Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008656.1 Hibiscus syriacus cultivar Beakdansim tig00111650_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2456495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 12
Found at i:561872 original size:162 final size:161
Alignment explanation
Indices: 561676--562101 Score: 575
Period size: 162 Copynumber: 2.6 Consensus size: 161
561666 TAACCAGCAC
* * * * * *
561676 AATTCACACTTTTCTGTGAATTGCACTGTTAGGCCATTATCCTTTTACTCAACAGTATTTAACCA
1 AATTGACACTTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAAC-GTATTTAACCA
* * * * * ** *
561741 TTCATATAACTTGCATAATTGTCACCTTTCTGTCAAATTCATAGTTAGGCCTTTATTCTTTTACT
65 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAGGCCTTGATTCTTTTACT
*
561806 CAACGGTATTTAACTGTTCATCTAGCTGGCAT
130 CAACGGTATTTAACTGTTCATCTAACTGGCAT
* * * *
561838 TATTGACACTTTTCTGTCAAATGCACAATTAGGCCTTTATTATTTTACTCAACGGTATTTAACCG
1 AATTGACACTTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAAC-GTATTTAACCA
* *
561903 TTCATCTAACTGGCATAATTGAAACCTTTATGTCAAATGCACAACTAGGCCTTGATTCTTTTACT
65 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAGGCCTTGATTCTTTTACT
561968 CAACGGTATTTAACTGTTCATCTAACTGGCAT
130 CAACGGTATTTAACTGTTCATCTAACTGGCAT
* * * *
562000 AATTGAGACATTTT-TGTCAAGTGCACAGTTAGGCCTTTATTCTTTTACTCATCGATATTTAATC
1 AATTGACAC-TTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACG-TATTTAACC
*
562064 ATTCATCTAACTGGCATAATTGACACATTTCTGTCAAA
64 ATTCATCTAACTGGCATAATTGACACCTTTCTGTCAAA
562102 AACACATTTA
Statistics
Matches: 229, Mismatches: 33, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
161 1 0.00
162 224 0.98
163 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (161 bp):
AATTGACACTTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGTATTTAACCAT
TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAGGCCTTGATTCTTTTACTC
AACGGTATTTAACTGTTCATCTAACTGGCAT
Found at i:562099 original size:81 final size:80
Alignment explanation
Indices: 561676--562115 Score: 520
Period size: 81 Copynumber: 5.4 Consensus size: 80
561666 TAACCAGCAC
* * * * * * * * *
561676 AATTCACACTTTTCTGTGAATTGCACTGTTAGGCCATTATCCTTTTACTCAACAGTATTTAACCA
1 AATTGACACATTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGGTATTTAA-CG
* *
561741 TTCATATAACTTGCAT
65 TTCATCTAACTGGCAT
* * * *
561757 AATTGTCACCTTTCTGTCAAATTCATAGTTAGGCCTTTATTCTTTTACTCAACGGTATTTAACTG
1 AATTGACACATTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGGTATTTAAC-G
*
561822 TTCATCTAGCTGGCAT
65 TTCATCTAACTGGCAT
* * * *
561838 TATTGACACTTTTCTGTCAAATGCACAATTAGGCCTTTATTATTTTACTCAACGGTATTTAACCG
1 AATTGACACATTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGGTATTTAA-CG
561903 TTCATCTAACTGGCAT
65 TTCATCTAACTGGCAT
* * * ** *
561919 AATTGAAACCTTTATGTCAAATGCACAACTAGGCCTTGATTCTTTTACTCAACGGTATTTAACTG
1 AATTGACACATTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGGTATTTAAC-G
561984 TTCATCTAACTGGCAT
65 TTCATCTAACTGGCAT
* * * * * *
562000 AATTGAGACATTTTTGTCAAGTGCACAGTTAGGCCTTTATTCTTTTACTCATCGATATTTAATCA
1 AATTGACACATTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGGTATTTAA-CG
562065 TTCATCTAACTGGCAT
65 TTCATCTAACTGGCAT
** *
562081 AATTGACACATTTCTGTCAAAAACACATTTAGGCC
1 AATTGACACATTTCTGTCAAATGCACAGTTAGGCC
562116 ATAAAGGCAC
Statistics
Matches: 309, Mismatches: 46, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 305 0.99
82 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (80 bp):
AATTGACACATTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGGTATTTAACGT
TCATCTAACTGGCAT
Found at i:562190 original size:68 final size:68
Alignment explanation
Indices: 562065--562455 Score: 444
Period size: 68 Copynumber: 5.8 Consensus size: 68
562055 TATTTAATCA
* * * **** *
562065 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAAAACACATTTAGGCCAT-AAAGGCACTCA
1 TTCATCTAACTGGCATAAATGACACCTTTCTATCATTTGCACAGTTAGGCC-TCAAAGGCACTCA
*
562129 ACCT
65 GCCT
* ** * * * *
562133 TTCATCTAACTGGCATAAATTACATATTTCTATCATATGCACAGTTAGACCTCAAAGGCAGTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTATCATTTGCACAGTTAGGCCTCAAAGGCACTCAG
562198 CCT
66 CCT
* * * * *
562201 TTCATCGAACTAGCATAAATGAAACTTTTCTATAATTTGCACAGTTAGGCCTCAAAGGCACTCAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTATCATTTGCACAGTTAGGCCTCAAAGGCACTCAG
*
562266 ACT
66 CCT
* * * *
562269 TTCATCTGACTGGCATAAATGACATCTTTCTATCATTTACACAGTTAGGCCTTAAAGGCACTCAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTATCATTTGCACAGTTAGGCCTCAAAGGCACTCAG
562334 CCT
66 CCT
* * * * * *
562337 TTCATCTAACTGGCATAAATGATACCTTTCTGTCATTTGTACAGTTAGGCCTTAAAGGAACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTATCATTTGCACAGTTAGGCCTCAAAGGCACTCAG
562402 CCT
66 CCT
* **
562405 TTCATCTAACT-GCATAAATGACACCTTTCTGTCATTTGCACAACTAGGCCT
1 TTCATCTAACTGGCATAAATGACACCTTTCTATCATTTGCACAGTTAGGCCT
562456 GTAATCTTTT
Statistics
Matches: 276, Mismatches: 46, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
67 37 0.13
68 239 0.87
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTATCATTTGCACAGTTAGGCCTCAAAGGCACTCAG
CCT
Found at i:564185 original size:81 final size:81
Alignment explanation
Indices: 564078--564562 Score: 531
Period size: 81 Copynumber: 6.0 Consensus size: 81
564068 AGCTAGTCTA
* * ** * ** * *
564078 TTATTCTTTTACTTAACAGTGCTTAACCATTCAGCTAACCAGCACAATTGACACTTTTCTGTGAA
1 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACTTTTCTGTCAA
* * *
564143 TTGCACTGTTAGGCCA
66 ATGCACAGTTAGGCCT
* * * * *
564159 TTATCCTTTTACTCAACAGTATTTAACCATTCATCTAACTTGCATAATTGTCACCTTTCTGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACTTTTCTGTCAA
* *
564224 ATTCATAGTTAGGCCT
66 ATGCACAGTTAGGCCT
* * * ** * *
564240 TTATTCTTTAACTCAGCGGTTTTTAACTGTTCATCTAGCTGGCATTATTGACACTTTTCTGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACTTTTCTGTCAA
*
564305 ATGCACAATTAGGCCT
66 ATGCACAGTTAGGCCT
* * * * *
564321 TTATTATTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGAAACCTTTATGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACTTTTCTGTCAA
**
564386 ATGCACAACTAGGCCT
66 ATGCACAGTTAGGCCT
* ** *
564402 TGATTCTTTTACTCAACGGTATTTAACTGTTCATCTAACTGGCATAATTGAGACCTTTT-TGTCA
1 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACA-CTTTTCTGTCA
*
564466 AGTGCACAGTTAGGCCT
65 AATGCACAGTTAGGCCT
* * ** *
564483 TTATTCTTTTACTCATCGATATTTAATTATTCATCTAACTGGCATAATTGACACATTTCTGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACTTTTCTGTCAA
** *
564548 AAACACATTTAGGCC
66 ATGCACAGTTAGGCC
564563 ATAAAGGCAC
Statistics
Matches: 341, Mismatches: 61, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
80 4 0.01
81 333 0.98
82 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (81 bp):
TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACTTTTCTGTCAA
ATGCACAGTTAGGCCT
Found at i:564628 original size:68 final size:67
Alignment explanation
Indices: 564512--564694 Score: 195
Period size: 68 Copynumber: 2.7 Consensus size: 67
564502 TATTTAATTA
* * **** * * *
564512 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAAAACACATTTAGGCCATAAAGGCACTCAA
1 TTCATCTAACTGGCATAAATGACACATTTCTATCATTTGCACAGTTAGGCC-TAAAGGCACTTAG
564577 CCT
65 CCT
* * *
564580 TTCATCTAACTGGCATAAATTACACATTTCTATCATATGCACAGTTAGGCCTCAAAGGCAGTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTATCATTTGCACAGTTAGGCCT-AAAGGCACTTAG
564645 CCT
65 CCT
* * * * *
564648 TTCATCGAACTAGCATAAATGAAACTTTTCTATAATTTGCACAGTTA
1 TTCATCTAACTGGCATAAATGACACATTTCTATCATTTGCACAGTTA
564695 TAATTTGCAC
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
67 1 0.01
68 96 0.99
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (67 bp):
TTCATCTAACTGGCATAAATGACACATTTCTATCATTTGCACAGTTAGGCCTAAAGGCACTTAGC
CT
Found at i:564698 original size:15 final size:15
Alignment explanation
Indices: 564678--564709 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
564668 GAAACTTTTC
564678 TATAATTTGCACAGT
1 TATAATTTGCACAGT
564693 TATAATTTGCACAGT
1 TATAATTTGCACAGT
564708 TA
1 TA
564710 GGCCTCAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (15 bp):
TATAATTTGCACAGT
Found at i:564744 original size:151 final size:151
Alignment explanation
Indices: 564551--564845 Score: 434
Period size: 151 Copynumber: 2.0 Consensus size: 151
564541 CTGTCAAAAA
* *
564551 CACATTTAGGCCATAAAGGCACTCAACCTTTCATCTAACTGGCATAAATTACA-CATTTCTATCA
1 CACAGTTAGGCCATAAAGGCACTCAACCTTTCATCTAACTGGCATAAATGACATC-TTTCTATCA
* * *
564615 TATGCACAGTTAGGCCTCAAAGGCAGTTAGCCTTTCATCGAACTAGCATAAATGAAACTTTTCTA
65 TATACACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCGAACTAGCATAAATGAAACCTTTCTA
564680 TAATTTGCACAGTTATAATTTG
130 TAATTTGCACAGTTATAATTTG
*
564702 CACAGTTAGGCC-TCAAAGGCACTCAGA-CTTTCATCTGACTGGCATAAATGACATCTTTCTATC
1 CACAGTTAGGCCAT-AAAGGCACTCA-ACCTTTCATCTAACTGGCATAAATGACATCTTTCTATC
* * * *
564765 ATTTACACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGATACCTTTCT
64 ATATACACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCGAACTAGCATAAATGAAACCTTTCT
* *
564830 GTCATTTGCACAGTTA
129 ATAATTTGCACAGTTA
564846 GGCCTTAAAG
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
150 1 0.01
151 126 0.98
152 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (151 bp):
CACAGTTAGGCCATAAAGGCACTCAACCTTTCATCTAACTGGCATAAATGACATCTTTCTATCAT
ATACACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCGAACTAGCATAAATGAAACCTTTCTAT
AATTTGCACAGTTATAATTTG
Found at i:564761 original size:83 final size:83
Alignment explanation
Indices: 564617--564777 Score: 227
Period size: 83 Copynumber: 1.9 Consensus size: 83
564607 TTCTATCATA
* * *
564617 TGCACAGTTAGGCCTCAAAGGCAGTTAGCCTTTCATCGAACTAGCATAAATGAAACTTTTCTATA
1 TGCACAGTTAGGCCTCAAAGGCACTCAGACTTTCATCGAACTAGCATAAATGAAACTTTTCTATA
*
564682 ATTTGCACAGTTATAATT
66 ATTTACACAGTTATAATT
* *
564700 TGCACAGTTAGGCCTCAAAGGCACTCAGACTTTCATCTG-ACTGGCATAAATGACA-TCTTTCTA
1 TGCACAGTTAGGCCTCAAAGGCACTCAGACTTTCATC-GAACTAGCATAAATGAAACT-TTTCTA
*
564763 TCATTTACACAGTTA
64 TAATTTACACAGTTA
564778 GGCCTCAAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 1 0.01
83 67 0.97
84 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (83 bp):
TGCACAGTTAGGCCTCAAAGGCACTCAGACTTTCATCGAACTAGCATAAATGAAACTTTTCTATA
ATTTACACAGTTATAATT
Found at i:564811 original size:68 final size:68
Alignment explanation
Indices: 564697--564917 Score: 336
Period size: 68 Copynumber: 3.3 Consensus size: 68
564687 CACAGTTATA
* * * *
564697 ATTTGCACAGTTAGGCCTCAAAGGCACTCAGACTTTCATCTGACTGGCATAAATGACATCTTTCT
1 ATTTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCT
*
564762 ATC
66 GTC
* *
564765 ATTTACACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGATACCTTTCT
1 ATTTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCT
564830 GTC
66 GTC
* *
564833 ATTTGCACAGTTAGGCCTTAAAGGAACTTAGCCTTTCATCTAACT-GCATAAATGACACCTTTCT
1 ATTTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCT
564897 GTC
66 GTC
**
564900 ATTTGCACAACTAGGCCT
1 ATTTGCACAGTTAGGCCT
564918 GTAATCTTTT
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 37 0.26
68 103 0.74
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (68 bp):
ATTTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCT
GTC
Found at i:565250 original size:54 final size:54
Alignment explanation
Indices: 565126--565272 Score: 165
Period size: 54 Copynumber: 2.7 Consensus size: 54
565116 ACATCTATTT
* * * *
565126 CCCATACAGAAGTTCATACACTTAGTATGAATTTCTTAGTTCGCACCTATAGTG
1 CCCATACAGAAGTTCATACACTTAGTATGAATTTCTTAATTTGCAACTAAAGTG
** * *
565180 CCCATTTTA-AAATTCATACACTTAGTTTGAATTTCTTATATTTGCATAC-AAAGTG
1 CCCA-TACAGAAGTTCATACACTTAGTATGAATTTCTTA-ATTTGCA-ACTAAAGTG
*
565235 -CCATACAGAAGTTCATACGCTTAGTATGAATTTCTTAA
1 CCCATACAGAAGTTCATACACTTAGTATGAATTTCTTAA
565273 ATTTTTGCAC
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
53 3 0.04
54 60 0.79
55 12 0.16
56 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (54 bp):
CCCATACAGAAGTTCATACACTTAGTATGAATTTCTTAATTTGCAACTAAAGTG
Found at i:566608 original size:81 final size:81
Alignment explanation
Indices: 566516--567090 Score: 803
Period size: 81 Copynumber: 7.1 Consensus size: 81
566506 AAGGCATAGC
* * * *
566516 TAGGCCATTATTCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAGTTGGCACATTT
1 TAGGCCTTTATTCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
* *
566581 CTGCCAAATGCACAGT
66 CTGTCAAATGCACAAT
*
566597 TAGGCCTTTATTCTTTTACTCAACGATGTTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
1 TAGGCCTTTATTCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
*
566662 CTGTCAAATGCATAAT
66 CTGTCAAATGCACAAT
* * *
566678 TAGGCCTTTATTCTTTTCCTCAAC-AGTATTTAACCGTTCATCTAACTTGAATAATTGACACCTT
1 TAGGCCTTTATTCTTTTACTCAACGA-TATTTAACCGTTCATCTAACTGGCATAATTGACACCTT
*
566742 TCTGTCAAATGCACATT
65 TCTGTCAAATGCACAAT
* * * * *
566759 TATGCCTTTATTATTTTACTCAAC-AGTATTTAGCCATTCATCTAACTGGCATAATAGACACCTT
1 TAGGCCTTTATTCTTTTACTCAACGA-TATTTAACCGTTCATCTAACTGGCATAATTGACACCTT
* * *
566823 TATGTCAAATACATAAT
65 TCTGTCAAATGCACAAT
* * * *
566840 TAGGCCTTTATTGTTTTACTCAACGGTATTTAACCGTTTATCTAACTGGCATAATTGACACATTT
1 TAGGCCTTTATTCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
*
566905 CTGTCAAATGCACAGT
66 CTGTCAAATGCACAAT
** ** * *
566921 TAGGCCTTTATTCTTTTACTCAACGGCATTTAACCGTTCATCTAACTTTCGTAATTGAGACCTTT
1 TAGGCCTTTATTCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
* *
566986 CTGTCAAGTGCACGAT
66 CTGTCAAATGCACAAT
*
567002 TAGGCCTTTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
1 TAGGCCTTTATTCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
*
567067 CTATCAAATGCACAAT
66 CTGTCAAATGCACAAT
567083 TAGGCCTT
1 TAGGCCTT
567091 AAAGGCACCC
Statistics
Matches: 435, Mismatches: 57, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
80 1 0.00
81 434 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (81 bp):
TAGGCCTTTATTCTTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAATTGACACCTTT
CTGTCAAATGCACAAT
Found at i:567154 original size:68 final size:68
Alignment explanation
Indices: 567038--567414 Score: 463
Period size: 68 Copynumber: 5.6 Consensus size: 68
567028 TATTTAACCG
* * ** * **
567038 TTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAATTAGGCCTTAAAGGCACCCAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTTAAAGGCACTTAG
567103 CCT
66 CCT
* *
567106 TTCATCTAACTGGCATAAA-GTACACCTTTCTGTCATTTGCAAAGTTAGGCCTTAAAGGAACTTA
1 TTCATCTAACTGGCATAAATG-ACACCTTTCTGTCATTTGCACAGTTAGGCCTTAAAGGCACTTA
567170 GCCT
65 GCCT
* * * * * * *
567174 TTCATCGAACTGGCATAAATGAAAACTTT-TCATAATTTGCACAGTTAGGCCTCAAAGGCACTCA
1 TTCATCTAACTGGCATAAATGACACCTTTCT-GTCATTTGCACAGTTAGGCCTTAAAGGCACTTA
*
567238 ACCT
65 GCCT
* * * * * * * * *
567242 TTCATCTAACTGGCATAAATGAAATCTCTCGGTCATTTACACAGATAGGCCTCAAAGGAACTTAT
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTTAAAGGCACTTAG
567307 CCT
66 CCT
*
567310 TTCATCTAACTGGCATAAATGACACCTTTATGTCATTTGCACAGTTAGGCCTTAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTTAAAGGCACTTAG
567375 CCT
66 CCT
*
567378 TTCATCTAACT-GTATAAATGACACCTTTCTGTCATTT
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTT
567415 ACAGACCTAG
Statistics
Matches: 263, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
67 26 0.10
68 236 0.90
69 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTTAAAGGCACTTAG
CCT
Found at i:569135 original size:81 final size:81
Alignment explanation
Indices: 569007--569539 Score: 589
Period size: 81 Copynumber: 6.6 Consensus size: 81
568997 GCTTTTTAGT
* * * * * * * * * * **
569007 TAACTTGCATATTTGACACTTTTATGTCCAAGGCATAGCTAGTCCATTATTCTTTTACTCAACAA
1 TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGG
** *
569072 TGCTTAACCATTCAGC
66 TATTTAACCATTCATC
* * * * * * * * * *
569088 TAACCGACATAATTGACACCTTTCTGCCAATTGTATAGTTAGGCCATTATCCTTTTATTCAATGG
1 TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGG
**
569153 TATTTAACTGTTCATC
66 TATTTAACCATTCATC
* * * *
569169 TAACTGGCATAATTGACACCTTTATGCCAAATGCACAGTTATGCCTTTATTCTTTTACTCAACGA
1 TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGG
569234 TATTTAACCATTCATC
66 TATTTAACCATTCATC
* * **
569250 TAACTGGCATAATTGACACCCTTCTGTCAAATGCACAATTAGGCCTTTATTCTTTTACTCAATAG
1 TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGG
*
569315 TATTTAACCATTCAAC
66 TATTTAACCATTCATC
* * ** * *
569331 TAACTTGCATAATTAACATATTTCTGTCAAATCCACATTTAGGCCTTTATTCTTTTACTCAACGG
1 TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGG
*
569396 TATTTAACCGTTCATC
66 TATTTAACCATTCATC
* * * * * *
569412 TAACTGGCATAATTGAGACATTTCTGTCAAGTGCAGAGTTAGACCTTTATTCTTTTACTCAGCGG
1 TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGG
569477 TATTTAACCATTCATC
66 TATTTAACCATTCATC
* * * *
569493 TAACTGGAATAATTGACATCTTTCCGTCAAATGCACAGTTATGCCTT
1 TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTT
569540 AAAGGCACTC
Statistics
Matches: 375, Mismatches: 77, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 375 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (81 bp):
TAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTTTATTCTTTTACTCAACGG
TATTTAACCATTCATC
Found at i:569601 original size:68 final size:68
Alignment explanation
Indices: 569482--569866 Score: 439
Period size: 68 Copynumber: 5.7 Consensus size: 68
569472 AGCGGTATTT
* * * * * ** * *
569482 AACCATTCATCTAACTGGAATAATTGACATCTTTCCGTCAAATGCACAGTTATGCCTTAAAGGCA
1 AACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCA
569547 CTC
66 CTC
* * * * * *
569550 AAACTTTAATCTAACTAGCATAAATTACACCTTTCTGTTATTTGCACAGTTAGGCCTCAAAAGCA
1 AACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCA
*
569615 CTT
66 CTC
* * * * * * *
569618 AGCCTTTCATCGAATTGGCATAAGTGAAACCTTTCTATAATTTGCACAGTTAGGCCTCAAAGGCA
1 AACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCA
569683 CTC
66 CTC
* * * * * *
569686 AACCTTTCATCTAATTGGCATAAATGACATCTTTCTGTCAGTTACACAATTATGCCTCAAAGGCA
1 AACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCA
*
569751 CTT
66 CTC
* * * *
569754 AGCTTTTCATCTAACTGGCATAAATGACACCTTTCTTTCATTTGCACAGTTAGGCCTTAAAGGCA
1 AACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCA
*
569819 CTT
66 CTC
*
569822 AGCCTTTCATCTAACT-GCATAAATGACACCTTTCTGTCATTTGCA
1 AACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCA
569867 GACCTAGGCC
Statistics
Matches: 264, Mismatches: 53, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
67 28 0.11
68 236 0.89
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (68 bp):
AACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCA
CTC
Found at i:570144 original size:54 final size:55
Alignment explanation
Indices: 570086--570229 Score: 173
Period size: 55 Copynumber: 2.6 Consensus size: 55
570076 GATCTATTTT
* * * * *
570086 CCATACGGAAATTCATACACTTATTTTGAATTTCTCA-GTCCGCACCCATAGTGC
1 CCATACAGAAATTCATACACTTAGTATGAATTTCTCATGTCCGCACACAAAGTGC
* * * **
570140 CCATACTGAAATTCATACACTTAGTATGAATTTCTTATTTTTGCACACAAAGTGC
1 CCATACAGAAATTCATACACTTAGTATGAATTTCTCATGTCCGCACACAAAGTGC
* *
570195 CTATACAGAAGTTCATACACTTAGTATGAATTTCT
1 CCATACAGAAATTCATACACTTAGTATGAATTTCT
570230 TAAATATTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 33 0.43
55 44 0.57
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (55 bp):
CCATACAGAAATTCATACACTTAGTATGAATTTCTCATGTCCGCACACAAAGTGC
Found at i:571657 original size:81 final size:80
Alignment explanation
Indices: 571602--571987 Score: 504
Period size: 81 Copynumber: 4.8 Consensus size: 80
571592 TGCTTAATCA
* * * *
571602 TTCAGCTAACCGGCATAATTGACACCTTTCTGCTAATTGCACAGTTTGGTCATTATCCTTTTACT
1 TTCATCTAACCGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGG-CATTATCCTTTTACT
571667 CAACGGTATTTAACTG
65 CAACGGTATTTAACTG
* *
571683 TTCATCTAACTGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGCAATTATCCTTTTATT
1 TTCATCTAACCGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGC-ATTATCCTTTTACT
*
571748 CAACGGTATTTAACCG
65 CAACGGTATTTAACTG
* ** * *
571764 TTCATTTAACCAACATAATTGACACTTTTCTACCAATTGCACAGTTAGGCTATTATCCTTTTACT
1 TTCATCTAACCGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGC-ATTATCCTTTTACT
571829 CAACGGTATTTAACTG
65 CAACGGTATTTAACTG
**
571845 TTCATCTAATTGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGCCATTATCCTTTTACT
1 TTCATCTAACCGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGG-CATTATCCTTTTACT
*
571910 CAACGGTATTTAAATG
65 CAACGGTATTTAACTG
* * ** * * ** *
571926 TTTACCTAACTAGCATAATTGACA-TTTTCTACCAATTGCATGGTTAGGCCATTATCATTTTA
1 TTCATCTAACCGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGG-CATTATCCTTTTA
571988 TTTTGGACTA
Statistics
Matches: 270, Mismatches: 33, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
80 34 0.13
81 235 0.87
82 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (80 bp):
TTCATCTAACCGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGCATTATCCTTTTACTC
AACGGTATTTAACTG
Found at i:571826 original size:162 final size:162
Alignment explanation
Indices: 571615--571987 Score: 561
Period size: 162 Copynumber: 2.3 Consensus size: 162
571605 AGCTAACCGG
* * * *
571615 CATAATTGACACCTTTCTGCTAATTGCACAGTTTGG-TCATTATCCTTTTACTCAACGGTATTTA
1 CATAATTGACACTTTTCTACCAATTGCACAGTTAGGCT-ATTATCCTTTTACTCAACGGTATTTA
571679 ACTGTTCATCTAACTGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGCAATTATCCTTT
65 ACTGTTCATCTAACTGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGCAATTATCCTTT
* * **
571744 TATTCAACGGTATTTAACCGTTCATTTAACCAA
130 TACTCAACGGTATTTAAACGTTCACCTAACCAA
571777 CATAATTGACACTTTTCTACCAATTGCACAGTTAGGCTATTATCCTTTTACTCAACGGTATTTAA
1 CATAATTGACACTTTTCTACCAATTGCACAGTTAGGCTATTATCCTTTTACTCAACGGTATTTAA
* *
571842 CTGTTCATCTAATTGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGCCATTATCCTTTT
66 CTGTTCATCTAACTGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGCAATTATCCTTTT
* * * *
571907 ACTCAACGGTATTTAAATGTTTACCTAACTAG
131 ACTCAACGGTATTTAAACGTTCACCTAACCAA
** * *
571939 CATAATTGACA-TTTTCTACCAATTGCATGGTTAGGCCATTATCATTTTA
1 CATAATTGACACTTTTCTACCAATTGCACAGTTAGGCTATTATCCTTTTA
571988 TTTTGGACTA
Statistics
Matches: 192, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
161 34 0.18
162 157 0.82
163 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.39
Consensus pattern (162 bp):
CATAATTGACACTTTTCTACCAATTGCACAGTTAGGCTATTATCCTTTTACTCAACGGTATTTAA
CTGTTCATCTAACTGGCATAATTGACACCTTTCTTCCAATTGCACAGTTAGGCAATTATCCTTTT
ACTCAACGGTATTTAAACGTTCACCTAACCAA
Found at i:572270 original size:54 final size:54
Alignment explanation
Indices: 572124--572540 Score: 475
Period size: 54 Copynumber: 7.7 Consensus size: 54
572114 ATTTATTAGG
* * *
572124 ATGCACA-TGTAGTGCCTATATGG-TAGTTCATCAACTCATGATGAATTTCAT-GA
1 ATGCACACT-TAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTTCGTGGA
* ** *
572177 ATTTGAACAAATAGTGCTTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGA
1 A--TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGA
* * *
572233 ATGCACACTTAGTGCCTATACGATTATTCATCAACTCATGATGAATTCCGTGGA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGA
* *
572287 ATGCACACTTAGTGCCTGTACGGTTATTCATAAACTCATGATGAATTTCATGGA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGA
* ** * *
572341 ATGTACACTTAGTGAATGTACGGTTATTCATCAACTCTTGATGAA-TTCTTTGGA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTC-GTGGA
* * * *
572395 ATGCACAGTTAGTTCCTGTATGGTTATTCATCAACTCATGATGAATTTTGTGGA
1 ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGA
* * * *
572449 TTTGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGT-AA
1 -ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGA
* * *
572503 ATTTGCACACATAGTTCCTGTACGGTTATTCATTAACT
1 A--TGCACACTTAGTGCCTGTACGGTTATTCATCAACT
572541 TACATTAATA
Statistics
Matches: 310, Mismatches: 44, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
53 4 0.01
54 182 0.59
55 119 0.38
56 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (54 bp):
ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGA
Found at i:572904 original size:19 final size:22
Alignment explanation
Indices: 572865--572913 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 22
572855 CCATCATGGA
572865 ATCGATACTACTATACTACGGT
1 ATCGATACTACTATACTACGGT
572887 ATCGATACT-CTAT-C-ACGGT
1 ATCGATACTACTATACTACGGT
*
572906 ACCGATAC
1 ATCGATAC
572914 CATTTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 12 0.46
20 1 0.04
21 4 0.15
22 9 0.35
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (22 bp):
ATCGATACTACTATACTACGGT
Found at i:578059 original size:81 final size:81
Alignment explanation
Indices: 577970--578378 Score: 567
Period size: 81 Copynumber: 5.0 Consensus size: 81
577960 CATTATAATT
* ** * *
577970 CCTTTATTCTTTTACTCCACGGTATTTAAATTTTCATCTAACTAGCATAATTGACACATTTTTAT
1 CCTTTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTAGCATAATTGACACATTTCTGT
*
578035 CAAATGCACGGTTAGG
66 CAAATGCACAGTTAGG
*
578051 CCTTTATTCTTTTACTCAACGGTATTT-AACTGTTCATATAACTAGCATAATTGACACATTTCTG
1 CCTTTATTCTTTTACTCAACGGTATTTAAAC-GTTCATCTAACTAGCATAATTGACACATTTCTG
* *
578115 TCAAATCCATAGTTAGG
65 TCAAATGCACAGTTAGG
* *
578132 CCTTTATTCTTTTACTCAATGGTATTT-AACAGTTCATCTAACTAGCATAATTGACACCTTTCTG
1 CCTTTATTCTTTTACTCAACGGTATTTAAAC-GTTCATCTAACTAGCATAATTGACACATTTCTG
578196 TCAAATGCACAGTTAGG
65 TCAAATGCACAGTTAGG
* * * * *
578213 CCTTTATCCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTTTGT
1 CCTTTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTAGCATAATTGACACATTTCTGT
*
578278 CAAATGCACAATTAGG
66 CAAATGCACAGTTAGG
* *
578294 CCTTTATTCTTTTACTCAACGGTATTTAAACTTTCATCTAACT-G-ATTTAATTGGCATC-TTTC
1 CCTTTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTAGCA--TAATTGACA-CATTTC
578356 TGTCAAATGCACAGTTAGG
63 TGTCAAATGCACAGTTAGG
578375 CCTT
1 CCTT
578379 AAAGGAACTT
Statistics
Matches: 296, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
79 1 0.00
80 3 0.01
81 289 0.98
82 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (81 bp):
CCTTTATTCTTTTACTCAACGGTATTTAAACGTTCATCTAACTAGCATAATTGACACATTTCTGT
CAAATGCACAGTTAGG
Found at i:578435 original size:68 final size:68
Alignment explanation
Indices: 578324--578649 Score: 454
Period size: 68 Copynumber: 4.8 Consensus size: 68
578314 GGTATTTAAA
*** * * * ** * *
578324 CTTTCATCTAACTGATTTAATTGGCATCTTTCTGTCAAATGCACAGTTAGGCCTTAAAGGAACTT
1 CTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTT
*
578389 AAC
66 AGC
*
578392 CTTTCATCTAAGTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTT
1 CTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTT
578457 AGC
66 AGC
* ** * * * * *
578460 CTTTCATCTAACTAGCATAAACAACACCTTTCTTTCATTTACATAGTTAAGCCTCAAAGGCACTC
1 CTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTT
578525 AGC
66 AGC
*
578528 CTTTCATCTAACTGGTATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTT
1 CTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTT
578593 AGC
66 AGC
*
578596 CTTTCATCTAACTGGCATAAATGACACCTTTCTGTGATTTGCACAGTTAGGCCT
1 CTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCT
578650 ACAATTTTTA
Statistics
Matches: 226, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 226 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (68 bp):
CTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTT
AGC
Found at i:578940 original size:54 final size:55
Alignment explanation
Indices: 578866--579001 Score: 177
Period size: 55 Copynumber: 2.5 Consensus size: 55
578856 TCCTATACGG
** *
578866 AAATTCATACACTTAGTATGAATTTCTCA-GTTCGCAC-CTATGGTGCCCATACTA
1 AAATTCATACACTTAGTATGAATTTCTCATGTTCGCACAC-AAAGTGCCCATACAA
* * * **
578920 AAATTCATACGCTTATTATGAATTTCTTATGTTTTCACACAAAGTGCCCATACAA
1 AAATTCATACACTTAGTATGAATTTCTCATGTTCGCACACAAAGTGCCCATACAA
578975 AAATTCATACACTTAGTATGAATTTCT
1 AAATTCATACACTTAGTATGAATTTCT
579002 TAAATTTTTG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
54 26 0.37
55 43 0.61
56 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (55 bp):
AAATTCATACACTTAGTATGAATTTCTCATGTTCGCACACAAAGTGCCCATACAA
Found at i:579511 original size:95 final size:95
Alignment explanation
Indices: 579348--579570 Score: 299
Period size: 95 Copynumber: 2.3 Consensus size: 95
579338 TTGCTCTATA
** *
579348 GTATCGATATCCC-TACCATGGTATTAATACTACTATACTATGGTACCAATACTCCCTTCCAGTA
1 GTATCGATA-CCCTTACCATGGTATCGATACTACTATACTATGGTACCAATACCCCCTTCCAGTA
* *
579412 TCGATA-CTAATTTTTGATTCGATATTGCA-TG
65 TCGATACCT-ATTTTAGATTCGA-AGTGCACTG
* * *
579443 GTATCGATACCCTTACCATGGTATCGATACTACTATATTATGGTACCGATACCCCCTTCCGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACTATACTATGGTACCAATACCCCCTTCCAGTAT
* *
579508 CGATACCTATTTTAGATTCGACGTGGACTG
66 CGATACCTATTTTAGATTCGAAGTGCACTG
*
579538 GTATCGCTACCCTTACCATGGTATCGATACTAC
1 GTATCGATACCCTTACCATGGTATCGATACTAC
579571 CTCATCGGTA
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
94 6 0.05
95 106 0.93
96 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATACTACTATACTATGGTACCAATACCCCCTTCCAGTAT
CGATACCTATTTTAGATTCGAAGTGCACTG
Found at i:579580 original size:20 final size:21
Alignment explanation
Indices: 579557--579612 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
579547 CCCTTACCAT
*
579557 GGTATCGATACTACCT-CATC
1 GGTATCGATACTACCTGAATC
* **
579577 GGTATCAATACTAATTGAATC
1 GGTATCGATACTACCTGAATC
*
579598 AGTATCGATACTACC
1 GGTATCGATACTACC
579613 AGCTAATTCA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (21 bp):
GGTATCGATACTACCTGAATC
Found at i:589107 original size:17 final size:16
Alignment explanation
Indices: 589084--589126 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
589074 GTAAATAATA
*
589084 ATTTTATTTTTCCTTT
1 ATTTTATTTTTACTTT
*
589100 ATTTTTATTTTTATTTT
1 A-TTTTATTTTTACTTT
589117 ATTTTATTTT
1 ATTTTATTTT
589127 GTAGATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTATTTTTACTTT
Found at i:591993 original size:21 final size:21
Alignment explanation
Indices: 591967--592009 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
591957 AGTTTCATTT
*
591967 GTGGTGGTGGTGCTATTTTAA
1 GTGGTGGTAGTGCTATTTTAA
591988 GTGGTGGTAGTGCTATTTTAA
1 GTGGTGGTAGTGCTATTTTAA
592009 G
1 G
592010 GCCTTTTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.37, T:0.42
Consensus pattern (21 bp):
GTGGTGGTAGTGCTATTTTAA
Found at i:593933 original size:19 final size:19
Alignment explanation
Indices: 593909--593954 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
593899 TTAAGATTTT
*
593909 ATAGTCGATTTTAAAATTA
1 ATAGTCGATTTCAAAATTA
593928 ATAGTCGATTTCAAAATTA
1 ATAGTCGATTTCAAAATTA
*
593947 ATATTCGA
1 ATAGTCGA
593955 GTAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (19 bp):
ATAGTCGATTTCAAAATTA
Found at i:595945 original size:18 final size:18
Alignment explanation
Indices: 595919--595987 Score: 113
Period size: 18 Copynumber: 3.8 Consensus size: 18
595909 CGATTGTCCG
*
595919 CAATTAAAGAAGAAGGGT
1 CAATCAAAGAAGAAGGGT
595937 CAATCAAAGAAGAAGGGT
1 CAATCAAAGAAGAAGGGT
595955 CAATCAAAGAAGAAGGG-
1 CAATCAAAGAAGAAGGGT
595972 CTAATCAAAGAAGAAG
1 C-AATCAAAGAAGAAG
595988 CACAAGGTAC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
17 1 0.02
18 48 0.98
ACGTcount: A:0.52, C:0.10, G:0.26, T:0.12
Consensus pattern (18 bp):
CAATCAAAGAAGAAGGGT
Found at i:600063 original size:21 final size:20
Alignment explanation
Indices: 600039--600096 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 20
600029 CACCTTTCTA
600039 TGTATCGATACACTATGAATG
1 TGTATCGATACACT-TGAATG
* *
600060 TGTACCGATATATTCCTTGAATG
1 TGTATCGATACA---CTTGAATG
*
600083 TTTATCGATACACT
1 TGTATCGATACACT
600097 CATAGGTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
20 2 0.07
21 10 0.34
23 15 0.52
24 2 0.07
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTATCGATACACTTGAATG
Found at i:600608 original size:12 final size:13
Alignment explanation
Indices: 600579--600611 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
600569 ATTATGTTTT
*
600579 TTTTCAAACATTG
1 TTTTCAAACATAG
600592 TTTTCAAA-ATAG
1 TTTTCAAACATAG
600604 TTTTCAAA
1 TTTTCAAA
600612 TTTTTCCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:601187 original size:15 final size:15
Alignment explanation
Indices: 601167--601195 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
601157 TAACACCTTT
601167 GGTTTAGATAACGAG
1 GGTTTAGATAACGAG
601182 GGTTTAGATAACGA
1 GGTTTAGATAACGA
601196 AAACAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (15 bp):
GGTTTAGATAACGAG
Found at i:605050 original size:21 final size:21
Alignment explanation
Indices: 605000--605039 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
604990 TATATCAAAT
605000 GGTTATGATATGATCTTCTTA
1 GGTTATGATATGATCTTCTTA
*
605021 GGTTATGATCTGATCTTCT
1 GGTTATGATATGATCTTCT
605040 CGGCTTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.47
Consensus pattern (21 bp):
GGTTATGATATGATCTTCTTA
Found at i:605406 original size:25 final size:24
Alignment explanation
Indices: 605364--605443 Score: 92
Period size: 25 Copynumber: 3.4 Consensus size: 24
605354 CACCGAAGTG
*
605364 CCACATAGAATTTGTCCTGAATGA
1 CCACATAGAATTTGTCCTGAAAGA
605388 CCACATAGAAATTTGTCCTGAAAGA
1 CCACATAG-AATTTGTCCTGAAAGA
** * *
605413 CCATGTAG-A-TTGTCCCGAAGGA
1 CCACATAGAATTTGTCCTGAAAGA
605435 CCACATAGA
1 CCACATAGA
605444 TTGTCTCGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 17 0.36
23 1 0.02
24 8 0.17
25 21 0.45
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (24 bp):
CCACATAGAATTTGTCCTGAAAGA
Found at i:605436 original size:22 final size:22
Alignment explanation
Indices: 605356--605458 Score: 82
Period size: 22 Copynumber: 4.5 Consensus size: 22
605346 ATAAGTTGCA
605356 CCGAAGTG-CCACATAGAATTTGTC
1 CCGAAG-GACCACATAG-A-TTGTC
* *
605380 CTGAATGACCACATAGAAATTTGTC
1 CCGAAGGACCACATAG--A-TTGTC
* * **
605405 CTGAAAGACCATGTAGATTGTC
1 CCGAAGGACCACATAGATTGTC
605427 CCGAAGGACCACATAGATTGTC
1 CCGAAGGACCACATAGATTGTC
*
605449 TCGAAGGACC
1 CCGAAGGACC
605459 GCGTAGAACC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
22 32 0.48
23 2 0.03
24 12 0.18
25 21 0.31
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (22 bp):
CCGAAGGACCACATAGATTGTC
Found at i:605465 original size:22 final size:22
Alignment explanation
Indices: 605400--605465 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
605390 ACATAGAAAT
* * *
605400 TTGTCCTGAAAGACCATGTAGA
1 TTGTCCCGAAGGACCACGTAGA
*
605422 TTGTCCCGAAGGACCACATAGA
1 TTGTCCCGAAGGACCACGTAGA
* *
605444 TTGTCTCGAAGGACCGCGTAGA
1 TTGTCCCGAAGGACCACGTAGA
605466 ACCCTCGACT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (22 bp):
TTGTCCCGAAGGACCACGTAGA
Found at i:609218 original size:33 final size:33
Alignment explanation
Indices: 609157--609221 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 33
609147 CTTTAGGTTC
609157 TTTTAATTAAGCCTTAGATTTTAGGTTCTTTAGT
1 TTTTAATTAAGCCTTAGA-TTTAGGTTCTTTAGT
609191 TTTTAATTAAAGCCTTAG-TTTAGGTTCTTTA
1 TTTTAATT-AAGCCTTAGATTTAGGTTCTTTA
609222 ATTAAAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 13 0.43
34 8 0.27
35 9 0.30
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (33 bp):
TTTTAATTAAGCCTTAGATTTAGGTTCTTTAGT
Found at i:619657 original size:44 final size:44
Alignment explanation
Indices: 619573--619798 Score: 242
Period size: 44 Copynumber: 5.2 Consensus size: 44
619563 TGCATTTAAG
* * * * *
619573 TTTCATTTGTGGCACCTTT-TGCCAATAATGAACCGTTATGCAT
1 TTTCATTTATGACACATTTATGCCAATAATGCACTGTTATGCAT
* * * * *
619616 TTTCATTTATGATACATTTCTTCCAATAAAGCACTGGTATGCAT
1 TTTCATTTATGACACATTTATGCCAATAATGCACTGTTATGCAT
*
619660 TTTCATTTATGGA-ACCTTTATGCCAATAATGCACTGTTATGCAT
1 TTTCATTTAT-GACACATTTATGCCAATAATGCACTGTTATGCAT
* * ** *
619704 TTTCATTTATGGCACCTTTATAG-CAATAATGCACTGTTATATAA
1 TTTCATTTATGACACATTTAT-GCCAATAATGCACTGTTATGCAT
* * *
619748 TTTCATCTATGGCACATTTCTGCCAATAATGCACTGTTATGCAT
1 TTTCATTTATGACACATTTATGCCAATAATGCACTGTTATGCAT
619792 TTTCATT
1 TTTCATT
619799 CATTCATTCA
Statistics
Matches: 153, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
43 17 0.11
44 133 0.87
45 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (44 bp):
TTTCATTTATGACACATTTATGCCAATAATGCACTGTTATGCAT
Found at i:619699 original size:88 final size:87
Alignment explanation
Indices: 619573--619798 Score: 281
Period size: 88 Copynumber: 2.6 Consensus size: 87
619563 TGCATTTAAG
* * * * * *
619573 TTTCATTTGTGGCACCTTTTGCCAATAATGAACCGTTATGCATTTTCATTTATGATACATTTCTT
1 TTTCATTTATGGCACCTTTTGCCAATAATGCACTGTTATGCATTTTCATTTATGACACATTTATA
* *
619638 CCAATAAAGCACTGGTATGCAT
66 CCAATAAAGCACTGGTATACAA
* * *
619660 TTTCATTTATGGAACCTTTATGCCAATAATGCACTGTTATGCATTTTCATTTATGGCACCTTTAT
1 TTTCATTTATGGCACCTTT-TGCCAATAATGCACTGTTATGCATTTTCATTTATGACACATTTAT
* * * *
619725 AGCAATAATGCACTGTTATATAA
65 ACCAATAAAGCACTGGTATACAA
* *
619748 TTTCATCTATGGCACATTTCTGCCAATAATGCACTGTTATGCATTTTCATT
1 TTTCATTTATGGCACCTTT-TGCCAATAATGCACTGTTATGCATTTTCATT
619799 CATTCATTCA
Statistics
Matches: 119, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
87 17 0.14
88 102 0.86
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (87 bp):
TTTCATTTATGGCACCTTTTGCCAATAATGCACTGTTATGCATTTTCATTTATGACACATTTATA
CCAATAAAGCACTGGTATACAA
Found at i:621646 original size:8 final size:8
Alignment explanation
Indices: 621635--621662 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
621625 GGGTATTAAA
621635 GAAAAGGG
1 GAAAAGGG
621643 GAAAAGGG
1 GAAAAGGG
621651 GAAAAGGG
1 GAAAAGGG
621659 GAAA
1 GAAA
621663 GTTGAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (8 bp):
GAAAAGGG
Found at i:622876 original size:44 final size:44
Alignment explanation
Indices: 622800--623017 Score: 323
Period size: 44 Copynumber: 5.0 Consensus size: 44
622790 AAATAAATGA
*
622800 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGTAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
622844 ATAAATGAAAATGCATAATGGTTCAATT-TTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGC-ATTATTGGCAGAAAGGTGCC
* * *
622888 ATAAATGAAAATGCATAACAGTGCTTTATTGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
622932 ATAAATGAAAATGCATAACGGTGCATTATTAGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
622976 ATAAATGAAAATGCATAACGGTGCATT-TTGGCAGAAATGTGC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGC
623018 AACTCTTGGT
Statistics
Matches: 156, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
43 14 0.09
44 139 0.89
45 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.27
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:626671 original size:22 final size:22
Alignment explanation
Indices: 626624--626677 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
626614 GACTTTTTCC
*
626624 TCAAAGTCAAAGTCAACATTGG
1 TCAAAGTCAAAGTCAACATTGA
* *
626646 TCAAAGTCAAATTCTAC-TCTGA
1 TCAAAGTCAAAGTCAACAT-TGA
626668 TCAAAGTCAA
1 TCAAAGTCAA
626678 TGGTTAGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (22 bp):
TCAAAGTCAAAGTCAACATTGA
Found at i:627995 original size:20 final size:20
Alignment explanation
Indices: 627972--628009 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
627962 AAGGTTGAAG
*
627972 TTTGAAAAAACTGGTTTCAA
1 TTTGAAAAAACGGGTTTCAA
*
627992 TTTGACAAAACGGGTTTC
1 TTTGAAAAAACGGGTTTC
628010 TAAGTATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
TTTGAAAAAACGGGTTTCAA
Found at i:628343 original size:194 final size:193
Alignment explanation
Indices: 628032--628413 Score: 577
Period size: 194 Copynumber: 2.0 Consensus size: 193
628022 CCAAATTATC
* * *
628032 GATACTTTAGGAATTTAAAAAATTGCAATAATAGCACCTATAAAGTATTGATACTTTATAAACAT
1 GATACTTTAGGAATTTAAAAAATTGCAATAATAACACCTATAAAGTATCGATACTTTAGAAACAT
* * * * *
628097 TTATTGATACATGACAATATAACAGGTAAAAATATGACAAAACGAGTTTCAATGTGAAAAAATCG
66 GTATCGATACATGACAATATAACAAGTAAAAATATGACAAAACGAGTTTCAATATGAAAAAACCG
* * *
628162 GTAAATAACAACCATATATATTGAAGGTATCGATACTTTTATAAGTATATGTATCATACTACT
131 GTAAAGAACAACCAGATATATTGAAGGTATCGATACTTTAATAAGTATATGTATCATACTACT
*
628225 GATACTTTAGGAATTTAAAAGAATTGCAATAATAACACCTATAAAGTATCGATATTTTAGAAACA
1 GATACTTTAGGAATTTAAAA-AATTGCAATAATAACACCTATAAAGTATCGATACTTTAGAAACA
* *
628290 TGTATCGATACATGACAATATAACAAGTTAAAATATGACAAAATCGA-TTTCAATATGACAAAAC
65 TGTATCGATACATGACAATATAACAAGTAAAAATATGACAAAA-CGAGTTTCAATATGAAAAAAC
** * *
628354 CGGTAAAGCGCTACCAGATATGTTGAAGGTATCGATACTTTAATAAGTATATGTATCATA
129 CGGTAAAGAACAACCAGATATATTGAAGGTATCGATACTTTAATAAGTATATGTATCATA
628414 TTATCAATTC
Statistics
Matches: 169, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
193 20 0.12
194 146 0.86
195 3 0.02
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (193 bp):
GATACTTTAGGAATTTAAAAAATTGCAATAATAACACCTATAAAGTATCGATACTTTAGAAACAT
GTATCGATACATGACAATATAACAAGTAAAAATATGACAAAACGAGTTTCAATATGAAAAAACCG
GTAAAGAACAACCAGATATATTGAAGGTATCGATACTTTAATAAGTATATGTATCATACTACT
Found at i:629761 original size:15 final size:16
Alignment explanation
Indices: 629736--629765 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
629726 TGAAGACCAC
629736 CAACTGATGGAAGACG
1 CAACTGATGGAAGACG
629752 CAAC-GATGGAAGAC
1 CAACTGATGGAAGAC
629766 CCTACAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.20, G:0.30, T:0.10
Consensus pattern (16 bp):
CAACTGATGGAAGACG
Found at i:631497 original size:6 final size:6
Alignment explanation
Indices: 631486--631597 Score: 109
Period size: 6 Copynumber: 18.5 Consensus size: 6
631476 TTTATACAAT
* * * *
631486 TTTCAA TTTCAAA TTTCAA ATTGAA TTTCAT TTTCAA TTTCAA TTTTAA
1 TTTCAA TTTC-AA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
* * * * * *
631535 TTTTAA TTTCAG TTTCAA TTTCAA TATT-AA TTTTAA TTTGAG TTTGAA
1 TTTCAA TTTCAA TTTCAA TTTCAA T-TTCAA TTTCAA TTTCAA TTTCAA
631583 TTTCAA TTTCAA TTT
1 TTTCAA TTTCAA TTT
631598 TGACTCCACT
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
5 2 0.02
6 79 0.89
7 8 0.09
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (6 bp):
TTTCAA
Found at i:631543 original size:30 final size:30
Alignment explanation
Indices: 631486--631598 Score: 147
Period size: 30 Copynumber: 3.7 Consensus size: 30
631476 TTTATACAAT
* * *
631486 TTTCAATTTCAAATTTCAAATTGAATTTCAT
1 TTTCAATTTC-AATTTCAATTTTAATTTCAG
*
631517 TTTCAATTTCAATTTTAATTTTAATTTCAG
1 TTTCAATTTCAATTTCAATTTTAATTTCAG
*
631547 TTTCAATTTCAATATT-AATTTTAATTTGAG
1 TTTCAATTTCAAT-TTCAATTTTAATTTCAG
*
631577 TTTGAATTTCAATTTCAATTTT
1 TTTCAATTTCAATTTCAATTTT
631599 GACTCCACTA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
29 2 0.03
30 60 0.81
31 12 0.16
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (30 bp):
TTTCAATTTCAATTTCAATTTTAATTTCAG
Found at i:633470 original size:20 final size:20
Alignment explanation
Indices: 633425--633470 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
633415 GTTAACATTA
*
633425 AGTATCGATACCTTTTGTAT
1 AGTATCGATACCTTTTGTAC
* *
633445 ATGTATCGATACTTTTTGTCC
1 A-GTATCGATACCTTTTGTAC
633466 AGTAT
1 AGTAT
633471 GCTTCCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
AGTATCGATACCTTTTGTAC
Found at i:633891 original size:448 final size:445
Alignment explanation
Indices: 633041--634117 Score: 1541
Period size: 448 Copynumber: 2.4 Consensus size: 445
633031 TTTCAATAAT
* * * * *
633041 TGCACCTATAAAGTATCGGTACCTAAAAAACATGTATCGTTACATGACAATATAACAGGTTGAAA
1 TGCACATATAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAA
* * * * * ** *
633106 ATTGAGAAAATCAGTTTCAATATGCCAATACT-GGTAAAGAGATACCGGTTTACAAAAAAACGAA
66 ATTGATAAAATCGGTTTCAATATGACAA-AATAGGTAAAAAGATACATGTTTACAAAAAAATGAA
* * * * * *
633170 ACGTTTCCAAAGTATCAATACTTTACATAAAAGTATCGATACCTAAGTAAGAGTAATGGTATCGA
130 ACGTCTCGAAAGTATCAATACCTTACAAAAAAGTATTGATACTTAAGTAAGAGTAATGGTATCGA
* **
633235 TTAAATATAAATAACTTAACAGGTTCAAAATGACAAAATGGTTTCTGTAATTACGCCTATAAAGT
195 TTAAATATAAATAACTTAACAGGTTCAAAATGAAAAAACAGTTTCTGTAATTACGCCTATAAAGT
* *
633300 ATCGATACACGTACGAGAAGTATCGATTTTTAAAACTTCGAAACGAATTACTTTAAAGTAATAAG
260 ATCGATACACGTACGAGAAGAATCGATTCTTAAAACTTCGAAACGAATTACTTTAAAGTAATAAG
* *
633365 TAAATTTACAATGTAAGCAGTAAAAATATACCGGTTTAATGACAAAATACGTTAACATTAAGTAT
325 TAAATTTACAATGTAAGCAGTAAAAATATACCGGTTTAATGAAAAAATACGTTAACATAAAGTAT
* * *
633430 CGATACCTTTTGTATATGTATCGATACTTTTTGTCCAGTATGCTTCCCAAACTAGA
390 CAATACCTTTTGTATATGTATCGATACATTTTGTCCAGTATACTTCCCAAACTAGA
* * * *
633486 TGCACATAGAAAGTATCGATACCTAATACACAGGTATCGATACAAGACAATATAAAAGGTTGAAA
1 TGCACATATAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAA
*
633551 ATTGATAAAATCGGTTTCAATATGACAAAATAGGTAAAAACATACATGTTTACCAAAAAAAATG-
66 ATTGATAAAATCGGTTTCAATATGACAAAATAGGTAAAAAGATACATGTTTA-C-AAAAAAATGA
** * *
633615 AACGTCTCGAAAGTATTGATACCTTACAAAAAAGTATTGATACTTAAGTAAGGGTGATGGTATCG
129 AACGTCTCGAAAGTATCAATACCTTACAAAAAAGTATTGATACTTAAGTAAGAGTAATGGTATCG
*
633680 ATTAAATATAAATAACTTAACAGGTTCAAAATTGAAAAAAACAGTTTCTGTAATTGCGCCTATAA
194 ATTAAATATAAATAACTTAACAGGTTCAAAA-TG-AAAAAACAGTTTCTGTAATTACGCCTATAA
* * * *
633745 AGTATCGATACACGTACGAGAAGAATCGATTCTTAGAACTTTGAAATGGATTACTTTAAAGTAAT
257 AGTATCGATACACGTACGAGAAGAATCGATTCTTAAAACTTCGAAACGAATTACTTTAAAGTAAT
* *
633810 AGGTAAATTTACAATGTAAG-AGGTAAAAATATACCGGTTTAATGAAAAAATATGTTAACATAAA
322 AAGTAAATTTACAATGTAAGCA-GTAAAAATATACCGGTTTAATGAAAAAATACGTTAACATAAA
* *
633874 GTATCAATACTTTTTGTATATGTATCGATACATTTTGTTCAGTATACTTCCCAAACTAGA
386 GTATCAATACCTTTTGTATATGTATCGATACATTTTGTCCAGTATACTTCCCAAACTAGA
* * ** *
633934 TGCACGTATAAAGTATCAATATATAATACAGATGTATCGATACATGACAATATAACAGGTTGAAA
1 TGCACATATAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAA
* * * *
633999 ATTGATAAAATTGGTTTCAATATGACAAAACAGGTAAAAAGATA-TTGGTTTACACAAAAATGAA
66 ATTGATAAAATCGGTTTCAATATGACAAAATAGGTAAAAAGATACAT-GTTTACAAAAAAATGAA
* *
634063 ACGTCTCGAAAGTATCAATACCATACAAAAAAGTATTGATACTTCAGTAAGAGTA
130 ACGTCTCGAAAGTATCAATACCTTACAAAAAAGTATTGATACTTAAGTAAGAGTA
634118 TTCAATATAA
Statistics
Matches: 557, Mismatches: 67, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
444 2 0.00
445 97 0.17
446 95 0.17
447 63 0.11
448 300 0.54
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (445 bp):
TGCACATATAAAGTATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAA
ATTGATAAAATCGGTTTCAATATGACAAAATAGGTAAAAAGATACATGTTTACAAAAAAATGAAA
CGTCTCGAAAGTATCAATACCTTACAAAAAAGTATTGATACTTAAGTAAGAGTAATGGTATCGAT
TAAATATAAATAACTTAACAGGTTCAAAATGAAAAAACAGTTTCTGTAATTACGCCTATAAAGTA
TCGATACACGTACGAGAAGAATCGATTCTTAAAACTTCGAAACGAATTACTTTAAAGTAATAAGT
AAATTTACAATGTAAGCAGTAAAAATATACCGGTTTAATGAAAAAATACGTTAACATAAAGTATC
AATACCTTTTGTATATGTATCGATACATTTTGTCCAGTATACTTCCCAAACTAGA
Found at i:635553 original size:21 final size:21
Alignment explanation
Indices: 635527--635570 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
635517 AATACAACGA
635527 GAGTTCGTTTTTGCAAGTGCT
1 GAGTTCGTTTTTGCAAGTGCT
635548 GAGTTCGTTTTTGCAAGTGCT
1 GAGTTCGTTTTTGCAAGTGCT
635569 GA
1 GA
635571 TTGTCTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.41
Consensus pattern (21 bp):
GAGTTCGTTTTTGCAAGTGCT
Found at i:642053 original size:273 final size:274
Alignment explanation
Indices: 641566--642117 Score: 869
Period size: 273 Copynumber: 2.0 Consensus size: 274
641556 TACTTATTAT
641566 TTAATTCCACATAAAGGCTCAAACAATATGCACGCAAAATGTATCGATACACACACACACACACA
1 TTAATTCCACATAAAGGCTCAAACAATATGCACGCAAAATGTATCGATACACACACACACACACA
* * * *
641631 TATATATATATTACATACTTATAATTCTGAAACATATTACTTTTAAGTAATAGGTTAATTGACAA
66 CACATATATATTACATACTTATAATTCTGAAACATATTACTTTAAAGTAATAGATTAATTGACAA
*
641696 TGAAAACGGTTAAAGTCAATCGGTATCATGATAATATGAGTAAACAATGTACAGGGTAATATGTT
131 TGAAAACGGTTAAAGTCAATCGATATCATGATAATATGAGTAAACAATGTACAGGGTAATATGTT
641761 GATAAAGCTTGATAACAAATCAAGTAATTAACCAATTATGTTA-TCTCG-GTTCTAAGGCTCCAT
196 GATAAAGCTTGATAACAAATCAAGTAATTAACCAATTATGTTATTCTCGAGTTCTAAGGCTCCAT
*
641824 CAGCTTTAACTTTGG
261 CAGCTTAAACTTT-G
* * *
641839 TTAATTCCACTTAAAGGCTCAAACAATATGCACGTACAATGTATCGATACACACACACACACACA
1 TTAATTCCACATAAAGGCTCAAACAATATGCACGCAAAATGTATCGATACACACACACACACACA
* **
641904 CACATATATATT-CGATACTTATAATT-TCGAAACCTATTACTTTAAAGTAATAGATTAATTTCC
66 CACATATATATTAC-ATACTTATAATTCT-GAAACATATTACTTTAAAGTAATAGATTAATTGAC
* *
641967 AATGAAAATGGTTAAAGTCAATCGATATCATGATAATATGAGTAAACAATGTACATGGTAATATG
129 AATGAAAACGGTTAAAGTCAATCGATATCATGATAATATGAGTAAACAATGTACAGGGTAATATG
* ** * *
642032 TTGATAAAGCTTGATAACAAATCAAGTAATTAATCGGTTATGTTATTGTCGAATTTCTAAGGCTC
194 TTGATAAAGCTTGATAACAAATCAAGTAATTAACCAATTATGTTATTCTCG-AGTTCTAAGGCTC
642097 CATCAGCTTAAACTTTG
258 CATCAGCTTAAACTTTG
642114 TTAA
1 TTAA
642118 CTTTTTAGGC
Statistics
Matches: 255, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
272 2 0.01
273 218 0.85
274 4 0.02
275 5 0.02
276 26 0.10
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (274 bp):
TTAATTCCACATAAAGGCTCAAACAATATGCACGCAAAATGTATCGATACACACACACACACACA
CACATATATATTACATACTTATAATTCTGAAACATATTACTTTAAAGTAATAGATTAATTGACAA
TGAAAACGGTTAAAGTCAATCGATATCATGATAATATGAGTAAACAATGTACAGGGTAATATGTT
GATAAAGCTTGATAACAAATCAAGTAATTAACCAATTATGTTATTCTCGAGTTCTAAGGCTCCAT
CAGCTTAAACTTTG
Found at i:647822 original size:8 final size:7
Alignment explanation
Indices: 647808--647881 Score: 58
Period size: 6 Copynumber: 11.6 Consensus size: 7
647798 ATACTAAATG
647808 AATATAT
1 AATATAT
647815 ACATATAT
1 A-ATATAT
*
647823 AATATGCT
1 AATAT-AT
647831 -ATA-AT
1 AATATAT
647836 AATA-AT
1 AATATAT
647842 AATA-AT
1 AATATAT
647848 AATA-AT
1 AATATAT
647854 AATA-AT
1 AATATAT
647860 AATA-AT
1 AATATAT
647866 AATA-AT
1 AATATAT
647872 AATA-AT
1 AATATAT
647878 AATA
1 AATA
647882 AAACATTTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
5 1 0.02
6 45 0.73
7 8 0.13
8 8 0.13
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (7 bp):
AATATAT
Found at i:647839 original size:3 final size:3
Alignment explanation
Indices: 647831--647882 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
647821 ATAATATGCT
647831 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
647879 ATA A
1 ATA A
647883 AACATTTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:648276 original size:16 final size:17
Alignment explanation
Indices: 648246--648279 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
648236 ATAAATCATC
648246 AACCTAAATAGATATTA
1 AACCTAAATAGATATTA
*
648263 AACC-AAATATATATTA
1 AACCTAAATAGATATTA
648279 A
1 A
648280 GGGGCAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (17 bp):
AACCTAAATAGATATTA
Found at i:648622 original size:20 final size:21
Alignment explanation
Indices: 648597--648637 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
648587 ATCATCGTTT
648597 GCGTGGCCACT-CCCCCACGG
1 GCGTGGCCACTCCCCCCACGG
648617 GCGTGGCCACTCCCCCCACGG
1 GCGTGGCCACTCCCCCCACGG
648638 CCGAAGACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.10, C:0.51, G:0.29, T:0.10
Consensus pattern (21 bp):
GCGTGGCCACTCCCCCCACGG
Found at i:654697 original size:13 final size:14
Alignment explanation
Indices: 654679--654707 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
654669 CTCATTTTCA
654679 TTTTC-TTTTCTTT
1 TTTTCTTTTTCTTT
654692 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
654706 TT
1 TT
654708 CAAGCATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:686799 original size:31 final size:31
Alignment explanation
Indices: 686764--686840 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
686754 AAACCTACTA
686764 ACCAAACCCGACGACGGCCGCCTATCACTCC
1 ACCAAACCCGACGACGGCCGCCTATCACTCC
* * *
686795 ACCAAACCTGACGACGGTCGCCTATCACTCT
1 ACCAAACCCGACGACGGCCGCCTATCACTCC
686826 ACCAAA-CCGACGACG
1 ACCAAACCCGACGACG
686841 ATCGAACACT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 8 0.19
31 34 0.81
ACGTcount: A:0.29, C:0.43, G:0.17, T:0.12
Consensus pattern (31 bp):
ACCAAACCCGACGACGGCCGCCTATCACTCC
Found at i:699502 original size:3 final size:3
Alignment explanation
Indices: 699494--699546 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
699484 AACGTACATA
* * *
699494 AAT AAT AAT GAT AAT AAT AAT GAT TAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
699542 AAT AA
1 AAT AA
699547 AACATTTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:701776 original size:32 final size:32
Alignment explanation
Indices: 701715--701776 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
701705 CTATTACATT
* * *
701715 TTTTATCCAGCATTAGTTGCAGCTTTTATAAC
1 TTTTATCCAACATTAGTTGCAACTATTATAAC
701747 TTTTATCCAACATTAGTTTG-AACTATTATA
1 TTTTATCCAACATTAG-TTGCAACTATTATA
701777 GCCCTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (32 bp):
TTTTATCCAACATTAGTTGCAACTATTATAAC
Found at i:703910 original size:259 final size:258
Alignment explanation
Indices: 703450--704210 Score: 1149
Period size: 259 Copynumber: 3.0 Consensus size: 258
703440 GATAGCAAAT
* *
703450 AAATAATTCAAATACTTAAAATACCACAACTTATAACTCTTACCAAGAACTAACTCAGGCGAGAA
1 AAATAATTCAAATACTTAAAATACCATAACTTATAACTCTT-CCAAGAACT-ACTCAGACGAGAA
* *
703515 AACCAAATGCACAAACATATTGCCATATCAACACCAATCTATTATAAATCATCAATTCATCTGAT
64 AACCAAATGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAATTCATCTGAT
* * *
703580 ATCCTGTAACAAAAGTTCAGATTTCTTCAAAACTGATAATAGAATCCATGAGAAAAGTTTGATTT
129 ATCCTGTAACAAAAGTTCAAATTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTTTCATTT
* * *
703645 GTTGTCGATAAAGGCTTCCCCTATTTTTCCATTCACTAAACTCTGAATCCAGAATAGAACACTTA
194 GTTGTCGAAAAAGGCTTCCCCTATTTTCCCATTCACTAAACTCTGAATCCAGAATCGAACACTTA
*
703710 AAATAATTCAAATACTTAAAATGCCATAACTTATAACTCTTCCAAGAACTAGCTCAGACGAGAAA
1 AAATAATTCAAATACTTAAAATACCATAACTTATAACTCTTCCAAGAACTA-CTCAGACGAGAAA
* *** *
703775 ACCAAATGCACAAATACATTGCCATATTGGCACCAGTCTATCATAAATCATCAA-TCTATCTGAT
65 ACCAAATGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAATTC-ATCTGAT
* * *
703839 ATCCTGTAACAAAAGTTCAAATTTATTCAAAACTGATAATAGAATCCATGAGTAACGTATCATTT
129 ATCCTGTAACAAAAGTTCAAATTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTTTCATTT
*
703904 GTTGTCGAAAAAGGCTTCCCCTATTTTCCCAGTCACTAAACTCTGAATCCAGAATCGAACACTTA
194 GTTGTCGAAAAAGGCTTCCCCTATTTTCCCATTCACTAAACTCTGAATCCAGAATCGAACACTTA
* * *
703969 AAATAGTTCAAACACATAAAATACCATAACTTATAACTC-T--------T-C-C--A--AGAAAA
1 AAATAATTCAAATACTTAAAATACCATAACTTATAACTCTTCCAAGAACTACTCAGACGAGAAAA
*
704019 CCAAGTGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAATTCATCTGATAT
66 CCAAATGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAATTCATCTGATAT
704084 CCTGTAACAAAAGTTCAAATTTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTTTCATTTG
131 CCTGTAACAAAAGTTCAAA-TTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTTTCATTTG
704149 TTGTCGAAAAAGGCTTCCCCTATTTTCCCATTCACTAAACTCTGAATCCAGAATCGAACACT
195 TTGTCGAAAAAGGCTTCCCCTATTTTCCCATTCACTAAACTCTGAATCCAGAATCGAACACT
704211 CGATACTGAT
Statistics
Matches: 463, Mismatches: 34, Indels: 24
0.89 0.07 0.05
Matches are distributed among these distances:
243 81 0.17
244 105 0.23
245 1 0.00
247 1 0.00
248 1 0.00
250 1 0.00
258 4 0.01
259 230 0.50
260 39 0.08
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (258 bp):
AAATAATTCAAATACTTAAAATACCATAACTTATAACTCTTCCAAGAACTACTCAGACGAGAAAA
CCAAATGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAATTCATCTGATAT
CCTGTAACAAAAGTTCAAATTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTTTCATTTGT
TGTCGAAAAAGGCTTCCCCTATTTTCCCATTCACTAAACTCTGAATCCAGAATCGAACACTTA
Found at i:704198 original size:244 final size:243
Alignment explanation
Indices: 703770--704210 Score: 767
Period size: 244 Copynumber: 1.8 Consensus size: 243
703760 AGCTCAGACG
* *** *
703770 AGAAAACCAAATGCACAAATACATTGCCATATTGGCACCAGTCTATCATAAATCATCAATCTATC
1 AGAAAACCAAATGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAATCTATC
* *
703835 TGATATCCTGTAACAAAAGTTCAAATTTATTCAAAACTGATAATAGAATCCATGAGTAACGTATC
66 TGATATCCTGTAACAAAAGTTCAAATTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTATC
703900 ATTTGTTGTCGAAAAAGGCTTCCCCTATTTTCCCAGTCACTAAACTCTGAATCCAGAATCGAACA
131 ATTTGTTGTCGAAAAAGGCTTCCCCTATTTTCCCAGTCACTAAACTCTGAATCCAGAATCGAACA
703965 CTTAAAATAGTTCAAACACATAAAATACCATAACTTATAACTCTTCCA
196 CTTAAAATAGTTCAAACACATAAAATACCATAACTTATAACTCTTCCA
*
704013 AGAAAACCAAGTGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAAT-TCAT
1 AGAAAACCAAATGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAATCT-AT
*
704077 CTGATATCCTGTAACAAAAGTTCAAATTTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTT
65 CTGATATCCTGTAACAAAAGTTCAAA-TTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTA
*
704142 TCATTTGTTGTCGAAAAAGGCTTCCCCTATTTTCCCATTCACTAAACTCTGAATCCAGAATCGAA
129 TCATTTGTTGTCGAAAAAGGCTTCCCCTATTTTCCCAGTCACTAAACTCTGAATCCAGAATCGAA
704207 CACT
194 CACT
704211 CGATACTGAT
Statistics
Matches: 186, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
242 1 0.01
243 82 0.44
244 103 0.55
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (243 bp):
AGAAAACCAAATGCACAAACACATTGCCATATCAACACCAATCTATCATAAATCATCAATCTATC
TGATATCCTGTAACAAAAGTTCAAATTTATTCAAAACTGATAATAGAATCCATGAGAAAAGTATC
ATTTGTTGTCGAAAAAGGCTTCCCCTATTTTCCCAGTCACTAAACTCTGAATCCAGAATCGAACA
CTTAAAATAGTTCAAACACATAAAATACCATAACTTATAACTCTTCCA
Found at i:705108 original size:27 final size:29
Alignment explanation
Indices: 705078--705133 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
705068 TTTTGATCCT
705078 TATTC-TTTTTTT-AAGTATTTTGGCCCC
1 TATTCTTTTTTTTCAAGTATTTTGGCCCC
705105 TATTCTTTTTTTTCAAGTATTTTGGCCCC
1 TATTCTTTTTTTTCAAGTATTTTGGCCCC
705134 AACATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 5 0.19
28 7 0.26
29 15 0.56
ACGTcount: A:0.14, C:0.20, G:0.11, T:0.55
Consensus pattern (29 bp):
TATTCTTTTTTTTCAAGTATTTTGGCCCC
Found at i:707572 original size:31 final size:28
Alignment explanation
Indices: 707537--707655 Score: 121
Period size: 31 Copynumber: 4.0 Consensus size: 28
707527 ATTTGACATG
707537 TACCACATCATCTATAATGATGATGTGGCAT
1 TACCACATCATCTA-AA--ATGATGTGGCAT
* * * *
707568 TACCACGTCACCTGAGATGATAATGTGGCAT
1 TACCACATCATCT-A-A-AATGATGTGGCAT
*
707599 TATCACATCATCTAAAATGATGTGGCAT
1 TACCACATCATCTAAAATGATGTGGCAT
*
707627 ATATCACATCATCTAAAATGATGTGGCAT
1 -TACCACATCATCTAAAATGATGTGGCAT
707656 ATATCACGTC
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
28 11 0.15
29 29 0.39
30 1 0.01
31 32 0.43
32 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (28 bp):
TACCACATCATCTAAAATGATGTGGCAT
Found at i:707636 original size:29 final size:29
Alignment explanation
Indices: 707590--707662 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
707580 TGAGATGATA
707590 ATGTGGCAT-TATCACATCATCTAAAATG
1 ATGTGGCATATATCACATCATCTAAAATG
707618 ATGTGGCATATATCACATCATCTAAAATG
1 ATGTGGCATATATCACATCATCTAAAATG
707647 ATGTGGCATATATCAC
1 ATGTGGCATATATCAC
707663 GTCAATAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 9 0.20
29 35 0.80
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (29 bp):
ATGTGGCATATATCACATCATCTAAAATG
Found at i:709345 original size:26 final size:26
Alignment explanation
Indices: 709305--709355 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
709295 TTTAACAAAA
709305 ACCGTAGGGGCGGAACTTGGAGATAT
1 ACCGTAGGGGCGGAACTTGGAGATAT
* * *
709331 ACCGTAGTGGTGGAAGTTGGAGATA
1 ACCGTAGGGGCGGAACTTGGAGATA
709356 GAGTTTAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.39, T:0.22
Consensus pattern (26 bp):
ACCGTAGGGGCGGAACTTGGAGATAT
Found at i:709847 original size:18 final size:18
Alignment explanation
Indices: 709824--709860 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
709814 CAAAAACTAT
709824 AAAAGTTTTCTTTTAGAG
1 AAAAGTTTTCTTTTAGAG
709842 AAAAGTTTTCTTTTAGAG
1 AAAAGTTTTCTTTTAGAG
709860 A
1 A
709861 TAATTGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (18 bp):
AAAAGTTTTCTTTTAGAG
Found at i:710065 original size:60 final size:60
Alignment explanation
Indices: 709902--710067 Score: 160
Period size: 60 Copynumber: 2.8 Consensus size: 60
709892 TTTATTTTAG
* * * *
709902 ATTAGTCCCTAATCTTTT-AAATATTTTAATTTCATCCCTAAA-TCATGA-CTATCATTCTAA
1 ATTAGTCCCCAAACTTTTGAAA-ATTTCAATGTCATCCCTAAACT-ATGACCT-TCATTCTAA
* ** *
709962 ATTAGTTCTTAAACTTTTTAAAATTTCAATGTCATCCCTAAACTATGACCTTCATTCTAA
1 ATTAGTCCCCAAACTTTTGAAAATTTCAATGTCATCCCTAAACTATGACCTTCATTCTAA
* * * *
710022 ATTGGTCCCCAAACATTTTGAACATTTCAATTTCTTCCC-AAACTAT
1 ATTAGTCCCCAAAC-TTTTGAAAATTTCAATGTCATCCCTAAACTAT
710068 ATGTATATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
60 63 0.71
61 26 0.29
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41
Consensus pattern (60 bp):
ATTAGTCCCCAAACTTTTGAAAATTTCAATGTCATCCCTAAACTATGACCTTCATTCTAA
Found at i:710320 original size:31 final size:29
Alignment explanation
Indices: 710239--710327 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
710229 AAAGATGGTC
* *
710239 ATAGTTTAGGGATGAAATTAGAATGTTCA
1 ATAGTTTAAGGATGTAATTAGAATGTTCA
* * *
710268 AAAGCTTAAGGA-CTAATTTAGAATGTGAGT-A
1 ATAGTTTAAGGATGTAA-TTAGAATGT---TCA
*
710299 ATAGTTTAAGGATGTAATTAGAATATTCA
1 ATAGTTTAAGGATGTAATTAGAATGTTCA
710328 CAAGTTCAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
28 3 0.07
29 19 0.42
31 19 0.42
32 4 0.09
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (29 bp):
ATAGTTTAAGGATGTAATTAGAATGTTCA
Found at i:712066 original size:2 final size:2
Alignment explanation
Indices: 712059--712088 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
712049 AACTCCTTCA
712059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
712089 GGTAAACTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:712872 original size:60 final size:60
Alignment explanation
Indices: 712805--712970 Score: 169
Period size: 57 Copynumber: 2.8 Consensus size: 60
712795 TCGAGTGATG
*
712805 ATTTTGTAACTTTTAATAGTTAGGGGACTCAACAAAACAATGCCCTATAGTTAGAGAACC
1 ATTTTGTAACTTTTAATAGTTAGGAGACTCAACAAAACAATGCCCTATAGTTAGAGAACC
* * * * * * *
712865 ATTTTGTAAGTTTTAATAGTCATGAGACTC-A-ATAA-AGTGCCCTATAGTTAGAGGATC
1 ATTTTGTAACTTTTAATAGTTAGGAGACTCAACAAAACAATGCCCTATAGTTAGAGAACC
* * * * * *
712922 ATTTTATAATTTTTAATAG-TCGAGTGATTCAACAAAACAATGGCCTATA
1 ATTTTGTAACTTTTAATAGTTAG-GAGACTCAACAAAACAATGCCCTATA
712971 ATAGGAGGAC
Statistics
Matches: 84, Mismatches: 18, Indels: 8
0.76 0.16 0.07
Matches are distributed among these distances:
57 41 0.49
58 4 0.05
59 4 0.05
60 35 0.42
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTTAGGAGACTCAACAAAACAATGCCCTATAGTTAGAGAACC
Found at i:715056 original size:18 final size:18
Alignment explanation
Indices: 715028--715075 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
715018 TATTTAAAAA
715028 AAATT-ACAAATAGCAAG
1 AAATTAACAAATAGCAAG
715045 AAATTAACAAATAGCAAG
1 AAATTAACAAATAGCAAG
715063 AAATTAACAAATA
1 AAATTAACAAATA
715076 TGTAAATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.62, C:0.10, G:0.08, T:0.19
Consensus pattern (18 bp):
AAATTAACAAATAGCAAG
Found at i:715528 original size:44 final size:44
Alignment explanation
Indices: 715475--715563 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
715465 AAATATGTAC
715475 ATATGAAAAATCAAAGTTACAAATTACATCAACTAAATAGGCAT
1 ATATGAAAAATCAAAGTTACAAATTACATCAACTAAATAGGCAT
715519 ATATGAAAAATCAAAGTTACAAATTACATCAACTAAATAGGCAT
1 ATATGAAAAATCAAAGTTACAAATTACATCAACTAAATAGGCAT
715563 A
1 A
715564 AATGTAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.25
Consensus pattern (44 bp):
ATATGAAAAATCAAAGTTACAAATTACATCAACTAAATAGGCAT
Found at i:716904 original size:3 final size:3
Alignment explanation
Indices: 716898--716942 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
716888 GTAAAAAAAG
716898 ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
716943 TTTGGAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:718925 original size:10 final size:10
Alignment explanation
Indices: 718910--718934 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
718900 CTATAGGTTT
718910 AAATTTGAAG
1 AAATTTGAAG
718920 AAATTTGAAG
1 AAATTTGAAG
718930 AAATT
1 AAATT
718935 CGATGAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (10 bp):
AAATTTGAAG
Found at i:719999 original size:54 final size:54
Alignment explanation
Indices: 719429--719981 Score: 946
Period size: 54 Copynumber: 10.3 Consensus size: 54
719419 TACCGAATGA
* * * *
719429 GCACTATGTGTGCAACTTAAGAAATTCATAATAAATTTATGAATTTCCATATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
719483 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAA-TTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * *
719536 GCACTATGAGTGCAGCCTAAGAAATTCATAATTAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
*
719590 ACACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
719644 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
719698 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
*
719752 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* *
719806 GCACTATGTGTGCAACCTAAGAAATTCATAATTACTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * * *
719860 GCACTACGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGCATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* *
719914 GCACTATGTGTACAACCTAAGAAATTCATAATAAGCTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
719968 GCACTATGTGTGCA
1 GCACTATGTGTGCA
719982 CCCCACGTAT
Statistics
Matches: 471, Mismatches: 27, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
53 48 0.10
54 423 0.90
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (54 bp):
GCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
Found at i:726864 original size:162 final size:162
Alignment explanation
Indices: 726517--726872 Score: 502
Period size: 162 Copynumber: 2.2 Consensus size: 162
726507 AATGAGCATT
* * *
726517 ATGTGTGCAACCTAAGAAATTCTTAATAAGTTTATGAATTTTCATATTGGCACTATGTGTGTAAC
1 ATGTATGCAACCCAAGAAATTCATAATAAGTTTATGAATTTTCATATTGGCACTATGTGTGTAAC
* *
726582 TTAAGAAATTCATAATAAGTTTATAAATTTCCCTATTGGCACTATGTGTGCAACCTAAGAAATTC
66 CTAAGAAATTAATAATAAGTTTATAAATTTCCCTATTGGCACTATGTGTGCAACCTAAGAAATTC
* *
726647 ATAATTAGTTTATGAATTTCCATATTGGCACT
131 ATAATTAGTTTATGAATTTCCATATTGGAACA
* * *
726679 ATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAA-TTTCTGTATTGGCACTATGTGT-TCA
1 ATGTATGCAACCCAAGAAATTCATAATAAGTTTATGAATTTTC-ATATTGGCACTATGTGTGT-A
* * * *
726742 ACCTAAGAAATTAATAATTAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACCTAAGAAAT
64 ACCTAAGAAATTAATAATAAGTTTATAAATTTCCCTATTGGCACTATGTGTGCAACCTAAGAAAT
*
726807 TCATAATTAGTTTATGAATTTCCGTATTGGAACA
129 TCATAATTAGTTTATGAATTTCCATATTGGAACA
* * *
726841 ATGTATGCACCCCACA-TAATTCATAATGAGTT
1 ATGTATGCAACCCA-AGAAATTCATAATAAGTT
726873 GTGAATTACC
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
161 5 0.03
162 169 0.97
163 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (162 bp):
ATGTATGCAACCCAAGAAATTCATAATAAGTTTATGAATTTTCATATTGGCACTATGTGTGTAAC
CTAAGAAATTAATAATAAGTTTATAAATTTCCCTATTGGCACTATGTGTGCAACCTAAGAAATTC
ATAATTAGTTTATGAATTTCCATATTGGAACA
Found at i:726867 original size:54 final size:54
Alignment explanation
Indices: 726516--726836 Score: 507
Period size: 54 Copynumber: 5.9 Consensus size: 54
726506 AAATGAGCAT
* * * *
726516 TATGTGTGCAACCTAAGAAATTCTTAATAAGTTTATGAATTTTCATATTGGCAC
1 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCAC
* * * * *
726570 TATGTGTGTAACTTAAGAAATTCATAATAAGTTTATAAATTTCCCTATTGGCAC
1 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCAC
*
726624 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCATATTGGCAC
1 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCAC
* *
726678 TATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCAC
1 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCAC
* * *
726732 TATGTGTTCAACCTAAGAAATTAATAATTAGTTTATGAATTTTCGTATTGGCAC
1 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCAC
726786 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGG
1 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGG
726837 AACAATGTAT
Statistics
Matches: 245, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 245 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (54 bp):
TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGGCAC
Found at i:728697 original size:18 final size:18
Alignment explanation
Indices: 728674--728709 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
728664 GGGGGTTCTA
728674 GACGTGACATTCATTTAC
1 GACGTGACATTCATTTAC
728692 GACGTGACATTCATTTAC
1 GACGTGACATTCATTTAC
728710 ATCACCAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
GACGTGACATTCATTTAC
Found at i:736811 original size:54 final size:54
Alignment explanation
Indices: 736643--737066 Score: 611
Period size: 54 Copynumber: 7.9 Consensus size: 54
736633 CTTATTTACT
* *
736643 TAAGAAATTAATAATAAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
*
736697 TAATAAATTCATAATAAGTTTATGAATTTCCGT-TTGGCACTATGTGTGCAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* * *
736750 TAAGAAATTCATTATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
*
736804 TAAGAAATTCATAATAAGTTTATGAATTTCCGGATTGGCACTATGTGTGCAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* * *
736858 TAAGAAATTCATAATTAGTTTATGAATTTTCGTATTGGCACTATGTGCGCAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* ** *
736912 TAAGAAATTCATAATTAGTTTATG-ATTTTTGTATTGGCACTATGTGTGCAACT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* *
736965 TAAGAAATTCATAATAAGCTTATGAATTTCCGTATTGGCACTATGTGTACAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* * * * * * * *
737019 CACGTAGTTCATAATAAG-TTATTAATTACTGTATTTGCACTATGTGTG
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
737067 AGAAACCCAT
Statistics
Matches: 335, Mismatches: 33, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
53 123 0.37
54 212 0.63
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (54 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
Found at i:736825 original size:161 final size:161
Alignment explanation
Indices: 736643--737066 Score: 620
Period size: 161 Copynumber: 2.6 Consensus size: 161
736633 CTTATTTACT
* *
736643 TAAGAAATTAATAATAAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACCTAATAAATTCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAATAAATTCA
*
736708 TAATAAGTTTATGAATTTCCGT-TTGGCACTATGTGTGCAACCTAAGAAATTCATTATAAGTTTA
66 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTA
736772 TGAATTTTCGTATTGACACTATGTGTGCAACC
131 TG-ATTTTCGTATTGACACTATGTGTGCAACC
* *
736804 TAAGAAATTCATAATAAGTTTATGAATTTCCGGATTGGCACTATGTGTGCAACCTAAGAAATTCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAATAAATTCA
* * * *
736869 TAATTAGTTTATGAATTTTCGTATTGGCACTATGTGCGCAACCTAAGAAATTCATAATTAGTTTA
66 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTA
* * *
736934 TGATTTTTGTATTGGCACTATGTGTGCAACT
131 TGATTTTCGTATTGACACTATGTGTGCAACC
* * * * *
736965 TAAGAAATTCATAATAAGCTTATGAATTTCCGTATTGGCACTATGTGTACAACCCACGT-AGTTC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTA-ATAAATTC
* * * *
737029 ATAATAAG-TTATTAATTACTGTATTTGCACTATGTGTG
65 ATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
737067 AGAAACCCAT
Statistics
Matches: 235, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
160 24 0.10
161 170 0.72
162 41 0.17
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (161 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAATAAATTCA
TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTA
TGATTTTCGTATTGACACTATGTGTGCAACC
Found at i:736829 original size:107 final size:108
Alignment explanation
Indices: 736643--737066 Score: 611
Period size: 107 Copynumber: 4.0 Consensus size: 108
736633 CTTATTTACT
* * *
736643 TAAGAAATTAATAATAAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACCTAATAAATTCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCA
736708 TAATAAGTTTATGAATTTCCGT-TTGGCACTATGTGTGCAACC
66 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* * *
736750 TAAGAAATTCATTATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACCTAAGAAATTCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCA
*
736815 TAATAAGTTTATGAATTTCCGGATTGGCACTATGTGTGCAACC
66 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* * *
736858 TAAGAAATTCATAATTAGTTTATGAATTTTCGTATTGGCACTATGTGCGCAACCTAAGAAATTCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCA
* ** *
736923 TAATTAGTTTATG-ATTTTTGTATTGGCACTATGTGTGCAACT
66 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* * * * * *
736965 TAAGAAATTCATAATAAGCTTATGAATTTCCGTATTGGCACTATGTGTACAACCCACGTAGTTCA
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCA
* * * *
737030 TAATAAG-TTATTAATTACTGTATTTGCACTATGTGTG
66 TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTG
737067 AGAAACCCAT
Statistics
Matches: 285, Mismatches: 30, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
106 4 0.01
107 188 0.66
108 93 0.33
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (108 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCA
TAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
Found at i:740149 original size:17 final size:18
Alignment explanation
Indices: 740127--740160 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
740117 TATATAGTCC
*
740127 TTTTAAT-TTTAATAATA
1 TTTTAATCTTGAATAATA
740144 TTTTAATCTTGAATAAT
1 TTTTAATCTTGAATAAT
740161 TAATTATCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTTAATCTTGAATAATA
Found at i:748220 original size:42 final size:42
Alignment explanation
Indices: 748161--748286 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
748151 TCTTGATTTG
748161 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTT
* * * *
748203 TAAATCCTTCGGGTCATCTGTAAGCCTTTCGATG-AAGATG-A
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGA-GCATGATGTT
*
748244 TAAGA-CCTTCGGGTCATCCA-TAAGTCCTTCGAGCATGATGTT
1 TAA-ATCCTTCGGGTCAT-CAGTAAGTCTTTCGAGCATGATGTT
748286 T
1 T
748287 TTAAATGAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
40 1 0.01
41 30 0.43
42 38 0.54
43 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTT
Found at i:748440 original size:273 final size:271
Alignment explanation
Indices: 747885--748817 Score: 1472
Period size: 271 Copynumber: 3.4 Consensus size: 271
747875 TATTTCCCTA
* * * * * * *
747885 ATTTGTAAGTCCTTTGGGCCATTAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTTGGTTCTTC
1 ATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
* * * * * *
747950 TATAAGCCTTTCAAGCAAGATGATAAGTCATTTGGGCCATCCATAAGTCCTTCGGGCATGATGTT
66 TGTAAGCCTTTCGAGCAAGATGATAAGACCTTCGGGCCATCCATAAGACCTTCGGGCATGATGTT
* *
748015 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAGGGGTTTTCTTAATTATCTCAAAAGAGTTG
131 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGTTTTCTTAATTATCTCAAGAGAGTTG
*
748080 TTAAAGGAAGCTAAACCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTGATTTTCA
196 TTAAAGGAAGCTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTGATTTTCA
748145 AGGGTTTCTTG
261 AGGGTTTCTTG
748156 ATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
1 ATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
* * *
748221 TGTAAGCCTTTCGATG-AAGATGATAAGACCTTCGGGTCATCCATAAGTCCTTCGAGCATGATGT
66 TGTAAGCCTTTCGA-GCAAGATGATAAGACCTTCGGGCCATCCATAAGACCTTCGGGCATGATGT
* * * ** * *
748285 TTTTAAATGAAATTTTAGAAACTAAGACTGGTTTTCATGGGTTTTTTATAATTATCTCAAGAGAG
130 TTTCAAATGAGATTTTAGAAACTAAGCCTAATTTT-AAGGGTTTTCT-TAATTATCTCAAGAGAG
*
748350 TTGTTAAAGGAAGCTAAGCCTAATTTTAAGGGGCTCCTTGACAACTAAGAAACTAAGCTTGATTT
193 TTGTTAAAGGAAGCTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTGATTT
748415 TCAAGGGTTTCTTG
258 TCAAGGGTTTCTTG
*
748429 ATTTATAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
1 ATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
* * *
748494 TGTAAGCCTTTCGAGCAAGATGATAAAACCTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTT
66 TGTAAGCCTTTCGAGCAAGATGATAAGACCTTCGGGCCATCCATAAGACCTTCGGGCATGATGTT
*
748559 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCTTAATTATCTCAAGAGAGTTG
131 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGTTTTCTTAATTATCTCAAGAGAGTTG
*
748624 TTAAAGGAAACTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTGATTTTCA
196 TTAAAGGAAGCTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTGATTTTCA
*
748689 ATGGTTTCTTG
261 AGGGTTTCTTG
* *
748700 ATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTGGGGTCATC
1 ATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
* * * *
748765 TGTAAGTCTTTCGAGCATGATGATAAGTCCTTTGGGCCATCCATAAGACCTTC
66 TGTAAGCCTTTCGAGCAAGATGATAAGACCTTCGGGCCATCCATAAGACCTTC
748818 AGGCCATCCA
Statistics
Matches: 607, Mismatches: 51, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
271 345 0.57
272 19 0.03
273 243 0.40
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (271 bp):
ATTTGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
TGTAAGCCTTTCGAGCAAGATGATAAGACCTTCGGGCCATCCATAAGACCTTCGGGCATGATGTT
TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGTTTTCTTAATTATCTCAAGAGAGTTG
TTAAAGGAAGCTAAGCCTAATTTTAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTGATTTTCA
AGGGTTTCTTG
Found at i:748493 original size:42 final size:41
Alignment explanation
Indices: 748433--748534 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 41
748423 TTCTTGATTT
* *
748433 ATAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGTCATCAGTAAGCCTTTCGAGCAAGATG
* *
748474 TTTAAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATG
1 -ATAAATCCTTCGGGTCATCAGTAAGCCTTTCGAGCAAGATG
* *
748516 ATAAAACCTTCGGGCCATC
1 ATAAATCCTTCGGGTCATC
748535 TATAAGACCT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 16 0.30
42 37 0.70
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGTCATCAGTAAGCCTTTCGAGCAAGATG
Found at i:748764 original size:42 final size:42
Alignment explanation
Indices: 748705--748786 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
748695 TCTTGATTTG
748705 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
* *
748747 TAAATCCTTGGGGTCATCTGTAAGTCTTTCGAGCATGATG
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATG
748787 ATAAGTCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
Found at i:748800 original size:42 final size:42
Alignment explanation
Indices: 748705--748805 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
748695 TCTTGATTTG
* *
748705 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTGGGGTCATCAGTAAGTCTTTCGAGCATGATGCA
*
748747 TAAATCCTTGGGGTCATCTGTAAGTCTTTCGAGCATGATG-A
1 TAAATCCTTGGGGTCATCAGTAAGTCTTTCGAGCATGATGCA
* * *
748788 TAAGTCCTTTGGGCCATC
1 TAAATCCTTGGGGTCATC
748806 CATAAGACCT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 15 0.28
42 38 0.72
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (42 bp):
TAAATCCTTGGGGTCATCAGTAAGTCTTTCGAGCATGATGCA
Found at i:748816 original size:20 final size:20
Alignment explanation
Indices: 748799--748837 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
748789 AAGTCCTTTG
748799 GGCCATCCATAAGACCTTCA
1 GGCCATCCATAAGACCTTCA
748819 GGCCATCCATAAGACCTTC
1 GGCCATCCATAAGACCTTC
748838 GTGCATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (20 bp):
GGCCATCCATAAGACCTTCA
Found at i:749254 original size:3 final size:3
Alignment explanation
Indices: 749231--749304 Score: 104
Period size: 3 Copynumber: 26.0 Consensus size: 3
749221 TTGTCCAGTT
749231 TTA TT- TTA TT- TTA TT- TTA TTA TTA GTT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
749273 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
749305 AATAATAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
2 10 0.15
3 53 0.82
4 2 0.03
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:752883 original size:3 final size:3
Alignment explanation
Indices: 752877--752916 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
752867 AAAAAAAGAC
*
752877 AAT AAT AAT AAT AAAT AAT AAT AAT AAAT ATT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AA
752917 CCCGGACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:752895 original size:13 final size:13
Alignment explanation
Indices: 752877--752916 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
752867 AAAAAAAGAC
752877 AATAATAATAATA
1 AATAATAATAATA
752890 AATAATAATAATA
1 AATAATAATAATA
*
752903 AATATTAATAATA
1 AATAATAATAATA
752916 A
1 A
752917 CCCGGACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:752898 original size:16 final size:16
Alignment explanation
Indices: 752877--752916 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
752867 AAAAAAAGAC
752877 AATAATAAT-AATAAAT
1 AATAATAATAAAT-AAT
*
752893 AATAATAATAAATATT
1 AATAATAATAAATAAT
752909 AATAATAA
1 AATAATAA
752917 CCCGGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:756719 original size:30 final size:30
Alignment explanation
Indices: 756685--756745 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
756675 GTTAACATCA
756685 AGTGACCATTTTGTAACAAACAATAACGTT
1 AGTGACCATTTTGTAACAAACAATAACGTT
*
756715 AGTGACCATTTTGTAACAAACGATAACGTT
1 AGTGACCATTTTGTAACAAACAATAACGTT
756745 A
1 A
756746 ATGATTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (30 bp):
AGTGACCATTTTGTAACAAACAATAACGTT
Found at i:759062 original size:2 final size:2
Alignment explanation
Indices: 759057--759085 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
759047 TATATATATA
759057 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
759086 ATGTATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:762523 original size:43 final size:43
Alignment explanation
Indices: 762467--762559 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
762457 TTTCACCCTA
*
762467 AACCCGAACCCGAC-CTGACCCGAATATCACACTTAAAAAAACCC
1 AACCCGAACCCGACTC-AACCCGAATATCACA-TTAAAAAAACCC
* *
762511 AACCC-AACCCGACTCAACTCGAATATCACATTTAAAAAACCC
1 AACCCGAACCCGACTCAACCCGAATATCACATTAAAAAAACCC
*
762553 GACCCGA
1 AACCCGA
762560 CAAAATAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
42 15 0.35
43 22 0.51
44 6 0.14
ACGTcount: A:0.41, C:0.38, G:0.09, T:0.13
Consensus pattern (43 bp):
AACCCGAACCCGACTCAACCCGAATATCACATTAAAAAAACCC
Found at i:762925 original size:216 final size:217
Alignment explanation
Indices: 762425--763054 Score: 654
Period size: 216 Copynumber: 2.9 Consensus size: 217
762415 TATAAGGTAA
* * *
762425 AATTATATATTTTTTCAGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCTGACCCGA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
* * * ****
762490 ATATCACACTTAAAAAAACCCAACCCAACCCGACTCAACTCGAATATCACA-TTT-AAAAAACCC
66 ATATCACACTTAAAAAAACCCGACCCGACCCGA-ACAA----AATA--A-AGTTTCACCCGACCC
** * * *** **
762553 GACCCGACA-AAATAAAGTTTCAT-CCGACCCGATCTGACTCGAAATAATAAAAAAATATTTTTA
123 GACATGACACGAATATA-TGAAATACAAACCCGA-C---C-CGAAATAATAAAAAAATATTTTTA
* *
762616 TTTAATAAAAATAGTGACTTAATCTGACCCGACCCG
182 TTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
* *
762652 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCTGAATCCGACCCGACCCAA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCG-A----ACCCGACCCGA
* * *
762717 CCCGAATATCACACTT-AAAAAACTCGACCCGTCCCGAACAAAATAAAGTTTCATCCGACCCGA-
61 CCCGAATATCACACTTAAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGAC
* * *
762780 AT-ATATGAAT-TA-GAAAT-CCAACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAA
126 ATGACACGAATATATGAAATACAAACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAA
*
762841 AACAGTGACTTAATCCGACCCGACCTG
191 AACAGTGACTTAATCCGACCCGACCCG
*
762868 AATTATATATATTTTCGGGTCGGTCCGTTTTTTTTTCACCCTAAACCCG-ACCCGACCCGACCCG
1 AATTATATATATTTTCGGGTCGGTCCG-GTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCG
* * *
762932 AATATCACACTTAAAAAAACCCGATCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCTGA
65 AATATCACACTTAAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACATGA
* * * *
762997 CCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAAA-ATTTTTATTCAATA
130 CACGAATATATGAAATACAAACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATA
763055 TATGAATAAG
Statistics
Matches: 346, Mismatches: 42, Indels: 41
0.81 0.10 0.10
Matches are distributed among these distances:
211 26 0.08
212 42 0.12
213 1 0.00
214 5 0.01
215 2 0.01
216 101 0.29
217 45 0.13
220 1 0.00
221 10 0.03
223 4 0.01
224 7 0.02
225 7 0.02
226 4 0.01
227 45 0.13
228 1 0.00
230 3 0.01
231 17 0.05
232 25 0.07
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (217 bp):
AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
ATATCACACTTAAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCGACATGAC
ACGAATATATGAAATACAAACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAG
TGACTTAATCCGACCCGACCCG
Found at i:777119 original size:13 final size:13
Alignment explanation
Indices: 777101--777144 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
777091 ACTATTTGTT
777101 TATTTTTATTTAA
1 TATTTTTATTTAA
*
777114 TA--TTT-TTTAT
1 TATTTTTATTTAA
777124 TATTTTTATTTAA
1 TATTTTTATTTAA
777137 -ATTTTTAT
1 TATTTTTAT
777145 ATATTAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
10 6 0.23
11 3 0.12
12 11 0.42
13 6 0.23
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTTTATTTAA
Found at i:777130 original size:23 final size:22
Alignment explanation
Indices: 777100--777142 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
777090 AACTATTTGT
777100 TTATTTTTATTTAATATTTTTTA
1 TTATTTTTATTTAA-ATTTTTTA
777123 TTATTTTTATTTAAATTTTT
1 TTATTTTTATTTAAATTTTT
777143 ATATATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (22 bp):
TTATTTTTATTTAAATTTTTTA
Found at i:777393 original size:16 final size:16
Alignment explanation
Indices: 777372--777413 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
777362 CCTAGCGCAC
777372 ATTTTCTCTTCAATTG
1 ATTTTCTCTTCAATTG
777388 ATTTTCTCTTCAATTG
1 ATTTTCTCTTCAATTG
777404 ATTTTCTCTT
1 ATTTTCTCTT
777414 TAATATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.05, T:0.60
Consensus pattern (16 bp):
ATTTTCTCTTCAATTG
Found at i:777621 original size:132 final size:135
Alignment explanation
Indices: 777463--777727 Score: 410
Period size: 132 Copynumber: 2.0 Consensus size: 135
777453 GGAAAAATAA
* *
777463 ACTGAATTAAATAAATAAAAATTATGAAAATATTAGTGACACATGTCACCATCTAATTAGATATT
1 ACTGAATTAAATAAATAAAAAGTATGAAAATATTAGTGACACATGTCACCATCTAATTAGAGATT
* * *
777528 AAAATTA-T-TTTAATTGAATT-AATTATGTCCAAATTGATAGAATGTAAAAATATTAAGTACCA
66 AAAATTATTATTTAATTAAATTAAATTATGACCAAATTGATAGAATGTAAAAATATTAAATACCA
777590 AACAT
131 AACAT
* *
777595 ACTGAATTGAATAAATAAAAAGTATGAAAATATTAGTGACACATGTCACTATCTAATTAGAGATT
1 ACTGAATTAAATAAATAAAAAGTATGAAAATATTAGTGACACATGTCACCATCTAATTAGAGATT
* * *
777660 AAATTTATTTATTTAATTAAATTAAATTATGACTAAATTGATATAATGTAAAAATATTAAATACC
66 AAAATTA-TTATTTAATTAAATTAAATTATGACCAAATTGATAGAATGTAAAAATATTAAATACC
777725 AAA
130 AAA
777728 TATGTAATTA
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
132 67 0.56
134 1 0.01
135 11 0.09
136 40 0.34
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (135 bp):
ACTGAATTAAATAAATAAAAAGTATGAAAATATTAGTGACACATGTCACCATCTAATTAGAGATT
AAAATTATTATTTAATTAAATTAAATTATGACCAAATTGATAGAATGTAAAAATATTAAATACCA
AACAT
Found at i:781718 original size:11 final size:11
Alignment explanation
Indices: 781702--781730 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
781692 CTTCACGTCT
781702 CCGATGAGGGA
1 CCGATGAGGGA
781713 CCGATGAGGGA
1 CCGATGAGGGA
781724 CCGATGA
1 CCGATGA
781731 CCTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.21, G:0.41, T:0.10
Consensus pattern (11 bp):
CCGATGAGGGA
Found at i:782179 original size:12 final size:12
Alignment explanation
Indices: 782162--782193 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
782152 CCAAATCCTG
*
782162 TTTTTTTTGGGA
1 TTTTTTTCGGGA
782174 TTTTTTTCGGGA
1 TTTTTTTCGGGA
782186 TTTTTTTC
1 TTTTTTTC
782194 ATTTGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.69
Consensus pattern (12 bp):
TTTTTTTCGGGA
Found at i:783087 original size:134 final size:132
Alignment explanation
Indices: 782770--783149 Score: 510
Period size: 134 Copynumber: 2.9 Consensus size: 132
782760 CTGGTCCACA
* * *
782770 GCTTCTTCAAGGTAAATCATATATGGAAATGTTGATTCATTCCACTATTCTTTTGGGAATATTGA
1 GCTTCTTCAGGGTAAATCAAATAT-GAAATGTTGATTCATTCCACTATTCTTTAGGGAATATTGA
* ** * * **
782835 ATGGAGAAAGATTTGTTCCACTGCTTCTTCAGGGAA-ATTAAATCTGGAAAAAGGGATGTGCTCC
65 ATCGAGGCAGATTTGTTCCACTACTTCTTCAGGGAAGATCAAATCTGGAAAAAGGGACATGCTCC
782899 GCT
130 GCT
* * * *
782902 GCTTCTTCAGGGTAGATCAAATCTGAAAATGTTTATTCATTCCACTATTCTTTAGGGAATACTGA
1 GCTTCTTCAGGGTAAATCAAATATG-AAATGTTGATTCATTCCACTATTCTTTAGGGAATATTGA
*
782967 ATCGAGGCAGATTTGTTCCACTACTTCTTCAGGAAAGATCAAATCTGGAAAAAGGGGACATGCTC
65 ATCGAGGCAGATTTGTTCCACTACTTCTTCAGGGAAGATCAAATCTGGAAAAA-GGGACATGCTC
*
783032 TGCT
129 CGCT
* * * * *
783036 GCTTCTTCAGGGTATATCAGATTTAGAAATGTTGATTCATTCCACTGTTCTTCAGGGAATATTGA
1 GCTTCTTCAGGGTAAATCAAATAT-GAAATGTTGATTCATTCCACTATTCTTTAGGGAATATTGA
* *
783101 ATCGAGGCAGATTTGTGCCACTACTTCTTCAGGGAAGATCAAATATGGA
65 ATCGAGGCAGATTTGTTCCACTACTTCTTCAGGGAAGATCAAATCTGGA
783150 TATTAAACAT
Statistics
Matches: 218, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
131 1 0.00
132 87 0.40
133 15 0.07
134 114 0.52
135 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (132 bp):
GCTTCTTCAGGGTAAATCAAATATGAAATGTTGATTCATTCCACTATTCTTTAGGGAATATTGAA
TCGAGGCAGATTTGTTCCACTACTTCTTCAGGGAAGATCAAATCTGGAAAAAGGGACATGCTCCG
CT
Found at i:783730 original size:23 final size:22
Alignment explanation
Indices: 783695--783742 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
783685 TTCTTCACGA
783695 GAAAGTCAAGAATGACAAAAAT
1 GAAAGTCAAGAATGACAAAAAT
* *
783717 GAAAGATCGAGAATTACAAAAAT
1 GAAAG-TCAAGAATGACAAAAAT
783740 GAA
1 GAA
783743 TTTCTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (22 bp):
GAAAGTCAAGAATGACAAAAAT
Found at i:787628 original size:44 final size:45
Alignment explanation
Indices: 787558--787649 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 45
787548 TAATCTTGTA
787558 TTCCTGGATGATATGGGCCTTAAAAAATGCCAC-AACATTTATCAT
1 TTCCTGGATGATATGGGCCTTAAAAAATGCC-CTAACATTTATCAT
* * *
787603 TTCC-GGATGATTTGGGCTTTCAAAAATGCCCTAACATTTATCAT
1 TTCCTGGATGATATGGGCCTTAAAAAATGCCCTAACATTTATCAT
787647 TTC
1 TTC
787650 TTTTTCCAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 38 0.88
45 4 0.09
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (45 bp):
TTCCTGGATGATATGGGCCTTAAAAAATGCCCTAACATTTATCAT
Found at i:788725 original size:7 final size:7
Alignment explanation
Indices: 788713--788767 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
788703 GAAATACTTG
*
788713 TTCTATT
1 TTCTTTT
*
788720 TTCTATT
1 TTCTTTT
*
788727 TTCTTTC
1 TTCTTTT
788734 TTC-TTT
1 TTCTTTT
788740 TTCTTTTT
1 TTC-TTTT
788748 TTCTTTT
1 TTCTTTT
788755 TTCTTTT
1 TTCTTTT
788762 TTCTTT
1 TTCTTT
788768 CATATTTCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 5 0.12
7 32 0.74
8 6 0.14
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (7 bp):
TTCTTTT
Found at i:788737 original size:14 final size:13
Alignment explanation
Indices: 788713--788821 Score: 69
Period size: 14 Copynumber: 7.8 Consensus size: 13
788703 GAAATACTTG
*
788713 TTCTATTTTCTATT
1 TTCTTTTTTCT-TT
*
788727 TTCTTTCTTCTTT
1 TTCTTTTTTCTTT
788740 TTCTTTTTTTCTTTT
1 TTC-TTTTTTC-TTT
788755 TTCTTTTTTCTTT
1 TTCTTTTTTCTTT
* * **
788768 CATATTTCCATCTTT
1 -TTCTTT-TTTCTTT
788783 TTCTATCTTTTCTTT
1 TTCT-T-TTTTCTTT
788798 TT-TTTCTCTT-TTT
1 TTCTTT-T-TTCTTT
788811 TTCTTTTTTCT
1 TTCTTTTTTCT
788822 ATAATTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
12 3 0.04
13 17 0.23
14 34 0.46
15 19 0.26
16 1 0.01
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTTTTTCTTT
Found at i:788750 original size:8 final size:8
Alignment explanation
Indices: 788725--788819 Score: 59
Period size: 9 Copynumber: 10.8 Consensus size: 8
788715 CTATTTTCTA
788725 TTTTCTTTC
1 TTTT-TTTC
788734 TTCTTTTTC
1 TT-TTTTTC
788743 TTTTTTTC
1 TTTTTTTC
788751 -TTTTTTC
1 TTTTTTTC
788758 -TTTTTTC
1 TTTTTTTC
788765 TTTCATATTTCC
1 TTT--T-TTT-C
*
788777 ATCTTTTTC
1 -TTTTTTTC
*
788786 TATCTTTTCTT
1 T-T-TTTT-TC
788797 TTTTTTCTC
1 TTTTTT-TC
788806 TTTTTTTC
1 TTTTTTTC
788814 TTTTTT
1 TTTTTT
788820 CTATAATTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
7 14 0.19
8 17 0.24
9 21 0.29
10 11 0.15
11 6 0.08
12 1 0.01
13 2 0.03
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:788764 original size:35 final size:34
Alignment explanation
Indices: 788713--788819 Score: 108
Period size: 35 Copynumber: 3.0 Consensus size: 34
788703 GAAATACTTG
* *
788713 TTCTATTTTCTATTTTCTTTCTTCTTTTTCTTTTT
1 TTCTTTTTTCTTTTTTCTTTCTT-TTTTTCTTTTT
* * * *
788748 TTCTTTTTTCTTTTTTCTTTCATATTTCCATCTTT
1 TTCTTTTTTCTTTTTTCTTTCTTTTTTTC-TTTTT
788783 TTCTATCTTTTCTTTTTT-TTCTCTTTTTTTCTTTTT
1 TTCT-T-TTTTCTTTTTTCTT-TCTTTTTTTCTTTTT
788819 T
1 T
788820 CTATAATTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
34 4 0.07
35 28 0.48
36 8 0.14
37 18 0.31
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.77
Consensus pattern (34 bp):
TTCTTTTTTCTTTTTTCTTTCTTTTTTTCTTTTT
Found at i:792985 original size:27 final size:27
Alignment explanation
Indices: 792947--793008 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
792937 AATTATTGTC
* *
792947 ATTTTACAATATAAGTGTATTTTCATA
1 ATTTTACCATATAAGGGTATTTTCATA
*
792974 ATTTTACCATATAAGGGTATTTTCGTA
1 ATTTTACCATATAAGGGTATTTTCATA
*
793001 ATTATACC
1 ATTTTACC
793009 TAACTAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (27 bp):
ATTTTACCATATAAGGGTATTTTCATA
Found at i:793658 original size:18 final size:18
Alignment explanation
Indices: 793635--793669 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
793625 TAACAAGTAA
793635 GGTCAAATTCAACGAGTC
1 GGTCAAATTCAACGAGTC
793653 GGTCAAATTCAACGAGT
1 GGTCAAATTCAACGAGT
793670 TTGGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (18 bp):
GGTCAAATTCAACGAGTC
Found at i:795960 original size:35 final size:35
Alignment explanation
Indices: 795898--796031 Score: 137
Period size: 35 Copynumber: 3.8 Consensus size: 35
795888 GATCTGTAAA
* * *
795898 GAATTACCAGCTCGATCGA-TCTAAACCTATATAAG
1 GAATTACCAGTTTGATCGAGT-TGAACCTATATAAG
* * **
795933 GAATTACCAATTTGAGCGAGTTGAACCTGACGTAAG
1 GAATTACCAGTTTGATCGAGTTGAACCT-ATATAAG
*
795969 GAATTACCAGTTCGATCG-GTCTGAACCTATATAAG
1 GAATTACCAGTTTGATCGAGT-TGAACCTATATAAG
* *
796004 GAATTATCAGTTTGATCGAATTGAACCT
1 GAATTACCAGTTTGATCGAGTTGAACCT
796032 GTAGAGACTT
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
35 51 0.64
36 29 0.36
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (35 bp):
GAATTACCAGTTTGATCGAGTTGAACCTATATAAG
Found at i:796049 original size:71 final size:71
Alignment explanation
Indices: 795893--796032 Score: 208
Period size: 71 Copynumber: 2.0 Consensus size: 71
795883 CCGTAGATCT
* *
795893 GTAAAGAATTACCAGCTCGATCGATCTAAACCTATATAAGGAATTACCAATTTGAGCGAGTTGAA
1 GTAAGGAATTACCAGCTCGATCGATCTAAACCTATATAAGGAATTACCAATTTGAGCGAATTGAA
795958 CCTGAC
66 CCTGAC
* * * * * *
795964 GTAAGGAATTACCAGTTCGATCGGTCTGAACCTATATAAGGAATTATCAGTTTGATCGAATTGAA
1 GTAAGGAATTACCAGCTCGATCGATCTAAACCTATATAAGGAATTACCAATTTGAGCGAATTGAA
796029 CCTG
66 CCTG
796033 TAGAGACTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (71 bp):
GTAAGGAATTACCAGCTCGATCGATCTAAACCTATATAAGGAATTACCAATTTGAGCGAATTGAA
CCTGAC
Found at i:797134 original size:27 final size:27
Alignment explanation
Indices: 797104--797164 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
797094 ATTATTGTCT
*
797104 TTTTACAACAT-AGGAGTATTTTCGTAA
1 TTTTACAACATAAGG-GTATTTTCATAA
**
797131 TTTTACCCCATAAGGGTATTTTCATAA
1 TTTTACAACATAAGGGTATTTTCATAA
797158 TTTTACA
1 TTTTACA
797165 TAACCGAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (27 bp):
TTTTACAACATAAGGGTATTTTCATAA
Found at i:798704 original size:3 final size:3
Alignment explanation
Indices: 798685--798728 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
798675 ATGCCACATA
*
798685 AAT AA- AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
798729 CGGTCTTCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:801175 original size:32 final size:32
Alignment explanation
Indices: 801133--801198 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
801123 TTTTGATTCC
* *
801133 CCCCTTATTTTCTATGGTTAATTATAGTTTGT
1 CCCCTCATTTTCTATGATTAATTATAGTTTGT
*
801165 CCCCTCATTTTCTATGATTAATTATATTTTGT
1 CCCCTCATTTTCTATGATTAATTATAGTTTGT
801197 CC
1 CC
801199 TCTTAAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.52
Consensus pattern (32 bp):
CCCCTCATTTTCTATGATTAATTATAGTTTGT
Found at i:802634 original size:2 final size:2
Alignment explanation
Indices: 802627--802651 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
802617 CACTTTAGTG
802627 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
802652 TAGAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:803387 original size:22 final size:22
Alignment explanation
Indices: 803343--803387 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
803333 GGCCCTATGC
**
803343 AAATTCTTAAAAAGAGGCCCTT
1 AAATTCTTAAAAAGAAACCCTT
*
803365 AAATTCTTAAAAAGAAACTCTT
1 AAATTCTTAAAAAGAAACCCTT
803387 A
1 A
803388 GTAAAAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATTCTTAAAAAGAAACCCTT
Found at i:804724 original size:19 final size:19
Alignment explanation
Indices: 804700--804736 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
804690 GTAAAGATAC
804700 TTTAAACATAA-AATTCATT
1 TTTAAA-ATAAGAATTCATT
804719 TTTAAAATAAGAATTCAT
1 TTTAAAATAAGAATTCAT
804737 AATCATGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (19 bp):
TTTAAAATAAGAATTCATT
Found at i:806343 original size:33 final size:33
Alignment explanation
Indices: 806301--806363 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
806291 ACCACGTAAC
806301 ACTTCCGTTAACAGTTAAAGGGAAAGGGTTGTT
1 ACTTCCGTTAACAGTTAAAGGGAAAGGGTTGTT
806334 ACTTCCGTTAACAGTTAAAGGGAAAGGGTT
1 ACTTCCGTTAACAGTTAAAGGGAAAGGGTT
806364 AACAGGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (33 bp):
ACTTCCGTTAACAGTTAAAGGGAAAGGGTTGTT
Found at i:809603 original size:3 final size:3
Alignment explanation
Indices: 809595--809747 Score: 292
Period size: 3 Copynumber: 51.7 Consensus size: 3
809585 CATTCAGCAA
809595 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
809643 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
809691 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
809738 -AT AAT AAT AA
1 AAT AAT AAT AA
809748 ATCGTTGGAA
Statistics
Matches: 148, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
2 4 0.03
3 144 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.