Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 56 of 250
Found at i:17642064 original size:27 final size:27
Alignment explanation
Indices: 17642006--17642064 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
17641996 AAAGTACTCC
* * *
17642006 CGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAAAATTACCATTTTACCAT
*
17642033 CGATTTACAGAATTACCATTTTACCAT
1 CGATTTACAAAATTACCATTTTACCAT
*
17642060 TGATT
1 CGATT
17642065 GTGAAATTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (27 bp):
CGATTTACAAAATTACCATTTTACCAT
Found at i:17642104 original size:27 final size:27
Alignment explanation
Indices: 17642069--17642262 Score: 196
Period size: 27 Copynumber: 7.2 Consensus size: 27
17642059 TTGATTGTGA
17642069 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
17642096 AATTTCTGAAA-ATCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
17642122 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
17642149 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
17642176 AATTATCT-AAATACTCTTGTAGGGTAG
1 AATTA-CTGAAATACCCCTGTAGGGTAG
* *
17642203 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
17642230 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
17642257 AATTAC
1 AATTAC
17642263 CATTTTGCCC
Statistics
Matches: 135, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
26 23 0.17
27 111 0.82
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:17642204 original size:54 final size:54
Alignment explanation
Indices: 17642069--17642264 Score: 220
Period size: 54 Copynumber: 3.6 Consensus size: 54
17642059 TTGATTGTGA
* * * * *
17642069 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTGAAAAT--CCCTATAAGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTAC-CAAAATACCCCTGTAGGGTAG
* *
17642122 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
17642176 AATTATCT-AAATACTCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTA-CTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
17642230 AATTA-TCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCA
17642265 TTTTGCCCCT
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 6 0.05
53 29 0.24
54 83 0.69
55 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:17642500 original size:27 final size:26
Alignment explanation
Indices: 17642462--17642544 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
17642452 CGGAGGAAGC
17642462 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
17642489 GTTCTGGTGGCTCTGGCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * **
17642515 GTATTTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
17642542 GTT
1 GTT
17642545 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:17642664 original size:22 final size:22
Alignment explanation
Indices: 17642632--17642690 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
17642622 CCCGTTATTA
*
17642632 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * *
17642654 ATGGCTTTGTGCCATCTTAACT
1 ATGGCTTTGTGCCAACCTAAAT
*
17642676 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
17642691 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:17642877 original size:27 final size:27
Alignment explanation
Indices: 17642855--17642928 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
17642845 TAGGTGGGTT
*
17642855 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
17642882 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
17642909 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
17642929 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:17643055 original size:6 final size:6
Alignment explanation
Indices: 17643046--17643232 Score: 145
Period size: 6 Copynumber: 30.8 Consensus size: 6
17643036 TTGCATTCAC
* *
17643046 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
17643095 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTA ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * * *
17643143 GTTCTG -TCACCTA ATTCTG ATTCTG ATTCTA ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
17643192 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTA ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
17643233 CATTTTGGTT
Statistics
Matches: 145, Mismatches: 20, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 11 0.08
6 121 0.83
7 10 0.07
8 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:17643110 original size:30 final size:30
Alignment explanation
Indices: 17643046--17643232 Score: 224
Period size: 30 Copynumber: 6.4 Consensus size: 30
17643036 TTGCATTCAC
* *
17643046 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATACTG
17643077 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
17643107 ATTCTGATTCTGATTCTGTTAC---TA---
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * *
17643131 ATTCTGATTCTGGTTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
* *
17643162 ATTCTGATTCTAATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
17643192 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
17643222 ATTCTAATTCT
1 ATTCTGATTCT
17643233 CATTTTGGTT
Statistics
Matches: 134, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
24 19 0.14
25 1 0.01
27 2 0.01
28 1 0.01
30 72 0.54
31 39 0.29
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:17643194 original size:85 final size:85
Alignment explanation
Indices: 17643046--17643232 Score: 320
Period size: 85 Copynumber: 2.2 Consensus size: 85
17643036 TTGCATTCAC
* *
17643046 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
17643111 TGATTCTGATTCTGTTACTA
66 TGATTCTGATTCTGTTACTA
* *
17643131 ATTCTGATTCTGGTTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
*
17643196 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTA
*
17643216 ATTCTGATTCTAATTCT
1 ATTCTGATTCTGATTCT
17643233 CATTTTGGTT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 95 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTA
Found at i:17645279 original size:27 final size:27
Alignment explanation
Indices: 17645249--17645845 Score: 648
Period size: 27 Copynumber: 22.1 Consensus size: 27
17645239 AGTACTCTCA
*
17645249 ATTTACAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
17645276 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
17645303 ATTTTGAAAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
17645330 ATTTATAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
*
17645356 AGTTTACAGAATTACCGTTTTACCCTTG
1 A-TTTACAGAATTACCGTTTTACCCTCG
**
17645384 ATTTACAGAATTACCGTTTTACCCTTA
1 ATTTACAGAATTACCGTTTTACCCTCG
** * **
17645411 ATTTTTAAAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
17645438 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
*
17645464 AGTTTACAGAATTACTGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
17645492 ATTTACAGAATTACTGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* **
17645518 AGTTTATAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* * * *
17645546 ATTTATATAATTATCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * * * *
17645573 ATTTGTAAAATTATCATTTTATCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* * *
17645600 GTTTACAGAATTACCATTTTACCCT-A
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
17645626 AGTTTACAGAATTACTGTTGTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
17645654 ATTTACAGAATTGCCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
17645680 AGTTTATAGAATTACTGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
17645708 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * * *
17645735 ATTTGTAAAATTACCATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
17645762 ATTTACAGAATTACTGGTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
17645788 AGTTTACAAAATTATCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
17645816 ATTTACAGAATTACCATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
17645843 ATT
1 ATT
17645846 GTGAAATTAC
Statistics
Matches: 483, Mismatches: 75, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.01
27 472 0.98
28 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:17645392 original size:108 final size:108
Alignment explanation
Indices: 17645245--17645856 Score: 738
Period size: 108 Copynumber: 5.7 Consensus size: 108
17645235 CCAAAGTACT
* * *
17645245 CTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTGA
1 CTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTTGA
* *
17645310 AAATTA-TCGTTTTACCCTCGATTTATAGAATTACCGTTTTACC
66 AAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTTTACC
* * ** *
17645353 CTCAGTTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTTAATTTTTA
1 CTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTTGA
*
17645418 AAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACC
66 AAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACC
* **
17645461 CTCAGTTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTC-AGTTTAT
1 CTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGA-TTT-T
* * * * *
17645525 -AGAATTACTATTTTACCCTCGATTTATATAATTATCATTTTACC
64 GAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACC
* * * * * * *
17645569 CTCGATTTGTA-A-AATTATCATTTTATCCTCGGTTTACAGAATTACCATTTTACCCT-AAGTTT
1 CTC-AGTT-TACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTT
* * *
17645631 -ACAGAATTACTGTTGTACCCTCGATTTACAGAATTGCCGTTTTACC
64 GA-A-AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACC
* *
17645677 CTCAGTTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGA-TTTGT
1 CTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTTG-
* * * *
17645741 AAAATTACCATTTTACCCTTGATTTACAGAATTACTGGTTTACC
65 AAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACC
* * * *
17645785 CTCAGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTGTG-
1 CTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTTGA
17645849 AAATTACT
66 AAATTACT
17645857 GAAATACCCC
Statistics
Matches: 435, Mismatches: 55, Indels: 29
0.84 0.11 0.06
Matches are distributed among these distances:
106 4 0.01
107 14 0.03
108 403 0.93
109 11 0.03
110 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (108 bp):
CTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTTGA
AAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACC
Found at i:17645880 original size:27 final size:27
Alignment explanation
Indices: 17645850--17646015 Score: 194
Period size: 27 Copynumber: 6.2 Consensus size: 27
17645840 TTGATTGTGA
17645850 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
17645877 AATT-TTCGAAATACCCCTATAAGGTAG
1 AATTACT-GAAATACCCCTATAGGGTAG
* *
17645904 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
17645931 AATTACTAAAATA-CCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
* *
17645957 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTATAGGGTAG
* * *
17645984 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAG
17646011 AATTA
1 AATTA
17646016 TCGAGATACC
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 21 0.18
27 95 0.81
28 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTATAGGGTAG
Found at i:17646012 original size:80 final size:81
Alignment explanation
Indices: 17645850--17646015 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 81
17645840 TTGATTGTGA
* * * *
17645850 AATTACTGAAATACCCCTATAGGGTAGAATTTTCGAAATACCCCTATAAGGTAGAATTACTGAAA
1 AATTACTAAAATACCCCTATAGGGTAGAATTATCGAAATACCCCTATAAGGTAGAAATACCGAAA
*
17645915 TACCCTTATAGGATAG
66 TACCCCTATAGGATAG
* * * *
17645931 AATTACTAAAATA-CCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTAAAATACCCCTATAGGGTAGAATTATCGAAATACCCCTATAAGGTAGAAATACCGAAA
* *
17645995 TACCCCTGTAGGGTAG
66 TACCCCTATAGGATAG
17646011 AATTA
1 AATTA
17646016 TCGAGATACC
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 62 0.84
81 12 0.16
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (81 bp):
AATTACTAAAATACCCCTATAGGGTAGAATTATCGAAATACCCCTATAAGGTAGAAATACCGAAA
TACCCCTATAGGATAG
Found at i:17646035 original size:27 final size:27
Alignment explanation
Indices: 17645857--17646042 Score: 189
Period size: 27 Copynumber: 6.9 Consensus size: 27
17645847 TGAAATTACT
* * *
17645857 GAAATACCCCTATAGGGTAGAATTTTC
1 GAAATACCCTTGTAGGGTAGAATTATC
* * *
17645884 GAAATACCCCTATAAGGTAGAATTA-C
1 GAAATACCCTTGTAGGGTAGAATTATC
* *
17645910 TGAAATACCCTTATAGGATAGAATTA-C
1 -GAAATACCCTTGTAGGGTAGAATTATC
*
17645937 TAAAATACCC-TGTAGGGTAGAATTATC
1 -GAAATACCCTTGTAGGGTAGAATTATC
* *
17645964 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTATC
*
17645991 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTATC
* * * *
17646018 GAGATACCTTTGTGGGGTAAAATTA
1 GAAATACCCTTGTAGGGTAGAATTA
17646043 CCATTTTGCC
Statistics
Matches: 137, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
26 22 0.16
27 115 0.84
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTATC
Found at i:17646281 original size:27 final size:26
Alignment explanation
Indices: 17646243--17646325 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
17646233 CGGAGGAAGC
17646243 GTTCTGGTGGCTAT-GCCACAAATATCT
1 GTTCTGGTGGCTATAG-CAC-AATATCT
*
17646270 GTTCTGGTGGCTCTAGCACAATATCT
1 GTTCTGGTGGCTATAGCACAATATCT
* * * *
17646296 GTATTTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTATAGCACAATATCT
17646323 GTT
1 GTT
17646326 GACCGATCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 10 0.20
27 39 0.78
28 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATAGCACAATATCT
Found at i:17646444 original size:22 final size:22
Alignment explanation
Indices: 17646412--17646470 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
17646402 CCCGTTATTA
*
17646412 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
17646434 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
17646456 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
17646471 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:17646656 original size:27 final size:27
Alignment explanation
Indices: 17646626--17646682 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
17646616 TATTCTGTTA
* *
17646626 GGTGGGTTTGCCACATTATCTG-ATTCT
1 GGTGGGCTTGCCACAATATCTGTA-TCT
17646653 GGT-GGCTTGCCACAATATCTGTATCT
1 GGTGGGCTTGCCACAATATCTGTATCT
17646679 GGTG
1 GGTG
17646683 ACTCTGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (27 bp):
GGTGGGCTTGCCACAATATCTGTATCT
Found at i:17646700 original size:27 final size:26
Alignment explanation
Indices: 17646633--17646706 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
17646623 TTAGGTGGGT
* *
17646633 TTGCCACATTATCTG-ATTCTGGTGGC
1 TTGCCACAATATCTGTA-TCTGGTGAC
17646659 TTGCCACAATATCTGTATCTGGTGAC
1 TTGCCACAATATCTGTATCTGGTGAC
* *
17646685 TCTGTCACGATATCTGT-TCTGG
1 T-TGCCACAATATCTGTATCTGG
17646707 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 28 0.67
27 14 0.33
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
TTGCCACAATATCTGTATCTGGTGAC
Found at i:17646833 original size:6 final size:6
Alignment explanation
Indices: 17646824--17647010 Score: 172
Period size: 6 Copynumber: 30.8 Consensus size: 6
17646814 TTGCATTCAC
* *
17646824 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
17646873 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
17646921 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
*
17646970 ATTCTG ATTCTA ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
17647011 CATTTTGGTT
Statistics
Matches: 149, Mismatches: 16, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
5 11 0.07
6 125 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:17646964 original size:85 final size:85
Alignment explanation
Indices: 17646824--17647010 Score: 347
Period size: 85 Copynumber: 2.2 Consensus size: 85
17646814 TTGCATTCAC
*
17646824 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
17646889 TGATTCTGATTCTGTTACTG
66 TGATTCTAATTCTGTTACTG
*
17646909 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
17646974 TGATTCTAATTCTGTTACTG
66 TGATTCTAATTCTGTTACTG
17646994 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
17647011 CATTTTGGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 99 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTAATTCTGTTACTG
Found at i:17647031 original size:30 final size:30
Alignment explanation
Indices: 17646824--17647010 Score: 253
Period size: 30 Copynumber: 6.4 Consensus size: 30
17646814 TTGCATTCAC
*
17646824 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
17646855 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
17646885 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
17646909 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
17646940 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
* *
17646970 ATTCTGATTCTAATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
17647000 ATTCTGATTCT
1 ATTCTGATTCT
17647011 CATTTTGGTT
Statistics
Matches: 141, Mismatches: 6, Indels: 19
0.85 0.04 0.11
Matches are distributed among these distances:
24 21 0.15
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 69 0.49
31 45 0.32
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:17651383 original size:12 final size:13
Alignment explanation
Indices: 17651366--17651398 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17651356 AAGTTTTTGC
*
17651366 ACACGGGCTA-GG
1 ACACGGGCCAGGG
17651378 ACACGGGCCAGGG
1 ACACGGGCCAGGG
17651391 ACACGGGC
1 ACACGGGC
17651399 GTCTGAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.24, C:0.30, G:0.42, T:0.03
Consensus pattern (13 bp):
ACACGGGCCAGGG
Found at i:17653397 original size:24 final size:24
Alignment explanation
Indices: 17653350--17653397 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17653340 TATGTGAAGG
* *
17653350 AAATCAAGGAGAGGATTGGGGAGA
1 AAATCAAGGAGAGGATTAGAGAGA
*
17653374 AAATCAAGGAGAGGATTATAGAGA
1 AAATCAAGGAGAGGATTAGAGAGA
17653398 GATTTTAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.35, T:0.15
Consensus pattern (24 bp):
AAATCAAGGAGAGGATTAGAGAGA
Found at i:17654650 original size:18 final size:18
Alignment explanation
Indices: 17654610--17654651 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17654600 ATGGTAATTT
*
17654610 TTGGGCTTGATGGGCCAC
1 TTGGGCGTGATGGGCCAC
*
17654628 ATGGGCGTG-TGGGCCTAC
1 TTGGGCGTGATGGGCC-AC
17654646 TTGGGC
1 TTGGGC
17654652 TGCAAATGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.10, C:0.21, G:0.43, T:0.26
Consensus pattern (18 bp):
TTGGGCGTGATGGGCCAC
Found at i:17666738 original size:3 final size:3
Alignment explanation
Indices: 17666730--17667157 Score: 139
Period size: 3 Copynumber: 142.7 Consensus size: 3
17666720 ATATATAATG
* * * * *
17666730 TAA TAA TAA TAG TGA TAA T-A CAA TAA TAA TAA TAA -AG CAA -AA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
17666774 TAA CAA TAT TAA TACA TTAA TGA GAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
17666820 TAG GAA AAA TAA T-A TAT TAAA GAA TAA TTA TAG TAA AAA TAA TAT
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
17666865 TAA -AA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA AAA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
17666912 AAA TAA AAA TAA TGAA T-A TAA TAG TAA CATA TAA CAA TAA TGGAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA T--AA TAA
* * * * *
17666960 CAC TAA TAA TAA AAA T-A TAGA -AGA TAA CAA AAA TAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TA-A TAA
* ** * * * * *
17667005 TAA TGA T-A TGT TAA CAA TAA TGA TTA TAA -AA AAA TAGA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
** * * * * *
17667049 TAA TATA TGAA TAA TAA T-A TGC TAA AAA TAG CAA TAG TAA AAA TAGA
1 TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * * *
17667096 AAA TAG TAA TAA TAA AAA TAA AAA TTA T-A TAAA TAA TAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
*
17667141 TAA TAA CAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
17667158 TTAAAATTAA
Statistics
Matches: 302, Mismatches: 95, Indels: 56
0.67 0.21 0.12
Matches are distributed among these distances:
2 25 0.08
3 250 0.83
4 21 0.07
5 6 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:17667098 original size:22 final size:21
Alignment explanation
Indices: 17667071--17667120 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
17667061 AATAATATGC
*
17667071 TAAAAATAGCAATAGTAAAAA
1 TAAAAATAGCAATAATAAAAA
*
17667092 TAGAAAATAGTAATAATAAAAA
1 TA-AAAATAGCAATAATAAAAA
17667114 TAAAAAT
1 TAAAAAT
17667121 TATATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
TAAAAATAGCAATAATAAAAA
Found at i:17667745 original size:11 final size:11
Alignment explanation
Indices: 17667729--17667775 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
17667719 ATTTTTTAAG
*
17667729 AAAAATAAAGA
1 AAAAATAAATA
17667740 AAAAATAAATA
1 AAAAATAAATA
*
17667751 AAATAAAAAATA
1 AAA-AATAAATA
*
17667763 AAAACTAAA-A
1 AAAAATAAATA
17667773 AAA
1 AAA
17667776 CCGTAACCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
10 4 0.13
11 17 0.55
12 10 0.32
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:17668938 original size:129 final size:132
Alignment explanation
Indices: 17668783--17669085 Score: 434
Period size: 129 Copynumber: 2.3 Consensus size: 132
17668773 CGTTACATGG
* *
17668783 AGATAAGATTTGCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGCAATTCCTC
1 AGATAAGATTTGCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGCAAATCCTC
* * * *
17668848 ATCCTGCTCCACTACTACTCAGGGAGATAAGGTTAGTGGCTTAAAT-T-TT-CCTACTACTTTAG
66 AGCCCGCTCCACTACTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTCTTCCCTACTACCTTAG
17668910 GA
131 GA
* *
17668912 AGATAAGATTTGCAATCTTCGATCTGC-TCTATTACTGCTTAGGGAGATAAGATCTGCAAATCCT
1 AGATAAGATTTGCCATCTTCGATCTGCTTC-ACTACTGCTTAGGGAGATAAGATCTGCAAATCCT
* * *
17668976 TAGCCCGCTCCACTGCTATTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTT
65 CAGCCCGCTCCACTACTACTCAGGGAGATAAGGCTAGTGGCTTAAATCT-CTTCCCTACTACCTT
17669041 AGGA
129 AGGA
* * *
17669045 AAATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 AGATAAGATTTGCCATCTTCGATCTGCTTCACTACTGCTTA
17669086 AGGAAATGAG
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
128 2 0.01
129 98 0.64
130 1 0.01
132 2 0.01
133 48 0.32
134 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
AGATAAGATTTGCCATCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGCAAATCCTC
AGCCCGCTCCACTACTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTCTTCCCTACTACCTTAG
GA
Found at i:17668970 original size:44 final size:44
Alignment explanation
Indices: 17668781--17668970 Score: 135
Period size: 44 Copynumber: 4.4 Consensus size: 44
17668771 GTCGTTACAT
* * *
17668781 GGAGATAAGATTTGCCATCTTTGATCTGCT-TCACTACTGCTTAG
1 GGAGATAAGATCTGCAATCTTCGATCTGCTCT-ACTACTGCTTAG
* * * *
17668825 GGAGATAAGATCTGCAATTCCTC-ATCCTGCTCCACTACTACTCAG
1 GGAGATAAGATCTGCAA-TCTTCGAT-CTGCTCTACTACTGCTTAG
* * ** * *
17668870 GGAGATAAGGT-T--AGTGGCTTAAATTTTC-CTACTACT--TTAG
1 GGAGATAAGATCTGCAAT--CTTCGATCTGCTCTACTACTGCTTAG
* * *
17668910 GAAGATAAGATTTGCAATCTTCGATCTGCTCTATTACTGCTTAG
1 GGAGATAAGATCTGCAATCTTCGATCTGCTCTACTACTGCTTAG
17668954 GGAGATAAGATCTGCAA
1 GGAGATAAGATCTGCAA
17668971 ATCCTTAGCC
Statistics
Matches: 109, Mismatches: 25, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
40 12 0.11
41 9 0.08
42 15 0.14
43 6 0.06
44 39 0.36
45 28 0.26
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
GGAGATAAGATCTGCAATCTTCGATCTGCTCTACTACTGCTTAG
Found at i:17679221 original size:27 final size:27
Alignment explanation
Indices: 17679180--17679233 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17679170 TGTCATGTGA
* *
17679180 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
17679207 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
17679234 GGTTATATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:17679600 original size:51 final size:50
Alignment explanation
Indices: 17679483--17679723 Score: 265
Period size: 49 Copynumber: 4.8 Consensus size: 50
17679473 TTGTGAGGTT
* * * *
17679483 ACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTACCGGATTA-TTGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTTGGTC
* * * * * *
17679532 GCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTTTGATC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTTGGTC
* ** *
17679583 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTTGGTC
* * * *
17679633 ACGTGTGTAGTACTAAGTGCAAGCTACTACGTATACCGGATAA-TTGGTTGC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTTGG-T-C
17679684 AC--GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
17679724 GCTTTGGCTA
Statistics
Matches: 158, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 73 0.46
50 42 0.27
51 43 0.27
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTTGGTC
Found at i:17679722 original size:99 final size:99
Alignment explanation
Indices: 17679487--17679722 Score: 287
Period size: 101 Copynumber: 2.4 Consensus size: 99
17679477 GAGGTTACGT
* * * * *
17679487 GTGTAGTACTAAGTTCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTAC
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTAC
* * * *
17679552 AGGCTACTATGCGTACCCGATAACTTTGATCACG
66 AAGCTACTACGCATACCCGATAACTTGGATCACG
* * *
17679586 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 -GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGATT-GGTCACATGTGTAGTACTAAGT
* * * *
17679651 GCAAGCTACTACGTATACCGGATAA-TTGGTTGCAC-
64 ACAAGCTACTACGCATACCCGATAACTTGGAT-CACG
17679686 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT
17679723 AGCTTTGGCT
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 36 0.31
100 39 0.33
101 42 0.36
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (99 bp):
GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTAC
AAGCTACTACGCATACCCGATAACTTGGATCACG
Found at i:17685237 original size:80 final size:80
Alignment explanation
Indices: 17685104--17685359 Score: 360
Period size: 80 Copynumber: 3.2 Consensus size: 80
17685094 GATGATAACG
*
17685104 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGT
17685168 GCGAGTTACTA-ATTCC
65 GCGAGTTACTATA-TCC
* *
17685184 GGGCTAAGTCTCGAAGGCATTTGTGTGAGTTACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
17685249 CGAGTTACTATATCC
66 CGAGTTACTATATCC
* ** *
17685264 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
17685328 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
17685344 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
17685360 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
79 19 0.12
80 141 0.88
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:17685345 original size:40 final size:40
Alignment explanation
Indices: 17685104--17685333 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
17685094 GATGATAACG
* *
17685104 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
17685144 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
17685184 GGGCTAAGTCTCGAAGGCATTTGTGTGAGTTACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
17685224 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
17685264 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
17685304 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
17685334 AGCTATATCC
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 174 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:17693410 original size:40 final size:40
Alignment explanation
Indices: 17693169--17693398 Score: 329
Period size: 40 Copynumber: 5.8 Consensus size: 40
17693159 GATGATAACG
* * *
17693169 GGGCTAATTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
17693209 GGGCTAAGTCCCAAATGCCTTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
17693249 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
17693289 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
17693329 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
17693369 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
17693399 AGCTATATCC
Statistics
Matches: 171, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 2 0.01
40 169 0.99
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:17701801 original size:30 final size:30
Alignment explanation
Indices: 17701766--17701823 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
17701756 TAGGCACTTC
17701766 CACACGGAT-GATC-CACACGCCTGTGTGTGA
1 CACACGGATAGATCACACAC-CC-GTGTGTGA
*
17701796 CACACGGGTAGATCACACACCCGTGTGT
1 CACACGGATAGATCACACACCCGTGTGT
17701824 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 14 0.56
31 6 0.24
32 5 0.20
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGGATAGATCACACACCCGTGTGTGA
Found at i:17709598 original size:31 final size:31
Alignment explanation
Indices: 17709555--17709700 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
17709545 TTAGTCTTGA
17709555 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
17709585 CATATCACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* *
17709616 CATATTACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* *
17709647 CATATCACTGGGCAGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
17709678 CATATCACTGGCCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
17709701 ACTGTAAACG
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.05
31 104 0.95
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:17711205 original size:40 final size:40
Alignment explanation
Indices: 17711131--17711352 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
17711121 AACCCAAGTA
* * *
17711131 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
17711170 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
17711210 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
17711250 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
17711290 CCTTCGGGACTTAGCCTGAATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
17711330 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
17711353 CATTCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.07
40 154 0.92
41 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:17713419 original size:25 final size:25
Alignment explanation
Indices: 17713391--17713460 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
17713381 CTCTTTTAAT
17713391 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
17713416 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
17713441 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17713461 AGCATTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:17713988 original size:55 final size:54
Alignment explanation
Indices: 17713925--17714053 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 54
17713915 ATCTACAAAC
17713925 TAAGGGTATTTCAGTAATTTTGTAAACCAACGGTATTTCT-ATAATTTTTAAAAGT
1 TAAGGGTATTTCAGTAATTTTGTAAACCAACGGTATTT-TGATAATTTTTAAAA-T
* * ** * *
17713980 TAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTTCAAAT
1 TAAGGGTATTTCAGTAATTTTGTAAACCAACGGTATTTTGATAATTTTTAAAAT
17714034 TGAA-GGTATTTCAGTAATTT
1 T-AAGGGTATTTCAGTAATTT
17714054 CACAAACCAG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
54 18 0.28
55 47 0.72
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (54 bp):
TAAGGGTATTTCAGTAATTTTGTAAACCAACGGTATTTTGATAATTTTTAAAAT
Found at i:17714113 original size:54 final size:54
Alignment explanation
Indices: 17713906--17714114 Score: 188
Period size: 54 Copynumber: 3.9 Consensus size: 54
17713896 TACAAGGGTG
* * ** *
17713906 TTTCGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAACGGTA
1 TTTCGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAACCAGCGGTA
** * * ** * *
17713960 TTTCTATAATTTTTA-AAAGTTAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTTCGGTAA-TTTTACAAA-CTAAGGGTATTTCAGTAATTTTACAAACCAGCGGTA
* * * * *
17714015 TTTTGGTAATTTTTCAAATTGAA-GGTATTTCAGTAATTTCACAAACCAGTGGTA
1 TTTCGGTAATTTTACAAACT-AAGGGTATTTCAGTAATTTTACAAACCAGCGGTA
* **
17714069 TTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 TTTCGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAAC
17714115 TAGGGCATTT
Statistics
Matches: 124, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
53 1 0.01
54 78 0.63
55 45 0.36
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (54 bp):
TTTCGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAACCAGCGGTA
Found at i:17714131 original size:26 final size:26
Alignment explanation
Indices: 17713900--17714132 Score: 130
Period size: 27 Copynumber: 8.7 Consensus size: 26
17713890 TCATCCTACA
* * * *
17713900 AGGGTGTTTCGGTAAATCTACAAACT
1 AGGGTATTTCAGTAATTTTACAAACT
** *
17713926 AAGGGTATTTCAGTAATTTTGTAAACCA
1 -AGGGTATTTCAGTAATTTTACAAA-CT
* *
17713954 ACGGTATTTCTA-TAATTTTTA-AAAGTT
1 AGGGTATTTC-AGTAA-TTTTACAAA-CT
* **
17713981 AAGGGTATTTCTGTAATTTTGTAAA-T
1 -AGGGTATTTCAGTAATTTTACAAACT
** * *
17714007 CAGGGGTATTTTGGTAATTTTTCAAATT
1 -A-GGGTATTTCAGTAATTTTACAAACT
* * *
17714035 GAAGGTATTTCAGTAATTTCACAAACC
1 -AGGGTATTTCAGTAATTTTACAAACT
*
17714062 AGTGGTATTTCGGTAATTTTACAAACT
1 AG-GGTATTTCAGTAATTTTACAAACT
**
17714089 AGGGGTATTTTGGTAATTTTACAAACT
1 A-GGGTATTTCAGTAATTTTACAAACT
* *
17714116 AGGGCATTTCAATAATT
1 AGGGTATTTCAGTAATT
17714133 GGTAAACTAA
Statistics
Matches: 159, Mismatches: 37, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
26 15 0.09
27 120 0.75
28 24 0.15
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTTTACAAACT
Found at i:17714209 original size:29 final size:29
Alignment explanation
Indices: 17714168--17714235 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
17714158 GATAACAATA
17714168 CAAAT-GGCCCTAAAGCCCATTCTCGGCC
1 CAAATGGGCCCTAAAGCCCATTCTCGGCC
*
17714196 CAAATGGGCCCTAAAGCCTATTCTCGGCC
1 CAAATGGGCCCTAAAGCCCATTCTCGGCC
*
17714225 AAAATGGGCCC
1 CAAATGGGCCC
17714236 ACACGCTCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.18
Consensus pattern (29 bp):
CAAATGGGCCCTAAAGCCCATTCTCGGCC
Found at i:17717005 original size:14 final size:15
Alignment explanation
Indices: 17716973--17717010 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
17716963 GTAACTCATT
**
17716973 AAAAGGGAATTAATA
1 AAAAGGGAACCAATA
17716988 AAAAGGGAACCAATA
1 AAAAGGGAACCAATA
17717003 AAAAGGGA
1 AAAAGGGA
17717011 GAAATTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.61, C:0.05, G:0.24, T:0.11
Consensus pattern (15 bp):
AAAAGGGAACCAATA
Found at i:17717873 original size:6 final size:6
Alignment explanation
Indices: 17717862--17717929 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
17717852 CTTTAGAACT
* ** *
17717862 AAAATA AAAATA AAAATA AAAATG AAAACG AAAATG AAAATA AAGAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA
17717910 AAAATA AAAGAT- AAAATA AA
1 AAAATA AAA-ATA AAAATA AA
17717930 TGGACTCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.07
6 46 0.85
7 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:17717926 original size:30 final size:31
Alignment explanation
Indices: 17717861--17717929 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
17717851 TCTTTAGAAC
17717861 TAAAATAAAAATAAAAATAAAAATGAAAACG
1 TAAAATAAAAATAAAAATAAAAATGAAAACG
*
17717892 -AAAATGAAAATAAAGAA-AAAAAT-AAAA-G
1 TAAAATAAAAATAAA-AATAAAAATGAAAACG
17717920 ATAAAATAAA
1 -TAAAATAAA
17717930 TGGACTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 1 0.03
29 4 0.12
30 26 0.79
31 2 0.06
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.14
Consensus pattern (31 bp):
TAAAATAAAAATAAAAATAAAAATGAAAACG
Found at i:17719489 original size:25 final size:25
Alignment explanation
Indices: 17719460--17719545 Score: 79
Period size: 24 Copynumber: 3.4 Consensus size: 25
17719450 AAAAAAAGTA
17719460 AAAAAATAATAATGAAATAATAAAT
1 AAAAAATAATAATGAAATAATAAAT
*
17719485 AAAAAAT-ATGATGAAA-AAT-AAT
1 AAAAAATAATAATGAAATAATAAAT
* *
17719507 AGTAATAATAATAAAGACTAATAATAAAT
1 A--AAAAATAATAATGA--AATAATAAAT
17719536 AAATAAATAA
1 AAA-AAATAA
17719546 AATTGACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
22 4 0.08
23 3 0.06
24 13 0.27
25 12 0.25
27 4 0.08
28 8 0.17
29 4 0.08
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (25 bp):
AAAAAATAATAATGAAATAATAAAT
Found at i:17719544 original size:28 final size:26
Alignment explanation
Indices: 17719513--17719565 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
17719503 TAATAGTAAT
17719513 AATAATAA-AGACTAATAATAAATAAATA
1 AATAA-AATAGACTAA-AATAAA-AAATA
*
17719541 AATAAAATTGACTAAAATAAAAAAT
1 AATAAAATAGACTAAAATAAAAAAT
17719566 GGAATAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
27 8 0.35
28 11 0.48
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (26 bp):
AATAAAATAGACTAAAATAAAAAATA
Found at i:17719793 original size:20 final size:21
Alignment explanation
Indices: 17719764--17719822 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
17719754 GGTTGAAGAG
17719764 GAAG-AAGGGGAAAAAGGGAA
1 GAAGAAAGGGGAAAAAGGGAA
*
17719784 -AAGAAAGGGGAAGAAA-GAAA
1 GAAGAAAGGGGAA-AAAGGGAA
* *
17719804 GAAGAAAGGAGAGAAAGGG
1 GAAGAAAGGGGAAAAAGGG
17719823 TGGGGGTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 3 0.10
20 14 0.45
21 14 0.45
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (21 bp):
GAAGAAAGGGGAAAAAGGGAA
Found at i:17723881 original size:46 final size:46
Alignment explanation
Indices: 17723831--17724000 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
17723821 TTGAGCATCT
*
17723831 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * *
17723877 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * * * *
17723924 AAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
*
17723970 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17724001 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.56
47 27 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:17727253 original size:37 final size:37
Alignment explanation
Indices: 17727200--17727300 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
17727190 CGAATAGTCC
* *
17727200 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
17727237 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
17727274 CCACACGTAGTCATCGGGTCTTACCCG
1 CCACACGTAGTCATCGGGTCTTACCCG
17727301 TAATATATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:17727501 original size:48 final size:48
Alignment explanation
Indices: 17727443--17728164 Score: 1264
Period size: 48 Copynumber: 15.0 Consensus size: 48
17727433 ATATACACAC
*
17727443 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17727491 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
17727539 ATCTCATATATAGTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17727587 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17727635 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
**
17727683 ATCTCATTGATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
17727731 ATCTCATATATAGTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17727779 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17727827 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17727875 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
17727923 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATAGACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
17727971 ATCTCATTCGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
17728019 ATCTCATATATATTTCACACTAGCCATTGGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17728067 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17728115 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17728163 AT
1 AT
17728165 ATATTTATCT
Statistics
Matches: 642, Mismatches: 32, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 642 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:17727931 original size:28 final size:27
Alignment explanation
Indices: 17727899--17728025 Score: 66
Period size: 28 Copynumber: 5.1 Consensus size: 27
17727889 TCACACTAGC
17727899 CATTCGGCTTTACCACATATACATATCT
1 CATTCGGCTTTACCACATA-ACATATCT
*** *
17727927 CATTCATATTT--CAC---AC-TAGC-
1 CATTCGGCTTTACCACATAACATATCT
17727947 CATTCGGCTTTACCACATAGACATATCT
1 CATTCGGCTTTACCACATA-ACATATCT
** *
17727975 CATTCGTATTT--CAC---AC-TAGC-
1 CATTCGGCTTTACCACATAACATATCT
17727995 CATTCGGCTTTACCACATATACATATCT
1 CATTCGGCTTTACCACATA-ACATATCT
17728023 CAT
1 CAT
17728026 ATATATTTCA
Statistics
Matches: 69, Mismatches: 14, Indels: 32
0.60 0.12 0.28
Matches are distributed among these distances:
20 17 0.25
21 6 0.09
22 10 0.14
26 10 0.14
27 6 0.09
28 20 0.29
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (27 bp):
CATTCGGCTTTACCACATAACATATCT
Found at i:17731513 original size:40 final size:40
Alignment explanation
Indices: 17731469--17731707 Score: 388
Period size: 40 Copynumber: 6.0 Consensus size: 40
17731459 GAATGCACAT
* * * * *
17731469 CACCAGCATGATTGCTCTTTGGGGCCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
17731509 CACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
17731549 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
17731589 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
17731629 CACCAGCACAAATGCTCTTCGGGACTTACCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
17731669 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
17731708 TAACTCTCAA
Statistics
Matches: 187, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:17732488 original size:48 final size:48
Alignment explanation
Indices: 17732432--17732635 Score: 372
Period size: 48 Copynumber: 4.2 Consensus size: 48
17732422 ATAATTCAAA
*
17732432 ACATATACATATCTCATTCGTATTTCACACTAGCCATTCGGCTTTACC
1 ACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACC
*
17732480 ACATATACATATCTCAGTCATATTTCACACTAGCCATTCGGCTTTACC
1 ACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACC
17732528 ACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACC
1 ACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACC
* *
17732576 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
1 ACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACC
17732624 ACATATACATAT
1 ACATATACATAT
17732636 ATATTTATCT
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 151 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACC
Found at i:17735384 original size:37 final size:37
Alignment explanation
Indices: 17735329--17735430 Score: 141
Period size: 37 Copynumber: 2.8 Consensus size: 37
17735319 GAATAGTCCA
* * *
17735329 CACATGTAGTTATCGGGTCTTACCTGGACAAAATCTC
1 CACACGTAGTCATCGGGTCTTACCCGGACAAAATCTC
* *
17735366 CACACGTAGTCATTGGGTCTTACCCGGACATAATCTC
1 CACACGTAGTCATCGGGTCTTACCCGGACAAAATCTC
* *
17735403 CACACATAGTCATCAGGTCTTACCCGGA
1 CACACGTAGTCATCGGGTCTTACCCGGA
17735431 ATATATTTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (37 bp):
CACACGTAGTCATCGGGTCTTACCCGGACAAAATCTC
Found at i:17735629 original size:48 final size:48
Alignment explanation
Indices: 17735579--17736436 Score: 1535
Period size: 48 Copynumber: 17.9 Consensus size: 48
17735569 ACATCTCCTA
*
17735579 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
17735627 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
17735675 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
17735724 -ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* * *
17735771 CGTACTTCACACTAGCCATTCGGCTTTACCATATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
17735819 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
17735868 -ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
17735916 -ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
17735963 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
17736011 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTGATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
17736059 CATATTTCACACTAGCCATTCGGCTTTACCACATAGACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
17736107 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
17736156 -ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
17736203 CATATTTCACACTAGCAATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
17736251 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
*
17736299 CATTTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* * *
17736347 CATATTTCACATTAGCCATTCGGCTTTACAACATATACATATCTCATA
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* *
17736395 CATATTTCACATTAGCCATTCAGCTTTACCACATATACATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
17736437 ATATTTATCT
Statistics
Matches: 784, Mismatches: 20, Indels: 12
0.96 0.02 0.01
Matches are distributed among these distances:
47 3 0.00
48 778 0.99
49 3 0.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
Found at i:17736299 original size:28 final size:28
Alignment explanation
Indices: 17736267--17736347 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
17736257 TCACACTAGC
17736267 CATTCGGCTTTACCACATATACATATCT
1 CATTCGGCTTTACCACATATACATATCT
* ** *
17736295 CATTC--ATTTTTCAC----AC-TAGC-
1 CATTCGGCTTTACCACATATACATATCT
17736315 CATTCGGCTTTACCACATATACATATCT
1 CATTCGGCTTTACCACATATACATATCT
17736343 CATTC
1 CATTC
17736348 ATATTTCACA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 5 0.14
21 3 0.08
22 8 0.22
26 8 0.22
27 3 0.08
28 10 0.27
ACGTcount: A:0.27, C:0.30, G:0.06, T:0.37
Consensus pattern (28 bp):
CATTCGGCTTTACCACATATACATATCT
Found at i:17743270 original size:46 final size:46
Alignment explanation
Indices: 17743220--17743389 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
17743210 TTGAGCATCT
*
17743220 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * *
17743266 GAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * * *
17743313 AAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* *
17743359 GAGCTCGTTGAGTTGAGTCCGAGTGCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17743390 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.55
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:17743651 original size:19 final size:20
Alignment explanation
Indices: 17743614--17743651 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17743604 ATAAGGTGGT
17743614 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
17743634 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
17743652 TGGTGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:17748464 original size:19 final size:18
Alignment explanation
Indices: 17748440--17748476 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
17748430 AGAGTTGGCC
17748440 AAATGGGCCGGAATGGGCT
1 AAATGGGCCGG-ATGGGCT
*
17748459 AAATGGGCCTGATGGGCT
1 AAATGGGCCGGATGGGCT
17748477 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.16, G:0.41, T:0.19
Consensus pattern (18 bp):
AAATGGGCCGGATGGGCT
Found at i:17748614 original size:29 final size:29
Alignment explanation
Indices: 17748549--17748663 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
17748539 GCATGAGTAT
* *
17748549 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
** * *
17748578 AAGGTGAATTGGGCCTAGTGGGTCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* * *
17748607 AATATGAACTAGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
* * *
17748636 AATAAG-ATTGGGCCTAGTAGGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
17748664 CATGTATGTA
Statistics
Matches: 65, Mismatches: 19, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
28 16 0.25
29 49 0.75
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:17763030 original size:3 final size:3
Alignment explanation
Indices: 17763022--17763427 Score: 114
Period size: 3 Copynumber: 137.0 Consensus size: 3
17763012 TATATAATGT
* * * ** * *
17763022 ATA ATA ATA GTG ATA AT- ACA ATA ATA ATA A-A GCA AAA ATA ACA -TA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
17763067 ATA ATA CATTA ATA AGA ATA ATA AT- ATA ATA ATA AT- ATGA A-A A-A
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * * * *
17763111 ATA ATC AT- ATA TTAA AGA ATA ATT ATA GT- ATA A-A A-A ATA GTA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
17763153 ATA ATA ATA TTA ATA AAA AGA ATA ATA AAA ATA AAA ATA ATGA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * * *
17763198 ATA ATA GTA ACA TATA ATA ATA ATGGA ATA ACA CTA ATA ATA AAA AT-
1 ATA ATA ATA ATA -ATA ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA
* * * * *
17763245 ATA GA-A GATA ACA AAA ATA A-A A-A AT- ATA ATA ATG AT- ATG TTA
1 ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
17763287 ACA ATA ATG ATT ATA AAA AAA ATA GAAA ATA ATA ATA TATGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -AT-A ATA ATA
* * * * * * *
17763335 AT- ATG CTA ATA ATA ACA ATA GTA AAA ATA GAAA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
17763380 AAA ATA AAA ATT AT- ATAA ATA ATA ATA CTA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
17763425 ATA
1 ATA
17763428 TTAAAATTAA
Statistics
Matches: 290, Mismatches: 82, Indels: 62
0.67 0.19 0.14
Matches are distributed among these distances:
2 34 0.12
3 229 0.79
4 21 0.07
5 6 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:17763081 original size:14 final size:14
Alignment explanation
Indices: 17763022--17763428 Score: 101
Period size: 14 Copynumber: 28.9 Consensus size: 14
17763012 TATATAATGT
*
17763022 ATAATAATAGTGATA
1 ATAATAATAAT-ATA
17763037 ATACAATAATAATA-A
1 AT--AATAATAATATA
* * *
17763052 AGCAAAAATAACATA
1 A-TAATAATAATATA
*
17763067 ATAATACATTA-ATA
1 ATAATA-ATAATATA
*
17763081 AGAATAATAATATA
1 ATAATAATAATATA
17763095 ATAATAAT-ATGA-A
1 ATAATAATAAT-ATA
* *
17763108 AAAATAATCATATA
1 ATAATAATAATATA
* *
17763122 TTAAAGAATAATTATA
1 AT-AATAATAA-TATA
* *
17763138 GT-ATAA-AAAATA
1 ATAATAATAATATA
*
17763150 GTAATAATAATAT-
1 ATAATAATAATATA
*
17763163 -TAATAA-AA-AGA
1 ATAATAATAATATA
17763174 ATAATAA-AA-ATA
1 ATAATAATAATATA
*
17763186 AAAATAATGAATATA
1 ATAATAAT-AATATA
* *
17763201 ATAGTAACATATAATA
1 ATAATAATA-AT-ATA
*
17763217 ATAATGGAATAACACTA
1 ATAAT--AATAATA-TA
*
17763234 ATAATAAAAATATA
1 ATAATAATAATATA
*
17763248 GA-AGATAACAA-A-A
1 -ATA-ATAATAATATA
17763261 ATAA-AA-AATATA
1 ATAATAATAATATA
* *
17763273 ATAATGAT-ATGTTA
1 ATAATAATAAT-ATA
* *
17763287 ACAATAATGATTATA
1 ATAATAAT-AATATA
*
17763302 A-AA-AA-AATAGA
1 ATAATAATAATATA
17763313 A-AATAATAATAT-
1 ATAATAATAATATA
17763325 ATGAATAATAATATGCTA
1 AT-AATAATAATA---TA
*
17763343 ATAATAACAATAGTA
1 ATAATAATAATA-TA
* *
17763358 AAAATAGAAAATAGTA
1 ATAATA-ATAATA-TA
17763374 ATAATAA-AA-ATA
1 ATAATAATAATATA
*
17763386 AAAATTATATAA-ATA
1 ATAA-TA-ATAATATA
*
17763401 ATAATACTAATAATA
1 ATAATAATAAT-ATA
*
17763416 ACAATAATAATAT
1 ATAATAATAATAT
17763429 TAAAATTAAT
Statistics
Matches: 295, Mismatches: 50, Indels: 95
0.67 0.11 0.22
Matches are distributed among these distances:
10 3 0.01
11 12 0.04
12 42 0.14
13 37 0.13
14 74 0.25
15 68 0.23
16 28 0.09
17 26 0.09
18 5 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:17763088 original size:17 final size:17
Alignment explanation
Indices: 17763066--17763103 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
17763056 AAAATAACAT
17763066 AATAATACAT-TAATAAG
1 AATAATA-ATATAATAAG
*
17763083 AATAATAATATAATAAT
1 AATAATAATATAATAAG
17763100 AATA
1 AATA
17763104 TGAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AATAATAATATAATAAG
Found at i:17763360 original size:56 final size:52
Alignment explanation
Indices: 17763258--17763386 Score: 120
Period size: 53 Copynumber: 2.4 Consensus size: 52
17763248 GAAGATAACA
* * * * *
17763258 AAAATAA-AAAATATAATAATGATATGTTAACAATAATGATTATAAAAAAAATAG
1 AAAATAATAATATATAATAATAATATGCTAACAATAATCA--AT-ATAAAAATAG
*
17763312 AAAATAATAATATATGAATAATAATATGCTAATAATAA-CAATAGTAAAAATAG
1 AAAATAATAATATAT-AATAATAATATGCTAACAATAATCAATA-TAAAAATAG
* *
17763365 AAAATAGTAATA-ATAAAAATAA
1 AAAATAATAATATATAATAATAA
17763387 AAATTATATA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
51 7 0.11
52 3 0.05
53 21 0.33
54 7 0.11
55 7 0.11
56 19 0.30
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (52 bp):
AAAATAATAATATATAATAATAATATGCTAACAATAATCAATATAAAAATAG
Found at i:17763372 original size:16 final size:15
Alignment explanation
Indices: 17763345--17763385 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
17763335 ATATGCTAAT
*
17763345 AATAACAATAGTAAA
1 AATAAAAATAGTAAA
*
17763360 AATAGAAAATAGTAAT
1 AATA-AAAATAGTAAA
17763376 AATAAAAATA
1 AATAAAAATA
17763386 AAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.22
Consensus pattern (15 bp):
AATAAAAATAGTAAA
Found at i:17766118 original size:28 final size:28
Alignment explanation
Indices: 17766086--17766155 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
17766076 AATGAGATTG
17766086 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
17766114 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
17766142 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17766156 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:17776937 original size:15 final size:15
Alignment explanation
Indices: 17776917--17776985 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 15
17776907 GTATCGTATC
17776917 TTGGATTTCTCTATT
1 TTGGATTTCTCTATT
* *
17776932 TTGGATCTCTTTATT
1 TTGGATTTCTCTATT
* * **
17776947 CTGG-GTTCTCCGTT
1 TTGGATTTCTCTATT
* *
17776961 TTGGATTTCTTTATC
1 TTGGATTTCTCTATT
*
17776976 TTGGTTTTCT
1 TTGGATTTCT
17776986 TACCATCTCT
Statistics
Matches: 38, Mismatches: 15, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
14 8 0.21
15 30 0.79
ACGTcount: A:0.09, C:0.16, G:0.17, T:0.58
Consensus pattern (15 bp):
TTGGATTTCTCTATT
Found at i:17779797 original size:27 final size:27
Alignment explanation
Indices: 17779767--17779937 Score: 195
Period size: 27 Copynumber: 6.4 Consensus size: 27
17779757 ATGAAAAAAT
* * *
17779767 AGTCATTTTACCTTACAGGGGTATTAC
1 AGTCATTTTACCCTATAGGGGTATTTC
* *
17779794 AGTCATTTTACCCTACAAGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTC
* * *
17779821 AGTCAATTTACCCTATGGGGGTATTCC
1 AGTCATTTTACCCTATAGGGGTATTTC
* *
17779848 GGTCATTTTACCTTAT-GGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTC
*
17779874 -GATCATTTTACCCTATGGGGGTATTT-
1 AG-TCATTTTACCCTATAGGGGTATTTC
* *
17779900 GGTCATTTTACCTTATAGGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTC
17779927 AGTCATTTTAC
1 AGTCATTTTAC
17779938 AAGTAAATAA
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.01
26 44 0.35
27 79 0.64
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
AGTCATTTTACCCTATAGGGGTATTTC
Found at i:17779889 original size:53 final size:52
Alignment explanation
Indices: 17779767--17779937 Score: 209
Period size: 53 Copynumber: 3.2 Consensus size: 52
17779757 ATGAAAAAAT
* ** * * **
17779767 AGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTACAAGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATT-CGGTCATTTTACCTTA-TGGGGTATTTC
*
17779821 AGTCAATTTACCCTATGGGGGTATTCCGGTCATTTTACCTTATGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATT-CGGTCATTTTACCTTATGGGGTATTTC
*
17779874 -GATCATTTTACCCTATGGGGGTATTTGGTCATTTTACCTTATAGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTCGGTCATTTTACCTTAT-GGGGTATTTC
17779927 AGTCATTTTAC
1 AGTCATTTTAC
17779938 AAGTAAATAA
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
52 17 0.17
53 50 0.49
54 36 0.35
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (52 bp):
AGTCATTTTACCCTATGGGGGTATTCGGTCATTTTACCTTATGGGGTATTTC
Found at i:17788481 original size:28 final size:28
Alignment explanation
Indices: 17788417--17788594 Score: 261
Period size: 28 Copynumber: 6.4 Consensus size: 28
17788407 GAGATTGGCG
* * * *
17788417 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
17788446 CTAAGTGTTCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
17788474 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
17788502 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
17788530 CTAAGTGTGCGAGTTTGATTATATAG-A
1 CTAAGTGTGCGAGTTTGATTATATAGCA
17788557 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
17788584 CTGAGTGTGCG
1 CTAAGTGTGCG
17788595 GACTTAATAT
Statistics
Matches: 139, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
26 12 0.09
27 25 0.18
28 88 0.63
29 14 0.10
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:17796578 original size:27 final size:28
Alignment explanation
Indices: 17796469--17796591 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
17796459 GAGATTGGCG
* * * *
17796469 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
17796498 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
17796526 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
17796554 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
17796581 CTGAGTGTGCG
1 CTAAGTGTGCG
17796592 GACTTAATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.27
28 50 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:17796602 original size:27 final size:27
Alignment explanation
Indices: 17796494--17796605 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
17796484 TAAATTGTAC
*
17796494 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
17796522 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
17796550 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
17796577 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTGAT-TATAT
17796606 TTTTGAATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 23 0.29
28 50 0.64
29 5 0.06
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:17796605 original size:56 final size:56
Alignment explanation
Indices: 17796469--17796605 Score: 170
Period size: 55 Copynumber: 2.4 Consensus size: 56
17796459 GAGATTGGCG
* * * *
17796469 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGCTT-AATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
* *
17796526 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGCTTAATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
17796581 CTGAGTGTGCG-GACTTAATATATAT
1 CTAAGTGTGCGAG-CTTAAT-TATAT
17796606 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
54 1 0.01
55 28 0.39
56 27 0.38
57 15 0.21
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGCTTAATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:17800010 original size:92 final size:92
Alignment explanation
Indices: 17799867--17800038 Score: 344
Period size: 92 Copynumber: 1.9 Consensus size: 92
17799857 TATTGAACTA
17799867 CGGGTTGTGCCTCGCATATTAGATGCTATAGAACTTCGATGTGATAATAATGGAGCTATTGCACA
1 CGGGTTGTGCCTCGCATATTAGATGCTATAGAACTTCGATGTGATAATAATGGAGCTATTGCACA
17799932 AGCTAAAGAACCCAGTTCATATTCTAC
66 AGCTAAAGAACCCAGTTCATATTCTAC
17799959 CGGGTTGTGCCTCGCATATTAGATGCTATAGAACTTCGATGTGATAATAATGGAGCTATTGCACA
1 CGGGTTGTGCCTCGCATATTAGATGCTATAGAACTTCGATGTGATAATAATGGAGCTATTGCACA
17800024 AGCTAAAGAACCCAG
66 AGCTAAAGAACCCAG
17800039 ATCTCACCAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (92 bp):
CGGGTTGTGCCTCGCATATTAGATGCTATAGAACTTCGATGTGATAATAATGGAGCTATTGCACA
AGCTAAAGAACCCAGTTCATATTCTAC
Found at i:17801930 original size:39 final size:39
Alignment explanation
Indices: 17801887--17802015 Score: 213
Period size: 39 Copynumber: 3.3 Consensus size: 39
17801877 CTTTAACCCA
* ** *
17801887 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
17801926 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
17801965 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCTG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
17802004 GATATATTTCCA
1 GATATATTTCCA
17802016 ATCTCATATA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (39 bp):
GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:17810282 original size:27 final size:28
Alignment explanation
Indices: 17810241--17810310 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
17810231 CTTTAATCGA
*
17810241 GTAAAATGATTGAAATA-CCCCCATAGG
1 GTAAAATGATCGAAATACCCCCCATAGG
17810268 GTAAAATGATCGAAATACCCCCCATAGG
1 GTAAAATGATCGAAATACCCCCCATAGG
17810296 GTAAAATGATCGAAA
1 GTAAAATGATCGAAA
17810311 CATCCCTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 16 0.39
28 25 0.61
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (28 bp):
GTAAAATGATCGAAATACCCCCCATAGG
Found at i:17810419 original size:27 final size:27
Alignment explanation
Indices: 17810352--17810425 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
17810342 CCTGTATTGT
*
17810352 AAAATGACCATTTTGCCCTTGTGAGGC
1 AAAATGACTATTTTGCCCTTGTGAGGC
* *
17810379 AAAATGACTATTTTGCCTTTGTGAGGT
1 AAAATGACTATTTTGCCCTTGTGAGGC
* *
17810406 AAAATGATTGTTTTGCCCTT
1 AAAATGACTATTTTGCCCTT
17810426 ATATGGTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTGTGAGGC
Found at i:17810906 original size:35 final size:35
Alignment explanation
Indices: 17810862--17810941 Score: 101
Period size: 34 Copynumber: 2.3 Consensus size: 35
17810852 TATTGAGGTG
17810862 GGCTTAGGCCCT-GACTGTTTACTGATACTAAAATA
1 GGCTTAGGCCCTAGACTG-TTACTGATACTAAAATA
* * * *
17810897 GGCTAAGG-CCTAGACTGTTACTGTTACTAATATG
1 GGCTTAGGCCCTAGACTGTTACTGATACTAAAATA
17810931 GGCTTAGGCCC
1 GGCTTAGGCCC
17810942 AGAATGTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
34 24 0.63
35 14 0.37
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (35 bp):
GGCTTAGGCCCTAGACTGTTACTGATACTAAAATA
Found at i:17812578 original size:32 final size:32
Alignment explanation
Indices: 17812558--17812660 Score: 145
Period size: 32 Copynumber: 3.2 Consensus size: 32
17812548 CATGGCTTGC
*
17812558 AGCCATCAGTAGCTATAATATGATCGGCACAA
1 AGCCATCAGTAGCTATAATATCATCGGCACAA
*
17812590 AGCCATCAGTAGCTATAATATGATCGGCACAA
1 AGCCATCAGTAGCTATAATATCATCGGCACAA
* * * *
17812622 AGCCATCTGTA-CTGTAATATGATCGTCACAA
1 AGCCATCAGTAGCTATAATATCATCGGCACAA
17812653 AGCCATCA
1 AGCCATCA
17812661 ATACTGTAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 25 0.37
32 42 0.63
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (32 bp):
AGCCATCAGTAGCTATAATATCATCGGCACAA
Found at i:17812643 original size:31 final size:32
Alignment explanation
Indices: 17812558--17812681 Score: 180
Period size: 31 Copynumber: 3.9 Consensus size: 32
17812548 CATGGCTTGC
17812558 AGCCATCAGTAGCTATAATATGATCGGCACAA
1 AGCCATCAGTAGCTATAATATGATCGGCACAA
17812590 AGCCATCAGTAGCTATAATATGATCGGCACAA
1 AGCCATCAGTAGCTATAATATGATCGGCACAA
* * *
17812622 AGCCATCTGTA-CTGTAATATGATCGTCACAA
1 AGCCATCAGTAGCTATAATATGATCGGCACAA
* * *
17812653 AGCCATCAATA-CTGTAATATGATCTGCAC
1 AGCCATCAGTAGCTATAATATGATCGGCAC
17812682 TAAGGCACTG
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 43 0.51
32 42 0.49
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (32 bp):
AGCCATCAGTAGCTATAATATGATCGGCACAA
Found at i:17812652 original size:63 final size:63
Alignment explanation
Indices: 17812558--17812681 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 63
17812548 CATGGCTTGC
*
17812558 AGCCATCAGTAGCTATAATATGATCGGCACAAAGCCATCAGTAGCTATAATATGATCGGCACAA
1 AGCCATCAGTAGCTATAATATGATCGGCACAAAGCCATCAATA-CTATAATATGATCGGCACAA
* * * * *
17812622 AGCCATCTGTA-CTGTAATATGATCGTCACAAAGCCATCAATACTGTAATATGATCTGCAC
1 AGCCATCAGTAGCTATAATATGATCGGCACAAAGCCATCAATACTATAATATGATCGGCAC
17812682 TAAGGCACTG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 16 0.30
63 28 0.52
64 10 0.19
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (63 bp):
AGCCATCAGTAGCTATAATATGATCGGCACAAAGCCATCAATACTATAATATGATCGGCACAA
Found at i:17813100 original size:26 final size:27
Alignment explanation
Indices: 17813044--17813131 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
17813034 CAAAATAGTC
* * *
17813044 ATTTTACCCTACAGGGGCATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
17813071 ATTTTACACTACAAGGGTA-TTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
* * *
17813097 ATTTTACA-AATCGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCAGTA
17813124 ATTTTACA
1 ATTTTACA
17813132 AACCGGGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.02
26 22 0.42
27 30 0.57
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:17813130 original size:27 final size:27
Alignment explanation
Indices: 17813062--17813160 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
17813052 CTACAGGGGC
* *
17813062 ATTTCAGTAATTTTAC-ACTACAAGGGT
1 ATTTCAGTAATTTTACAAAT-CGAGGGT
17813089 A-TTCAGTAATTTTACAAATCGAGGGT
1 ATTTCAGTAATTTTACAAATCGAGGGT
* * *
17813115 ATTTCGGTAATTTTACAAACCGGGGGT
1 ATTTCAGTAATTTTACAAATCGAGGGT
** *
17813142 ATTTTGGTAATCTTACAAA
1 ATTTCAGTAATTTTACAAA
17813161 CTGGGGTCTT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 21 0.33
27 42 0.67
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.36
Consensus pattern (27 bp):
ATTTCAGTAATTTTACAAATCGAGGGT
Found at i:17827127 original size:18 final size:18
Alignment explanation
Indices: 17827104--17827143 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
17827094 TCTCACCTAG
17827104 GGTTTCCATGTATTTTTA
1 GGTTTCCATGTATTTTTA
17827122 GGTTTCCATGTATTTTTA
1 GGTTTCCATGTATTTTTA
17827140 GGTT
1 GGTT
17827144 GAAGATGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.20, T:0.55
Consensus pattern (18 bp):
GGTTTCCATGTATTTTTA
Found at i:17832388 original size:11 final size:11
Alignment explanation
Indices: 17832372--17832405 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
17832362 AAATTGTAAA
17832372 TGTGTATATGT
1 TGTGTATATGT
17832383 TGTGTATATGT
1 TGTGTATATGT
*
17832394 TATGTATATGT
1 TGTGTATATGT
17832405 T
1 T
17832406 AAATGCTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (11 bp):
TGTGTATATGT
Found at i:17838388 original size:12 final size:12
Alignment explanation
Indices: 17838371--17838405 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
17838361 ATGAGAAAAA
*
17838371 GAAAAATGAAATT
1 GAAAAA-GAAAGT
17838384 GAAAAAGAAAGT
1 GAAAAAGAAAGT
17838396 GAAAAAGAAA
1 GAAAAAGAAA
17838406 AAGAGAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAAGT
Found at i:17838398 original size:18 final size:18
Alignment explanation
Indices: 17838364--17838419 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
17838354 AAGGAGAATG
*
17838364 AGAAAAAGAAAAATGAAAT
1 AGAAAAAG-AAAATGAAAA
* *
17838383 TGAAAAAGAAAGTGAAAA
1 AGAAAAAGAAAATGAAAA
* *
17838401 AGAAAAAGAGAAGGAAAA
1 AGAAAAAGAAAATGAAAA
17838419 A
1 A
17838420 AAAGAGATCG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAAATGAAAA
Found at i:17839892 original size:30 final size:31
Alignment explanation
Indices: 17839858--17839954 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
17839848 AGCTCACTCC
*
17839858 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
17839888 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
17839918 CAGCTCAACTTT-AGCTCATGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
17839948 TAGCTCA
1 TAGCTCA
17839955 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:17841458 original size:11 final size:10
Alignment explanation
Indices: 17841440--17841464 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17841430 AGTAGGATCC
17841440 AGAAAAAAAA
1 AGAAAAAAAA
17841450 AGAAAAAAAA
1 AGAAAAAAAA
17841460 AGAAA
1 AGAAA
17841465 GAGTATAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:17842590 original size:9 final size:10
Alignment explanation
Indices: 17842583--17842637 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
17842573 AAGAGAAAAC
17842583 AAAGAAAAGA
1 AAAGAAAAGA
17842593 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
17842605 AAAGAAGA-A
1 AAAGAAAAGA
17842614 AAAGAAAATGA
1 AAAGAAAA-GA
17842625 AATA-AAAAGA
1 AA-AGAAAAGA
17842635 AAA
1 AAA
17842638 TAGAGGCAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
9 9 0.24
10 8 0.21
11 15 0.39
12 6 0.16
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:17842606 original size:21 final size:20
Alignment explanation
Indices: 17842572--17842621 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
17842562 ACATTCTTGT
17842572 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
17842593 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
17842614 AAAGAAAA
1 AAAGAAAA
17842622 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:17842607 original size:6 final size:5
Alignment explanation
Indices: 17842583--17842637 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
17842573 AAGAGAAAAC
*
17842583 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
17842630 AAAGA AAA
1 AAAGA AAA
17842638 TAGAGGCAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
4 4 0.10
5 23 0.55
6 14 0.33
7 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:17842614 original size:15 final size:14
Alignment explanation
Indices: 17842583--17842637 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 14
17842573 AAGAGAAAAC
17842583 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
17842599 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
17842614 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
17842630 AAAGAAAA
1 AAAGAAAA
17842638 TAGAGGCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 4 0.11
15 10 0.29
16 16 0.46
17 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:17842726 original size:13 final size:13
Alignment explanation
Indices: 17842708--17842745 Score: 69
Period size: 12 Copynumber: 3.0 Consensus size: 13
17842698 TTTGAAAAGC
17842708 AAAAAGAAAATGA
1 AAAAAGAAAATGA
17842721 AAAAAGAAAATG-
1 AAAAAGAAAATGA
17842733 AAAAAGAAAATGA
1 AAAAAGAAAATGA
17842746 GATTGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
AAAAAGAAAATGA
Found at i:17842757 original size:30 final size:31
Alignment explanation
Indices: 17842721--17842802 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
17842711 AAGAAAATGA
*
17842721 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
17842751 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
17842781 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
17842803 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:17844949 original size:30 final size:31
Alignment explanation
Indices: 17844915--17845011 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
17844905 AGCTCACTCC
*
17844915 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
17844945 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
17844975 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
17845005 TAGCTCA
1 TAGCTCA
17845012 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:17859984 original size:68 final size:70
Alignment explanation
Indices: 17859837--17859984 Score: 153
Period size: 68 Copynumber: 2.1 Consensus size: 70
17859827 AGCCGATTTA
* * * * *
17859837 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
17859902 TATCTC
65 TATCTC
* * *
17859908 TCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACTAT
1 TCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-AT
17859970 ATAGT-T-
64 ATA-TCTC
17859976 TCTCGTAGC
1 TCTCGTAGC
17859985 CTTCCTGTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
68 29 0.45
69 5 0.08
70 3 0.05
71 28 0.43
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (70 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATCTC
Found at i:17864931 original size:30 final size:29
Alignment explanation
Indices: 17864880--17864964 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 29
17864870 TTCTTTTGTT
* *
17864880 TCAATTTCCTTTTCATCTTCTTTTTCACTC
1 TCAATTT-CTTTTCATTTTCTTTTTCAATC
*
17864910 TCAAATTTCTTTTCGTTTTCTTTTTCAATC
1 TC-AATTTCTTTTCATTTTCTTTTTCAATC
*
17864940 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTC-TTTTCATTTTCTTTTT
17864965 TCTTTTCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 5 0.10
30 38 0.79
31 5 0.10
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (29 bp):
TCAATTTCTTTTCATTTTCTTTTTCAATC
Found at i:17864964 original size:18 final size:18
Alignment explanation
Indices: 17864915--17864970 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
17864905 CACTCTCAAA
*
17864915 TTTC-TTTTCGTTTTCTT
1 TTTCATTTTCATTTTCTT
* *
17864932 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
17864950 TTTCATTTTCTTTTTTCTT
1 TTTCATTTTC-ATTTTCTT
17864969 TT
1 TT
17864971 CAAAGGCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 18 0.58
19 9 0.29
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:17864971 original size:12 final size:12
Alignment explanation
Indices: 17864940--17864964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17864930 TTTTTCAATC
17864940 TCATTTTCTTTT
1 TCATTTTCTTTT
17864952 TCATTTTCTTTT
1 TCATTTTCTTTT
17864964 T
1 T
17864965 TCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:17865043 original size:5 final size:5
Alignment explanation
Indices: 17865033--17865089 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
17865023 CTCTTGCCTC
*
17865033 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TACTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
17865080 TCTTT TCTTT
1 TCTTT TCTTT
17865090 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:17865073 original size:15 final size:14
Alignment explanation
Indices: 17865033--17865089 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
17865023 CTCTTGCCTC
*
17865033 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
17865048 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
17865063 TCTTTTACTTTTTCTTT
1 TCTTTT-CTTTTTC--T
17865080 TCTTTTCTTT
1 TCTTTTCTTT
17865090 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:17865099 original size:21 final size:20
Alignment explanation
Indices: 17865031--17865100 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
17865021 GCCTCTTGCC
17865031 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
*
17865054 TCT-TTTTCTTCTTTTACTTT
1 TCTCTTTTCTTTTTTTA-TTT
*
17865074 T-TCTTTTCTTTTCTTTGTTT
1 TCTCTTTTCTTTT-TTTATTT
17865094 TCTCTTT
1 TCTCTTT
17865101 ACAAGAATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 19 0.47
21 11 0.28
22 5 0.12
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:17867697 original size:30 final size:30
Alignment explanation
Indices: 17867663--17867759 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
17867653 TAAACTAAAA
* *
17867663 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
17867693 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
17867723 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
17867753 TGAGCTA
1 TGAGCTA
17867760 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:17871839 original size:70 final size:72
Alignment explanation
Indices: 17871725--17871875 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
17871715 GGGGAATCAT
* *
17871725 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
17871789 GATATCG
66 GATATCG
***
17871796 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
17871860 GATATCG
66 GATATCG
17871867 CACTTAGCA
1 CACTTAGCA
17871876 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:17871906 original size:103 final size:103
Alignment explanation
Indices: 17871795--17872016 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
17871785 AATGGATATC
17871795 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17871859 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACC-ATAAACCGGGGAATCA
17871898 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
17871963 GGATCACGCACATAGCACCACCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
**
17872001 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
17872017 TTTATATACA
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
103 45 0.40
104 66 0.59
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:17872378 original size:29 final size:29
Alignment explanation
Indices: 17872345--17872408 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17872335 TAATCCACCA
17872345 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17872374 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17872404 CCCAA
1 CCCAA
17872409 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17872382 original size:30 final size:30
Alignment explanation
Indices: 17872352--17872408 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17872342 CCACCCAACT
17872352 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17872381 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17872409 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17879301 original size:26 final size:26
Alignment explanation
Indices: 17879265--17879316 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
17879255 CACCACTGAA
* *
17879265 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
17879291 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
17879317 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:17879393 original size:70 final size:71
Alignment explanation
Indices: 17879277--17879427 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
17879267 GGGGAATCAT
*
17879277 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
17879341 ATATCG
66 ATATCG
* ***
17879347 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
17879412 GATATCG
65 GATATCG
17879419 CACTTAGCA
1 CACTTAGCA
17879428 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:17879470 original size:104 final size:104
Alignment explanation
Indices: 17879346--17879569 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
17879336 AATGGATATC
17879346 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17879411 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
17879450 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17879515 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
17879554 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
17879570 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:17879931 original size:29 final size:29
Alignment explanation
Indices: 17879898--17879961 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17879888 TAATCCACCA
17879898 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17879927 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17879957 CCCAA
1 CCCAA
17879962 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17879935 original size:30 final size:30
Alignment explanation
Indices: 17879905--17879961 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17879895 CCACCCAACT
17879905 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17879934 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17879962 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17882709 original size:20 final size:19
Alignment explanation
Indices: 17882686--17882772 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 19
17882676 TTCACAATAT
17882686 TTTTCTTTTTCTTCTTTCTC
1 TTTTCTTTTTCTT-TTTCTC
**
17882706 TTTTC-TTGCCTTTTTCTC
1 TTTTCTTTTTCTTTTTCTC
17882724 ATTTTCTTTTCTCATTTTTC-C
1 -TTTTCTTTT-TC-TTTTTCTC
*
17882745 -TATCTTTTTCTCATTTT-TC
1 TTTTCTTTTTCT--TTTTCTC
17882764 TTTTCTTTT
1 TTTTCTTTT
17882773 GTATTTTCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
19 22 0.42
20 14 0.26
21 2 0.04
22 6 0.11
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.71
Consensus pattern (19 bp):
TTTTCTTTTTCTTTTTCTC
Found at i:17882731 original size:33 final size:33
Alignment explanation
Indices: 17882685--17882772 Score: 82
Period size: 33 Copynumber: 2.8 Consensus size: 33
17882675 TTTCACAATA
* *
17882685 TTTTTCT--TTTTCTTCTTTCTCTTTTCTTGCC
1 TTTTTCTCATTTTCTTCTTTCTCTTTTCCTACC
*
17882716 TTTTTCTCATTTTC-T-TTTCTCATTTTTCCTATC
1 TTTTTCTCATTTTCTTCTTTCTC--TTTTCCTACC
17882749 TTTTTCTCA-TTT-TTCTTT-TCTTTT
1 TTTTTCTCATTTTCTTCTTTCTCTTTT
17882773 GTATTTTCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
30 4 0.08
31 13 0.27
32 7 0.15
33 24 0.50
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.72
Consensus pattern (33 bp):
TTTTTCTCATTTTCTTCTTTCTCTTTTCCTACC
Found at i:17882735 original size:13 final size:13
Alignment explanation
Indices: 17882717--17882741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17882707 TTTCTTGCCT
17882717 TTTTCTCATTTTC
1 TTTTCTCATTTTC
17882730 TTTTCTCATTTT
1 TTTTCTCATTTT
17882742 TCCTATCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCTCATTTTC
Found at i:17897539 original size:31 final size:31
Alignment explanation
Indices: 17897501--17897562 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
17897491 AATAACAGAG
17897501 TAAGCTTTTATAAGCTTAGTAAGTCTTAAGC
1 TAAGCTTTTATAAGCTTAGTAAGTCTTAAGC
17897532 TAAGCTTTTATAAGCTTAGTAAGTCTTAAGC
1 TAAGCTTTTATAAGCTTAGTAAGTCTTAAGC
17897563 AAATTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (31 bp):
TAAGCTTTTATAAGCTTAGTAAGTCTTAAGC
Found at i:17898578 original size:48 final size:48
Alignment explanation
Indices: 17898424--17898571 Score: 242
Period size: 48 Copynumber: 3.1 Consensus size: 48
17898414 ATATATACAC
* **
17898424 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
17898472 GGCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
17898520 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
17898568 ATCT
1 ATCT
17898572 TGTACATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Done.