23 bp):
CTCTTTCTCCTCTCCTTTATCCC
Found at i:27495150 original size:14 final size:14
Alignment explanation
Indices: 27495133--27495163 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27495123 CTGTTATTTA
*
27495133 TTATTTTTATGTTT
1 TTATTTTTATCTTT
27495147 TTATTTTTATCTTT
1 TTATTTTTATCTTT
27495161 TTA
1 TTA
27495164 AAACTACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
TTATTTTTATCTTT
Found at i:27505879 original size:46 final size:46
Alignment explanation
Indices: 27505829--27506001 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
27505819 TTGAGCATCT
27505829 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
27505875 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
27505922 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
27505968 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27506002 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:27505982 original size:93 final size:93
Alignment explanation
Indices: 27505823--27505993 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
27505813 GGATGGTTGA
* * *
27505823 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27505888 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
27505916 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27505981 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27505994 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:27508188 original size:46 final size:46
Alignment explanation
Indices: 27508138--27508313 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
27508128 TGGTTGAGCA
*
27508138 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27508184 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
27508229 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
27508277 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27508314 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27508294 original size:93 final size:93
Alignment explanation
Indices: 27508135--27508305 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
27508125 GGATGGTTGA
27508135 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
27508200 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
27508228 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
27508292 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
27508306 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:27513702 original size:40 final size:40
Alignment explanation
Indices: 27513638--27513739 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
27513628 AATTATTGAA
** *
27513638 TGATTGCACTTGTGTGCCCCTGTTTGTACTTCAGTACCGC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTACCCC
* * * *
27513678 TGATTGCACTTACGTGTCCTTGTTTGTATTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTACCCC
*
27513718 TGGTTGCACTT-CTGTGCCCCTG
1 TGATTGCACTTAC-GTGCCCCTG
27513740 GTTATACTCC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.02
40 50 0.98
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTACCCC
Found at i:27513739 original size:20 final size:20
Alignment explanation
Indices: 27513641--27513742 Score: 62
Period size: 20 Copynumber: 5.1 Consensus size: 20
27513631 TATTGAATGA
* *
27513641 TTGCACTTGTGTGCCCCTGT
1 TTGCACTTCTGTGCCCCTGG
* * * * *
27513661 TTGTACTTCAGTACCGCTGA
1 TTGCACTTCTGTGCCCCTGG
* * *
27513681 TTGCACTTAC-GTGTCCTTGT
1 TTGCACTT-CTGTGCCCCTGG
* * * *
27513701 TTGTATTTCGGTACCCCTGG
1 TTGCACTTCTGTGCCCCTGG
27513721 TTGCACTTCTGTGCCCCTGG
1 TTGCACTTCTGTGCCCCTGG
27513741 TT
1 TT
27513743 ATACTCCGCT
Statistics
Matches: 58, Mismatches: 22, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
19 1 0.02
20 56 0.97
21 1 0.02
ACGTcount: A:0.10, C:0.27, G:0.23, T:0.40
Consensus pattern (20 bp):
TTGCACTTCTGTGCCCCTGG
Found at i:27520010 original size:16 final size:16
Alignment explanation
Indices: 27519989--27520022 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
27519979 TAAGGGAGAG
27519989 TTCAATCATGGTACTT
1 TTCAATCATGGTACTT
27520005 TTCAATCATGGTACTT
1 TTCAATCATGGTACTT
27520021 TT
1 TT
27520023 AGTATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (16 bp):
TTCAATCATGGTACTT
Found at i:27521617 original size:29 final size:29
Alignment explanation
Indices: 27521575--27521645 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
27521565 TATTTGGGCC
*
27521575 TGTGGGCCACACGAACGTATGTCAGGCTA
1 TGTGGTCCACACGAACGTATGTCAGGCTA
*
27521604 TGTGGTCCACACGAACGTGTGTCAGGCTA
1 TGTGGTCCACACGAACGTATGTCAGGCTA
27521633 TGTGGGT-CACACG
1 TGT-GGTCCACACG
27521646 GGCTTTTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (29 bp):
TGTGGTCCACACGAACGTATGTCAGGCTA
Found at i:27522279 original size:30 final size:30
Alignment explanation
Indices: 27522225--27522293 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
27522215 GGGGGTAGGA
* **
27522225 TCTGAATCTGCATTTGTAGTTGATTCTGTT
1 TCTGAGTCTGCATTTGTAACTGATTCTGTT
* *
27522255 TCTGAGTCTGCTTTTGTAACTGATTTTGTT
1 TCTGAGTCTGCATTTGTAACTGATTCTGTT
27522285 T-TCGAGTCT
1 TCT-GAGTCT
27522294 AAACTGTATC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.51
Consensus pattern (30 bp):
TCTGAGTCTGCATTTGTAACTGATTCTGTT
Found at i:27523012 original size:21 final size:21
Alignment explanation
Indices: 27522987--27523032 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27522977 ACAAAATTAA
27522987 AATTGGG-TTAAAAAATAATTT
1 AATTGGGATT-AAAAATAATTT
*
27523008 AATTGGGATTAAAATTAATTT
1 AATTGGGATTAAAAATAATTT
27523029 AATT
1 AATT
27523033 AGAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
AATTGGGATTAAAAATAATTT
Found at i:27523580 original size:26 final size:26
Alignment explanation
Indices: 27523544--27523593 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
27523534 TCCAAACATT
27523544 TTTTTGGTTGTATATCGTGGTTATTG
1 TTTTTGGTTGTATATCGTGGTTATTG
*
27523570 TTTTTGGTTGTATATTGTGGTTAT
1 TTTTTGGTTGTATATCGTGGTTAT
27523594 CCTTGGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.02, G:0.26, T:0.60
Consensus pattern (26 bp):
TTTTTGGTTGTATATCGTGGTTATTG
Found at i:27525699 original size:16 final size:16
Alignment explanation
Indices: 27525680--27525756 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
27525670 TCGTGTCCAT
27525680 AAAAATTCAAACTTAA
1 AAAAATTCAAACTTAA
* **
27525696 AAAAGTTTC-AACCCAA
1 AAAA-ATTCAAACTTAA
*
27525712 AAAAATTCAAAGTTGAA
1 AAAAATTCAAACTT-AA
27525729 AAAAATAT-AAA-TCTAA
1 AAAAAT-TCAAACT-TAA
27525745 AAAAATTCAAAC
1 AAAAATTCAAAC
27525757 ACGAGAACGT
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
15 4 0.09
16 27 0.57
17 15 0.32
18 1 0.02
ACGTcount: A:0.61, C:0.13, G:0.04, T:0.22
Consensus pattern (16 bp):
AAAAATTCAAACTTAA
Found at i:27527162 original size:10 final size:10
Alignment explanation
Indices: 27527147--27527253 Score: 51
Period size: 10 Copynumber: 10.7 Consensus size: 10
27527137 GACTGAACCA
27527147 AAAAATTATT
1 AAAAATTATT
27527157 AAAAATTA-T
1 AAAAATTATT
*
27527166 AAAAAATATT
1 AAAAATTATT
* *
27527176 AAAATTTGA-A
1 AAAAATT-ATT
27527186 AAAAATATATT
1 AAAAAT-TATT
*
27527197 TAAAA-TATAT
1 AAAAATTAT-T
*
27527207 AAAAGTT-TT
1 AAAAATTATT
*
27527216 AAAATAATATT
1 AAAA-ATTATT
* *
27527227 TAATATTATT
1 AAAAATTATT
* * *
27527237 TAAAATCATA
1 AAAAATTATT
27527247 AAAAATT
1 AAAAATT
27527254 GAATAACAGA
Statistics
Matches: 70, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
9 16 0.23
10 43 0.61
11 11 0.16
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAAATTATT
Found at i:27527175 original size:19 final size:19
Alignment explanation
Indices: 27527146--27527210 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
27527136 TGACTGAACC
27527146 AAAAAATTATTAAAAATTAT
1 AAAAAA-TATTAAAAATTAT
* *
27527166 AAAAAATATTAAAATTTGAA
1 AAAAAATATTAAAAATT-AT
*
27527186 AAAAATATATTTAAAATATAT
1 AAAAA-ATATTAAAAAT-TAT
27527207 AAAA
1 AAAA
27527211 GTTTTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 10 0.27
20 12 0.32
21 14 0.38
22 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAAATATTAAAAATTAT
Found at i:27540647 original size:19 final size:19
Alignment explanation
Indices: 27540623--27540659 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27540613 TTTCTGAACT
27540623 TTACTAAGTA-TCTGTTATA
1 TTACTAAG-ACTCTGTTATA
27540642 TTACTAAGACTCTGTTAT
1 TTACTAAGACTCTGTTAT
27540660 GACATTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (19 bp):
TTACTAAGACTCTGTTATA
Found at i:27551524 original size:46 final size:46
Alignment explanation
Indices: 27551474--27551640 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
27551464 TGTTTGGGCA
* * *
27551474 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
* * ** *
27551520 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATATAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAA--A--CG
* * *
27551567 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
* *
27551613 CCCGAGCTCGTTGAGTTGAGTCCGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT
27551641 TGTTTATGGG
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 54 0.56
47 28 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
Found at i:27551629 original size:93 final size:93
Alignment explanation
Indices: 27551470--27551640 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
27551460 AGGATGTTTG
* * * *
27551470 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
27551535 TTGAGTCCGAGTTCGTGAGATATAACTA
66 TTGAGTCCGAGTTCGTGAGATATAACTA
* * * *
27551563 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCGTGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
27551628 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
27551641 TGTTTATGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAATTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATATAACTA
Found at i:27555060 original size:13 final size:13
Alignment explanation
Indices: 27555042--27555070 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27555032 GTGAAGATTA
27555042 CTTTGCTTATGTG
1 CTTTGCTTATGTG
27555055 CTTTGCTTATGTG
1 CTTTGCTTATGTG
27555068 CTT
1 CTT
27555071 GATTCTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.21, T:0.55
Consensus pattern (13 bp):
CTTTGCTTATGTG
Found at i:27567655 original size:46 final size:46
Alignment explanation
Indices: 27567602--27567770 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
27567592 TGAGCATCCA
*
27567602 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
27567648 AACTCGTTGAGTTGAGTCCGAGTTC-GTGAT--ATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * * *
27567695 AACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
*
27567741 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
27567771 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 56 0.55
47 28 0.28
48 4 0.04
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:27567754 original size:93 final size:93
Alignment explanation
Indices: 27567595--27567765 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
27567585 GGATAGTTGA
* *
27567595 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
27567660 TGAGTCCGAGTTCGTGATATGTAACTAG
66 TGAGTCCGAGTTCGTGATATGTAACTAG
* * * * *
27567688 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
27567753 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27567766 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGATATGTAACTAG
Found at i:27572797 original size:28 final size:28
Alignment explanation
Indices: 27572765--27572834 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
27572755 AATGAGATTG
*
27572765 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
27572793 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
27572821 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27572835 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:27576894 original size:46 final size:47
Alignment explanation
Indices: 27576827--27576998 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
27576817 TGTAACCCGC
27576827 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCAGTTCGCAT
* * *
27576873 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GGC-AGTTCGCAT
* * *
27576923 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CAGT-TCGCAT
*
27576968 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
27576999 TTCGGATGCC
Statistics
Matches: 104, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 3 0.03
46 34 0.33
47 27 0.26
48 26 0.25
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCAGTTCGCAT
Found at i:27576995 original size:95 final size:93
Alignment explanation
Indices: 27576834--27577008 Score: 289
Period size: 95 Copynumber: 1.9 Consensus size: 93
27576824 CGCCCATAAG
27576834 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
27576899 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
27576927 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCTCGCATCCATAAGTGAACTCGGACTCAAC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-C-GT-TCGCATCCATAAGTGAACTCGGACTCAAC
*
27576991 TCAACGAGTTCGGATGCC
63 TCAACGAGCTCGGATGCC
27577009 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
92 2 0.03
93 27 0.36
94 1 0.01
95 46 0.61
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:27579438 original size:30 final size:30
Alignment explanation
Indices: 27579393--27579481 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
27579383 CAAAGATAAC
*
27579393 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
27579422 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
27579452 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
27579482 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:27579441 original size:15 final size:14
Alignment explanation
Indices: 27579393--27579475 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
27579383 CAAAGATAAC
*
27579393 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
27579407 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
27579422 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
27579437 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
27579452 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
27579467 AAGAAACCC
1 AAGAAACCC
27579476 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:27579481 original size:15 final size:15
Alignment explanation
Indices: 27579404--27579481 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
27579394 AGAAAACCGA
27579404 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
27579419 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
27579433 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
27579448 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
27579464 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
27579479 ATA
1 ATA
27579482 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:27582474 original size:46 final size:46
Alignment explanation
Indices: 27582407--27582576 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
27582397 TGTAACCCGC
*
27582407 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
*
27582453 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A--T
* *** * *
27582499 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
* **
27582546 CCTTAAGTGAACTTAGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
27582577 TTCTGATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.59
47 29 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
Found at i:27582527 original size:93 final size:93
Alignment explanation
Indices: 27582415--27582586 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
27582405 GCCCATAAGT
* * *
27582415 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
27582480 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
27582508 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCTTAAGTGAACTTAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
27582573 CGAGTTCTGATGCC
66 CGAGCTCGGATGCC
27582587 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27589029 original size:28 final size:28
Alignment explanation
Indices: 27588997--27589066 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
27588987 AATGAGATTG
*
27588997 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
27589025 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
27589053 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
27589067 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:27590747 original size:2 final size:2
Alignment explanation
Indices: 27590734--27590767 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
27590724 TACGCACTTC
* *
27590734 TA TA TC TA TA TA TA TA TA TA TA GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27590768 CCATTGGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:27601804 original size:486 final size:484
Alignment explanation
Indices: 27600864--27601835 Score: 1899
Period size: 486 Copynumber: 2.0 Consensus size: 484
27600854 AAAACACTCC
27600864 AACTGACAACTGTTTATGTCTATTTTATGGTTCATGTTCGGGTTCCGGGGTTGCTCTTTCCATCA
1 AACTGACAACTGTTTATGTCTATTTTATGGTTCATGTTCGGGTTCCGGGGTTGCTCTTTCCATCA
27600929 ATGTCTATCTCCGAGGCCTAAACATGCATTCTTTCTTTGAGAGTGCAAAACCACTGCATCTAACA
66 ATGTCTATCTCCGAGGCCTAAACATGCATTCTTTCTTTGAGAGTGCAAAACCACTGCATCTAACA
27600994 CTTGTTGGTATCTCTTAACCTTGTTGTATGCATAAACATATAATATCAATAGTACGGAGTCAGGA
131 CTTGTTGGTATCTCTTAACCTTGTTGTATGCATAAACATATAATATCAATAGTACGGAGTCAGGA
27601059 ATGTTTATGAAGCGTGCAATAAAAGAGGAGAATTTTTTTTTCTTATTTCCATTACACTAATGGAT
196 ATGTTTATGAAGCGTGCAATAAAAGAGGAGAATTTTTTTTTCTTATTTCCATTACACTAATGGAT
27601124 GTTAGGTTACCTAACAGTTATAATTTTGGATAATTTTACATTTTAGCTTTTTTAATTCTTAACAT
261 GTTAGGTTACCTAACAGTTATAATTTTGGATAATTTTACATTTTAGCTTTTTTAATTCTTAACAT
27601189 TACCAATGAGGCTTTGGTTCAGTTGGCAAAGATAGAGGTCATGAGTTTTGAATACTAAGTTCAAG
326 TACCAATGAGGCTTTGGTTCAGTTGGCAAAGATAGAGGTCATGAGTTTTGAATACTAAGTTCAAG
27601254 ACCTACTAGGTGGAGTTAGATATGTCTCTTACTTCCCTCATGTGCAGTTACTATATGTAAGTTTT
391 ACCTACTAGGTGGAGTTAGATATGTCTCTTACTTCCCTCATGTGCAGTTACTATATGTAAGTTTT
*
27601319 AGTCCAATTTATTGATATTGTAATAATTT
456 AGTCCAATTAATTGATATTGTAATAATTT
*
27601348 AACTGACAACTGTTTATGTCTATTTTATGGTTCATGTTCGGGTTTCGGGGTTGCTCTTTCCATCA
1 AACTGACAACTGTTTATGTCTATTTTATGGTTCATGTTCGGGTTCCGGGGTTGCTCTTTCCATCA
27601413 ATGTCTATCTCCGAGGCCTAAACATGCATTCTTTCTTTGAGAGTGCAAAACCACTGCATCTAACA
66 ATGTCTATCTCCGAGGCCTAAACATGCATTCTTTCTTTGAGAGTGCAAAACCACTGCATCTAACA
27601478 CTTGTTGGTATCTCTTAACCTTGTTGTATGCATAAACATATAATATCAATAGTACGGAGTCAGGA
131 CTTGTTGGTATCTCTTAACCTTGTTGTATGCATAAACATATAATATCAATAGTACGGAGTCAGGA
27601543 ATGTTTATGAAGCGTGCAATAAAAGAGGAGAGAATTTTTTTTTCTTATTTCCATTACACTAATGG
196 ATGTTTATGAAGCGTGCAATAAAAGA-G-GAGAATTTTTTTTTCTTATTTCCATTACACTAATGG
27601608 ATGTTAGGTTACCTAACAGTTATAATTTTGGATAATTTTACATTTTAGCTTTTTTAATTCTTAAC
259 ATGTTAGGTTACCTAACAGTTATAATTTTGGATAATTTTACATTTTAGCTTTTTTAATTCTTAAC
*
27601673 ATTACCAATGAGGCTTTGGTTCAGTTGGCAAAGGTAGAGGTCATGAGTTTTGAATACTAAGTTCA
324 ATTACCAATGAGGCTTTGGTTCAGTTGGCAAAGATAGAGGTCATGAGTTTTGAATACTAAGTTCA
27601738 AGACCTACTAGGTGGAGTTAGATATGTCTCTTACTTCCCTCATGTGCAGTTACTATATGTAAGTT
389 AGACCTACTAGGTGGAGTTAGATATGTCTCTTACTTCCCTCATGTGCAGTTACTATATGTAAGTT
27601803 TTAGTCCAATTAATTGATATTGTAATAATTT
454 TTAGTCCAATTAATTGATATTGTAATAATTT
27601834 AA
1 AA
27601836 TTTTACTTTG
Statistics
Matches: 483, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
484 220 0.46
485 1 0.00
486 262 0.54
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (484 bp):
AACTGACAACTGTTTATGTCTATTTTATGGTTCATGTTCGGGTTCCGGGGTTGCTCTTTCCATCA
ATGTCTATCTCCGAGGCCTAAACATGCATTCTTTCTTTGAGAGTGCAAAACCACTGCATCTAACA
CTTGTTGGTATCTCTTAACCTTGTTGTATGCATAAACATATAATATCAATAGTACGGAGTCAGGA
ATGTTTATGAAGCGTGCAATAAAAGAGGAGAATTTTTTTTTCTTATTTCCATTACACTAATGGAT
GTTAGGTTACCTAACAGTTATAATTTTGGATAATTTTACATTTTAGCTTTTTTAATTCTTAACAT
TACCAATGAGGCTTTGGTTCAGTTGGCAAAGATAGAGGTCATGAGTTTTGAATACTAAGTTCAAG
ACCTACTAGGTGGAGTTAGATATGTCTCTTACTTCCCTCATGTGCAGTTACTATATGTAAGTTTT
AGTCCAATTAATTGATATTGTAATAATTT
Found at i:27602757 original size:8 final size:8
Alignment explanation
Indices: 27602744--27602769 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
27602734 TTTTAATGAT
27602744 ATTTTAAA
1 ATTTTAAA
27602752 ATTTTAAA
1 ATTTTAAA
27602760 ATTTTAAA
1 ATTTTAAA
27602768 AT
1 AT
27602770 AAAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTAAA
Found at i:27606235 original size:25 final size:25
Alignment explanation
Indices: 27606202--27606254 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
27606192 TTAACATATT
**
27606202 AATTCATTTTGTTATATCATTTAAA
1 AATTCATTTTAATATATCATTTAAA
*
27606227 AATTTATTTTAATATATCATTTAAA
1 AATTCATTTTAATATATCATTTAAA
27606252 AAT
1 AAT
27606255 AAAATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.51
Consensus pattern (25 bp):
AATTCATTTTAATATATCATTTAAA
Found at i:27607234 original size:20 final size:20
Alignment explanation
Indices: 27607192--27607235 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
27607182 TCATACATGA
* *
27607192 AATTTAAGAAAATAACTCTT
1 AATTTAAGAAAATAACACGT
27607212 AATTTAAAGAAAATAA-ACGT
1 AATTT-AAGAAAATAACACGT
27607232 AATT
1 AATT
27607236 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (20 bp):
AATTTAAGAAAATAACACGT
Found at i:27607377 original size:20 final size:21
Alignment explanation
Indices: 27607354--27607395 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27607344 TTTTTTAAAT
27607354 AATTAAG-CTTATTTTCTTTA
1 AATTAAGACTTATTTTCTTTA
* *
27607374 AATTAAGAGTTATTTTTTTTA
1 AATTAAGACTTATTTTCTTTA
27607395 A
1 A
27607396 CTTCATGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
AATTAAGACTTATTTTCTTTA
Found at i:27612848 original size:40 final size:40
Alignment explanation
Indices: 27612793--27612950 Score: 271
Period size: 40 Copynumber: 4.0 Consensus size: 40
27612783 TGGAAAAAAA
*
27612793 TATAACCGGGTTAAGTCCCGAAGGCATTCGAGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
27612833 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
27612873 TATAACCGGGGTAAGTCCCGAAGGCATTCGTCCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
27612913 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
27612951 GTTACATCCG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:27612976 original size:80 final size:80
Alignment explanation
Indices: 27612808--27612968 Score: 223
Period size: 80 Copynumber: 2.0 Consensus size: 80
27612798 CCGGGTTAAG
*
27612808 TCCCGAAGGCATTCGAGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TCCCGAAGGCATTCGACCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * ** *
27612873 TATAACCGGGGTAAG
66 TACAACCGAGCCAAA
* * * *
27612888 TCCCGAAGGCATTCGTCCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGT
1 TCCCGAAGGCATTCGACCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
27612953 TACATCCGAGCCAAA
66 TACAACCGAGCCAAA
27612968 T
1 T
27612969 TCTGAAGGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCCGAAGGCATTCGACCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
TACAACCGAGCCAAA
Found at i:27614676 original size:21 final size:21
Alignment explanation
Indices: 27614635--27614676 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27614625 GATGTTTTGA
*
27614635 CATGTTTTGAGCTTGTTTAAT
1 CATGTTTTGAGCTTGTATAAT
27614656 CATGTTTTGAG-TTGGTATAAT
1 CATGTTTTGAGCTT-GTATAAT
27614677 TAATGGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (21 bp):
CATGTTTTGAGCTTGTATAAT
Found at i:27615407 original size:55 final size:55
Alignment explanation
Indices: 27615329--27615439 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
27615319 TTACGAGTTT
*
27615329 TAGCTTATAAATAGGTCTTAGTTACTCTAGGTCTCATACAATAGAAATATTTAGA
1 TAGCTTATAAATAGGTCTTAGTTACTATAGGTCTCATACAATAGAAATATTTAGA
27615384 TAGCTTATAAATAGGTCTTAGTTACTATAGGTCTCATACAATAGAAATATTTAGA
1 TAGCTTATAAATAGGTCTTAGTTACTATAGGTCTCATACAATAGAAATATTTAGA
27615439 T
1 T
27615440 TGAGATAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (55 bp):
TAGCTTATAAATAGGTCTTAGTTACTATAGGTCTCATACAATAGAAATATTTAGA
Found at i:27616902 original size:42 final size:41
Alignment explanation
Indices: 27616856--27616977 Score: 111
Period size: 43 Copynumber: 2.9 Consensus size: 41
27616846 TCAGGGTTAC
* *
27616856 TGAGATTGCGTGTAAGACCATATATGGGACATGGCATCGATA
1 TGAGATT-CATGTAAGACCATATCTGGGACATGGCATCGATA
* * * *
27616898 TGAGACTTCTTATAAGACCATAGCTGGG-CTATTGACATCGATA
1 TGAGA-TTCATGTAAGACCATATCTGGGAC-A-TGGCATCGATA
* * *
27616941 CGAGATTACATGTAAGACCATATCTAGGATATGGCAT
1 TGAGATT-CATGTAAGACCATATCTGGGACATGGCAT
27616978 TGGTAGGATA
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.46
43 33 0.52
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (41 bp):
TGAGATTCATGTAAGACCATATCTGGGACATGGCATCGATA
Found at i:27617131 original size:25 final size:25
Alignment explanation
Indices: 27617102--27617149 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
27617092 TAGTACAGGT
27617102 ATGTACATAAAGTTTATAAGCATCG
1 ATGTACATAAAGTTTATAAGCATCG
27617127 ATGTACATAAAGTTTATAAGCAT
1 ATGTACATAAAGTTTATAAGCAT
27617150 TGACTTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (25 bp):
ATGTACATAAAGTTTATAAGCATCG
Found at i:27620218 original size:46 final size:45
Alignment explanation
Indices: 27620168--27620340 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
27620158 TGGTTGAGCA
27620168 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
27620214 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAAATT-T-AACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC----ACTTATGGA-T-GCGAAG
27620261 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
27620307 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27620341 GGGGCAGGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
43 4 0.04
44 4 0.04
45 1 0.01
46 60 0.57
47 28 0.26
48 1 0.01
49 4 0.04
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:27620302 original size:93 final size:93
Alignment explanation
Indices: 27620165--27620335 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
27620155 GGATGGTTGA
* *
27620165 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27620230 TGAGTCCAAGTTCGTGAAATTTAACTAG
66 TGAGTCCAAGTTCGTGAAATTTAACTAG
*
27620258 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
27620323 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
27620336 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATTTAACTAG
Found at i:27623664 original size:23 final size:23
Alignment explanation
Indices: 27623638--27623713 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
27623628 ATAAGTGCCA
27623638 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27623661 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27623684 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27623707 CACTGAT
1 CACTGAT
27623714 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27630993 original size:23 final size:23
Alignment explanation
Indices: 27630967--27631042 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
27630957 ATAAGTGCCA
27630967 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27630990 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27631013 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27631036 CACTGAT
1 CACTGAT
27631043 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27635840 original size:42 final size:41
Alignment explanation
Indices: 27635782--27635897 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 41
27635772 TAGGGTTATT
*
27635782 GAGATTACGTGTAAGACCATATTTGGAATATGGCATCGATA
1 GAGATTACATGTAAGACCATATTTGGAATATGGCATCGATA
* * **
27635823 TGAGACTT-CATGTAAGACTATAGTTGGTCTATTGGCATCGATA
1 -GAGA-TTACATGTAAGACCATATTTGGAATA-TGGCATCGATA
* *
27635866 GAGATTACATGTAAGACCATATCTGGGATATG
1 GAGATTACATGTAAGACCATATTTGGAATATG
27635898 TCATTGGTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 4 0.07
42 44 0.72
43 13 0.21
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (41 bp):
GAGATTACATGTAAGACCATATTTGGAATATGGCATCGATA
Found at i:27660213 original size:34 final size:34
Alignment explanation
Indices: 27660175--27660254 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
27660165 ATATGTTAAT
* *
27660175 GGGCTTAGGCCCAGACTACTGCTATTACTGAAAC
1 GGGCTAAGGCCCAGACTACTACTATTACTGAAAC
* * *
27660209 GGGCTCAGGCCCAGACTGCTACTATTACTGAAAT
1 GGGCTAAGGCCCAGACTACTACTATTACTGAAAC
27660243 GGGCTAAGGCCC
1 GGGCTAAGGCCC
27660255 TAACTGTTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (34 bp):
GGGCTAAGGCCCAGACTACTACTATTACTGAAAC
Found at i:27670947 original size:34 final size:34
Alignment explanation
Indices: 27670909--27670994 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
27670899 ATATGTTAAT
* *
27670909 GGGCTTAGGCCCTGACTGCTACTGTTACTGAAAC
1 GGGCTAAGGCCCTGACTGCTACTATTACTGAAAC
* * * *
27670943 GGGCTCAGGCCCAGACTGCTATTATTACTGAAAT
1 GGGCTAAGGCCCTGACTGCTACTATTACTGAAAC
* *
27670977 AGGCTAAGGCCCTAACTG
1 GGGCTAAGGCCCTGACTG
27670995 TTATTGAAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (34 bp):
GGGCTAAGGCCCTGACTGCTACTATTACTGAAAC
Found at i:27674820 original size:28 final size:29
Alignment explanation
Indices: 27674780--27674855 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
27674770 GAACTATTAT
27674780 CATGGCCCGAAG-CAAATTATCCAATATG
1 CATGGCCCGAAGCCAAATTATCCAATATG
*
27674808 CATGGCCCGAAGCCAAATCATCCAATATG
1 CATGGCCCGAAGCCAAATTATCCAATATG
*
27674837 CATGGCCCAAAGCCAAATT
1 CATGGCCCGAAGCCAAATT
27674856 GGTATAACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 12 0.27
29 32 0.73
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.18
Consensus pattern (29 bp):
CATGGCCCGAAGCCAAATTATCCAATATG
Found at i:27679666 original size:24 final size:23
Alignment explanation
Indices: 27679637--27679815 Score: 71
Period size: 24 Copynumber: 7.5 Consensus size: 23
27679627 TTAAATCATC
27679637 TTATATATTATCTATTTTAAATTT
1 TTATATATTAT-TATTTTAAATTT
* * *
27679661 TTATATGTTATT-TGGTTACACTATT
1 TTATATATTATTAT-TTTA-AAT-TT
** *
27679686 TTATATGAAAACTATTTTAAATTCT
1 TTATAT-ATTATTATTTTAAATT-T
* * **
27679711 TT-T-TATTATTTATCGTGAACCTT
1 TTATATATTA-TTAT-TTTAAATTT
**
27679734 TTAT-TATTATTAATTTTAAAACT
1 TTATATATTATT-ATTTTAAATTT
* * *
27679757 TTATATGTTACCTATTTTAAACTT
1 TTATATATTA-TTATTTTAAATTT
**
27679781 TTATATA-TATTATTTTGGATTT
1 TTATATATTATTATTTTAAATTT
27679803 TTATATATATATT
1 TTATATAT-TATT
27679816 TTTATTTAAA
Statistics
Matches: 111, Mismatches: 30, Indels: 28
0.66 0.18 0.17
Matches are distributed among these distances:
22 19 0.17
23 23 0.21
24 49 0.44
25 14 0.13
26 5 0.05
27 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (23 bp):
TTATATATTATTATTTTAAATTT
Found at i:27680008 original size:27 final size:28
Alignment explanation
Indices: 27679937--27680009 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
27679927 ATTCATCTTG
* * *
27679937 ATTTGTTTAACATATT-GTTTATTTGAA
1 ATTTGTTTTACATATTATTTTATTTCAA
*
27679964 ATTTGTTTTATATATTATTTTATTTCAA
1 ATTTGTTTTACATATTATTTTATTTCAA
*
27679992 A-TTGTTTTACATTTTATT
1 ATTTGTTTTACATATTATT
27680010 CATGGTAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 29 0.74
28 10 0.26
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (28 bp):
ATTTGTTTTACATATTATTTTATTTCAA
Found at i:27683296 original size:164 final size:165
Alignment explanation
Indices: 27683017--27683342 Score: 573
Period size: 164 Copynumber: 2.0 Consensus size: 165
27683007 AGTGATCTAG
27683017 CGAACCACATTTGTAACAAGCTTTATTACTTTTATTCCAGCATTCTCCAAAATGTCATCTCCCAC
1 CGAACCACATTTGTAACAAGCTTTATTACTTTTATTCCAGCATTCTCCAAAATGTCATCTCCCAC
* *
27683082 ACTATTGACACTCGGGTTTGTTGTATCTCACACTGCCAACACTTGATACTGATGTAGTTTGAACT
66 ACTATTGAAACTCGGGTTTGTTGTATCTCACACTGCCAACACTAGATACTGATGTAGTTTGAACT
27683147 TTAGAACCTGAGTATTGTTTTCTACGATCTCTGTT
131 TTAGAACCTGAGTATTGTTTTCTACGATCTCTGTT
* *
27683182 CGAA-CACATTTGTAACAAGCTTTATTACTTTTATTCCAGCATTCTCCAAAATGTCGTCTTCCAC
1 CGAACCACATTTGTAACAAGCTTTATTACTTTTATTCCAGCATTCTCCAAAATGTCATCTCCCAC
* * * *
27683246 ACTGTTGAAACTCGGGTTTTTTGTCTCTCACATTGCCAACACTAGATACTGATGTAGTTTGAACT
66 ACTATTGAAACTCGGGTTTGTTGTATCTCACACTGCCAACACTAGATACTGATGTAGTTTGAACT
27683311 TTAGAACCTGAGTATTGTTTTCTACGATCTCT
131 TTAGAACCTGAGTATTGTTTTCTACGATCTCT
27683343 ATTCAAATAT
Statistics
Matches: 153, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
164 149 0.97
165 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (165 bp):
CGAACCACATTTGTAACAAGCTTTATTACTTTTATTCCAGCATTCTCCAAAATGTCATCTCCCAC
ACTATTGAAACTCGGGTTTGTTGTATCTCACACTGCCAACACTAGATACTGATGTAGTTTGAACT
TTAGAACCTGAGTATTGTTTTCTACGATCTCTGTT
Found at i:27687198 original size:93 final size:93
Alignment explanation
Indices: 27687087--27687256 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
27687077 CCCCTAAGTG
* *
27687087 AACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
*
27687152 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGCTCGGATGCCTAGTTACATCTCACA
* * * *
27687180 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
27687245 GAGCTCGGATGC
66 GAGCTCGGATGC
27687257 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:27687253 original size:46 final size:46
Alignment explanation
Indices: 27687081--27687253 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
27687071 AACCCGCCCC
* * * *
27687081 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * *
27687127 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATC-CA
* *
27687178 -CA---AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
27687220 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27687254 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 8 0.08
44 1 0.01
46 57 0.54
47 28 0.27
49 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:27689857 original size:93 final size:93
Alignment explanation
Indices: 27689698--27689868 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
27689688 GCCCCTAAGT
* * * *
27689698 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
27689763 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * * *
27689791 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
27689856 CGAGCTCGGATGC
66 CGAGCTCGGATGC
27689869 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:27689858 original size:46 final size:46
Alignment explanation
Indices: 27689693--27689859 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
27689683 AACCCGCCCC
* * * * * * *
27689693 TAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
* * * *
27689739 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCA
* *
27689787 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
27689832 TAAGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
27689860 CTCGGATGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 50 0.52
47 26 0.27
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
Found at i:27703664 original size:28 final size:28
Alignment explanation
Indices: 27703564--27703677 Score: 128
Period size: 27 Copynumber: 4.2 Consensus size: 28
27703554 AGCATCGCTG
* * *
27703564 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
* * *
27703590 CTAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
*
27703617 CCAG-AACAGATATTCGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
*
27703644 CCAGAAATAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
27703672 CCAGAA
1 CCAGAA
27703678 CGCTTCCTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
26 10 0.13
27 38 0.51
28 27 0.36
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCATAGCCA
Found at i:27703672 original size:55 final size:53
Alignment explanation
Indices: 27703564--27703678 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 53
27703554 AGCATCGCTG
* * *
27703564 CCAGAACAGATATTGTGACAGAGTCACTAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTGTGGCAGAGCCA
* * * *
27703617 CCAGAACAGATATTCGTGGCATAGCCACCAGAAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATT-GTGACAGAGCCACCAGAAACAGATA-TTGTGGCAGAGCCA
27703672 CCAGAAC
1 CCAGAAC
27703679 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
53 14 0.26
54 19 0.36
55 20 0.38
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTGTGGCAGAGCCA
Found at i:27703808 original size:27 final size:26
Alignment explanation
Indices: 27703778--27703828 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
27703768 GTCAAAATTA
*
27703778 ACCCTAGAGGTATAATGGTCATTTTGC
1 ACCC-AGAGGTATAATGGTAATTTTGC
*
27703805 ACCCAGGGGTATAATGGTAATTTT
1 ACCCAGAGGTATAATGGTAATTTT
27703829 CATACTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (26 bp):
ACCCAGAGGTATAATGGTAATTTTGC
Found at i:27711580 original size:21 final size:21
Alignment explanation
Indices: 27711553--27711759 Score: 177
Period size: 21 Copynumber: 9.8 Consensus size: 21
27711543 CAGAAACTCA
27711553 TAAGAGCTGAACAAAAGCTCG
1 TAAGAGCTGAACAAAAGCTCG
* * *
27711574 TAGGAGCTGAACAGAAGCTTG
1 TAAGAGCTGAACAAAAGCTCG
*
27711595 TAAGAGTTGAACAAAAGCTCG
1 TAAGAGCTGAACAAAAGCTCG
* * *
27711616 TAAAAGTTGAA-AAGAAACTCG
1 TAAGAGCTGAACAA-AAGCTCG
** * *
27711637 TAAGAATTGAACAGAAGCTCA
1 TAAGAGCTGAACAAAAGCTCG
* *
27711658 TAAGAGCTTAACAGAAA-CTCA
1 TAAGAGCTGAACA-AAAGCTCG
* * * *
27711679 TAAAAGTTGAACAGAAGCTCA
1 TAAGAGCTGAACAAAAGCTCG
*
27711700 TAAGAGCTGAACAGAAA-CTCA
1 TAAGAGCTGAACA-AAAGCTCG
* *
27711721 TAAGAGTTGAACAAAAGCTTG
1 TAAGAGCTGAACAAAAGCTCG
27711742 TAAGAGCTGAACAGAAAG
1 TAAGAGCTGAACA-AAAG
27711760 TAAAGCACGA
Statistics
Matches: 150, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
20 7 0.05
21 134 0.89
22 9 0.06
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.18
Consensus pattern (21 bp):
TAAGAGCTGAACAAAAGCTCG
Found at i:27711600 original size:42 final size:42
Alignment explanation
Indices: 27711541--27711758 Score: 283
Period size: 42 Copynumber: 5.2 Consensus size: 42
27711531 GTACATCATT
* *
27711541 AACAGAAACTCATAAGAGCTGAACAAAAGCTCGTAGGAGCTG
1 AACAGAAACTCATAAGAGTTGAACAAAAGCTCGTAAGAGCTG
* ** * *
27711583 AACAGAAGCTTGTAAGAGTTGAACAAAAGCTCGTAAAAGTTG
1 AACAGAAACTCATAAGAGTTGAACAAAAGCTCGTAAGAGCTG
* * * * * *
27711625 AAAAGAAACTCGTAAGAATTGAACAGAAGCTCATAAGAGCTT
1 AACAGAAACTCATAAGAGTTGAACAAAAGCTCGTAAGAGCTG
* * *
27711667 AACAGAAACTCATAAAAGTTGAACAGAAGCTCATAAGAGCTG
1 AACAGAAACTCATAAGAGTTGAACAAAAGCTCGTAAGAGCTG
*
27711709 AACAGAAACTCATAAGAGTTGAACAAAAGCTTGTAAGAGCTG
1 AACAGAAACTCATAAGAGTTGAACAAAAGCTCGTAAGAGCTG
27711751 AACAGAAA
1 AACAGAAA
27711759 GTAAAGCACG
Statistics
Matches: 151, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 151 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAGAAACTCATAAGAGTTGAACAAAAGCTCGTAAGAGCTG
Found at i:27711753 original size:63 final size:63
Alignment explanation
Indices: 27711557--27711757 Score: 235
Period size: 63 Copynumber: 3.2 Consensus size: 63
27711547 AACTCATAAG
* * **
27711557 AGCTGAACAAAAGCTCGTAGGAGCTGAACAGAAGCTTGTAAGAGTTGAACAAAAGCTCGTAAA
1 AGCTGAACAGAAGCTCGTAAGAGCTGAACAGAAGCTCATAAGAGTTGAACAAAAGCTCGTAAA
* * * ** *
27711620 AGTTGAAAAGAAACTCGTAAGAATTGAACAGAAGCTCATAAGAGCTT-AACAGAAA-CTCATAAA
1 AGCTGAACAGAAGCTCGTAAGAGCTGAACAGAAGCTCATAAGAG-TTGAACA-AAAGCTCGTAAA
* * * * *
27711683 AGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTGAACAAAAGCTTGTAAG
1 AGCTGAACAGAAGCTCGTAAGAGCTGAACAGAAGCTCATAAGAGTTGAACAAAAGCTCGTAAA
27711746 AGCTGAACAGAA
1 AGCTGAACAGAA
27711758 AGTAAAGCAC
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
62 5 0.04
63 104 0.91
64 5 0.04
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (63 bp):
AGCTGAACAGAAGCTCGTAAGAGCTGAACAGAAGCTCATAAGAGTTGAACAAAAGCTCGTAAA
Found at i:27715215 original size:21 final size:21
Alignment explanation
Indices: 27715191--27715234 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
27715181 ATTTTTCCTA
* *
27715191 GAATGTGAATTGAATTAAATT
1 GAATATGAAATGAATTAAATT
*
27715212 GAATATGAAATGGATTAAATT
1 GAATATGAAATGAATTAAATT
27715233 GA
1 GA
27715235 TGTTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.34
Consensus pattern (21 bp):
GAATATGAAATGAATTAAATT
Found at i:27716901 original size:39 final size:39
Alignment explanation
Indices: 27716847--27716928 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
27716837 AACAGAATGA
* * *
27716847 TCAAAATTGGTCATACGAGTAGAGACATAGGTATGTGTC
1 TCAAAATTGGTCATACAAGTAGAAACACAGGTATGTGTC
*
27716886 TCAAAATTGGTCATACAAGTAGAAACACGGGTATGTGTC
1 TCAAAATTGGTCATACAAGTAGAAACACAGGTATGTGTC
27716925 TCAA
1 TCAA
27716929 CCGTGTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (39 bp):
TCAAAATTGGTCATACAAGTAGAAACACAGGTATGTGTC
Found at i:27721601 original size:50 final size:49
Alignment explanation
Indices: 27721483--27721612 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 49
27721473 CTAGTACGCA
* * **
27721483 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
27721532 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
27721582 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
27721613 TCACAGTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 29 0.39
50 41 0.55
51 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:27721666 original size:101 final size:99
Alignment explanation
Indices: 27721483--27721669 Score: 252
Period size: 101 Copynumber: 1.9 Consensus size: 99
27721473 CTAGTACGCA
* * *
27721483 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
27721548 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
27721582 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTA-CCTTGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCC-TGCA
*
27721645 CTTAGTACTACACATGCGACCTCAC
62 CTTAGTACTACACACGCGACCTCAC
27721670 AATAGATCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
100 2 0.03
101 40 0.53
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:27727136 original size:40 final size:40
Alignment explanation
Indices: 27727089--27727272 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
27727079 CTCGCACAAG
*
27727089 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* * * *
27727129 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* *
27727169 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCAGAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAAT
* * *
27727209 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
*
27727249 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
27727273 CATTCGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:27727184 original size:80 final size:79
Alignment explanation
Indices: 27727053--27727272 Score: 275
Period size: 80 Copynumber: 2.8 Consensus size: 79
27727043 ACCCAAGTAT
* * * * *
27727053 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
27727117 -ACTAGCATAAATGC
65 AACTAGCAGAAATGC
* *
27727131 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
27727196 AACTCGCAGAAATGC
65 AACTAGCAGAAATGC
* * *
27727211 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
27727273 CATTCGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 12 0.10
79 21 0.17
80 91 0.73
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCAGAAATGC
Found at i:27729732 original size:35 final size:35
Alignment explanation
Indices: 27729683--27729787 Score: 183
Period size: 35 Copynumber: 3.0 Consensus size: 35
27729673 GCTCGAGAGA
*
27729683 ATGCTTCCTGATTATGTGCCCTAATTAGGTACCCT
1 ATGCTTCCTGATTATGTGCCCTAATTGGGTACCCT
*
27729718 ATGCTTCCTAATTATGTGCCCTAATTGGGTACCCT
1 ATGCTTCCTGATTATGTGCCCTAATTGGGTACCCT
*
27729753 ATGCTTCCTGATTATGTACCCTAATTGGGTACCCT
1 ATGCTTCCTGATTATGTGCCCTAATTGGGTACCCT
27729788 TGAATATGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (35 bp):
ATGCTTCCTGATTATGTGCCCTAATTGGGTACCCT
Found at i:27733187 original size:58 final size:57
Alignment explanation
Indices: 27733081--27733189 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 57
27733071 CAAGCATATA
* **
27733081 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATATTCTTATG
1 GCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCTTATG
* *
27733138 GCCCACTAGGCCCAAT-TCACCTTTATATGGCCCAT-TAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATCT-GGCCCAAATCATATT
27733190 ATACTCATGC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 2 0.05
57 17 0.39
58 25 0.57
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCTTATG
Found at i:27733429 original size:16 final size:16
Alignment explanation
Indices: 27733410--27733446 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
27733400 CAACTTTCTA
*
27733410 CTTTTTGGCATTTCGG
1 CTTTTCGGCATTTCGG
27733426 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGG
27733442 CTTTT
1 CTTTT
27733447 GCTGATTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (16 bp):
CTTTTCGGCATTTCGG
Found at i:27736274 original size:42 final size:42
Alignment explanation
Indices: 27736186--27736332 Score: 156
Period size: 42 Copynumber: 3.5 Consensus size: 42
27736176 TGTGTTATCG
* * * *
27736186 TGTAAGACCACGTCTGGCACGTTGGCATCGAT-TTGATTTACG
1 TGTAAGACCACATCTGGGACATTGGCATCGATATTGATTT-CA
* **
27736228 TGTAAAACCATGTCTGGGACATTGGCATC-ATATATGATTTCA
1 TGTAAGACCACATCTGGGACATTGGCATCGATAT-TGATTTCA
* *
27736270 TGTAAGACC-CTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCGATA-TTGATTTCA
27736313 TGTAAGACCACATCTGGGAC
1 TGTAAGACCACATCTGGGAC
27736333 GTAGGCATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 51 0.57
43 34 0.38
44 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATTGGCATCGATATTGATTTCA
Found at i:27736309 original size:43 final size:43
Alignment explanation
Indices: 27736208--27736340 Score: 141
Period size: 43 Copynumber: 3.1 Consensus size: 43
27736198 TCTGGCACGT
* * * * *
27736208 TGGCATCG--ATTTGATTTACGTGTAAAACCATGTCTGGGACAT
1 TGGCATCGATATTTGATTT-CATGTAAGACCCTATCTGGGACAG
*
27736250 TGGCATC-ATATATGATTTCATGTAAGACCCTATCTGGGACAG
1 TGGCATCGATATTTGATTTCATGTAAGACCCTATCTGGGACAG
*
27736292 TGGCATCGATATTTGATTACATGTAAGACCAC-ATCTGGGAC-G
1 TGGCATCGATATTTGATTTCATGTAAGACC-CTATCTGGGACAG
27736334 TAGGCAT
1 T-GGCAT
27736341 TTTACGAGCT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
42 35 0.45
43 42 0.54
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCATGTAAGACCCTATCTGGGACAG
Found at i:27738903 original size:40 final size:40
Alignment explanation
Indices: 27738859--27738969 Score: 204
Period size: 40 Copynumber: 2.8 Consensus size: 40
27738849 TAGCAACTCA
* *
27738859 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAG
27738899 CACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAG
1 CACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAG
27738939 CACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CACAAATGCCTTCGGGACTTAGCCCGGATAT
27738970 CATTCGAATA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAG
Found at i:27742546 original size:40 final size:40
Alignment explanation
Indices: 27742486--27742666 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
27742476 ATTCGGATGG
* **
27742486 TATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTCCTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA
* *
27742526 TATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA
*
27742566 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA
*
27742606 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTA
*
27742646 TATCC-GGCTAAATCCCGAAGG
1 TATCCGGGCTAAGTCCCGAAGG
27742667 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.11
40 114 0.88
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA
Found at i:27749434 original size:43 final size:42
Alignment explanation
Indices: 27749281--27749435 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 42
27749271 TATGTTATCG
*
27749281 TGTAAGACCACGTCTGGCACGTTGGCATCG-ATTTGATTT-A
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCA
* * *
27749321 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTCA
1 --TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCA
** * *
27749365 CATAAGACC-CTGTCTAGGATAG-TGGCATCGATATTTGATTTCA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCG-TATTTGATTTCA
*
27749408 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
27749436 TTTACGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 50 0.56
43 38 0.42
44 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCA
Found at i:27753128 original size:42 final size:42
Alignment explanation
Indices: 27752974--27753129 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 42
27752964 TGTGTTTTTG
* * * *
27752974 TGTAAGACCACATCTAGGACGTTGGCAT-TAACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAA-TT-TGA-TTACA
* * ** * *
27753018 TGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAATTTGATTACA
**
27753060 TGTAAGACCTTGTCTGGGACAG-TGGCATCGAATTTGATTACA
1 TGTAAGACCACGTCTGGGAC-GTTGGCATCGAATTTGATTACA
27753102 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
27753130 TGTACGATTC
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 62 0.68
43 3 0.03
44 24 0.26
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGAATTTGATTACA
Found at i:27763856 original size:43 final size:42
Alignment explanation
Indices: 27763735--27763892 Score: 203
Period size: 43 Copynumber: 3.7 Consensus size: 42
27763725 ATGTGTTTTT
*
27763735 GTGTAAGACCACGTCTGGGACGTTGGCATCA-ACTTATGATTTTC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCATA-TT-TGA-TTTC
* *
27763779 GTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATTTC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCATATTTGATTTC
* *
27763821 GTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATC-ATATTTGATTTC
*
27763864 ATGTAAGACCATGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
27763893 TGTATGATTC
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
42 31 0.31
43 39 0.39
44 30 0.30
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCATATTTGATTTC
Found at i:27764403 original size:26 final size:26
Alignment explanation
Indices: 27764371--27764421 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
27764361 TAGAAGTATA
27764371 TGAATATGTTTTGTAAAGTGTATATG
1 TGAATATGTTTTGTAAAGTGTATATG
27764397 TGAATATGTTTTGTAAAGTGTATAT
1 TGAATATGTTTTGTAAAGTGTATAT
27764422 CATGCCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (26 bp):
TGAATATGTTTTGTAAAGTGTATATG
Found at i:27766591 original size:21 final size:21
Alignment explanation
Indices: 27766565--27766673 Score: 173
Period size: 21 Copynumber: 5.2 Consensus size: 21
27766555 GTACATCATT
*
27766565 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTG
*
27766586 AACAGAAGGTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
*
27766607 AACAAAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
27766628 AACAGAAACTCATAAGAGCTT
1 AACAGAAGCTCATAAGAGCTG
27766649 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
27766670 AACA
1 AACA
27766674 AAAAGTAAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:27770955 original size:7 final size:7
Alignment explanation
Indices: 27770943--27770968 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27770933 CTCTTCTCTT
27770943 CTTTTAA
1 CTTTTAA
27770950 CTTTTAA
1 CTTTTAA
27770957 CTTTTAA
1 CTTTTAA
27770964 CTTTT
1 CTTTT
27770969 TGTTCCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (7 bp):
CTTTTAA
Found at i:27775544 original size:18 final size:19
Alignment explanation
Indices: 27775521--27775569 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
27775511 AAGTTTTATG
*
27775521 ATTTTTAGTATAT-TTTTA
1 ATTTTTAATATATATTTTA
27775539 ATTTTTAATATATATTTTATA
1 ATTTTTAATATATA-TTT-TA
27775560 ATTTTTAATA
1 ATTTTTAATA
27775570 ATAATCGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 12 0.44
20 3 0.11
21 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTAATATATATTTTA
Found at i:27775563 original size:21 final size:20
Alignment explanation
Indices: 27775529--27775569 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
27775519 TGATTTTTAG
27775529 TATATTTTTAATTTTTAATA
1 TATATTTTTAATTTTTAATA
27775549 TATATTTTATAATTTTTAATA
1 TATATTTT-TAATTTTTAATA
27775570 ATAATCGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATTTTTAATTTTTAATA
Found at i:27780342 original size:28 final size:28
Alignment explanation
Indices: 27780285--27780340 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
27780275 TATACCAAAC
*
27780285 AATTTTATAATATAAATTCAATATTTTTA
1 AATTTTATAATATAAATCCAATA-TTTTA
27780314 AATTTCTATAATA-AAAGTCCAATATTT
1 AATTT-TATAATATAAA-TCCAATATTT
27780341 AATTTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (28 bp):
AATTTTATAATATAAATCCAATATTTTA
Found at i:27784818 original size:28 final size:28
Alignment explanation
Indices: 27784778--27784833 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
27784768 GGCTATGTCC
*
27784778 TAGCCTGTGTCTGACCCCGTGTAACTCT
1 TAGCCCGTGTCTGACCCCGTGTAACTCT
27784806 TAGCCCGTGTCTGACCCCGTGTAACTCT
1 TAGCCCGTGTCTGACCCCGTGTAACTCT
27784834 CTAACTTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.14, C:0.34, G:0.21, T:0.30
Consensus pattern (28 bp):
TAGCCCGTGTCTGACCCCGTGTAACTCT
Found at i:27787049 original size:22 final size:18
Alignment explanation
Indices: 27787002--27787038 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
27786992 GAAGTATAGC
27787002 ATTCATATGACTAAACGG
1 ATTCATATGACTAAACGG
27787020 ATTCATATGACTAAACGG
1 ATTCATATGACTAAACGG
27787038 A
1 A
27787039 CAATTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (18 bp):
ATTCATATGACTAAACGG
Found at i:27787337 original size:40 final size:40
Alignment explanation
Indices: 27787290--27787493 Score: 295
Period size: 40 Copynumber: 5.1 Consensus size: 40
27787280 CGGGCTTTAA
** *
27787290 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** * *
27787330 CCGGATATAGTAGTTCGCACAAATTCCTTCGAGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
27787370 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
27787410 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27787450 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
27787490 CCGG
1 CCGG
27787494 TTATCATCCG
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 149 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27795402 original size:40 final size:40
Alignment explanation
Indices: 27795351--27795542 Score: 307
Period size: 40 Copynumber: 4.8 Consensus size: 40
27795341 GGATATAGCC
*
27795351 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
27795391 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
27795431 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
27795471 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
27795511 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
27795543 TTATCATCCG
Statistics
Matches: 144, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 142 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:27799852 original size:20 final size:19
Alignment explanation
Indices: 27799818--27799863 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
27799808 GACATTGTTG
27799818 AGTTTG-TGAAGTTTTTGA
1 AGTTTGATGAAGTTTTTGA
*
27799836 AGTTTGATGATAGTTTTTTA
1 AGTTTGATGA-AGTTTTTGA
*
27799856 AGCTTGAT
1 AGTTTGAT
27799864 AGCTAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.25
19 3 0.12
20 15 0.62
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (19 bp):
AGTTTGATGAAGTTTTTGA
Found at i:27803365 original size:17 final size:17
Alignment explanation
Indices: 27803343--27803376 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27803333 ATTTAAATTA
27803343 TTTAGATTCATGAATGG
1 TTTAGATTCATGAATGG
27803360 TTTAGATTCATGAATGG
1 TTTAGATTCATGAATGG
27803377 AAATTGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
TTTAGATTCATGAATGG
Found at i:27804286 original size:18 final size:15
Alignment explanation
Indices: 27804248--27804277 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27804238 TCAATAGGAT
27804248 TAAACTGGTTATCGA
1 TAAACTGGTTATCGA
27804263 TAAACTGGTTATCGA
1 TAAACTGGTTATCGA
27804278 AAGTAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
TAAACTGGTTATCGA
Found at i:27806272 original size:35 final size:35
Alignment explanation
Indices: 27806232--27806306 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
27806222 GTTAATCAAG
*
27806232 TAAGTGGCTATGTCACACCTGGGTTTGTTAAGTCT
1 TAAGTGGCTATGTCACACCTGGGTTTATTAAGTCT
27806267 TAAGTGGCTATGTCACACCTGGGTTTATTAAGTCT
1 TAAGTGGCTATGTCACACCTGGGTTTATTAAGTCT
27806302 TAAGT
1 TAAGT
27806307 TGCAAGGGGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (35 bp):
TAAGTGGCTATGTCACACCTGGGTTTATTAAGTCT
Found at i:27807628 original size:55 final size:55
Alignment explanation
Indices: 27807569--27807922 Score: 319
Period size: 55 Copynumber: 6.5 Consensus size: 55
27807559 ACATTCTTAA
* * *
27807569 ATGTGGAAAGTCTACCAAGACAATCTTATGTGGAAGCCTATAAGGACTATTTGAT
1 ATGTGGAAAGTCTACCAAGACTATCTTATGTGGAAGCCTATGAGGACTATCTGAT
* * *
27807624 ATGTGGAAAGT-TAGCTAGGACTATCTTATGTGGAAGTCC-GTGAGGACTATCTGAT
1 ATGTGGAAAGTCTA-CCAAGACTATCTTATGTGGAAG-CCTATGAGGACTATCTGAT
* * * * * **
27807679 ATG-GACAAAGTCCACCATGACTATCTTATGTGAAAGTCTATGAGGACTGCCTGAT
1 ATGTG-GAAAGTCTACCAAGACTATCTTATGTGGAAGCCTATGAGGACTATCTGAT
* * * * * *
27807734 ATGTGGAAAGTCTATCAGGACTATCTTATATAGAAGCCTGTAAGGACTATCTGAT
1 ATGTGGAAAGTCTACCAAGACTATCTTATGTGGAAGCCTATGAGGACTATCTGAT
* *
27807789 ATG-GGAAAAGTCTGCCAAGACTATCTTATGTGGAAGTCC-ATGAGGACTATCTGGT
1 ATGTGG-AAAGTCTACCAAGACTATCTTATGTGGAAG-CCTATGAGGACTATCTGAT
* * *** *
27807844 ATGGGGAAATTCCGTCAAGACTATCTTATGTGGAAGTCCGT-T-AGGACTATCTTAT
1 ATGTGGAAAGTCTACCAAGACTATCTTATGTGGAAG-CC-TATGAGGACTATCTGAT
* * *
27807899 ATG-GGGAAGTCCACCAGGACTATC
1 ATGTGGAAAGTCTACCAAGACTATC
27807923 GATTTGAGGA
Statistics
Matches: 243, Mismatches: 45, Indels: 23
0.78 0.14 0.07
Matches are distributed among these distances:
54 22 0.09
55 212 0.87
56 9 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (55 bp):
ATGTGGAAAGTCTACCAAGACTATCTTATGTGGAAGCCTATGAGGACTATCTGAT
Found at i:27807734 original size:110 final size:109
Alignment explanation
Indices: 27807575--27807922 Score: 389
Period size: 110 Copynumber: 3.2 Consensus size: 109
27807565 TTAAATGTGG
* * * * * *
27807575 AAAGTCTACCAAGACAATCTTATGTGGAAGCCTATAAGGACTATTTGATATGTGGAAAGTTAGCT
1 AAAGTCCACCAAGACTATCTTATGTGGAAGTCTATGAGGACTATCTGATATGTGGAAAGTTACCT
*
27807640 AGGACTATCTTATGTGGAAGTCCGTGAGGACTATCTGATATGGA
66 AGGACTATCTTATGTGGAAGTCCGTAAGGACTATCTGATATGGA
* * ** *
27807684 CAAAGTCCACCATGACTATCTTATGTGAAAGTCTATGAGGACTGCCTGATATGTGGAAAGTCTAT
1 -AAAGTCCACCAAGACTATCTTATGTGGAAGTCTATGAGGACTATCTGATATGTGGAAAGT-TAC
* *
27807749 C-AGGACTATCTTATATAGAAG-CCTGTAAGGACTATCTGATATGGGA
64 CTAGGACTATCTTATGTGGAAGTCC-GTAAGGACTATCTGATAT-GGA
** * * *
27807795 AAAGTCTGCCAAGACTATCTTATGTGGAAGTCCATGAGGACTATCTGGTATGGGGAAA-TT-CCG
1 AAAGTCCACCAAGACTATCTTATGTGGAAGTCTATGAGGACTATCTGATATGTGGAAAGTTACC-
* * * *
27807858 TCAAGACTATCTTATGTGGAAGTCCGTTAGGACTATCTTATATGGG
65 T-AGGACTATCTTATGTGGAAGTCCGTAAGGACTATCTGATATGGA
* *
27807904 GAAGTCCACCAGGACTATC
1 AAAGTCCACCAAGACTATC
27807923 GATTTGAGGA
Statistics
Matches: 198, Mismatches: 33, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
107 1 0.01
108 1 0.01
109 20 0.10
110 168 0.85
111 8 0.04
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (109 bp):
AAAGTCCACCAAGACTATCTTATGTGGAAGTCTATGAGGACTATCTGATATGTGGAAAGTTACCT
AGGACTATCTTATGTGGAAGTCCGTAAGGACTATCTGATATGGA
Found at i:27807841 original size:165 final size:165
Alignment explanation
Indices: 27807569--27807881 Score: 432
Period size: 165 Copynumber: 1.9 Consensus size: 165
27807559 ACATTCTTAA
* * *
27807569 ATGTGGAAAGTCTACCAAGACAATCTTATGTGGAAGCCTATAAGGACTATTTGATATGTGGAAAG
1 ATGTGGAAAGTCTACCAAGACAATCTTATATAGAAGCCTATAAGGACTATCTGATATGTGGAAAG
* * * *
27807634 TTAGCTAGGACTATCTTATGTGGAAGTCCGTGAGGACTATCTGATATGGACAAAGTCCACCATGA
66 TTAGCCAAGACTATCTTATGTGGAAGTCCATGAGGACTATCTGATATGGACAAAGTCCACCAAGA
27807699 CTATCTTATGTGAAAGTCTATGAGGACTGCCTGAT
131 CTATCTTATGTGAAAGTCTATGAGGACTGCCTGAT
* * * *
27807734 ATGTGGAAAGTCTATCAGGACTATCTTATATAGAAGCCTGTAAGGACTATCTGATATG-GGAAAA
1 ATGTGGAAAGTCTACCAAGACAATCTTATATAGAAGCCTATAAGGACTATCTGATATGTGG-AAA
* ** * **
27807798 GTCT-GCCAAGACTATCTTATGTGGAAGTCCATGAGGACTATCTGGTATGGGGAAATTCCGTCAA
65 GT-TAGCCAAGACTATCTTATGTGGAAGTCCATGAGGACTATCTGATATGGACAAAGTCCACCAA
*
27807862 GACTATCTTATGTGGAAGTC
129 GACTATCTTATGTGAAAGTC
27807882 CGTTAGGACT
Statistics
Matches: 128, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
164 2 0.02
165 125 0.98
166 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (165 bp):
ATGTGGAAAGTCTACCAAGACAATCTTATATAGAAGCCTATAAGGACTATCTGATATGTGGAAAG
TTAGCCAAGACTATCTTATGTGGAAGTCCATGAGGACTATCTGATATGGACAAAGTCCACCAAGA
CTATCTTATGTGAAAGTCTATGAGGACTGCCTGAT
Found at i:27807917 original size:28 final size:27
Alignment explanation
Indices: 27807807--27807922 Score: 101
Period size: 28 Copynumber: 4.3 Consensus size: 27
27807797 AGTCTGCCAA
* * *
27807807 GACTATC-TTATGTGGAAGTCCATGAG
1 GACTATCTTTATGGGGAAGTCCGTCAG
* * *
27807833 GACTATCTGGTATGGGGAAATTCCGTCAA
1 GACTATCT-TTATGGGG-AAGTCCGTCAG
* *
27807862 GACTATC-TTATGTGGAAGTCCGTTAG
1 GACTATCTTTATGGGGAAGTCCGTCAG
**
27807888 GACTATCTTATATGGGGAAGTCCACCAG
1 GACTATCTT-TATGGGGAAGTCCGTCAG
27807916 GACTATC
1 GACTATC
27807923 GATTTGAGGA
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
26 22 0.31
27 7 0.10
28 27 0.39
29 14 0.20
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (27 bp):
GACTATCTTTATGGGGAAGTCCGTCAG
Found at i:27809038 original size:14 final size:15
Alignment explanation
Indices: 27809013--27809046 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
27809003 GTGGAACTCG
27809013 TTTTGAGAAATATGC
1 TTTTGAGAAATATGC
*
27809028 TTTTG-GAAATATGT
1 TTTTGAGAAATATGC
27809042 TTTTG
1 TTTTG
27809047 TATATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (15 bp):
TTTTGAGAAATATGC
Found at i:27809317 original size:31 final size:31
Alignment explanation
Indices: 27809243--27809301 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
27809233 TAATTTCTAT
*
27809243 CCATGCCA-TTGGGATAATTGTAGTTTTCCAC
1 CCATGCCACTAGGG-TAATTGTAGTTTTCCAC
*
27809274 CCATGCCACTAGGGTAATTGTGGTTTTC
1 CCATGCCACTAGGGTAATTGTAGTTTTC
27809302 GACCTATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (31 bp):
CCATGCCACTAGGGTAATTGTAGTTTTCCAC
Found at i:27816280 original size:19 final size:20
Alignment explanation
Indices: 27816256--27816294 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27816246 GGCTGAAGAT
27816256 TTTTAC-TTGCGAGCTTTGA
1 TTTTACATTGCGAGCTTTGA
*
27816275 TTTTACAATTGGGAGCTTTG
1 TTTTAC-ATTGCGAGCTTTG
27816295 CTCTCACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (20 bp):
TTTTACATTGCGAGCTTTGA
Done.