Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold232
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: 2516017
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.33
Warning! 28201 characters in sequence are not A, C, G, or T
File 5 of 16
Found at i:652136 original size:13 final size:13
Alignment explanation
Indices: 652118--652142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
652108 ACAACACTTA
652118 TGTATCGATACAT
1 TGTATCGATACAT
652131 TGTATCGATACA
1 TGTATCGATACA
652143 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:652140 original size:32 final size:32
Alignment explanation
Indices: 652099--652159 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
652089 ACAACACTTA
652099 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
652131 TGTATCGATACAACACTTATGTATCGATA
1 TGTATCGATACAACACTTATGTATCGATA
652160 TAAATCGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:655152 original size:20 final size:20
Alignment explanation
Indices: 655127--655180 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
655117 CATTTGAGAC
* *
655127 ATGTATTGATATATTCACTT
1 ATGTATCGATACATTCACTT
**
655147 ATGTATCGATACATTCACCA
1 ATGTATCGATACATTCACTT
655167 ATTGTATCGATACA
1 A-TGTATCGATACA
655181 AATTGTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:659488 original size:28 final size:28
Alignment explanation
Indices: 659436--659523 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
659426 CTGATTGAAA
* **
659436 AATAAGAAAGATC-AAGGAAGTGAAATC
1 AATAAGAAATATCAAAGGAAAAGAAATC
* *
659463 AATAAGAAATATGAAAGGAAACGAAAT-
1 AATAAGAAATATCAAAGGAAAAGAAATC
* * *
659490 AAGCAAGAAATTTCAAAGGAAAAGATATC
1 AA-TAAGAAATATCAAAGGAAAAGAAATC
659519 AATAA
1 AATAA
659524 AGAAGAATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
27 13 0.27
28 33 0.69
29 2 0.04
ACGTcount: A:0.59, C:0.07, G:0.18, T:0.16
Consensus pattern (28 bp):
AATAAGAAATATCAAAGGAAAAGAAATC
Found at i:659674 original size:49 final size:47
Alignment explanation
Indices: 659618--659712 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
659608 AAGATGGAAA
* * * *
659618 AAAGGTTATACTAGTAGAACACTTTTTTTTTTTTGGATGATGAATAGCC
1 AAAGGTTAGAATACTAGAACAC--TTTTTTTTATGGATGATGAATAGCC
* *
659667 AAAGGTTAGAATTCTAGAATACTTTTTTTTATGGATGATGAATAGC
1 AAAGGTTAGAATACTAGAACACTTTTTTTTATGGATGATGAATAGC
659713 ACCAAATATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
47 23 0.57
49 17 0.43
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (47 bp):
AAAGGTTAGAATACTAGAACACTTTTTTTTATGGATGATGAATAGCC
Found at i:662670 original size:64 final size:64
Alignment explanation
Indices: 662602--662731 Score: 188
Period size: 64 Copynumber: 2.0 Consensus size: 64
662592 TTTTTTTTTC
* * * * *
662602 TTTTCAAAAGGTTGTTAAGTGTGCAACCTTTTTAACTTTATTACTCCTATGTTGTCATATATAT
1 TTTTCAAAAGGTTGGTAAGTGTGCAACCCTTCTAACTTTATTACTCCTAGGTTGTCACATATAT
* * *
662666 TTTTCAAAATGTTGGTAAGTGTGCAACCCTTCTAACTTTATTACTCTTGGGTTGTCACATATAT
1 TTTTCAAAAGGTTGGTAAGTGTGCAACCCTTCTAACTTTATTACTCCTAGGTTGTCACATATAT
662730 TT
1 TT
662732 ATTATACAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.45
Consensus pattern (64 bp):
TTTTCAAAAGGTTGGTAAGTGTGCAACCCTTCTAACTTTATTACTCCTAGGTTGTCACATATAT
Found at i:663090 original size:8 final size:9
Alignment explanation
Indices: 663076--663109 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 9
663066 TTTATAATTA
663076 ATTATATAT
1 ATTATATAT
663085 -TTATATAT
1 ATTATATAT
663093 ATATATATAT
1 AT-TATATAT
663103 ATTATAT
1 ATTATAT
663110 GTTTATAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.35
9 6 0.26
10 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTATATAT
Found at i:664216 original size:16 final size:16
Alignment explanation
Indices: 664195--664242 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
664185 ACGCATGGAA
664195 CATGCAGCACGTGAAG
1 CATGCAGCACGTGAAG
664211 CATGCAGCACGTGAAG
1 CATGCAGCACGTGAAG
664227 CATGCAGCACGTGAAG
1 CATGCAGCACGTGAAG
664243 TGCTGAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.31, T:0.12
Consensus pattern (16 bp):
CATGCAGCACGTGAAG
Found at i:664626 original size:30 final size:30
Alignment explanation
Indices: 664590--664786 Score: 295
Period size: 30 Copynumber: 6.5 Consensus size: 30
664580 GATAGCCTCT
664590 AGCAGCTCCAACAAGCACGACAGCAGCAAC
1 AGCAGCTCCAACAAGCACGACAGCAGCAAC
* *
664620 AACAGCTCCAACAAGCACGACAGCAACAAC
1 AGCAGCTCCAACAAGCACGACAGCAGCAAC
* *
664650 AGCAGCTCCAACAAGCACGGCAGTAGCACAAC
1 AGCAGCTCCAACAAGCACGACAGCAG--CAAC
* *
664682 AGTAGCTCCAACAAGCACGACAACAGCAAC
1 AGCAGCTCCAACAAGCACGACAGCAGCAAC
*
664712 AGTAGCTCCAACAAGCACGACAGCAGCAAC
1 AGCAGCTCCAACAAGCACGACAGCAGCAAC
* *
664742 AGTAGCTCCAACAAGCACGGCAGCAGCAAC
1 AGCAGCTCCAACAAGCACGACAGCAGCAAC
664772 AGCAGCTCCAACAAG
1 AGCAGCTCCAACAAG
664787 TAGGCAAGCA
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
30 126 0.83
32 26 0.17
ACGTcount: A:0.41, C:0.35, G:0.19, T:0.06
Consensus pattern (30 bp):
AGCAGCTCCAACAAGCACGACAGCAGCAAC
Found at i:664702 original size:92 final size:90
Alignment explanation
Indices: 664590--664786 Score: 313
Period size: 92 Copynumber: 2.2 Consensus size: 90
664580 GATAGCCTCT
*
664590 AGCAGCTCCAACAAGCACGACAGCAGCAACAACAGCTCCAACAAGCACGACAGCAACAACAGCAG
1 AGCAGCTCCAACAAGCACGACAACAGCAACAACAGCTCCAACAAGCACGACAGCAACAACAGCAG
*
664655 CTCCAACAAGCACGGCAGTAGCACAAC
66 CTCCAACAAGCACGGCAGCAG--CAAC
* ** * *
664682 AGTAGCTCCAACAAGCACGACAACAGCAACAGTAGCTCCAACAAGCACGACAGCAGCAACAGTAG
1 AGCAGCTCCAACAAGCACGACAACAGCAACAACAGCTCCAACAAGCACGACAGCAACAACAGCAG
664747 CTCCAACAAGCACGGCAGCAGCAAC
66 CTCCAACAAGCACGGCAGCAGCAAC
664772 AGCAGCTCCAACAAG
1 AGCAGCTCCAACAAG
664787 TAGGCAAGCA
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
90 18 0.19
92 79 0.81
ACGTcount: A:0.41, C:0.35, G:0.19, T:0.06
Consensus pattern (90 bp):
AGCAGCTCCAACAAGCACGACAACAGCAACAACAGCTCCAACAAGCACGACAGCAACAACAGCAG
CTCCAACAAGCACGGCAGCAGCAAC
Found at i:665720 original size:33 final size:32
Alignment explanation
Indices: 665683--665750 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
665673 CGTTACAAGC
**
665683 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTAT-GTGTATCGATA
* *
665716 CAATGTATCGATATATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
665748 CAA
1 CAA
665751 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:665829 original size:20 final size:21
Alignment explanation
Indices: 665782--665834 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
665772 GCCAATGACT
**
665782 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
665803 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
665823 TGTATCGATACA
1 TGTATCGATACA
665835 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:665840 original size:13 final size:13
Alignment explanation
Indices: 665822--665850 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
665812 ACATTTGGTC
665822 ATGTATCGATACA
1 ATGTATCGATACA
665835 ATGTATCGATACA
1 ATGTATCGATACA
665848 ATG
1 ATG
665851 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:665879 original size:20 final size:20
Alignment explanation
Indices: 665836--665886 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
665826 ATCGATACAA
*
665836 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
665856 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
*
665876 TGTATCAATAC
1 TGTATCGATAC
665887 TTTTTAGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:667841 original size:20 final size:20
Alignment explanation
Indices: 667816--667903 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
667806 CTACCAAAGA
667816 AATGTATCGATACATTATCT
1 AATGTATCGATACATTATCT
667836 AATGTATCGATAC---A--T
1 AATGTATCGATACATTATCT
*
667851 --TGTATCGATACATTATTT
1 AATGTATCGATACATTATCT
667869 AATGTATCGATACATTGATCT
1 AATGTATCGATACATT-ATCT
*
667890 -TTGTATCGATACAT
1 AATGTATCGATACAT
667904 CTGGGGATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
13 11 0.19
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
20 40 0.69
21 3 0.05
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTATCT
Found at i:667856 original size:13 final size:13
Alignment explanation
Indices: 667838--667864 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
667828 CATTATCTAA
667838 TGTATCGATACAT
1 TGTATCGATACAT
667851 TGTATCGATACAT
1 TGTATCGATACAT
667864 T
1 T
667865 ATTTAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:667860 original size:33 final size:33
Alignment explanation
Indices: 667818--667885 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
667808 ACCAAAGAAA
667818 TGTATCGATACATTATCTAATGTATCGATACAT
1 TGTATCGATACATTATCTAATGTATCGATACAT
*
667851 TGTATCGATACATTATTTAATGTATCGATACAT
1 TGTATCGATACATTATCTAATGTATCGATACAT
667884 TG
1 TG
667886 ATCTTTGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTATCTAATGTATCGATACAT
Found at i:670104 original size:24 final size:26
Alignment explanation
Indices: 670077--670126 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
670067 ATCAAAATTT
670077 TATTCAT-C-GGGGACACTCCAACCC
1 TATTCATCCAGGGGACACTCCAACCC
*
670101 TATTCTTCCGAGGGGACACTCCAACC
1 TATTCATCC-AGGGGACACTCCAACC
670127 TTGTTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 1 0.05
27 15 0.68
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (26 bp):
TATTCATCCAGGGGACACTCCAACCC
Found at i:674968 original size:27 final size:27
Alignment explanation
Indices: 674938--674990 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
674928 TGATGAGTTC
674938 ATAGGATTAGTCTTTGTGATCTTTGTA
1 ATAGGATTAGTCTTTGTGATCTTTGTA
674965 ATAGGATTAGTCTTTGTGATCTTTGT
1 ATAGGATTAGTCTTTGTGATCTTTGT
674991 GACTATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.08, G:0.23, T:0.49
Consensus pattern (27 bp):
ATAGGATTAGTCTTTGTGATCTTTGTA
Found at i:675209 original size:7 final size:7
Alignment explanation
Indices: 675190--675223 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
675180 TTGAAAATAA
675190 ATTTGGC
1 ATTTGGC
675197 ATTTTGGC
1 A-TTTGGC
675205 ATTTGGC
1 ATTTGGC
675212 ATTTGGC
1 ATTTGGC
*
675219 TTTTG
1 ATTTG
675224 ACAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.12, C:0.12, G:0.26, T:0.50
Consensus pattern (7 bp):
ATTTGGC
Found at i:676037 original size:19 final size:19
Alignment explanation
Indices: 675998--676037 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
675988 TGTATCGATA
*
675998 CATTGTATCGATAAATGCT
1 CATTGTATCGATAAATACT
* *
676017 CATTTTATCGATACATACT
1 CATTGTATCGATAAATACT
676036 CA
1 CA
676038 ATTATATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATAAATACT
Found at i:678294 original size:113 final size:111
Alignment explanation
Indices: 678131--678355 Score: 306
Period size: 113 Copynumber: 2.0 Consensus size: 111
678121 CTGGTGGCAC
* * *
678131 ATAAAAGCCTACGAGCTAGTGGCATATTCTTTTAAGCCCAATGTCACTGGCCTTAAATCAGCACA
1 ATAAAAGCCTACAAGCTAGTGGCATATTCTTTTAAGCCCAATATCACTGGCCTTAAATAAGCACA
* * *
678196 TTGGCACCTTGCCTATGTCAAAAGGCCTGTCAAATCTTCTTCACTA
66 TTAGCACCTTGCCTATGTCAAAAAGCCTATCAAATCTTCTTCACTA
* * * * *
678242 ATAAAAGCCTACATAAGCTGGTGGCATCTTCTTTTAAGCCCAATATCGCTGGCCTTGAATAAGTA
1 ATAAAAGCCTAC--AAGCTAGTGGCATATTCTTTTAAGCCCAATATCACTGGCCTTAAATAAGCA
* * *
678307 TATTAGCACCTTTCGTATGTCAAAAAGCCTATCAAATCTTCTTCACTA
64 CATTAGCACCTTGCCTATGTCAAAAAGCCTATCAAATCTTCTTCACTA
678355 A
1 A
678356 AGCCTAATGT
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
111 12 0.12
113 86 0.88
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (111 bp):
ATAAAAGCCTACAAGCTAGTGGCATATTCTTTTAAGCCCAATATCACTGGCCTTAAATAAGCACA
TTAGCACCTTGCCTATGTCAAAAAGCCTATCAAATCTTCTTCACTA
Found at i:678425 original size:50 final size:52
Alignment explanation
Indices: 678359--678533 Score: 171
Period size: 50 Copynumber: 3.4 Consensus size: 52
678349 TCACTAAAGC
* *
678359 CTAATGTTACTGGCCTTGAATTAGCACATTGGCAA-CCTTCT-TTCTCAAGT
1 CTAATGTTACTGGCCTTGAATCAGCACATTGGCAATCCTTCTCATCTCAAGT
* * * *
678409 CTAATGTTGCTAGCCTTGAATCAGCACATT-GAAATTCTTCTCATCTCAAGT
1 CTAATGTTACTGGCCTTGAATCAGCACATTGGCAATCCTTCTCATCTCAAGT
* * * * *
678460 CTAA-GTCACTGGCCTTGAATCAGTACATTGGCACT-CTTTTCATCTTTAAGT
1 CTAATGTTACTGGCCTTGAATCAGCACATTGGCAATCCTTCTCATC-TCAAGT
* * * *
678511 CCAATATCACTGGTCTTGAATCA
1 CTAATGTTACTGGCCTTGAATCA
678534 ACATATTAGC
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
49 3 0.03
50 61 0.59
51 23 0.22
52 16 0.16
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
CTAATGTTACTGGCCTTGAATCAGCACATTGGCAATCCTTCTCATCTCAAGT
Found at i:678532 original size:52 final size:51
Alignment explanation
Indices: 678456--678823 Score: 227
Period size: 52 Copynumber: 7.1 Consensus size: 51
678446 TTCTCATCTC
* * *
678456 AAGTCTAA-GTCACTGGCCTTGAATCAGTACATTGGCACTCTTTTCATCTTT
1 AAGTCCAATGTCACTGGCCTTGAATCAATACATTAGCACT-TTTTCATCTTT
* * * * *
678507 AAGTCCAATATCACTGGTCTTGAATCAACATATTAGCACCTTTTAT-ATCTCT
1 AAGTCCAATGTCACTGGCCTTGAATCAATACATTAGCA-CTTTT-TCATCTTT
* * * * *
678559 AAGTCTAATGTCACTAGCATTAAATCAGTACATTAGCACTTTTATCATCTTT
1 AAGTCCAATGTCACTGGCCTTGAATCAATACATTAGCACTTTT-TCATCTTT
* ** * * *
678611 AATTCCAATGTCGTTGGCCTTGAATCAATACACTGGCAGCTTTCTCATCTTT
1 AAGTCCAATGTCACTGGCCTTGAATCAATACATTAGCA-CTTTTTCATCTTT
* *** * * *** ** * *
678663 AAGTCCACTGTTGTTGGCTTTAAATCGGCATGTTGGCAACTTTATCATCTTT
1 AAGTCCAATGTCACTGGCCTTGAATCAATACATTAGC-ACTTTTTCATCTTT
** * * * *** * *
678715 AAGTCTTATGTCCCTAGCCTTGAATTAGCGCATTAGCACATTTATCATCTTC
1 AAGTCCAATGTCACTGGCCTTGAATCAATACATTAGCAC-TTTTTCATCTTT
* ** * *
678767 AAGTCCAATGTCACAGGCCTTGAATCAGCACATTAGCACCTTTATCATCATT
1 AAGTCCAATGTCACTGGCCTTGAATCAATACATTAGCA-CTTTTTCATCTTT
678819 AAGTC
1 AAGTC
678824 TAGTGCTATA
Statistics
Matches: 243, Mismatches: 66, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
51 16 0.07
52 218 0.90
53 9 0.04
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (51 bp):
AAGTCCAATGTCACTGGCCTTGAATCAATACATTAGCACTTTTTCATCTTT
Found at i:678598 original size:104 final size:102
Alignment explanation
Indices: 678451--678638 Score: 261
Period size: 104 Copynumber: 1.8 Consensus size: 102
678441 AATTCTTCTC
* * * *
678451 ATCTCAAGTCTAAGTCACTGGCCTTGAATCAGTACATTGGCACTCTTT-TCATCTTTAAGTCCAA
1 ATCTCAAGTCTAAGTCACTAGCATTAAATCAGTACATTAGCACT-TTTATCATCTTTAAGTCCAA
*
678515 TATCACTGGTCTTGAATCAACATATTAGCACCTTTTAT
65 TATCACTGGCCTTGAATCAACATATTAGCACCTTTTAT
*
678553 ATCTCTAAGTCTAATGTCACTAGCATTAAATCAGTACATTAGCACTTTTATCATCTTTAATTCCA
1 ATCTC-AAGTCTAA-GTCACTAGCATTAAATCAGTACATTAGCACTTTTATCATCTTTAAGTCCA
* **
678618 ATGTCGTTGGCCTTGAATCAA
64 ATATCACTGGCCTTGAATCAA
678639 TACACTGGCA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
102 5 0.07
103 11 0.15
104 58 0.78
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (102 bp):
ATCTCAAGTCTAAGTCACTAGCATTAAATCAGTACATTAGCACTTTTATCATCTTTAAGTCCAAT
ATCACTGGCCTTGAATCAACATATTAGCACCTTTTAT
Found at i:678837 original size:52 final size:52
Alignment explanation
Indices: 678421--678860 Score: 213
Period size: 52 Copynumber: 8.5 Consensus size: 52
678411 AATGTTGCTA
* * * *
678421 GCCTTGAATCAGCACATT-G-AAATTCTTCTCATC-TCAAGTCTAA-GTCACTG
1 GCCTTGAATCAGCACATTAGCACA-T-TTATCATCTTCAAGTCCAATGTCACAG
* * * * * *
678471 GCCTTGAATCAGTACATTGGCAC-TCTTTTCATCTTTAAGTCCAATATCACTG
1 GCCTTGAATCAGCACATTAGCACAT-TTATCATCTTCAAGTCCAATGTCACAG
* * * * *
678523 GTCTTGAATCAACATATTAGCACCTTTTAT-ATC-TCTAAGTCTAATGTCACTA-
1 GCCTTGAATCAGCACATTAGCA-CATTTATCATCTTC-AAGTCCAATGTCAC-AG
* * * * * * ***
678575 GCATTAAATCAGTACATTAGCACTTTTATCATCTTTAATTCCAATGTCGTTG
1 GCCTTGAATCAGCACATTAGCACATTTATCATCTTCAAGTCCAATGTCACAG
** * * * * * ****
678627 GCCTTGAATCAATACACTGGCAGC-TTTCTCATCTTTAAGTCCACTGTTGTTG
1 GCCTTGAATCAGCACATTAGCA-CATTTATCATCTTCAAGTCCAATGTCACAG
* * * ** * * ** *
678679 GCTTTAAATCGGCATGTTGGCA-ACTTTATCATCTTTAAGTCTTATGTCCCTA-
1 GCCTTGAATCAGCACATTAGCACA-TTTATCATCTTCAAGTCCAATGTCAC-AG
* *
678731 GCCTTGAATTAGCGCATTAGCACATTTATCATCTTCAAGTCCAATGTCACAG
1 GCCTTGAATCAGCACATTAGCACATTTATCATCTTCAAGTCCAATGTCACAG
* * * *
678783 GCCTTGAATCAGCACATTAGCACCTTTATCATCATT-AAGTCTAGTG-CTATAG
1 GCCTTGAATCAGCACATTAGCACATTTATCATC-TTCAAGTCCAATGTC-ACAG
* *
678835 GCCTTGAATCTGCACATTGGCACATT
1 GCCTTGAATCAGCACATTAGCACATT
678861 GCTGACACTG
Statistics
Matches: 297, Mismatches: 74, Indels: 36
0.73 0.18 0.09
Matches are distributed among these distances:
50 26 0.09
51 19 0.06
52 242 0.81
53 9 0.03
54 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
GCCTTGAATCAGCACATTAGCACATTTATCATCTTCAAGTCCAATGTCACAG
Found at i:678855 original size:156 final size:154
Alignment explanation
Indices: 678369--678856 Score: 400
Period size: 156 Copynumber: 3.2 Consensus size: 154
678359 CTAATGTTAC
* * * ** * *
678369 TGGCCTTGAATTAGCACATTGGCAACCTTCT-T-TCTC-AAGTCTAATGTTGCTAGCCTTGAATC
1 TGGCCTTGAATCAGCATATTGGCAA-CTTTTATATCTCTAAGTCTAATGTCACTAGCATTAAATC
* * *
678431 AGCACATT-G-AAATTCTTCTCATC-TCAAGTCTAA-GTCACTGGCCTTGAATCAGTACATTGGC
65 AGCACATTAGCACA-T-TTATCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGTACATTGGC
678492 ACTCTTTTCATCTTTAAGTCCAAT-ATCA
128 AC-CTTTTCATCTTTAAGTCCAATGAT-A
* * * *
678520 CTGGTCTTGAATCAACATATTAGCACCTTTTATATCTCTAAGTCTAATGTCACTAGCATTAAATC
1 -TGGCCTTGAATCAGCATATTGGCAACTTTTATATCTCTAAGTCTAATGTCACTAGCATTAAATC
* * * * ** * * *
678585 AGTACATTAGCACTTTTATCATCTTTAATTCCAATGTCGTTGGCCTTGAATCAATACACTGGCAG
65 AGCACATTAGCACATTTATCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGTACATTGGCAC
* * *
678650 CTTTCTCATCTTTAAGTCCACTGTTGT
130 CTTT-TCATCTTTAAGTCCAATGAT-A
* * * * * * * * * *
678677 TGGCTTTAAATCGGCATGTTGGCAAC-TTTATCATCTTTAAGTCTTATGTCCCTAGCCTTGAATT
1 TGGCCTTGAATCAGCATATTGGCAACTTTTAT-ATCTCTAAGTCTAATGTCACTAGCATTAAATC
* * * *
678741 AGCGCATTAGCACATTTATCATCTTCAAGTCCAATGTCACAGGCCTTGAATCAGCACATTAGCAC
65 AGCACATTAGCACATTTATCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGTACATTGGCAC
* * * *
678806 CTTTATCATCATTAAGTCTAGTGCTA
130 CTTT-TCATCTTTAAGTCCAATGATA
* *
678832 TAGGCCTTGAATCTGCACATTGGCA
1 T-GGCCTTGAATCAGCATATTGGCA
678857 CATTGCTGAC
Statistics
Matches: 260, Mismatches: 65, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
151 4 0.02
152 20 0.08
153 4 0.02
154 36 0.14
155 19 0.07
156 176 0.68
157 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (154 bp):
TGGCCTTGAATCAGCATATTGGCAACTTTTATATCTCTAAGTCTAATGTCACTAGCATTAAATCA
GCACATTAGCACATTTATCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGTACATTGGCACC
TTTTCATCTTTAAGTCCAATGATA
Found at i:679623 original size:51 final size:52
Alignment explanation
Indices: 679509--679649 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
679499 TCTAGAAAGA
* * * *
679509 AAATGTATCGATACATTTTTTATTGTATCGATACATTCTGGGTTTCTAATCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTTTGAGTTTCTAACCC
* *
679561 ATATGTATCGATACATTTTTCATTGTATCGATACATTTTGAGTTT-TGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTTTGAGTTTCTAACCC
* * * *
679612 AAATGTATCGATACATTATTCAATGTATTGATGCATTT
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTT
679650 AGTTAAATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 37 0.47
52 41 0.53
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.44
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTTTGAGTTTCTAACCC
Found at i:684213 original size:19 final size:20
Alignment explanation
Indices: 684189--684242 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
684179 AGCGATACAT
684189 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
684208 TGTATCGATACAGTTACTGTT
1 TGTATCGATACA-AAACTGTA
684229 TGTATCGATACAAA
1 TGTATCGATACAAA
684243 TTGTTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:688452 original size:15 final size:18
Alignment explanation
Indices: 688432--688470 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
688422 TTGATTTTTA
688432 TTTTATG-T-ATA-TATT
1 TTTTATGTTCATATTATT
688447 TTTTATGTTCATATTATT
1 TTTTATGTTCATATTATT
688465 TTTTAT
1 TTTTAT
688471 ATCATAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 3 0.14
18 10 0.48
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTATGTTCATATTATT
Found at i:688475 original size:17 final size:18
Alignment explanation
Indices: 688432--688476 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
688422 TTGATTTTTA
688432 TTTTATG-T-ATA-TATT
1 TTTTATGATCATATTATT
*
688447 TTTTATGTTCATATTATT
1 TTTTATGATCATATTATT
688465 TTTTAT-ATCATA
1 TTTTATGATCATA
688477 ATTGAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 7 0.27
16 1 0.04
17 8 0.31
18 10 0.38
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTATGATCATATTATT
Found at i:689245 original size:13 final size:13
Alignment explanation
Indices: 689224--689287 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
689214 CGATACATGG
*
689224 TACAATGTATCGA
1 TACATTGTATCGA
689237 TACATTGTATCGA
1 TACATTGTATCGA
*
689250 TACA-TG-A-AGA
1 TACATTGTATCGA
689260 -A-A-TGTATCGA
1 TACATTGTATCGA
*
689270 TACATTGTATCAA
1 TACATTGTATCGA
689283 TACAT
1 TACAT
689288 GAAGAAATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 4 0.10
11 2 0.05
12 3 0.07
13 28 0.67
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:689250 original size:33 final size:32
Alignment explanation
Indices: 689208--689307 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 32
689198 CTATCACTAT
689208 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
689241 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
* *
689274 TTGTATCAATACATGAAGAAATGTATCAATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
689307 T
1 T
689308 AGCTTGTAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
33 61 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:690685 original size:13 final size:13
Alignment explanation
Indices: 690667--690692 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
690657 ACATTTTATG
690667 ATGTATCGATACA
1 ATGTATCGATACA
690680 ATGTATCGATACA
1 ATGTATCGATACA
690693 TACTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:690687 original size:33 final size:32
Alignment explanation
Indices: 690645--690712 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
690635 CGTTACAAGC
**
690645 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
690678 CAATGTATCGATACATACTATGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
690710 CAA
1 CAA
690713 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:690771 original size:21 final size:20
Alignment explanation
Indices: 690745--690795 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
690735 CCAATGACTT
**
690745 GTATCGATACATTCTTTTCAA
1 GTATCGATACATT-TGGTCAA
*
690766 GTATCGATA-ATTTGGTCAT
1 GTATCGATACATTTGGTCAA
690785 GTATCGATACA
1 GTATCGATACA
690796 ATGCAATCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 13 0.50
20 4 0.15
21 9 0.35
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (20 bp):
GTATCGATACATTTGGTCAA
Found at i:690809 original size:20 final size:20
Alignment explanation
Indices: 690784--690834 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
690774 AATTTGGTCA
*
690784 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
690804 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
690824 TGTATCGATAC
1 TGTATCGATAC
690835 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:697160 original size:20 final size:21
Alignment explanation
Indices: 697124--697167 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
697114 GCAACCCTCT
*
697124 CCAGGTCGCGATCGGCA-CTC
1 CCAGGTCGCAATCGGCAGCTC
697144 CCAGGTCGCAA-CTGGCAGCTC
1 CCAGGTCGCAATC-GGCAGCTC
697165 CCA
1 CCA
697168 CACCTATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 14 0.67
21 6 0.29
ACGTcount: A:0.18, C:0.41, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGTCGCAATCGGCAGCTC
Found at i:698423 original size:22 final size:22
Alignment explanation
Indices: 698393--698445 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 22
698383 AATTTTTACA
*
698393 TAAGTGGGAGAAGATAA-CTGTT
1 TAAGGGGGAGAAGATAATC-GTT
698415 TAA-GGGG-G-AGATAATCGTT
1 TAAGGGGGAGAAGATAATCGTT
698434 TAAGGGGGAGAA
1 TAAGGGGGAGAA
698446 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
19 12 0.46
20 6 0.23
21 4 0.15
22 4 0.15
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.23
Consensus pattern (22 bp):
TAAGGGGGAGAAGATAATCGTT
Found at i:699013 original size:13 final size:13
Alignment explanation
Indices: 698995--699021 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
698985 ACATGCTGCT
698995 TTGTATCGATACA
1 TTGTATCGATACA
699008 TTGTATCGATACA
1 TTGTATCGATACA
699021 T
1 T
699022 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:699018 original size:33 final size:32
Alignment explanation
Indices: 698976--699040 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
698966 CACACCCAGA
*
698976 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
699009 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
699041 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:699052 original size:21 final size:19
Alignment explanation
Indices: 699005--699062 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
698995 TTGTATCGAT
*
699005 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
699024 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
699043 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
699063 AAACTTGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:699117 original size:20 final size:19
Alignment explanation
Indices: 699092--699144 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
699082 TATCACTATT
699092 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
699112 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
699132 TGTATCGATACAT
1 TGTATCGATACAT
699145 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:700203 original size:15 final size:15
Alignment explanation
Indices: 700180--700219 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
700170 AAAATTAAAA
700180 ATTTTTAAAATAA-TT
1 ATTTTTAAAA-AATTT
*
700195 ATTTATAAAAAATTT
1 ATTTTTAAAAAATTT
700210 ATTTTTAAAA
1 ATTTTTAAAA
700220 CAATATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTTAAAAAATTT
Found at i:700324 original size:2 final size:2
Alignment explanation
Indices: 700319--700356 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
700309 CTAGTGTGTG
* *
700319 TA TA TA TA TA TA TA TA TA TA TA TA GA TA GA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
700357 CTAGTCTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:701631 original size:16 final size:17
Alignment explanation
Indices: 701593--701636 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
701583 TTTTATTTAA
701593 ATTTAATA-AAAAATAT
1 ATTTAATATAAAAATAT
701609 ATATTAATATAAAAATAT
1 AT-TTAATATAAAAATAT
*
701627 -TTTAAAATAA
1 ATTTAATATAA
701637 TATAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 10 0.40
17 7 0.28
18 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTAATATAAAAATAT
Found at i:701647 original size:30 final size:31
Alignment explanation
Indices: 701599--701664 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
701589 TTAAATTTAA
* *
701599 TAAAA-AATATATATTAATATAAA-AATATTT
1 TAAAATAATATATAATAATA-AAACAAAATTT
701629 TAAAATAATATA-AATAATAAAACAAAATTT
1 TAAAATAATATATAATAATAAAACAAAATTT
*
701659 TTAAAT
1 TAAAAT
701665 CGGTGAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 3 0.10
30 22 0.71
31 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAAATAATATATAATAATAAAACAAAATTT
Found at i:704049 original size:2 final size:2
Alignment explanation
Indices: 704044--704079 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
704034 TCTCTCTATC
704044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
704080 AACAAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:704390 original size:20 final size:20
Alignment explanation
Indices: 704362--704436 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
704352 TCATACCCTG
704362 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
704382 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
704402 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
704422 ATGTATCGATACATT
1 ATGTATCGATACATT
704437 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:704429 original size:40 final size:39
Alignment explanation
Indices: 704362--704439 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
704352 TCATACCCTG
* *
704362 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
704402 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
704440 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:716277 original size:20 final size:21
Alignment explanation
Indices: 716241--716288 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
716231 CCTTTACACC
716241 CAAAAAAAAACAAAAAAA-AA
1 CAAAAAAAAACAAAAAAATAA
* * *
716261 CAAAAAAAAAGAGAAAAATAG
1 CAAAAAAAAACAAAAAAATAA
716282 CAAAAAA
1 CAAAAAA
716289 TAGAAAAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.02
Consensus pattern (21 bp):
CAAAAAAAAACAAAAAAATAA
Found at i:716278 original size:11 final size:10
Alignment explanation
Indices: 716241--716270 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
716231 CCTTTACACC
716241 CAAAAAAAAA
1 CAAAAAAAAA
716251 CAAAAAAAAA
1 CAAAAAAAAA
716261 CAAAAAAAAA
1 CAAAAAAAAA
716271 GAGAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:717548 original size:29 final size:29
Alignment explanation
Indices: 717506--720598 Score: 4597
Period size: 29 Copynumber: 107.9 Consensus size: 29
717496 AATGTTCATC
717506 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
717535 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
717564 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
717592 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
717620 CCATTCAAAGCCCACAAATCAGTGGCATT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
717649 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
717677 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
717706 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
717734 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
717763 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
717792 CCTTTCAAAGCCCACAAGTCAGTAGCAAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
717821 CTTTTCAAAGCCCGCAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
717850 CTTTTCAAAGCCCACGAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
717879 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
717907 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
717936 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
717964 CCTTTCAAAGCCCACAAGTCAGTGACACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
717993 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718021 CCTTTCAAAGCCCACAAGTCAATGACACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718050 CATTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718079 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718108 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718136 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
718164 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718193 CTTTTCAAAGCCCACAAGTCAGTGCCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718222 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718251 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
718279 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718308 CTTTTCAAAGCCCACAAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718337 TCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718366 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718395 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
718423 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718452 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718480 CCTTTCAATGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718509 CCTTTCAAAGCCCACAAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
718538 -CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
718566 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718595 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718624 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718652 CCTTTTAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
718681 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718710 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718738 CCTTTCAAAGCCCACAAGTCAGTGACACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718767 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718795 CCTTTCAAAGCCCACAAGTCAGTGACACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
718824 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718853 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718882 CTTTTCAAAGCACACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718910 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
718938 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718967 CTTTTCAAAGCCCACAAGTCAGTGCCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
718996 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719025 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719053 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
719082 CTTTTCAAAGCCCATAGGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719111 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719140 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719169 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719197 CCTTTCAAAGCCCACAAGCCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719226 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
719254 CCTTTCAATGCCCACAAGTCAGTGGTACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719283 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719311 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719340 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
719369 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719398 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719426 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719454 CCTTTCAAAGCCCACAAGGT-AGTGGCACT
1 CCTTTCAAAGCCCACAA-GTCAGTGGCACT
* *
719483 CCTTTCAAAGCGCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
719512 CTTTTCAAAGCACACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719540 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719569 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
719598 ACTTTCAAACCCCACAAATCAGTGGCATT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
719627 CTTTTCAAAGGCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719655 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719683 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719712 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
719741 CTTTTCAAAGCCTACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719770 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719798 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719827 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
719856 CTTTTCAAAGCCCACAAATTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719885 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719913 CCTTTCAAAGCCCACAACTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
719942 -CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
719970 CCTTTCAAAACCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
719999 CTTTTCAAAGCGCAGAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
720028 CTTTTCAAAGCGCACAAATTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
720057 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
720085 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
720114 CCTTTCAAAGCCCACAAGT-AGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
720142 -CTTTACAAAGCCCATAAATCAGTGGCACT
1 CCTTT-CAAAGCCCACAAGTCAGTGGCACT
*
720171 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
720199 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
720227 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
720255 CCTTTCGAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
720283 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
720311 CCTTTCGAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
720339 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
720368 -CTTTCAAAGCCCACAAGTCAGTGACAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
**
720395 CCTTTTGAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * *
720426 CCTTTTAAAGCTCACGCAAGTCAGTGGTAC-
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
* *
720456 CTTTTCAAAGCCCACAAGTCCGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
720485 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
720512 CCTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
720540 TCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
720570 CCTTTTAAAGCCCATGCAAGTCAATGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
720599 ACCTTTTTCA
Statistics
Matches: 2797, Mismatches: 225, Indels: 83
0.90 0.07 0.03
Matches are distributed among these distances:
27 5 0.00
28 1093 0.39
29 1610 0.58
30 64 0.02
31 25 0.01
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:718030 original size:258 final size:258
Alignment explanation
Indices: 717505--720583 Score: 4845
Period size: 258 Copynumber: 11.9 Consensus size: 258
717495 GAATGTTCAT
*
717505 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
717570 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCCCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * *
717634 CAAATCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCA
131 CAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCA
* *
717698 GTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
195 GTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
* *
717761 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTAGCAATCTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT
* * *
717826 CAAAGCCCGCAAATCAGTGGCACTCTTTTCAAAGCCCACGAGTTAGTGGCACTCCTTTCAAAGCC
65 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCC
717891 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
129 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
*
717956 AGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGACACTCCTTTCAAAGCCCACAAGTTAGTGGCA
194 AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
* * *
718020 CCCTTTCAAAGCCCACAAGTCAATGACACTCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
718085 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
*
718150 CAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
131 CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
* * * *
718215 TGCCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
196 TGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
* *
718278 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACT-TCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCT-TTT
*
718342 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCC
65 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCC
718407 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
129 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
*
718472 AGTGGCAC-CCTTTCAATGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
194 AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
*
718536 CTCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
*
718601 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
*
718666 CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTA
131 CAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCA
*
718731 GTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGACACTCCTTTCAAAGCCCACAAGTTAGTGGCA
195 GTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
*
718794 CCCTTTCAAAGCCCACAAGTCAGTGACACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
*
718859 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
*
718924 CAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
131 CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
* * * *
718989 TGCCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
196 TGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
* * * *
719052 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAGGTCAGTGGCACTCCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
719117 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCC
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCC
*
719182 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCACTCTTTTCAAAGCCCACAAGTCA
130 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCA
* *
719247 GTGGCAC-CCTTTCAATGCCCACAAGTCAGTGGTACTCCTTTCAAAGCCCACAAGTTAGTGGCA
195 GTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
719310 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
719375 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * *
719440 CAACTCAGTGGCACCCTTTCAAAGCCCACAAGGT-AGTGGCACTCCTTTCAAAGCGCACAAATCA
131 CAAGTCAGTGGCACCCTTTCAAAGCCCACAA-GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCA
* * *
719504 GTGGCACTCTTTTCAAAGCACACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
195 GTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
* * * * *
719567 CTCTTTTCAAAGCCCACAAGTCAGTGGCACTACTTTCAAACCCCACAAATCAGTGGCATTCTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT
* * * *
719632 CAAAGGCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
65 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
* *
719696 ACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCTACAAGTC
130 ACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
* *
719761 AGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
194 AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
* * *
719825 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATTAGTGGCACTCTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT
* * * *
719890 CAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTCAAAGCCC
65 CAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
* * * *
719954 ACAAGTCAGTGGCACTCCTTTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAGCGCAGAAATC
130 ACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC
* * * * *
720019 AGTGGCACTCTTTTCAAAGCGCACAAATTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
194 AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
*
720084 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT-AGTGGCACTCTTTAC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* *
720148 AAAGCCCATAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCA
66 AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * *
720213 CAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCAC-CCTTTCGAAGCCCACAAGTTAG
131 CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
* *
720277 TGGCAC-CCTTTCAGAGCCCACAAGTCAGTGGCAC-CCTTTCGAAGCCCACAAGTTAGTGGCA
196 TGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
* * * * * *
720338 CCATTGCGAAGCCCACAATTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGACACCCTTTT-
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * * *
720401 GAAGCCCACACAAGTCAGTGGCACTCCTTTT-AAAGCTCACGCAAGTCAGTGGTACCTTTTCAAA
66 AAAGCCCACA-AA-TCAGTGGCACT-CTTTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAA
* * * *
720465 GCCCACAAGTCCGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGA
126 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
* * *
720529 GTTAGTGGCA-TTCTTTCAAAGCCCACGCAAGTCAGTGGCAC-CCTTTTAAAGCCCA
191 GTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCA
720584 TGCAAGTCAA
Statistics
Matches: 2621, Mismatches: 173, Indels: 55
0.92 0.06 0.02
Matches are distributed among these distances:
253 26 0.01
254 64 0.02
255 39 0.01
256 29 0.01
257 569 0.22
258 1598 0.61
259 296 0.11
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (258 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
AAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
TGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
Found at i:718201 original size:229 final size:231
Alignment explanation
Indices: 717506--720598 Score: 4601
Period size: 229 Copynumber: 13.5 Consensus size: 231
717496 AATGTTCATC
* *
717506 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
*
717571 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCATTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* *
717635 AAATCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAG
131 AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAG
* *
717699 TGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCAC-
196 TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
717734 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* * * * * *
717799 AAGCCCACAAGTCAGTAGCAATCTTTTCAAAGCCCGCAAATCAGTGGCACTCTTTTCAAAGCCCA
66 AAGCCCACAAGTCAGTGGC-ACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA
* * *
717864 CGAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCA
130 CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
717928 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
195 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
717964 CCTTTCAAAGCCCACAAGTCAGTGACACTCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* * * *
718028 AAGCCCACAAGTCAATGACACTCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA
66 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA
* *
718093 CAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAACTCA
130 CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
*
718157 GTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
195 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
718193 CTTTTCAAAGCCCACAAGTCAGTGCCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
*
718258 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* * *
718323 AAGTTAGTGGCACT-TCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCA
131 AAGTCAGTGGCACTCT-TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
718387 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
195 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
*
718423 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* *
718487 ATGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACT-CTTTCAAAGCCCA
66 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA
* * *
718551 CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCA
130 CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
718616 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-
195 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
718652 CCTTTTAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* *
718717 AAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGACACTCCTTTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* * *
718782 AAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGACACTCCTTTCAAAGCCCACAAGTCAG
131 AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAG
*
718846 TGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACT
196 TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
718882 CTTTTCAAAGCACACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAACTCAGTGGCAC-CCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* *
718945 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGCCACTCCTTTCAAAGCCCA
66 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA
*
719010 CAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCA
130 CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* *
719074 GTGGCACTCTTTTCAAAGCCCATAGGTCAGTGGCACT
195 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
719111 CCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* *
719176 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCACTCTTTTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* * * *
719241 AAGTCAGTGGCAC-CCTTTCAATGCCCACAAGTCAGTGGTACTCCTTTCAAAGCCCACAAGTTAG
131 AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAG
*
719305 TGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
196 TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
719340 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
*
719405 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTTTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* * * * *
719469 AAGGT-AGTGGCACTCCTTTCAAAGCGCACAAATCAGTGGCACTCTTTTCAAAGCACACAAGTCA
131 AA-GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
*
719533 GTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACT
195 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * * *
719569 CTTTTCAAAGCCCACAAGTCAGTGGCACTACTTTCAAACCCCACAAATCAGTGGCATTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* *
719634 AAGGCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* *
719698 AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCTACAAGTCAG
131 AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAG
* *
719763 TGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCAC-
196 TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
*
719798 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* * *
719863 AAGCCCACAAATTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCA
66 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA
* *
719927 CAACTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAACCCACAAGTCA
130 CAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
* * *
719991 GTGGCACTCTTTTCAAAGCGCAGAAATCAGTGGCACT
195 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * * *
720028 CTTTTCAAAGCGCACAAATTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
720092 AAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGT-AGTGGCACT-CTTTACAAAGCCC
66 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTT-CAAAGCCC
* * * *
720155 ATAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTT
129 ACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTC
* *
720219 AGTGGCAC-CCTTTCAGAGCCCACAAGTCAGTGGCAC-
194 AGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
720255 CCTTTCGAAGCCCACAAGTTAGTGGCAC-CCTTTCAGAGCCCACAAGTCAGTGGCAC-CCTTTCG
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* * * * *
720318 AAGCCCACAAGTTAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCACT-CTTTCAAAGCCCAC
66 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
* * * * *
720382 AAGTCAGTGACACCCTTTT-GAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAG
131 AAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGC-C-CACAAG
* *
720446 TCAGTGGTAC-CTTTTCAAAGCCCACAAGTCCGTGGCACT
192 TCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
720485 -CTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGAGTTAGTGGCA-TTCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
* *
720547 AAGCCCACGCAAGTCAGTGGCACCCTTTTAAAGCCCATGCAAGTCAATGGCA
66 AAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCA
720599 ACCTTTTTCA
Statistics
Matches: 2620, Mismatches: 205, Indels: 75
0.90 0.07 0.03
Matches are distributed among these distances:
224 3 0.00
225 42 0.02
226 80 0.03
227 33 0.01
228 198 0.08
229 1516 0.58
230 659 0.25
231 78 0.03
233 11 0.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (231 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAG
TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:721103 original size:20 final size:20
Alignment explanation
Indices: 721075--721149 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
721065 TCATACCCTG
721075 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
721095 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
721115 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
721135 ATGTATCGATACATT
1 ATGTATCGATACATT
721150 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:721142 original size:40 final size:39
Alignment explanation
Indices: 721075--721152 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
721065 TCATACCCTG
* *
721075 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
721115 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
721153 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:727978 original size:99 final size:100
Alignment explanation
Indices: 727823--728036 Score: 274
Period size: 99 Copynumber: 2.1 Consensus size: 100
727813 ATTGCCTAAT
* *
727823 CTAATTTTTCAACAACAATTAAATTAAACAAAAGTTATCAAAACTAAAATTTAAAAATAATTA-A
1 CTAATCTTTCAACAACAATTAAATTAAACAAAAGTTATCAAAACTAAAATTAAAAAATAATTACA
* *
727887 AAACTCAAAAATAATTTCATATAAATTAACCAA-GC
66 AAA-TCAAAAATAATTTCACATAAATTAACCAATAC
* * * *
727922 CTAATCTTTCAATAA-AATTTAAATTAAACTAAAGTTATC-TAACTAAAGTTCAAAAAATAATTA
1 CTAATCTTTCAACAACAA-TTAAATTAAACAAAAGTTATCAAAACTAAAATT-AAAAAATAATTA
* * *
727985 CAAAATCATAAATAATTTTACATAAATTAATCAATAC
64 CAAAATCAAAAATAATTTCACATAAATTAACCAATAC
728022 CTAATCTTTCAACAA
1 CTAATCTTTCAACAA
728037 GAATCACATT
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
98 11 0.11
99 69 0.70
100 19 0.19
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.32
Consensus pattern (100 bp):
CTAATCTTTCAACAACAATTAAATTAAACAAAAGTTATCAAAACTAAAATTAAAAAATAATTACA
AAATCAAAAATAATTTCACATAAATTAACCAATAC
Found at i:728328 original size:16 final size:16
Alignment explanation
Indices: 728282--728330 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
728272 CTCGAACGAG
*
728282 AAAGAACCCAAACCCA
1 AAAGAACCCAAACCTA
*
728298 AAAGGACCCAAACCTA
1 AAAGAACCCAAACCTA
*
728314 AAAGAACCTAAACCTA
1 AAAGAACCCAAACCTA
728330 A
1 A
728331 GAATGATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.55, C:0.31, G:0.08, T:0.06
Consensus pattern (16 bp):
AAAGAACCCAAACCTA
Found at i:729602 original size:13 final size:13
Alignment explanation
Indices: 729584--729614 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
729574 ACATTTCTTC
729584 ATGTATCGATACA
1 ATGTATCGATACA
729597 ATGTATCGATACA
1 ATGTATCGATACA
*
729610 TTGTA
1 ATGTA
729615 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:729602 original size:33 final size:33
Alignment explanation
Indices: 729564--729630 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
729554 GTTACAAGCT
729564 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
729597 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
729630 A
1 A
729631 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:729699 original size:13 final size:13
Alignment explanation
Indices: 729681--729707 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
729671 CAATTTGTCC
729681 ATGTATCGATACA
1 ATGTATCGATACA
729694 ATGTATCGATACA
1 ATGTATCGATACA
729707 A
1 A
729708 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:730255 original size:18 final size:18
Alignment explanation
Indices: 730232--730269 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
730222 AGTTCAAATA
*
730232 TCAAAGTTTTCGTTTTTC
1 TCAAAGTTTTCATTTTTC
730250 TCAAAGTTTTCATTTTTC
1 TCAAAGTTTTCATTTTTC
730268 TC
1 TC
730270 CCCTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.55
Consensus pattern (18 bp):
TCAAAGTTTTCATTTTTC
Found at i:731651 original size:79 final size:78
Alignment explanation
Indices: 731473--731678 Score: 216
Period size: 79 Copynumber: 2.6 Consensus size: 78
731463 ACATCTCCGG
* * * * *
731473 ATGAGAAATTTAATATTTTGGAGATAATAATGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTT
1 ATGAGAAA-TTAATATTTTAGAAATAA-AATAGGATTGGAGTATCCCCTCGAAAATAACGGGGTT
731538 GGAGTATCCCCGATT
64 GGAGTATCCCCGATT
* * ** * * *
731553 GTGAAAAATCGATGA-TTTAGAAATAAAATCAGGATTGGATTATCCTCTCGGAAATAACGGGGTT
1 ATGAGAAATTAAT-ATTTTAGAAATAAAAT-AGGATTGGAGTATCCCCTCGAAAATAACGGGGTT
*
731617 GGAGTATCCCCTATT
64 GGAGTATCCCCGATT
** *
731632 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 ATGAGAAATTAATATTTTAGAAATAAAA-TAGGATTGGAGTATCCCC
731679 GATGAAAAAT
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
78 4 0.04
79 89 0.89
80 7 0.07
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (78 bp):
ATGAGAAATTAATATTTTAGAAATAAAATAGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGG
AGTATCCCCGATT
Found at i:731691 original size:48 final size:49
Alignment explanation
Indices: 731610--731727 Score: 175
Period size: 48 Copynumber: 2.4 Consensus size: 49
731600 TCGGAAATAA
* *
731610 CGGGGTTGGAGTATCCCCTATTATGAGAAATTAATATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCC--TGATGAAAAATTAATATTTTAGAAATAAAAC
* *
731661 CGGGGTTGGAGTATCCCC-GATGAAAAATTAATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCTGATGAAAAATTAATATTTTAGAAATAAAAC
731709 CGGGGTTGGAGTATCCCCT
1 CGGGGTTGGAGTATCCCCT
731728 CGGAAATAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
48 44 0.71
51 18 0.29
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.30
Consensus pattern (49 bp):
CGGGGTTGGAGTATCCCCTGATGAAAAATTAATATTTTAGAAATAAAAC
Found at i:731751 original size:76 final size:76
Alignment explanation
Indices: 731661--731802 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 76
731651 GAAATAAAAC
* *
731661 CGGGGTTGGAGTATCCCCGATGAAAAATTAATGTTTTAGAAATAAAA-TCGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCACCGATGAAAAATTAATGTTTTAGAAATAAAACT-AGGGTTGGAGTATCC
731725 CCTCGGAAATAA
65 CCTCGGAAATAA
* * *
731737 CGGGGTTGGAGTATCACCGATGAAAAATTGATGTTTTGGAAATGAAACTAGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCACCGATGAAAAATTAATGTTTTAGAAATAAAACTAGGGTTGGAGTATCCC
731802 C
66 C
731803 GAGATGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
76 59 0.98
77 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (76 bp):
CGGGGTTGGAGTATCACCGATGAAAAATTAATGTTTTAGAAATAAAACTAGGGTTGGAGTATCCC
CTCGGAAATAA
Found at i:731751 original size:127 final size:124
Alignment explanation
Indices: 731532--731815 Score: 352
Period size: 127 Copynumber: 2.2 Consensus size: 124
731522 CGAAAATAAT
* *
731532 GGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATCAGGATTGGATTATC
1 GGGGTTGGAGTATCCCCGA---TGAAAAATCAATGATTTAGAAATAAAATCAGGATTGGAGTATC
* * * *
731597 CTCTCGGAAATAACGGGGTTGGAGTATCCCCTATTATGAGAAATTAATATTTTAGAAATAAAACC
63 CCCTCGGAAATAACGGGGTTGGAGTATCACC---GATGAAAAATTAATATTTTAGAAATAAAACC
* * * *
731662 GGGGTTGGAGTATCCCCGATGAAAAATTAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCCGATGAAAAATCAATGATTTAGAAATAAAATCAGGATTGGAGTATCCCC
* * * * *
731727 TCGGAAATAACGGGGTTGGAGTATCACCGATGAAAAATTGATGTTTTGGAAATGAAACT
66 TCGGAAATAACGGGGTTGGAGTATCACCGATGAAAAATTAATATTTTAGAAATAAAACC
*
731786 AGGGTTGGAGTATCCCCGAGATGAAAAATC
1 GGGGTTGGAGTATCCCC--GATGAAAAATC
731816 TAGAAATTTA
Statistics
Matches: 135, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
124 40 0.30
126 10 0.07
127 66 0.49
130 19 0.14
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (124 bp):
GGGGTTGGAGTATCCCCGATGAAAAATCAATGATTTAGAAATAAAATCAGGATTGGAGTATCCCC
TCGGAAATAACGGGGTTGGAGTATCACCGATGAAAAATTAATATTTTAGAAATAAAACC
Found at i:734187 original size:13 final size:13
Alignment explanation
Indices: 734169--734194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
734159 ACAAAGATTG
734169 ATGTATCGATACA
1 ATGTATCGATACA
734182 ATGTATCGATACA
1 ATGTATCGATACA
734195 CTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:734207 original size:21 final size:21
Alignment explanation
Indices: 734181--734222 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
734171 GTATCGATAC
734181 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
734202 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
734223 GGCATTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:734257 original size:13 final size:13
Alignment explanation
Indices: 734239--734290 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
734229 AGCTTCGTAG
734239 CGATACATTGTAT
1 CGATACATTGTAT
734252 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
734271 CGATACATTGTAT
1 CGATACATTGTAT
734284 CGATACA
1 CGATACA
734291 ATACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:734271 original size:19 final size:19
Alignment explanation
Indices: 734247--734332 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
734237 AGCGATACAT
734247 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
734266 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
734279 TGTATCGATACAATACTTA
1 TGTATCGATACAAAACTTA
* ** *
734298 TGTATCAATACATTTACTGTT
1 TGTATCGATACA-AAACT-TA
734319 TGTATCGATACAAA
1 TGTATCGATACAAA
734333 TTGTTTGAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 11 0.21
14 1 0.02
16 2 0.04
18 1 0.02
19 22 0.42
20 4 0.08
21 12 0.23
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:734280 original size:32 final size:32
Alignment explanation
Indices: 734239--734311 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
734229 AGCTTCGTAG
734239 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
734271 CGATACATTGTATCGATACAATACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
734303 CAATACATT
1 CGATACATT
734312 TACTGTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:734395 original size:21 final size:20
Alignment explanation
Indices: 734369--734407 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
734359 GTTAGGACCT
734369 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
734390 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
734408 TAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:742567 original size:21 final size:20
Alignment explanation
Indices: 742541--742596 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
742531 CTGCCAGTTT
**
742541 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
*
742562 CATGTATCTATACAA-TGAA
1 CATGTATCGATACAATTGAA
742581 CATGTATCGATACAAT
1 CATGTATCGATACAAT
742597 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:742600 original size:13 final size:13
Alignment explanation
Indices: 742582--742608 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
742572 TACAATGAAC
742582 ATGTATCGATACA
1 ATGTATCGATACA
742595 ATGTATCGATACA
1 ATGTATCGATACA
742608 A
1 A
742609 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:742623 original size:33 final size:32
Alignment explanation
Indices: 742563--742627 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
742553 CAATTTGTCC
* *
742563 ATGTATCTATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
742595 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
742628 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:746667 original size:20 final size:20
Alignment explanation
Indices: 746639--746680 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
746629 ATGCAATAAA
746639 TATCATTTTAATAAAAATGG
1 TATCATTTTAATAAAAATGG
*
746659 TATCGTTTTAATAAAAATGG
1 TATCATTTTAATAAAAATGG
746679 TA
1 TA
746681 AAGTAGGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
TATCATTTTAATAAAAATGG
Found at i:752253 original size:31 final size:31
Alignment explanation
Indices: 752197--752624 Score: 283
Period size: 31 Copynumber: 13.5 Consensus size: 31
752187 GGTACCCAAG
*
752197 CCTTTTCAAAAG-CCTACATGAGTTGGTGGCAA
1 CCTTTTC-AAAGTCC-ACACGAGTTGGTGGCAA
* * * *
752229 CCTTTTTAAATTCCACACAAGTTGGTGGTAA
1 CCTTTTCAAAGTCCACACGAGTTGGTGGCAA
*
752260 CCTTTTTAAAGTCCACACGAGTTGGTGGC-A
1 CCTTTTCAAAGTCCACACGAGTTGGTGGCAA
* *
752290 CCTGATTCAAAGTCCACACAAGTTGGTGGC-A
1 CCT-TTTCAAAGTCCACACGAGTTGGTGGCAA
** * * * ** *
752321 CCTCGGTAAAAGTTCATATAAGTTGGTGGTAA
1 CCT-TTTCAAAGTCCACACGAGTTGGTGGCAA
**
752353 TATTTTCAAAGTCCACACGAGTTGGTGGC-A
1 CCTTTTCAAAGTCCACACGAGTTGGTGGCAA
** * *
752383 CCATAAT-AAAGTCCATACGAGTTGGTGGCAC
1 CC-TTTTCAAAGTCCACACGAGTTGGTGGCAA
** * * * **
752414 CCCATTCAAATTCTACACAAGCCGGTGGCAACCAAA
1 CCTTTTCAAAGTCCACACGAGTTGGTGG----C-AA
*
752450 CCTTTTCAAAGTCCACACGAGTTGGTGGCAC
1 CCTTTTCAAAGTCCACACGAGTTGGTGGCAA
* * *
752481 CCTAATT-AAAGGCCACACGAGTTGGTGGCAC
1 CCT-TTTCAAAGTCCACACGAGTTGGTGGCAA
** * *
752512 CCTAGTCAAGGTCCACACGAGTTGGTGGCAC
1 CCTTTTCAAAGTCCACACGAGTTGGTGGCAA
** * ** *
752543 CCTAATCAAAGTCCACACAAGTCAGTGCCATAA
1 CCTTTTCAAAGTCCACACGAGTTGGTGGC--AA
752576 TCCTTTTCAAAGTCCACACGAGTTGGTGGCAA
1 -CCTTTTCAAAGTCCACACGAGTTGGTGGCAA
* *
752608 CATTTTCAAAGCCCACA
1 CCTTTTCAAAGTCCACA
752625 TGTTAATGGC
Statistics
Matches: 308, Mismatches: 72, Indels: 33
0.75 0.17 0.08
Matches are distributed among these distances:
30 30 0.10
31 216 0.70
32 15 0.05
33 1 0.00
34 23 0.07
35 1 0.00
36 22 0.07
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (31 bp):
CCTTTTCAAAGTCCACACGAGTTGGTGGCAA
Found at i:752563 original size:129 final size:126
Alignment explanation
Indices: 752360--752606 Score: 341
Period size: 129 Copynumber: 1.9 Consensus size: 126
752350 TAATATTTTC
* * * *
752360 AAAGTCCACACGAGTTGGTGGCACCATAATAAAGTCCATACGAGTTGGTGGCACCCCATTCAAAT
1 AAAGGCCACACGAGTTGGTGGCACCATAATAAAGTCCACACGAGTTGGTGGCACCCCAATCAAAG
* *
752425 TCTACACAAGCCGGTGGCAACCAAACCTTTTCAAAGTCCACACGAGTTGGTGGCACCCTAATT
66 TCCACACAAGCCAGT-GCAA-CAAACCTTTTCAAAGTCCACACGAGTTGGTGGCACCCTAATT
* * * *
752488 AAAGGCCACACGAGTTGGTGGCACCCTAGTCAAGGTCCACACGAGTTGGTGGCACCCTAATCAAA
1 AAAGGCCACACGAGTTGGTGGCACCATAAT-AAAGTCCACACGAGTTGGTGGCACCCCAATCAAA
* * * *
752553 GTCCACACAAGTCAGTGCCATAATCCTTTTCAAAGTCCACACGAGTTGGTGGCA
65 GTCCACACAAGCCAGTGCAACAAACCTTTTCAAAGTCCACACGAGTTGGTGGCA
752607 ACATTTTCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
127 32 0.31
128 30 0.29
129 42 0.40
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (126 bp):
AAAGGCCACACGAGTTGGTGGCACCATAATAAAGTCCACACGAGTTGGTGGCACCCCAATCAAAG
TCCACACAAGCCAGTGCAACAAACCTTTTCAAAGTCCACACGAGTTGGTGGCACCCTAATT
Found at i:752644 original size:29 final size:29
Alignment explanation
Indices: 752602--752679 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
752592 CACGAGTTGG
* * *
752602 TGGCAACATTTTCAAAGCCCACATGTTAA
1 TGGCACCATTTTCAAAGCCCACAAGTCAA
752631 TGGCACCATTTTCAAAGCCCACAAGTCAA
1 TGGCACCATTTTCAAAGCCCACAAGTCAA
*
752660 TGGCACC-TTTTTAAAGCCCA
1 TGGCACCATTTTCAAAGCCCA
752680 TGAGTCAGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 12 0.27
29 33 0.73
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (29 bp):
TGGCACCATTTTCAAAGCCCACAAGTCAA
Found at i:752679 original size:28 final size:28
Alignment explanation
Indices: 752610--752707 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
752600 GGTGGCAACA
* *
752610 TTTTCAAAGCCCACATGTTAATGGCACC
1 TTTTCAAAGCCCACAAGTCAATGGCACC
752638 ATTTTCAAAGCCCACAAGTCAATGGCACC
1 -TTTTCAAAGCCCACAAGTCAATGGCACC
* ** * *
752667 TTTTTAAAGCCCATGAGTCAGTGGCGCC
1 TTTTCAAAGCCCACAAGTCAATGGCACC
752695 TCTTT-AAAGCCCA
1 T-TTTCAAAGCCCA
752708 TAATAGCTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 32 0.52
29 29 0.48
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
TTTTCAAAGCCCACAAGTCAATGGCACC
Found at i:753272 original size:65 final size:65
Alignment explanation
Indices: 753166--753303 Score: 179
Period size: 65 Copynumber: 2.1 Consensus size: 65
753156 ATAGAAGTTG
* * * * * *
753166 GTGGCACCCAATCCTTTCTTAAAACTTGCAGAAGCTAGCGGCACCCAGAAAGCCTACACAAATTA
1 GTGGCATCCAATCCTTTCTCAAAACCTGCAGAAGCTAGCGGCACCCAAAAAGCCCACACAAACTA
* * *
753231 GTGGCATCCAATCCTTTCTCAAAGCCTGCACG-AGCTGGCGGCACCCAAAAAGCCCACACAAGCT
1 GTGGCATCCAATCCTTTCTCAAAACCTGCA-GAAGCTAGCGGCACCCAAAAAGCCCACACAAACT
753295 A
65 A
753296 GTGGCATC
1 GTGGCATC
753304 TCTTTCTAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 62 0.98
66 1 0.02
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (65 bp):
GTGGCATCCAATCCTTTCTCAAAACCTGCAGAAGCTAGCGGCACCCAAAAAGCCCACACAAACTA
Found at i:754261 original size:20 final size:20
Alignment explanation
Indices: 754219--754274 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
754209 TTTTACAATT
*
754219 TGTATCGATACAACAAGTCAA
1 TGTATCGATAC-ATAAGTCAA
*
754240 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTCAA
*
754260 TGTATTGATAC-TAAG
1 TGTATCGATACATAAG
754275 GCTTATTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 4 0.12
20 17 0.53
21 11 0.34
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAAGTCAA
Found at i:754394 original size:20 final size:20
Alignment explanation
Indices: 754349--754396 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
754339 TATATAAGTG
*
754349 AATGTATCGATACATGCCTT
1 AATGTATCGATACATGCCTC
754369 AATGTATCGATACAT-CACTC
1 AATGTATCGATACATGC-CTC
*
754389 ATTGTATC
1 AATGTATC
754397 AATATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATGCCTC
Found at i:754574 original size:13 final size:14
Alignment explanation
Indices: 754556--754588 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
754546 ATCAGAATTC
754556 ATGTCAA-TTTCAA
1 ATGTCAAGTTTCAA
754569 ATGTCAAGTTTCAA
1 ATGTCAAGTTTCAA
754583 AT-TCAA
1 ATGTCAA
754589 ACTCTGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (14 bp):
ATGTCAAGTTTCAA
Found at i:756600 original size:27 final size:26
Alignment explanation
Indices: 756562--756612 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
756552 TGTCATCATC
756562 GGGGACACTCCAACCCCATTCTTTCGA
1 GGGGACACTCCAACCCCATT-TTTCGA
* *
756589 GGGGATACTCCATCCCCATTTTTC
1 GGGGACACTCCAACCCCATTTTTC
756613 AACCGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (26 bp):
GGGGACACTCCAACCCCATTTTTCGA
Found at i:758035 original size:21 final size:23
Alignment explanation
Indices: 758010--758052 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
758000 AAACGTGTTA
758010 ATTAATTT-AAATAT-TAATATG
1 ATTAATTTGAAATATATAATATG
*
758031 ATTAATTTGCAATATATAATAT
1 ATTAATTTGAAATATATAATAT
758053 TGTAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
ATTAATTTGAAATATATAATATG
Found at i:758379 original size:16 final size:16
Alignment explanation
Indices: 758336--758389 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
758326 TTTAAACCTG
*
758336 AATAGATCTAAATCTAA
1 AATA-ATCTAAATATAA
* *
758353 AA-AAACTTAAATTTAA
1 AATAATC-TAAATATAA
758369 AATAATCTAAATATAA
1 AATAATCTAAATATAA
758385 AATAA
1 AATAA
758390 CCTGATTCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 2 0.06
16 24 0.77
17 5 0.16
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (16 bp):
AATAATCTAAATATAA
Found at i:758842 original size:18 final size:18
Alignment explanation
Indices: 758807--758841 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
758797 TATTATTATT
*
758807 TTTATATAAATTTAAAAA
1 TTTATATAAATTAAAAAA
758825 TTTATAT-AATTAAAAAA
1 TTTATATAAATTAAAAAA
758842 ACTTGAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTATATAAATTAAAAAA
Found at i:759043 original size:20 final size:20
Alignment explanation
Indices: 759007--759044 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
758997 TTTATATAAA
*
759007 TTTTAATATATTAATAATTT
1 TTTTAATAAATTAATAATTT
759027 TTTTATATAAATT-ATAAT
1 TTTTA-ATAAATTAATAAT
759045 ATGTTTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATAAATTAATAATTT
Found at i:761075 original size:29 final size:29
Alignment explanation
Indices: 761042--761098 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
761032 ACTATTTTCG
761042 AATTTCAAATCAAA-TTA-ATCAATAATTAA
1 AATTTCAAA--AAATTTATATCAATAATTAA
*
761071 AATTTTAAAAAATTTATATCAATAATTA
1 AATTTCAAAAAATTTATATCAATAATTA
761099 TTTTGATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 3 0.12
29 19 0.76
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (29 bp):
AATTTCAAAAAATTTATATCAATAATTAA
Found at i:764568 original size:57 final size:58
Alignment explanation
Indices: 764356--764731 Score: 206
Period size: 58 Copynumber: 6.5 Consensus size: 58
764346 AAATTGTATG
* * * * * * *
764356 AAAGTCCCTAAATCATGGAAAATAACCT--AATGACCTTAAAATTCATAAAATTACAT-A
1 AAAGTCCTTAAATCATGAAAAATTA-CTAAAATGACATTAAAATACATGAAA-TGCATAA
* * * * * * *
764413 AAAGTCCCTCAAAT-ATTAAAAATGACTAAAATAGTC-TTGAAATGCACGAAATTGCAT-A
1 AAAGT-CCTTAAATCATGAAAAATTACTAAAAT-GACATTAAAATACATGAAA-TGCATAA
* * * *
764471 AAAGT-CTCTAAAACATGATAAATTACTAGAATGACCTTAAAATACATGACAATGCATAA
1 AAAGTCCT-TAAATCATGAAAAATTACTAAAATGACATTAAAATACATGA-AATGCATAA
** * * * *
764530 ATGGTCC-TAAATCATG-GAATTTACTAAAATGACATT-AAATGCATAAAATG-ATATA
1 AAAGTCCTTAAATCATGAAAAATTACTAAAATGACATTAAAATACATGAAATGCATA-A
* *
764585 AAAGTCCTTAAGTTATGAAAAATTACTAAAATG-CTATTAAAATACATGAAATGACATAA
1 AAAGTCCTTAAATCATGAAAAATTACTAAAATGAC-ATTAAAATACATGAAATG-CATAA
* * * * * * *
764644 AAA-TTCTTAAGTCATGAAAAATGACTAAAATGGCATGAATATACATGAATTTGCAT-A
1 AAAGTCCTTAAATCATGAAAAATTACTAAAATGACATTAAAATACATGAA-ATGCATAA
** * *
764701 ATGGTCCCTAAATCAT-AGAAAATGACTAAAA
1 AAAGTCCTTAAATCATGA-AAAATTACTAAAA
764732 GCATCTTAAA
Statistics
Matches: 249, Mismatches: 49, Indels: 41
0.73 0.14 0.12
Matches are distributed among these distances:
54 3 0.01
55 10 0.04
56 20 0.08
57 53 0.21
58 144 0.58
59 15 0.06
60 4 0.02
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (58 bp):
AAAGTCCTTAAATCATGAAAAATTACTAAAATGACATTAAAATACATGAAATGCATAA
Found at i:764591 original size:172 final size:173
Alignment explanation
Indices: 764359--764816 Score: 427
Period size: 172 Copynumber: 2.7 Consensus size: 173
764349 TTGTATGAAA
* * * *
764359 GTCCCTAAATCATGGAAAATAACCT--AATGACCTTAAAATTCATAAAATTACATAAAAGTCCCT
1 GTCCCTAAATCATAGAAAATGA-CTAAAATGACATT-AAATGCATAAAATTACATAAAAGTCCCT
* * * *
764422 CAAATATTAAAAATGACTAAAATAGTCTTGAAATGCACGAAATTGCAT-AAAAGTCTCTAAAACA
64 AAAATATTAAAAATGACTAAAATAGTCTTAAAATGCATGAAATTGCATAAAAATTCT-TAAAACA
* * * * *
764486 TGATAAATTACTAGAATGACCTTAAAATACATGACA-ATGCATAAATG
128 TGAAAAATGACTAAAATGACATGAAAATACATGA-ATATGCAT-AATG
* * * * * *
764533 GT-CCTAAATCAT-GGAATTTACTAAAATGACATTAAATGCATAAAATGATATAAAAGTCCTTAA
1 GTCCCTAAATCATAGAAAATGACTAAAATGACATTAAATGCATAAAATTACATAAAAGTCCCTAA
** * * * * **
764596 GTTATGAAAAATTACTAAAAT-GCTATTAAAATACATGAAA-TGACATAAAAATTCTTAAGTCAT
66 AATATTAAAAATGACTAAAATAG-TCTTAAAATGCATGAAATTG-CATAAAAATTCTTAAAACAT
* * *
764659 GAAAAATGACTAAAATGGCATGAATATACATGAATTTGCATAATG
129 GAAAAATGACTAAAATGACATGAAAATACATGAATATGCATAATG
*
764704 GTCCCTAAATCATAGAAAATGACTAAAA-G-CATCTTAAATGCATACAATTACATAATAA-TCCC
1 GTCCCTAAATCATAGAAAATGACTAAAATGACA--TTAAATGCATAAAATTACATAA-AAGTCCC
* * *
764766 TAAAACATTAAAAATGACTAAAATA-ACTCTAAAATGCATGAAATTTCATAA
63 TAAAATATTAAAAATGACTAAAATAGTCT-TAAAATGCATGAAATTGCATAA
764817 TATTAACTAA
Statistics
Matches: 226, Mismatches: 44, Indels: 29
0.76 0.15 0.10
Matches are distributed among these distances:
171 14 0.06
172 112 0.50
173 95 0.42
174 5 0.02
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (173 bp):
GTCCCTAAATCATAGAAAATGACTAAAATGACATTAAATGCATAAAATTACATAAAAGTCCCTAA
AATATTAAAAATGACTAAAATAGTCTTAAAATGCATGAAATTGCATAAAAATTCTTAAAACATGA
AAAATGACTAAAATGACATGAAAATACATGAATATGCATAATG
Found at i:765665 original size:15 final size:15
Alignment explanation
Indices: 765645--765696 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
765635 CCAGTCCTTT
765645 TTTCTTTTTTTTCTC
1 TTTCTTTTTTTTCTC
765660 TTTCTTGTTTTTTC-C
1 TTTCTT-TTTTTTCTC
*
765675 TCTCTTTTTTGTT-TC
1 TTTCTTTTTT-TTCTC
765690 TTT-TTTT
1 TTTCTTTT
765697 AGTTTCTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 8 0.25
15 17 0.53
16 7 0.22
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTTTTCTC
Found at i:770538 original size:20 final size:20
Alignment explanation
Indices: 770515--770560 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
770505 GGGATATACT
*
770515 GATACATTCT-ATATTGTATC
1 GATACATTCTCACA-TGTATC
*
770535 GATACATTTTCACATGTATC
1 GATACATTCTCACATGTATC
770555 GATACA
1 GATACA
770561 AATGAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
GATACATTCTCACATGTATC
Found at i:770704 original size:92 final size:93
Alignment explanation
Indices: 770529--770727 Score: 240
Period size: 92 Copynumber: 2.2 Consensus size: 93
770519 CATTCTATAT
* * * * ** **
770529 TGTATCGATACATTTTCACATGTATCGATACAAATGAGGGTTTCGGGTTTTTTTTAGCTACTGCC
1 TGTATCGATACATTTTCACATGTATCAATAAAAATAAGGGTTTCGAGCATTTCGTAGCTACTGCC
*
770594 AACAAGATGTATCAATACATTTACATA-A
66 AACAAGATGTATCAATACATTCACA-AGA
* * *
770622 TGTATCGATACATTTTCACTTGTATCAATAAAAATAAGGGTTT-TAGCATTTCGTAGCTATTGCC
1 TGTATCGATACATTTTCACATGTATCAATAAAAATAAGGGTTTCGAGCATTTCGTAGCTACTGCC
* * *
770686 AACCATATGTATCGATACATTCACAAGA
66 AACAAGATGTATCAATACATTCACAAGA
770714 TGTATCGATACATT
1 TGTATCGATACATT
770728 CAATCCTTAA
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
91 1 0.01
92 50 0.56
93 39 0.43
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (93 bp):
TGTATCGATACATTTTCACATGTATCAATAAAAATAAGGGTTTCGAGCATTTCGTAGCTACTGCC
AACAAGATGTATCAATACATTCACAAGA
Found at i:771452 original size:48 final size:46
Alignment explanation
Indices: 771382--771523 Score: 176
Period size: 48 Copynumber: 3.0 Consensus size: 46
771372 GTCTGATAAC
* * * *
771382 CTGGAAAACCAGATGTATCGATACATTATTAATTATATCGATAGATT
1 CTGGAAAACCAAATGTATCGATACATT-TTCATTGTATCGATACATT
*
771429 CTGGAAAATCCAAATGTATCGATACATTTTGCATCGTATCGATACATT
1 CTGGAAAA-CCAAATGTATCGATACATTTT-CATTGTATCGATACATT
*
771477 CTAGAAAAACCAAGATGTATCGATACATTGTTCATTGTATCGATACA
1 CT-GGAAAACCAA-ATGTATCGATACATT-TTCATTGTATCGATACA
771524 ACAACCTTAG
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
47 10 0.12
48 37 0.45
49 34 0.41
50 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (46 bp):
CTGGAAAACCAAATGTATCGATACATTTTCATTGTATCGATACATT
Found at i:771517 original size:20 final size:20
Alignment explanation
Indices: 771492--771563 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
771482 AAAACCAAGA
771492 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
**** *
771512 TGTATCGATACA-ACAACCT
1 TGTATCGATACATTGTTCAT
771531 TAGTATCGATACATTGTTCAT
1 T-GTATCGATACATTGTTCAT
*
771552 TATATCGATACA
1 TGTATCGATACA
771564 ACAACCTTAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 3 0.08
20 33 0.85
21 3 0.08
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:771548 original size:40 final size:40
Alignment explanation
Indices: 771493--771572 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
771483 AAACCAAGAT
*
771493 GTATCGATACATTGTTCATTGTATCGATACAACAACCTTA
1 GTATCGATACATTGTTCATTATATCGATACAACAACCTTA
771533 GTATCGATACATTGTTCATTATATCGATACAACAACCTTA
1 GTATCGATACATTGTTCATTATATCGATACAACAACCTTA
771573 AAGTCTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (40 bp):
GTATCGATACATTGTTCATTATATCGATACAACAACCTTA
Found at i:777677 original size:20 final size:20
Alignment explanation
Indices: 777640--777693 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
777630 TTCTACAATT
*
777640 TGTATCGATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
*
777661 TGTATCGAAACATAAGTGAA
1 TGTATCGATACATAAGTGAA
777681 TGTATCGATACAT
1 TGTATCGATACAT
777694 GCTCGAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:781293 original size:21 final size:21
Alignment explanation
Indices: 781267--781340 Score: 148
Period size: 21 Copynumber: 3.5 Consensus size: 21
781257 TGCCAACAAG
781267 ATGTATCGATACATTCACATA
1 ATGTATCGATACATTCACATA
781288 ATGTATCGATACATTCACATA
1 ATGTATCGATACATTCACATA
781309 ATGTATCGATACATTCACATA
1 ATGTATCGATACATTCACATA
781330 ATGTATCGATA
1 ATGTATCGATA
781341 TCGTTGGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (21 bp):
ATGTATCGATACATTCACATA
Found at i:781505 original size:225 final size:225
Alignment explanation
Indices: 781114--781527 Score: 756
Period size: 225 Copynumber: 1.8 Consensus size: 225
781104 TCATTTTCCC
*
781114 TATCGTTGGGGTCGAGCACACATCGCTATAGTTATAACTCAAAGTATCGATACATTTAGGGATAT
1 TATCGTTGGGGTCGAGCACACATCGCGATAGTTATAACTCAAAGTATCGATACATTTAGGGATAT
* *
781179 ATCGATGCATTCGATATTGTATCGATACATTTTCATGTGTATCAATACAAGTAAGGGTTTTAAGA
66 ATCGATACATTCGATATTGTATCGATACATTTTCATGTGTATCAATACAAGTAAGGGTTTCAAGA
781244 TTTGTTTAGCTATTGCCAACAAGATGTATCGATACATTCACATAATGTATCGATACATTCACATA
131 TTTGTTTAGCTATTGCCAACAAGATGTATCGATACATTCACATAATGTATCGATACATTCACATA
781309 ATGTATCGATACATTCACATAATGTATCGA
196 ATGTATCGATACATTCACATAATGTATCGA
* * *
781339 TATCGTTGGGGTCGAGCGCACATCGCGATAGTTATAACTCAAAGTATCGATATATTTAGGGATGT
1 TATCGTTGGGGTCGAGCACACATCGCGATAGTTATAACTCAAAGTATCGATACATTTAGGGATAT
*
781404 ATCGATACATTCGATATTGTATCGATACATTTTCATGTGTATCGATACAAGTAAGGGTTTCAAGA
66 ATCGATACATTCGATATTGTATCGATACATTTTCATGTGTATCAATACAAGTAAGGGTTTCAAGA
*
781469 TTTGTTTAGCTATTGCCAATAAGATGTATCGATACATTCACATAATGTATCGATACATT
131 TTTGTTTAGCTATTGCCAACAAGATGTATCGATACATTCACATAATGTATCGATACATT
781528 TTCACTTGTA
Statistics
Matches: 181, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
225 181 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (225 bp):
TATCGTTGGGGTCGAGCACACATCGCGATAGTTATAACTCAAAGTATCGATACATTTAGGGATAT
ATCGATACATTCGATATTGTATCGATACATTTTCATGTGTATCAATACAAGTAAGGGTTTCAAGA
TTTGTTTAGCTATTGCCAACAAGATGTATCGATACATTCACATAATGTATCGATACATTCACATA
ATGTATCGATACATTCACATAATGTATCGA
Found at i:781598 original size:92 final size:92
Alignment explanation
Indices: 781421--781610 Score: 208
Period size: 93 Copynumber: 2.1 Consensus size: 92
781411 CATTCGATAT
* * * *
781421 TGTATCGATACATTTTCATGTGTATCGATACAAGTAAGGGTTTCAAGATTTGTTTAGCTATTGCC
1 TGTATCGATACATTTTCATGTGTATCGATAAAAATAAGGGTTTCAAGATTCG-TTAGCTACTGCC
* * * *
781486 AATAAGATGTATCGATACATTCACATA-A
65 AACAAGAAGTATCAACACATTCACA-AGA
*
781514 TGTATCGATACATTTTCACT-TGTATCGATAAAAATAAGGGTTT-TAGCATCTCG-TAGCTACTG
1 TGTATCGATACATTTTCA-TGTGTATCGATAAAAATAAGGGTTTCAAG-AT-TCGTTAGCTACTG
* *
781576 CCAACCATAAGTATCAACACATTCACAAGA
63 CCAACAAGAAGTATCAACACATTCACAAGA
781606 TGTAT
1 TGTAT
781611 ATGTATCAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
91 1 0.01
92 37 0.45
93 41 0.50
94 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (92 bp):
TGTATCGATACATTTTCATGTGTATCGATAAAAATAAGGGTTTCAAGATTCGTTAGCTACTGCCA
ACAAGAAGTATCAACACATTCACAAGA
Found at i:787331 original size:35 final size:35
Alignment explanation
Indices: 787292--787361 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
787282 TACTAAGAGT
787292 TACTTAATGCTTACTTTTAAATCAATTCAAACTGG
1 TACTTAATGCTTACTTTTAAATCAATTCAAACTGG
787327 TACTTAATGCTTACTTTTAAATCAATTCAAACTGG
1 TACTTAATGCTTACTTTTAAATCAATTCAAACTGG
787362 GAAGGGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (35 bp):
TACTTAATGCTTACTTTTAAATCAATTCAAACTGG
Found at i:791537 original size:52 final size:52
Alignment explanation
Indices: 791389--791517 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
791379 CGAAATATGA
791389 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
791441 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
791493 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
791518 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:791544 original size:13 final size:13
Alignment explanation
Indices: 791526--791550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
791516 CAAAGATCAG
791526 TGTATCGATACAA
1 TGTATCGATACAA
791539 TGTATCGATACA
1 TGTATCGATACA
791551 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:791630 original size:13 final size:13
Alignment explanation
Indices: 791612--791636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
791602 ACAACACTTA
791612 TGTATCGATACAT
1 TGTATCGATACAT
791625 TGTATCGATACA
1 TGTATCGATACA
791637 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:791631 original size:32 final size:33
Alignment explanation
Indices: 791588--791656 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
791578 GGTAGTAGCT
791588 TACATTATATCGATACAACAC-TTATGTATCGA
1 TACATTATATCGATACAACACTTTATGTATCGA
*
791620 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTATATCGATACAACACTTTATGTATCGA
791653 TACA
1 TACA
791657 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (33 bp):
TACATTATATCGATACAACACTTTATGTATCGA
Found at i:792647 original size:52 final size:52
Alignment explanation
Indices: 792498--792647 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 52
792488 GTTAAAGATG
* * * *
792498 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* *
792550 AAGACGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
792602 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
792648 GTGCCAATGT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 90 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (52 bp):
AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
Found at i:792662 original size:43 final size:43
Alignment explanation
Indices: 792601--792689 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
792591 TAAAGATGAC
* *
792601 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGCGCCAATATGCTGATTCAAGACCAGCGACATTGGACTT
* * *
792644 AAAGGTGCCAATGTGCTGATTCAAGACCAGCGACATTGGGCTT
1 AAAGGCGCCAATATGCTGATTCAAGACCAGCGACATTGGACTT
792687 AAA
1 AAA
792690 AGATGAGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (43 bp):
AAAGGCGCCAATATGCTGATTCAAGACCAGCGACATTGGACTT
Found at i:792762 original size:34 final size:34
Alignment explanation
Indices: 792719--792907 Score: 192
Period size: 34 Copynumber: 5.6 Consensus size: 34
792709 CTGATTCAAG
792719 GCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGT
1 GCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGT
*
792753 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGT
1 GCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGT
* * * *
792787 GCCACGGAGTTGTGAAC-TTAAAAGGAACAAGAT
1 GCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGT
* * *
792820 GCCACGGGGTCGTG-GAC-TTAAAAGGAACAAAGAGT
1 GCCACGGAGTTGTGAG-CTTTAAAAAGAA-AAAG-GT
* *
792855 GCCACGGAGTTGTGGGCTTTGAAAAG---AAGGT
1 GCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGT
* * *
792886 GTCACGGAGTCGTGAACTTTAA
1 GCCACGGAGTTGTGAGCTTTAA
792908 GAAGGTATTT
Statistics
Matches: 130, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
31 19 0.15
32 3 0.02
33 36 0.28
34 51 0.39
35 14 0.11
36 7 0.05
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (34 bp):
GCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGT
Found at i:792857 original size:68 final size:68
Alignment explanation
Indices: 792719--792907 Score: 199
Period size: 67 Copynumber: 2.8 Consensus size: 68
792709 CTGATTCAAG
* * * *
792719 GCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GCCACGGAGTTGTGAACTTTAAAAAGAAAAAGATGCCACGGAGTCGTGGACTTTAAAAAGAAAAA
792784 GGT
66 GGT
* * * *
792787 GCCACGGAGTTGTGAAC-TTAAAAGGAACAAGATGCCACGGGGTCGTGGAC-TTAAAAGGAACAA
1 GCCACGGAGTTGTGAACTTTAAAAAGAAAAAGATGCCACGGAGTCGTGGACTTTAAAAAGAA-AA
792850 AGAGT
65 AG-GT
** * * * *
792855 GCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGTCACGGAGTCGTGAACTTTAA
1 GCCACGGAGTTGTGAACTTTAAAAAGAAAAAGATGCCACGGAGTCGTGGACTTTAA
792908 GAAGGTATTT
Statistics
Matches: 101, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
66 27 0.27
67 35 0.35
68 33 0.33
69 6 0.06
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (68 bp):
GCCACGGAGTTGTGAACTTTAAAAAGAAAAAGATGCCACGGAGTCGTGGACTTTAAAAAGAAAAA
GGT
Found at i:794232 original size:14 final size:14
Alignment explanation
Indices: 794202--794240 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
794192 CCTTTGCACC
794202 TTTTTTGT-TTTGT
1 TTTTTTGTGTTTGT
794215 TTTTTTGTGTTT-T
1 TTTTTTGTGTTTGT
794228 ATTTTTTGTGTTT
1 -TTTTTTGTGTTT
794241 ACTTTTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (14 bp):
TTTTTTGTGTTTGT
Found at i:794246 original size:14 final size:14
Alignment explanation
Indices: 794201--794246 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
794191 GCCTTTGCAC
*
794201 CTTTTTTGT-TTTG
1 CTTTTTTGTGTTTA
*
794214 TTTTTTTGTGTTTTA
1 CTTTTTTGTG-TTTA
794229 -TTTTTTGTGTTTA
1 CTTTTTTGTGTTTA
794242 CTTTT
1 CTTTT
794247 GACTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
14 13 0.46
15 3 0.11
ACGTcount: A:0.04, C:0.04, G:0.13, T:0.78
Consensus pattern (14 bp):
CTTTTTTGTGTTTA
Found at i:800786 original size:32 final size:33
Alignment explanation
Indices: 800745--800813 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
800735 GGCAGTAGCT
800745 TACATTGTATCGATACAAC-ACTTATGTATCGA
1 TACATTGTATCGATACAACAACTTATGTATCGA
*
800777 TACATTGTATCGATACAACAATTTATGTATCGA
1 TACATTGTATCGATACAACAACTTATGTATCGA
800810 TACA
1 TACA
800814 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 19 0.54
33 16 0.46
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAACAACTTATGTATCGA
Found at i:800787 original size:13 final size:13
Alignment explanation
Indices: 800769--800793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
800759 ACAACACTTA
800769 TGTATCGATACAT
1 TGTATCGATACAT
800782 TGTATCGATACA
1 TGTATCGATACA
800794 ACAATTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:802537 original size:3 final size:3
Alignment explanation
Indices: 802531--802563 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
802521 TTATTTAAGT
802531 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
802564 AAGTGTAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:804680 original size:29 final size:30
Alignment explanation
Indices: 804646--804702 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
804636 AACAGATAAA
* *
804646 TTTTAAAATACATAAA-ATTTTTATTTAAT
1 TTTTAAAAAAAATAAATATTTTTATTTAAT
804675 TTTTAAAAAAAATAAATATTTTTATTTA
1 TTTTAAAAAAAATAAATATTTTTATTTA
804703 TCTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTTAAAAAAAATAAATATTTTTATTTAAT
Found at i:804924 original size:22 final size:21
Alignment explanation
Indices: 804895--804953 Score: 86
Period size: 20 Copynumber: 2.8 Consensus size: 21
804885 TGAGTAGTAA
804895 TTTTTTTAAAAAAGTTTGAGT
1 TTTTTTTAAAAAAGTTTGAGT
804916 TTATTTTT-AAAAA-TTTGAGT
1 TT-TTTTTAAAAAAGTTTGAGT
804936 TTTTTTTAAATAAAGTTT
1 TTTTTTTAAA-AAAGTTT
804954 TTCTAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.15
20 11 0.32
21 10 0.29
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TTTTTTTAAAAAAGTTTGAGT
Found at i:809713 original size:22 final size:21
Alignment explanation
Indices: 809673--809713 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
809663 TTTATTACTT
* *
809673 TTTTAACATTTAAAGTATTCC
1 TTTTAACATTAAAAATATTCC
809694 TTTTAACAGTTAAAAATATT
1 TTTTAACA-TTAAAAATATT
809714 TTAATTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTTAACATTAAAAATATTCC
Done.