Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008121.1 Hibiscus syriacus cultivar Beakdansim tig00110674_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: 1116347
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:637883 original size:12 final size:12
Alignment explanation
Indices: 637866--637892 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
637856 AAGTTGGGGC
637866 AATCATCAATAG
1 AATCATCAATAG
637878 AATCATCAATAG
1 AATCATCAATAG
637890 AAT
1 AAT
637893 TTGGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (12 bp):
AATCATCAATAG
Found at i:637926 original size:21 final size:21
Alignment explanation
Indices: 637900--638182 Score: 299
Period size: 21 Copynumber: 13.8 Consensus size: 21
637890 AATTTGGAAA
* **
637900 ATCGCAACGCAAACTTCAACT
1 ATCGCAACGCGAACTTGGACT
* **
637921 ATCGCAACGCGAAATTGGAAA
1 ATCGCAACGCGAACTTGGACT
* **
637942 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
637961 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
**
637982 ATCGCAACGCGAACTTCAACT
1 ATCGCAACGCGAACTTGGACT
638003 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
638024 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
* * *
638043 ATTGCAACGCAAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* *
638064 ATCGCAATGCGAACTTTGACT
1 ATCGCAACGCGAACTTGGACT
*
638085 ATCGCAACGCGAACTTTGACT
1 ATCGCAACGCGAACTTGGACT
*
638106 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
638127 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
638148 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
638167 ATCGCAACGCGAACTT
1 ATCGCAACGCGAACTT
638183 CGAACGTGAA
Statistics
Matches: 220, Mismatches: 36, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
19 48 0.22
21 172 0.78
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:638030 original size:82 final size:82
Alignment explanation
Indices: 637900--638268 Score: 355
Period size: 82 Copynumber: 4.6 Consensus size: 82
637890 AATTTGGAAA
* * ** *
637900 ATCGCAACGCAAACTTCAACTATCGCAACGCGAAATTGGAAAATCGCAACGAATTTGGAAAATCG
1 ATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCG
*
637965 CAACGCGAACTTGGACT
66 CAACGCAAACTTGGACT
* *
637982 ATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATTG
1 ATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCG
*
638047 CAACGCAAACTTCGACT
66 CAACGCAAACTTGGACT
* ** * * **
638064 ATCGCAATGCGAACTTTGACTATCGCAACGCGAACTTTGACTATCGCAACGCGAACTTCGACTAT
1 ATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTGGACTATCGCAA--CGAACTTGGAAAAT
**
638129 CGCAACGTGAACTTGGACT
64 CGCAACGCAAACTTGGACT
* * * * * **
638148 ATCGCAA--CGAATTTGGAA-AATCGCAACGCGAACTTCGA--A-CG---TGAACTTGGACTATC
1 ATCGCAACGCGAACTT-CAACTATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATC
* * **
638204 GCAA--CAAATTTAGAAA
65 GCAACGCAAACTTGGACT
* *
638220 ATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTGGACTATCGCAA
638269 AATCGCGTTG
Statistics
Matches: 237, Mismatches: 38, Indels: 26
0.79 0.13 0.09
Matches are distributed among these distances:
72 13 0.05
73 1 0.00
74 40 0.17
76 1 0.00
77 2 0.01
79 2 0.01
80 1 0.00
82 144 0.61
83 1 0.00
84 32 0.14
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (82 bp):
ATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCG
CAACGCAAACTTGGACT
Found at i:638079 original size:103 final size:101
Alignment explanation
Indices: 637900--638182 Score: 350
Period size: 103 Copynumber: 2.7 Consensus size: 101
637890 AATTTGGAAA
* * * *
637900 ATCGCAACGCAAACTTCAACTATCGCAACGCGAAATTGGAAAATCGCAACGAATTTGGAAAATCG
1 ATCGCAACGCGAACTTCGACTATCGCAA--CGAAATTGGAAAATCGCAACGAACTTCGAAAATCG
637965 CAACGCGAACTTGGACTATCGCAACGCGAACTTCAACT
64 CAACGCGAACTTGGACTATCGCAACGCGAACTTCAACT
* * * **
638003 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATTGCAACGCAAACTTCGACTATCG
1 ATCGCAACGCGAACTTCGACTATCGCAACGAAATTGGAAAATCGCAACG--AACTTCGAAAATCG
* * **
638068 CAATGCGAACTTTGACTATCGCAACGCGAACTTTGACT
64 CAACGCGAACTTGGACTATCGCAACGCGAACTTCAACT
* ** * *
638106 ATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCG
1 ATCGCAACGCGAACTTCGACTATCGCAAC--GAAATTGGAAAATCGCAACGAACTTCGAAAATCG
638171 CAACGCGAACTT
64 CAACGCGAACTT
638183 CGAACGTGAA
Statistics
Matches: 153, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
101 19 0.12
103 118 0.77
105 16 0.10
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (101 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAAATTGGAAAATCGCAACGAACTTCGAAAATCGCA
ACGCGAACTTGGACTATCGCAACGCGAACTTCAACT
Found at i:638113 original size:124 final size:116
Alignment explanation
Indices: 637961--638268 Score: 433
Period size: 124 Copynumber: 2.6 Consensus size: 116
637951 AATTTGGAAA
* * *
637961 ATCGCAACGCGAACTTGGACTATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTGGACTAT
1 ATCGCAACGCGAACTTTGACTATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTAT
* *
638026 CGCAACGAATTTGGAAAATTGCAACGCAAACTTCGACTATCGCAATGCGAACTTTGACT
66 CGCAACGAATTTGGAAAATCGCAACGCAAACTTCGA--A-CG---T--GAACTTGGACT
638085 ATCGCAACGCGAACTTTGACTATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTAT
1 ATCGCAACGCGAACTTTGACTATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTAT
*
638150 CGCAACGAATTTGGAAAATCGCAACGCGAACTTCGAACGTGAACTTGGACT
66 CGCAACGAATTTGGAAAATCGCAACGCAAACTTCGAACGTGAACTTGGACT
* **
638201 ATCGCAA--C-AAATTTAGAAAATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTA
1 ATCGCAACGCGAACTTT-GACTATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTA
638263 TCGCAA
65 TCGCAA
638269 AATCGCGTTG
Statistics
Matches: 174, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
113 5 0.03
114 52 0.30
116 17 0.10
118 1 0.01
121 2 0.01
122 1 0.01
124 96 0.55
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (116 bp):
ATCGCAACGCGAACTTTGACTATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACTAT
CGCAACGAATTTGGAAAATCGCAACGCAAACTTCGAACGTGAACTTGGACT
Found at i:638214 original size:53 final size:53
Alignment explanation
Indices: 638132--638238 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
638122 CGACTATCGC
* *
638132 AACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCG
1 AACGTGAACTTGGACTATCGCAACAAATTTAGAAAATCGCAACGCGAACTTCG
638185 AACGTGAACTTGGACTATCGCAACAAATTTAGAAAATCGCAACGCGAACTTCG
1 AACGTGAACTTGGACTATCGCAACAAATTTAGAAAATCGCAACGCGAACTTCG
638238 A
1 A
638239 CTATCGCAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (53 bp):
AACGTGAACTTGGACTATCGCAACAAATTTAGAAAATCGCAACGCGAACTTCG
Found at i:638246 original size:21 final size:21
Alignment explanation
Indices: 638220--638268 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
638210 AATTTAGAAA
638220 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
638241 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
638262 ATCGCAA
1 ATCGCAA
638269 AATCGCGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:648230 original size:14 final size:14
Alignment explanation
Indices: 648211--648258 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
648201 TGTGTATGTT
*
648211 TGTATCTATCTAAA
1 TGTATCTATCTATA
* * *
648225 TGTATCT-CCTGTT
1 TGTATCTATCTATA
648238 TGTATCTATCTATA
1 TGTATCTATCTATA
648252 TGTATCT
1 TGTATCT
648259 CCGTAAGCTG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (14 bp):
TGTATCTATCTATA
Found at i:648238 original size:27 final size:27
Alignment explanation
Indices: 648207--648260 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
648197 TATGTGTGTA
648207 TGTTTGTATCTATCTAAATGTATCTCC
1 TGTTTGTATCTATCTAAATGTATCTCC
*
648234 TGTTTGTATCTATCTATATGTATCTCC
1 TGTTTGTATCTATCTAAATGTATCTCC
648261 GTAAGCTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.11, T:0.50
Consensus pattern (27 bp):
TGTTTGTATCTATCTAAATGTATCTCC
Found at i:653698 original size:35 final size:35
Alignment explanation
Indices: 653652--653752 Score: 202
Period size: 35 Copynumber: 2.9 Consensus size: 35
653642 ATATCGAGTG
653652 ATCAATTTGTAACAAACGAACTCATAGTAATGACT
1 ATCAATTTGTAACAAACGAACTCATAGTAATGACT
653687 ATCAATTTGTAACAAACGAACTCATAGTAATGACT
1 ATCAATTTGTAACAAACGAACTCATAGTAATGACT
653722 ATCAATTTGTAACAAACGAACTCATAGTAAT
1 ATCAATTTGTAACAAACGAACTCATAGTAAT
653753 AGCTGTTAAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.29
Consensus pattern (35 bp):
ATCAATTTGTAACAAACGAACTCATAGTAATGACT
Found at i:659248 original size:22 final size:22
Alignment explanation
Indices: 659223--659264 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
659213 TTAGACACTT
659223 ATTTTGATATTAAGCCAAAAGG
1 ATTTTGATATTAAGCCAAAAGG
** *
659245 ATTTTTTTATTAAGCTAAAA
1 ATTTTGATATTAAGCCAAAA
659265 TTATGGCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (22 bp):
ATTTTGATATTAAGCCAAAAGG
Found at i:660193 original size:24 final size:25
Alignment explanation
Indices: 660166--660234 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
660156 AACATCAAAT
660166 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
*
660190 ACAA-AATAATAATATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
660213 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
660235 ATATTATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 23 0.59
25 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:660355 original size:16 final size:16
Alignment explanation
Indices: 660303--660347 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
660293 AATTATGATT
660303 ATTATATTTTATTA-AA
1 ATTATA-TTTATTATAA
*
660319 A-TAAATTTATTATAA
1 ATTATATTTATTATAA
660334 ATTATATTTATTAT
1 ATTATATTTATTAT
660348 TTATTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATATTTATTATAA
Found at i:661475 original size:23 final size:23
Alignment explanation
Indices: 661449--661499 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
661439 TAAGTAATTA
**
661449 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
661472 ACCTATTACGTTATATAAGCGTT
1 ACCTATTACATTATATAAGCGCT
661495 ACCTA
1 ACCTA
661500 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:661507 original size:23 final size:23
Alignment explanation
Indices: 661459--661508 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
661449 ACCTATTTTA
*
661459 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
661482 TTATATAAGCGTTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
661505 TTAT
1 TTAT
661509 TGTGTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:661619 original size:86 final size:87
Alignment explanation
Indices: 661441--661651 Score: 327
Period size: 86 Copynumber: 2.4 Consensus size: 87
661431 TAACAAATTA
* *
661441 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCGTTACCTAATATGT
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGATATATAAGCGGTACCTAATATGT
* *
661506 TATTGTGTTTGATAATATTTTC
66 TATCGTGCTTGATAATATTTTC
* * *
661528 AGTAATTAACCTATTTTATTATATAAGTGTTACCTATTAC-ATATATAAGTGGTACCTAATATGT
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGATATATAAGCGGTACCTAATATGT
*
661592 TATCGTGCTTGATAAT-GTTTC
66 TATCGTGCTTGATAATATTTTC
661613 TAGTAATTAACCTATTTTATTATATAAGCGCTACCTATT
1 -AGTAATTAACCTATTTTATTATATAAGCGCTACCTATT
661652 TTATTATATA
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
85 4 0.04
86 71 0.63
87 38 0.34
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (87 bp):
AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGATATATAAGCGGTACCTAATATGT
TATCGTGCTTGATAATATTTTC
Found at i:661652 original size:23 final size:23
Alignment explanation
Indices: 661622--661695 Score: 130
Period size: 23 Copynumber: 3.2 Consensus size: 23
661612 CTAGTAATTA
661622 ACCTATTTTATTATATAAGCGCT
1 ACCTATTTTATTATATAAGCGCT
661645 ACCTATTTTATTATATAAGCGCT
1 ACCTATTTTATTATATAAGCGCT
**
661668 ACCTATTACATTATATAAGCGCT
1 ACCTATTTTATTATATAAGCGCT
661691 ACCTA
1 ACCTA
661696 ATATGTTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (23 bp):
ACCTATTTTATTATATAAGCGCT
Found at i:661704 original size:23 final size:23
Alignment explanation
Indices: 661622--661704 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
661612 CTAGTAATTA
*
661622 ACCTATTTTATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
*
661645 ACCTATTTTATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
*
661668 ACCTATTACATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
* *
661691 ACCTAATATGTTAT
1 ACCTATTATATTAT
661705 TGTGTTTGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGCT
Found at i:661730 original size:110 final size:110
Alignment explanation
Indices: 661536--661791 Score: 370
Period size: 110 Copynumber: 2.3 Consensus size: 110
661526 TCAGTAATTA
* * * *
661536 ACCTATTTTATTATATAAGTGTTACCTATTACA-TATATAAGTGGTACCTAATATGTTATCGTGC
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATCGTGC
* * *
661600 TTGATAATGTTTCTAGTAATTAACCTATTTTATTATATAAGCGCT
66 TTGATAATGTTTATAATAATTAACCTATTTTATTATATAAGCGAT
* *
661645 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATCGTGC
*
661710 TTGATAATGTTTATAATAATTAACCTATTTTATTATATAAGTGAT
66 TTGATAATGTTTATAATAATTAACCTATTTTATTATATAAGCGAT
** * * *
661755 ACCTATTACATTATATAAGCGGTACCTAATATATTAT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTAT
661792 TATGTTTAAT
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 31 0.24
110 100 0.76
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (110 bp):
ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATCGTGC
TTGATAATGTTTATAATAATTAACCTATTTTATTATATAAGCGAT
Found at i:661736 original size:87 final size:86
Alignment explanation
Indices: 661645--661891 Score: 368
Period size: 87 Copynumber: 2.8 Consensus size: 86
661635 TATAAGCGCT
661645 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCG-TACCTAATATGTTATTGTGT
*
661710 TTGATAATGTTTATAATAATTA
65 TTGATAATGTTTACAATAATTA
* * * *
661732 ACCTATTTTATTATATAAGTGATACCTATTACATTATATAAGCGGTACCTAATATATTATTATGT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGC-GTACCTAATATGTTATTGTGT
* * *
661797 TTAATAATGTTTCCAGTAATTA
65 TTGATAATGTTTACAATAATTA
* * *
661819 ACCTATTTTATTATATAAGCGCTACCTATTATATTATATAAACAGTACCTAATATGTTATTGTAT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGC-GTACCTAATATGTTATTGTGT
661884 TTGATAAT
65 TTGATAAT
661892 ATAACATAAC
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
87 141 0.99
88 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (86 bp):
ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGTACCTAATATGTTATTGTGTT
TGATAATGTTTACAATAATTA
Found at i:661759 original size:23 final size:23
Alignment explanation
Indices: 661732--661791 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
661722 ATAATAATTA
* *
661732 ACCTATTTTATTATATAAGTGAT
1 ACCTATTATATTATATAAGCGAT
* *
661755 ACCTATTACATTATATAAGCGGT
1 ACCTATTATATTATATAAGCGAT
*
661778 ACCTAATATATTAT
1 ACCTATTATATTAT
661792 TATGTTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGAT
Found at i:661867 original size:23 final size:23
Alignment explanation
Indices: 661819--661878 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
661809 CCAGTAATTA
* *
661819 ACCTATTTTATTATATAAGCGCT
1 ACCTATTATATTATATAAACGCT
661842 ACCTATTATATTATATAAACAG-T
1 ACCTATTATATTATATAAAC-GCT
* *
661865 ACCTAATATGTTAT
1 ACCTATTATATTAT
661879 TGTATTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 31 0.97
24 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.42
Consensus pattern (23 bp):
ACCTATTATATTATATAAACGCT
Found at i:677984 original size:18 final size:17
Alignment explanation
Indices: 677946--677984 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
677936 TTTTAAATAT
*
677946 AATTTTAAAAAAGTAAA
1 AATTTTAAAAAAATAAA
*
677963 AATTTTAAAACAAATCAA
1 AATTTTAAAA-AAATAAA
677981 AATT
1 AATT
677985 AATACTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (17 bp):
AATTTTAAAAAAATAAA
Found at i:678262 original size:20 final size:20
Alignment explanation
Indices: 678247--678288 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
678237 AACCGGTAGC
678247 GCTTTACCAAATCCGGTAAA
1 GCTTTACCAAATCCGGTAAA
678267 GCTTTACCAAATCCGGTAAA
1 GCTTTACCAAATCCGGTAAA
678287 GC
1 GC
678289 GTCCAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
GCTTTACCAAATCCGGTAAA
Found at i:686365 original size:41 final size:41
Alignment explanation
Indices: 686274--686356 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
686264 TTTTAAGCAT
* ** * *
686274 AAACTC-TACTTTAGTGACCTTTTTATGTAAATGCCGCTAA
1 AAACTCGTATTTTAGTGACCTTTTTATACAAACGCCACTAA
*
686314 AAACTCGTATTTTAGTGACGTTTTTATACAAACGCCACTAA
1 AAACTCGTATTTTAGTGACCTTTTTATACAAACGCCACTAA
686355 AA
1 AA
686357 TTTTGTATTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 6 0.17
41 30 0.83
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (41 bp):
AAACTCGTATTTTAGTGACCTTTTTATACAAACGCCACTAA
Found at i:687636 original size:31 final size:31
Alignment explanation
Indices: 687601--687659 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
687591 AAATTACACA
* *
687601 ATTTTTTTCAATATTAAAATATA-ATTTTATT
1 ATTTTTTT-AAAAATAAAATATATATTTTATT
687632 ATTTTTTTAAAAATAAAATATATATTTT
1 ATTTTTTTAAAAATAAAATATATATTTT
687660 TAGGGAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTTTTTAAAAATAAAATATATATTTTATT
Found at i:688170 original size:26 final size:28
Alignment explanation
Indices: 688113--688170 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
688103 CATATTTAAG
* * *
688113 ATTTGAGCTTTCTAATATTAAAAGAATG
1 ATTTGAGCTTTCTAATATAAAAAAAATC
*
688141 ATTTGATCTTT-TAA-ATAAAAAAAATC
1 ATTTGAGCTTTCTAATATAAAAAAAATC
688167 ATTT
1 ATTT
688171 TCCTGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 13 0.50
27 3 0.12
28 10 0.38
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (28 bp):
ATTTGAGCTTTCTAATATAAAAAAAATC
Found at i:688440 original size:21 final size:23
Alignment explanation
Indices: 688391--688441 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
688381 TATATATGGT
*
688391 ATGTTTTCATCTGCCTTTATGAC
1 ATGTTTTCATATGCCTTTATGAC
* *
688414 ACGTTTTCTTATG-CTTT-TGAC
1 ATGTTTTCATATGCCTTTATGAC
688435 ATGTTTT
1 ATGTTTT
688442 TTTGGTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
23 10 0.42
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.53
Consensus pattern (23 bp):
ATGTTTTCATATGCCTTTATGAC
Found at i:701034 original size:14 final size:15
Alignment explanation
Indices: 701008--701041 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
700998 GAGGATTGTG
701008 GGAACTGGGAAAGAA
1 GGAACTGGGAAAGAA
701023 GGAACT-GGAAAGAA
1 GGAACTGGGAAAGAA
701037 GGAAC
1 GGAAC
701042 AGTGTTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.47, C:0.09, G:0.38, T:0.06
Consensus pattern (15 bp):
GGAACTGGGAAAGAA
Found at i:703059 original size:59 final size:60
Alignment explanation
Indices: 702880--703061 Score: 167
Period size: 59 Copynumber: 3.0 Consensus size: 60
702870 AGTGATGTTA
* * * *
702880 TTAGTATATACGT-ATAATGTA-GGATGAAATTGAAATGTTTAAAAAGTTTGGCGGATCAAT
1 TTAGAATATACGTCATAATTTAGGGATGAAATTGAAATGTTTAAAAA-TTT-GAGGATTAAT
* * * * * * * * *
702940 TTAGAAGGA-AGGTCATAGTTTTGGGATGAAAATGAAATGTTCAAAAGTTTGAAGAATAAT
1 TTAGAA-TATACGTCATAATTTAGGGATGAAATTGAAATGTTTAAAAATTTGAGGATTAAT
*
703000 TTAGAATATA-GTCATAATTTAGGGATGAAATTAAAATGTTTAAAAATTT-AGGGATTAAT
1 TTAGAATATACGTCATAATTTAGGGATGAAATTGAAATGTTTAAAAATTTGA-GGATTAAT
703059 TTA
1 TTA
703062 AAACGAGTGT
Statistics
Matches: 95, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
58 1 0.01
59 43 0.45
60 21 0.22
61 9 0.09
62 21 0.22
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (60 bp):
TTAGAATATACGTCATAATTTAGGGATGAAATTGAAATGTTTAAAAATTTGAGGATTAAT
Found at i:704332 original size:104 final size:104
Alignment explanation
Indices: 704113--704319 Score: 288
Period size: 104 Copynumber: 2.0 Consensus size: 104
704103 ACGTATATGT
* * * * * * *
704113 AAGTTGTCAGTGATTACTACTCATCACGTGACCATAGTAATAAAAGAGTATTGTTTTCCTTAGAG
1 AAGTTGTCAATAATTACTACTCATCAAGCGACCATAGTAATAAAAGAGTATTGTTCTCCTTAAAA
* * *
704178 GTCACAAGTTCAACACAGTTTTACCTGCGGGATTTGTGC
66 ATCACAAGTTCAACACAATTTTACCTGCAGGATTTGTGC
* * *
704217 AAGTTGTCAATAATTATTACTCATCAAGCGACTATAGTAATAAAATAGTATTGTTCTCCTTAAAA
1 AAGTTGTCAATAATTACTACTCATCAAGCGACCATAGTAATAAAAGAGTATTGTTCTCCTTAAAA
*
704282 ATCACAAGTTCAACACAATTTTATCTGCAGGATTTGTG
66 ATCACAAGTTCAACACAATTTTACCTGCAGGATTTGTG
704320 TGAGTTTTCA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
104 89 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (104 bp):
AAGTTGTCAATAATTACTACTCATCAAGCGACCATAGTAATAAAAGAGTATTGTTCTCCTTAAAA
ATCACAAGTTCAACACAATTTTACCTGCAGGATTTGTGC
Found at i:704355 original size:104 final size:104
Alignment explanation
Indices: 704146--704341 Score: 248
Period size: 104 Copynumber: 1.9 Consensus size: 104
704136 TCACGTGACC
* * ** * *
704146 ATAGTAATAAAAGAGTATTGTTTTCCTTAGAGGTCACAAGTTCAACACAGTTTTACCTGCGGGAT
1 ATAGTAATAAAAGAGTATTGTTCTCCTTAAAAATCACAAGTTCAACACAATTTTACCTGCAGGAT
** * *
704211 TTGTGCAAGTTGTCAATAATTATTACTCATCAAGCGACT
66 TTGTGCAAGTTGTCAATAATTAAAAATCATCAAGAGACT
* *
704250 ATAGTAATAAAATAGTATTGTTCTCCTTAAAAATCACAAGTTCAACACAATTTTATCTGCAGGAT
1 ATAGTAATAAAAGAGTATTGTTCTCCTTAAAAATCACAAGTTCAACACAATTTTACCTGCAGGAT
** * *
704315 TTGTGTGAGTTTTCAATAGTTAAAAAT
66 TTGTGCAAGTTGTCAATAATTAAAAAT
704342 ATTTTAAATA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
104 77 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (104 bp):
ATAGTAATAAAAGAGTATTGTTCTCCTTAAAAATCACAAGTTCAACACAATTTTACCTGCAGGAT
TTGTGCAAGTTGTCAATAATTAAAAATCATCAAGAGACT
Found at i:711938 original size:42 final size:41
Alignment explanation
Indices: 711796--712142 Score: 171
Period size: 42 Copynumber: 8.4 Consensus size: 41
711786 GATCTGTCTA
* * *
711796 TTAGTGGTGTTTGTTATAAAAACGCCGCAATATAG-GA-ACC
1 TTAGTGGCGTTTGTTAT-AAAACGCCACAATAGAGCGATACC
*
711836 TTAGTGGCGTTTGTTACTAAAACG-C-CGATAG-GCGA-ACC
1 TTAGTGGCGTTTGTTA-TAAAACGCCACAATAGAGCGATACC
* * ** * *
711874 TTAGTGGCATTTGTCACTAAAACATCACTATAGAGCTATACC
1 TTAGTGGCGTTTGTTA-TAAAACGCCACAATAGAGCGATACC
* *** *
711916 TTAGTGGTGTTTGTTATAAAAACGTTGCTATAGAGGCG-TACC
1 TTAGTGGCGTTTGTTAT-AAAACGCCACAATAGA-GCGATACC
* *
711958 TTAGTGGCGATTGTTATTAAAACGCCACAATAGA--TATGCACC
1 TTAGTGGCGTTTGTTA-TAAAACGCCACAATAGAGCGAT--ACC
* * *** * *
712000 TTAGTGGTGTTTGTAATTAAAACGCTGTAATAGAGTC-ACACG
1 TTAGTGGCGTTTGTTA-TAAAACGCCACAATAGAG-CGATACC
* * * * *
712042 TTAGTGGCATTTGTTGTTGAAAA-GCCACAGTAGAAGC-ACACA
1 TTAGTGGCGTTTGTT-AT-AAAACGCCACAATAG-AGCGATACC
* * **
712084 TTAGTGGCGTTTGTTATTAAAACGCCATAATATAGTC-ATATT
1 TTAGTGGCGTTTGTTA-TAAAACGCCACAATAGAG-CGATACC
712126 TTAGTGGCGTTTGTTAT
1 TTAGTGGCGTTTGTTAT
712143 TAAATAACCG
Statistics
Matches: 239, Mismatches: 47, Indels: 41
0.73 0.14 0.13
Matches are distributed among these distances:
37 1 0.00
38 30 0.13
39 2 0.01
40 27 0.11
41 12 0.05
42 157 0.66
43 9 0.04
44 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (41 bp):
TTAGTGGCGTTTGTTATAAAACGCCACAATAGAGCGATACC
Found at i:711991 original size:84 final size:84
Alignment explanation
Indices: 711796--712108 Score: 247
Period size: 84 Copynumber: 3.8 Consensus size: 84
711786 GATCTGTCTA
** * * * * * *
711796 TTAGTGGTGTTTGTTATAAAAACGCCGCAATATAG-GA-ACCTTAGTGGCGTTTGTTACTAAAAC
1 TTAGTGGCATTTGTTATTAAAACGCCACAATAGAGCTATACCTTAGTGGTGTTTGTTATTAAAAC
*
711859 GCCG--AT--AGGCGAACC
66 GCTGTAATAGAGGCGAACC
* * ** * *
711874 TTAGTGGCATTTGTCACTAAAACATCACTATAGAGCTATACCTTAGTGGTGTTTGTTATAAAAAC
1 TTAGTGGCATTTGTTATTAAAACGCCACAATAGAGCTATACCTTAGTGGTGTTTGTTATTAAAAC
* *
711939 GTTGCT-ATAGAGGCGTACC
66 GCTG-TAATAGAGGCGAACC
*
711958 TTAGTGGCGA-TTGTTATTAAAACGCCACAATAGA--TATGCACCTTAGTGGTGTTTGTAATTAA
1 TTAGTGGC-ATTTGTTATTAAAACGCCACAATAGAGCTAT--ACCTTAGTGGTGTTTGTTATTAA
* *
712020 AACGCTGTAATAGAGTC-ACACG
63 AACGCTGTAATAGAGGCGA-ACC
* * * * *
712042 TTAGTGGCATTTGTTGTTGAAAA-GCCACAGTAGAAGC-ACACATTAGTGGCGTTTGTTATTAAA
1 TTAGTGGCATTTGTTATT-AAAACGCCACAATAG-AGCTATACCTTAGTGGTGTTTGTTATTAAA
712105 ACGC
64 ACGC
712109 CATAATATAG
Statistics
Matches: 185, Mismatches: 34, Indels: 26
0.76 0.14 0.11
Matches are distributed among these distances:
78 25 0.14
79 1 0.01
80 25 0.14
82 5 0.03
83 2 0.01
84 120 0.65
85 6 0.03
86 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (84 bp):
TTAGTGGCATTTGTTATTAAAACGCCACAATAGAGCTATACCTTAGTGGTGTTTGTTATTAAAAC
GCTGTAATAGAGGCGAACC
Found at i:712115 original size:84 final size:84
Alignment explanation
Indices: 711958--712146 Score: 215
Period size: 84 Copynumber: 2.2 Consensus size: 84
711948 GAGGCGTACC
*
711958 TTAGTGGCGA-TTGTTATTAAAACGCCACAATAGATATGCACCTTAGTGGTGTTTGTAATTAAAA
1 TTAGTGGC-ATTTGTTATTAAAACGCCACAATAGATATGCACCTTAGTGGCGTTTGTAATTAAAA
**
712022 CGCTGTAATAGAGTCACACG
65 CGCCATAATAGAGTCACACG
* * *
712042 TTAGTGGCATTTGTTGTTGAAAA-GCCACAGTAGA-A-GCACACATTAGTGGCGTTTGTTATTAA
1 TTAGTGGCATTTGTTATT-AAAACGCCACAATAGATATGCAC-C-TTAGTGGCGTTTGTAATTAA
* * **
712104 AACGCCATAATATAGTCATATT
63 AACGCCATAATAGAGTCACACG
*
712126 TTAGTGGCGTTTGTTATTAAA
1 TTAGTGGCATTTGTTATTAAA
712147 TAACCGTCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
82 4 0.04
83 6 0.07
84 75 0.84
85 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (84 bp):
TTAGTGGCATTTGTTATTAAAACGCCACAATAGATATGCACCTTAGTGGCGTTTGTAATTAAAAC
GCCATAATAGAGTCACACG
Found at i:724880 original size:13 final size:13
Alignment explanation
Indices: 724862--724886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
724852 TGCAAACCAG
724862 ACATAATAAACAA
1 ACATAATAAACAA
724875 ACATAATAAACA
1 ACATAATAAACA
724887 TAAACCACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
ACATAATAAACAA
Found at i:725189 original size:337 final size:343
Alignment explanation
Indices: 724562--725252 Score: 1250
Period size: 337 Copynumber: 2.0 Consensus size: 343
724552 GTTCTTCAAC
724562 TAAAACTGAAGTGTTTTTACTCAGATCTAACGGTGAGAAGAGTTAAAAATAGAGAAAAATCCAAA
1 TAAAACTGAAGTGTTTTTACTCAGATCTAACGGTGAGAAGAGTTAAAAATAGAGAAAAATCCAAA
724627 GAAATAAAAGAACAAAGCAAAAGCAAAAGCAGAAGAAATAAAGAATCATGTAAAGTCTTACCTAA
66 GAAATAAAAG---AAAGCAAAAGC--AA-CAGAAGAAATAAAGAATCATGTAAAGTCTTACCTAA
724692 ATGCAGAGCAATGTAGATCTGGTGAAACCAAAGTAAGGAAGCAAAGTAAAAAGTATCAAAGTGAA
125 ATGCAGAGCAATGTAGATCTGGTGAAACCAAAGTAAGGAAGCAAAGTAAAAAGTATCAAAGTGAA
* * *
724757 AAACATTTATGTAAAAAGCAGAATAAAGAATACCATAAAGAAATATGTAAATAATAGGAAAACAA
190 AAACAATTATGTAAAAAGCAGAATAAAGAATACCATAAAGAAAGATGCAAATAATAGGAAAACAA
724822 TCAGATATTCAAAGCAAAAGAAAGTGAGATTGCAAACCAGACATAATAAACAAACATAATAAACA
255 TCAGATATTCAAAGCAAAAGAAAGTGAGATTGCAAACCAGACATAATAAACAAACATAATAAACA
724887 TAAACCACAACAATAATAACCACA
320 TAAACCACAACAATAATAACCACA
724911 TAAAACTGAAGTGTTTTTACTCAGATCTAACGGTGAGAAGAGTTAAAAATAGAGAAAAATCCAAA
1 TAAAACTGAAGTGTTTTTACTCAGATCTAACGGTGAGAAGAGTTAAAAATAGAGAAAAATCCAAA
724976 GAAATAAAAG-AA-C-AAAGC-A-A-AAGAAATAAAGAATCATGTAAAGTCTTACCTAAATGCAG
66 GAAATAAAAGAAAGCAAAAGCAACAGAAGAAATAAAGAATCATGTAAAGTCTTACCTAAATGCAG
*
725035 AGCAATGTAGATCTGGTGAAACCAGAGTAAGGAAGCAAAGTAAAAAGTATCAAAGTGAAAAACAA
131 AGCAATGTAGATCTGGTGAAACCAAAGTAAGGAAGCAAAGTAAAAAGTATCAAAGTGAAAAACAA
725100 TTATGTAAAAAGCAGAATAAAGAATACCATAAAGAAAGATGCAAATAATAGGAAAACAATCAGAT
196 TTATGTAAAAAGCAGAATAAAGAATACCATAAAGAAAGATGCAAATAATAGGAAAACAATCAGAT
725165 ATTCAAAGCAAAAGAAAGTGAGATTGCAAACCAGACATAATAAACAAACATAATAAACATAAACC
261 ATTCAAAGCAAAAGAAAGTGAGATTGCAAACCAGACATAATAAACAAACATAATAAACATAAACC
725230 ACAACAATAATAACCACA
326 ACAACAATAATAACCACA
725248 TAAAA
1 TAAAA
725253 TTCATTACCG
Statistics
Matches: 338, Mismatches: 4, Indels: 12
0.95 0.01 0.03
Matches are distributed among these distances:
337 253 0.75
338 1 0.00
340 1 0.00
343 5 0.01
344 1 0.00
345 2 0.01
349 75 0.22
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (343 bp):
TAAAACTGAAGTGTTTTTACTCAGATCTAACGGTGAGAAGAGTTAAAAATAGAGAAAAATCCAAA
GAAATAAAAGAAAGCAAAAGCAACAGAAGAAATAAAGAATCATGTAAAGTCTTACCTAAATGCAG
AGCAATGTAGATCTGGTGAAACCAAAGTAAGGAAGCAAAGTAAAAAGTATCAAAGTGAAAAACAA
TTATGTAAAAAGCAGAATAAAGAATACCATAAAGAAAGATGCAAATAATAGGAAAACAATCAGAT
ATTCAAAGCAAAAGAAAGTGAGATTGCAAACCAGACATAATAAACAAACATAATAAACATAAACC
ACAACAATAATAACCACA
Found at i:725217 original size:13 final size:13
Alignment explanation
Indices: 725199--725223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725189 TGCAAACCAG
725199 ACATAATAAACAA
1 ACATAATAAACAA
725212 ACATAATAAACA
1 ACATAATAAACA
725224 TAAACCACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
ACATAATAAACAA
Found at i:727046 original size:20 final size:21
Alignment explanation
Indices: 727021--727073 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
727011 CCCTTCAAGG
727021 AGTATCGATACTC-G-GGGTC
1 AGTATCGATACTCAGAGGGTC
727040 TAGTATCGATACTCAGAGGGTC
1 -AGTATCGATACTCAGAGGGTC
*
727062 AATATCGATACT
1 AGTATCGATACT
727074 AAAGTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (21 bp):
AGTATCGATACTCAGAGGGTC
Found at i:727069 original size:21 final size:20
Alignment explanation
Indices: 727023--727073 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
727013 CTTCAAGGAG
*
727023 TATCGATACTCGGGGTCTAG
1 TATCGATACTCGGGGTCTAA
727043 TATCGATACTCAGAGGGTC-AA
1 TATCGATACTC-G-GGGTCTAA
727064 TATCGATACT
1 TATCGATACT
727074 AAAGTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 11 0.39
21 12 0.43
22 5 0.18
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
TATCGATACTCGGGGTCTAA
Found at i:733466 original size:24 final size:24
Alignment explanation
Indices: 733383--733512 Score: 77
Period size: 24 Copynumber: 5.4 Consensus size: 24
733373 TGGGTACACC
* * * *
733383 TGTATCAGTGCAATTATGCATTCA
1 TGTATTAGTGCAATTGTGCACTCT
* * *
733407 TGTATCAGTGTAATTATGCACTCCT
1 TGTATTAGTGCAATTGTGCACT-CT
* *
733432 T-TGTTAATGCAATTGTGCACTCT
1 TGTATTAGTGCAATTGTGCACTCT
*
733455 TGTATTAGTGC-ATTCGTGTACTCCT
1 TGTATTAGTGCAATT-GTGCACT-CT
* * *
733480 T-TAGTTAGTGTAATTGAGCACTCC
1 TGTA-TTAGTGCAATTGTGCACTCT
*
733504 CGTATTAGT
1 TGTATTAGT
733513 ATCAATGTGT
Statistics
Matches: 83, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
23 6 0.07
24 56 0.67
25 18 0.22
26 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (24 bp):
TGTATTAGTGCAATTGTGCACTCT
Found at i:739027 original size:16 final size:16
Alignment explanation
Indices: 739006--739037 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
738996 ATATGTGACA
*
739006 AGTTTCTATAAAATAT
1 AGTTTCGATAAAATAT
739022 AGTTTCGATAAAATAT
1 AGTTTCGATAAAATAT
739038 TATATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (16 bp):
AGTTTCGATAAAATAT
Found at i:746314 original size:2 final size:2
Alignment explanation
Indices: 746309--746344 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
746299 TTTTGTTCAT
*
746309 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
746345 GAACTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:748480 original size:36 final size:34
Alignment explanation
Indices: 748433--748504 Score: 108
Period size: 36 Copynumber: 2.1 Consensus size: 34
748423 TATATATTAT
**
748433 TTAAATTAATTAATATTTCGGTTTATTAATTATATA
1 TTAAATTAATTAATATTTC-GAATATTAATTA-ATA
748469 TTAAATTAATTAATATTTCGAATATTAATTAATA
1 TTAAATTAATTAATATTTCGAATATTAATTAATA
748503 TT
1 TT
748505 GATTTAGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 5 0.15
35 10 0.29
36 19 0.56
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (34 bp):
TTAAATTAATTAATATTTCGAATATTAATTAATA
Found at i:748497 original size:19 final size:19
Alignment explanation
Indices: 748437--748504 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
748427 TATTATTTAA
**
748437 ATTAATTAATATTTCGGTTT
1 ATTAATTAATATTTC-GAAT
748457 ATTAATT-ATATATT--AA-
1 ATTAATTAATAT-TTCGAAT
748473 ATTAATTAATATTTCGAAT
1 ATTAATTAATATTTCGAAT
748492 ATTAATTAATATT
1 ATTAATTAATATT
748505 GATTTAGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 9 0.22
17 4 0.10
18 2 0.05
19 17 0.41
20 9 0.22
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (19 bp):
ATTAATTAATATTTCGAAT
Found at i:750063 original size:71 final size:72
Alignment explanation
Indices: 749946--750092 Score: 287
Period size: 71 Copynumber: 2.1 Consensus size: 72
749936 CTTGAACCAA
749946 TACAGGAGTTTCTGTCAAAATTCTCTTTAAAGCTTCAAAACTTTCTTGACATTCAGAAGTGCAAA
1 TACAGGAGTTTCTGTCAAAATTCTCTTTAAAGCTTCAAAACTTTCTTGACATTCAGAAGTGCAAA
750011 CAAACGG
66 CAAACGG
750018 TACAGGAG-TTCTGTCAAAATTCTCTTTAAAGCTTCAAAACTTTCTTGACATTCAGAAGTGCAAA
1 TACAGGAGTTTCTGTCAAAATTCTCTTTAAAGCTTCAAAACTTTCTTGACATTCAGAAGTGCAAA
750082 CAAACGG
66 CAAACGG
750089 TACA
1 TACA
750093 TTCTTCCTCA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 67 0.89
72 8 0.11
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (72 bp):
TACAGGAGTTTCTGTCAAAATTCTCTTTAAAGCTTCAAAACTTTCTTGACATTCAGAAGTGCAAA
CAAACGG
Found at i:753442 original size:23 final size:23
Alignment explanation
Indices: 753416--753476 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
753406 CTCGTATAAA
* *
753416 TGCATCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* * *
753439 TGCACCAAAGTGTCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
753462 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
753477 TATAAGATTG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:755466 original size:21 final size:21
Alignment explanation
Indices: 755442--755498 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
755432 AACATTTTCT
755442 GGAGGTTTCAAAACCCCTAGG
1 GGAGGTTTCAAAACCCCTAGG
755463 GGAGGTTTCAAAACCCCTAGG
1 GGAGGTTTCAAAACCCCTAGG
*
755484 GGAGGTTTCGAAACC
1 GGAGGTTTCAAAACC
755499 ATCTGGGCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (21 bp):
GGAGGTTTCAAAACCCCTAGG
Found at i:758723 original size:8 final size:8
Alignment explanation
Indices: 758710--758734 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
758700 TAAAAATGAT
758710 TTAAAATA
1 TTAAAATA
758718 TTAAAATA
1 TTAAAATA
758726 TTAAAATA
1 TTAAAATA
758734 T
1 T
758735 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTAAAATA
Found at i:759520 original size:23 final size:23
Alignment explanation
Indices: 759489--759536 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
759479 TTTTACTGAT
759489 TGTAGGAAATTTCCCTAATTATG
1 TGTAGGAAATTTCCCTAATTATG
* *
759512 TGTATGAAATTTCCTTAATTATG
1 TGTAGGAAATTTCCCTAATTATG
759535 TG
1 TG
759537 CTTAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (23 bp):
TGTAGGAAATTTCCCTAATTATG
Found at i:760887 original size:184 final size:184
Alignment explanation
Indices: 760579--760966 Score: 636
Period size: 184 Copynumber: 2.1 Consensus size: 184
760569 TTTTCTAATT
* * * ** *
760579 TATATAA-AAATTAAATATTTTTTAATTAAAAAAACAGTTTTTAATTATTTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTAAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
760643 TTATAAAATAAAAATTCATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
66 TTATAAAATAAAAATTCATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
*
760708 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGTTGAGCTCATATATTA
131 GGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTGAGCTCATATATTA
* *
760762 TATATAATATTTTTAATATTTTTAAATTCAAAAAACA-TTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTAAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
* *
760826 TTATAAAATAAAAATTTTATATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
66 TTATAAAATAAAAA-TTCATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
*
760891 TGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTGAGCTCATATGTTA
130 TGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTGAGCTCATATATTA
*
760946 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
760967 AAAATTTAAT
Statistics
Matches: 189, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
183 45 0.24
184 144 0.76
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.47
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTAAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
TTATAAAATAAAAATTCATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
GGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTGAGCTCATATATTA
Found at i:767507 original size:2 final size:2
Alignment explanation
Indices: 767500--767532 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
767490 TTAAAAGAAC
767500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
767533 AAATTTAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:768494 original size:20 final size:21
Alignment explanation
Indices: 768454--768494 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
768444 ATCAGATTGT
768454 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
768475 CCAGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
768495 GGGAACAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.37, G:0.29, T:0.17
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:768649 original size:21 final size:21
Alignment explanation
Indices: 768623--768664 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
768613 ATTTGAATAT
*
768623 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
768644 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
768665 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:768726 original size:21 final size:21
Alignment explanation
Indices: 768693--768732 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
768683 TTTTTGTAGA
*
768693 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
768715 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
768733 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:769880 original size:19 final size:20
Alignment explanation
Indices: 769856--769903 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
769846 AACGATTTTC
*
769856 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
769875 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
769895 TTTTGAAAA
1 TTTTGAAAA
769904 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:771546 original size:21 final size:21
Alignment explanation
Indices: 771520--771559 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
771510 ATTTGAATAT
*
771520 TATGAAGGGGTATCGATTCTC
1 TATGAAGGGGTACCGATTCTC
771541 TATGAAGGGGTACCGATTC
1 TATGAAGGGGTACCGATTC
771560 CCCCCATTCT
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:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCTC
Found at i:771623 original size:21 final size:21
Alignment explanation
Indices: 771590--771629 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
771580 TTTTTGTAGA
*
771590 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
771612 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
771630 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:771883 original size:34 final size:32
Alignment explanation
Indices: 771844--771913 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
771834 TATTGTAAAG
* *
771844 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
771878 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
771910 GGGA
1 GGGA
771914 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:783696 original size:58 final size:59
Alignment explanation
Indices: 783540--783702 Score: 154
Period size: 58 Copynumber: 2.8 Consensus size: 59
783530 ATGAATTTAG
* * * *
783540 GGATGAAATTGAAATATTTAAAAGTTT-GGGAATTAATTTTAAAAT-ATAATTATAGTTTCA
1 GGATAAAATTGAAATATTT-AAAGTTTAAGG-ATTAA-TTTAAAATGATAATCATAGTCTCA
* * * * * * *
783600 GGATGAATTTG-AATGCTTAAAACTTTAAGGATCAATTTAGAATGATAATCATAGTCT-A
1 GGATAAAATTGAAAT-ATTTAAAGTTTAAGGATTAATTTAAAATGATAATCATAGTCTCA
*
783658 GGGTAAAATTGAAATATTTAAAGTTTAAGGATTAATTTAAAATGA
1 GGATAAAATTGAAATATTTAAAGTTTAAGGATTAATTTAAAATGA
783703 AAATTATAAT
Statistics
Matches: 82, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
58 41 0.50
59 27 0.33
60 14 0.17
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (59 bp):
GGATAAAATTGAAATATTTAAAGTTTAAGGATTAATTTAAAATGATAATCATAGTCTCA
Found at i:798170 original size:22 final size:21
Alignment explanation
Indices: 798145--798186 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
798135 GATATATATT
*
798145 TTTTATAAGTTTTATTATAAAG
1 TTTTATAAGTTTGATT-TAAAG
798167 TTTTATAAGTTTGATTTAAA
1 TTTTATAAGTTTGATTTAAA
798187 TCCGAACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTTATAAGTTTGATTTAAAG
Found at i:799878 original size:125 final size:126
Alignment explanation
Indices: 799651--799886 Score: 438
Period size: 125 Copynumber: 1.9 Consensus size: 126
799641 GGATCGAGTT
*
799651 CCACGGAGGGCATTTCATAATTCGGAGGTCTCTTACGGAAGCTGCTCTCAATCTGGTGTTGGGGG
1 CCACGGAGGGCATTTCATAATTCGGAGGTCTCTTACGGAAGCTGCTCTCAACCTGGTGTTGGGGG
799716 TAGCCTACTATCTTACCTCCCCTTACCCCATACATAT-GGAAAAAATAGATAGCCATTTTC
66 TAGCCTACTATCTTACCTCCCCTTACCCCATACATATGGGAAAAAATAGATAGCCATTTTC
* *
799776 CCACTGAGGGTATTTCATAATTCGGAGGTCTCTTACGGAAGCTGCTCTCAACCTGGTGTTGGGGG
1 CCACGGAGGGCATTTCATAATTCGGAGGTCTCTTACGGAAGCTGCTCTCAACCTGGTGTTGGGGG
799841 TAGCCTACTATCTTACCTCCCCTTACCCCATACATATGGGAAAAAA
66 TAGCCTACTATCTTACCTCCCCTTACCCCATACATATGGGAAAAAA
799887 GGACATCCAT
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
125 99 0.93
126 8 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (126 bp):
CCACGGAGGGCATTTCATAATTCGGAGGTCTCTTACGGAAGCTGCTCTCAACCTGGTGTTGGGGG
TAGCCTACTATCTTACCTCCCCTTACCCCATACATATGGGAAAAAATAGATAGCCATTTTC
Found at i:800198 original size:2 final size:2
Alignment explanation
Indices: 800191--800226 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
800181 ATTTAATGAT
800191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
800227 GATTTTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:806164 original size:11 final size:12
Alignment explanation
Indices: 806124--806167 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
806114 TATTTAAACG
*
806124 GGTATTGGGCCA
1 GGTATTGGGTCA
*
806136 GGTATTGGGTCG
1 GGTATTGGGTCA
806148 GGTATTGGGTC-
1 GGTATTGGGTCA
806159 GGTATTGGG
1 GGTATTGGG
806168 CTGGGAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.11, C:0.09, G:0.48, T:0.32
Consensus pattern (12 bp):
GGTATTGGGTCA
Found at i:806166 original size:23 final size:24
Alignment explanation
Indices: 806122--806167 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
806112 ATTATTTAAA
806122 CGGGTATTGGGCCAGGTATTGGGT
1 CGGGTATTGGGCCAGGTATTGGGT
*
806146 CGGGTATTGGGTC-GGTATTGGG
1 CGGGTATTGGGCCAGGTATTGGG
806168 CTGGGAATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.11, C:0.11, G:0.48, T:0.30
Consensus pattern (24 bp):
CGGGTATTGGGCCAGGTATTGGGT
Found at i:806243 original size:24 final size:25
Alignment explanation
Indices: 806187--806243 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
806177 GGGCCGGGTA
806187 TATATATATTTAAATTAAATATATAT
1 TATAT-TATTTAAATTAAATATATAT
*
806213 T-TTTTATTTAAATTAAAT-T-TAT
1 TATATTATTTAAATTAAATATATAT
806235 TAATATTAT
1 T-ATATTAT
806244 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 4 0.15
23 1 0.04
24 19 0.70
25 2 0.07
26 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATTATTTAAATTAAATATATAT
Found at i:806384 original size:6 final size:6
Alignment explanation
Indices: 806373--806397 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
806363 AAATGGGTTT
806373 TCCCCG TCCCCG TCCCCG TCCCCG T
1 TCCCCG TCCCCG TCCCCG TCCCCG T
806398 TTATTATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.16, T:0.20
Consensus pattern (6 bp):
TCCCCG
Found at i:808066 original size:35 final size:35
Alignment explanation
Indices: 808000--808108 Score: 157
Period size: 35 Copynumber: 3.1 Consensus size: 35
807990 ACATTATCAT
* * *
808000 TTTTC-AACAAACATCTACCAAACTTTAAAAAACTA
1 TTTTCAAATAAACATTTACCAAACTTT-AAAAACCA
*
808035 TTTTCAAATAAACATTTACCGAACTTTAAAAACCA
1 TTTTCAAATAAACATTTACCAAACTTTAAAAACCA
*
808070 TTTTCAAATAAACATTTACCAAACTTTAAAAATCA
1 TTTTCAAATAAACATTTACCAAACTTTAAAAACCA
808105 TTTT
1 TTTT
808109 TTCAAAGTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 49 0.73
36 18 0.27
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (35 bp):
TTTTCAAATAAACATTTACCAAACTTTAAAAACCA
Found at i:812649 original size:37 final size:36
Alignment explanation
Indices: 812587--812699 Score: 149
Period size: 35 Copynumber: 3.2 Consensus size: 36
812577 TCTCATTATC
* * *
812587 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAAAATTTACCAAACTTTG-AAAACT
* *
812623 ATTTTTCAAAGAAATATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAAAATTTACCAAACTTTGAAAACT
*
812659 A-TTTTCAAAGAAAAATTTACCAAACTTTGAAAATT
1 ATTTTTCAAAGAAAAATTTACCAAACTTTGAAAACT
812694 ATTTTT
1 ATTTTT
812700 TTCAAAGTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
35 32 0.47
36 17 0.25
37 19 0.28
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.35
Consensus pattern (36 bp):
ATTTTTCAAAGAAAAATTTACCAAACTTTGAAAACT
Found at i:816294 original size:21 final size:21
Alignment explanation
Indices: 816270--816309 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
816260 AGCAGAACCG
816270 AAATTAACCCGAACAAAAACT
1 AAATTAACCCGAACAAAAACT
* *
816291 AAATTAACCTGAACCAAAA
1 AAATTAACCCGAACAAAAA
816310 GCAACTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.23, G:0.05, T:0.15
Consensus pattern (21 bp):
AAATTAACCCGAACAAAAACT
Found at i:816513 original size:19 final size:19
Alignment explanation
Indices: 816458--816513 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
816448 TATTAAATTA
816458 ATTTA-AATAAAATTAATA-
1 ATTTATAATAAAA-TAATAG
* *
816476 ATTTATTA-AAAATATTAG
1 ATTTATAATAAAATAATAG
816494 ATTTATAATAAAATAATAG
1 ATTTATAATAAAATAATAG
816513 A
1 A
816514 AAGTTTAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 4 0.13
18 16 0.52
19 11 0.35
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
ATTTATAATAAAATAATAG
Found at i:816761 original size:19 final size:19
Alignment explanation
Indices: 816737--816794 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
816727 TTATTTTTTA
816737 AAATTTTAATAAAAATATT
1 AAATTTTAATAAAAATATT
** *
816756 AAATTTATAATTGGAAATA-A
1 AAATTT-TAA-TAAAAATATT
816776 AAATTTTAATAAAAA-ATT
1 AAATTTTAATAAAAATATT
816794 A
1 A
816795 TTTATTTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
17 1 0.03
18 5 0.17
19 9 0.30
20 9 0.30
21 6 0.20
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATTTTAATAAAAATATT
Found at i:817206 original size:32 final size:32
Alignment explanation
Indices: 817102--817210 Score: 98
Period size: 32 Copynumber: 3.4 Consensus size: 32
817092 ACCTAAACAT
* * * *
817102 AAAATCAACCGATCCGATATTGACCCAACCCG
1 AAAAACAACCGATCTGATATTAACCCAAACCG
* * * * *
817134 -AAATCTAACCGATATG-TATTAA-TCAGACCC
1 AAAAAC-AACCGATCTGATATTAACCCAAACCG
817164 AAAAATCAACCGATCTGATATTAACCCAAACCG
1 AAAAA-CAACCGATCTGATATTAACCCAAACCG
817197 AAAAACAACCGATC
1 AAAAACAACCGATC
817211 CAATAATCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
30 4 0.07
31 22 0.37
32 24 0.40
33 10 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.18
Consensus pattern (32 bp):
AAAAACAACCGATCTGATATTAACCCAAACCG
Found at i:818680 original size:17 final size:17
Alignment explanation
Indices: 818658--818702 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
818648 TGGCCTGGCC
**
818658 TGTTTAAAAGCTTGGTA
1 TGTTTAAAAGCTTGACA
*
818675 TGTTTAAAAGCTTGACC
1 TGTTTAAAAGCTTGACA
818692 TGTTTAAAAGC
1 TGTTTAAAAGC
818703 CTGTTTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (17 bp):
TGTTTAAAAGCTTGACA
Found at i:826789 original size:21 final size:21
Alignment explanation
Indices: 826756--826823 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
826746 ATGTAATAAA
*
826756 TTTAATAGCTATTTTATAATAT
1 TTTAATA-ATATTTTATAATAT
*
826778 TTTAATAATATTTTATAATAA
1 TTTAATAATATTTTATAATAT
* *
826799 TTTAATTA-ATTTAATAATTAT
1 TTTAATAATATTTTATAA-TAT
826820 TTTA
1 TTTA
826824 TTTTAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 8 0.20
21 25 0.62
22 7 0.17
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (21 bp):
TTTAATAATATTTTATAATAT
Found at i:826798 original size:13 final size:11
Alignment explanation
Indices: 826765--826823 Score: 63
Period size: 10 Copynumber: 5.6 Consensus size: 11
826755 ATTTAATAGC
826765 TATTTT-ATAA
1 TATTTTAATAA
826775 TATTTTAATAA
1 TATTTTAATAA
826786 TATTTT-ATAA
1 TATTTTAATAA
*
826796 TAATTTAAT--
1 TATTTTAATAA
*
826805 TAATTTAATAA
1 TATTTTAATAA
826816 TTATTTTA
1 -TATTTTA
826824 TTTTAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 9 0.21
10 15 0.36
11 12 0.29
12 6 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:827508 original size:10 final size:9
Alignment explanation
Indices: 827494--827535 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
827484 GCAAAAGTTT
827494 TTTATTTTA
1 TTTATTTTA
827503 TTTTATTTTA
1 -TTTATTTTA
*
827513 TATA-TTTA
1 TTTATTTTA
827521 TTTATTTTA
1 TTTATTTTA
827530 CTTTAT
1 -TTTAT
827536 ATAAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.25
9 7 0.25
10 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:827527 original size:22 final size:23
Alignment explanation
Indices: 827494--827538 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
827484 GCAAAAGTTT
*
827494 TTTATTTTATTTTATTTTATATA
1 TTTATTTTATTTTACTTTATATA
827517 TTTA-TTTATTTTACTTTATATA
1 TTTATTTTATTTTACTTTATATA
827539 AATATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTTTATTTTACTTTATATA
Found at i:827551 original size:27 final size:26
Alignment explanation
Indices: 827492--827551 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
827482 AAGCAAAAGT
* ** *
827492 TTTTTATTTTATTTTATTTTATATAT
1 TTTTTATTTTACTTTATTAAATATAA
827518 TTATTTATTTTACTTTATATAAATATAA
1 TT-TTTATTTTACTTTAT-TAAATATAA
827546 TTTTTA
1 TTTTTA
827552 AGGAGGAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.07
27 18 0.64
28 8 0.29
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTATTTTACTTTATTAAATATAA
Found at i:836968 original size:59 final size:59
Alignment explanation
Indices: 836905--837042 Score: 206
Period size: 59 Copynumber: 2.3 Consensus size: 59
836895 TGAGGTGATT
* * *
836905 ATTTTATAACTTTTAATAGTCGGA-GACTCAATAAAACAACATCCTATAGTTGAAGGATC
1 ATTTTATAACTTTTAATAGTC-AATAACTCAATAAAACAACATCCTATAATTGAAGGATC
* *
836964 ATTTTATAACTTTTAATAGTCAATAACTCAATAAAACAACATCTTATAATTGATGGATC
1 ATTTTATAACTTTTAATAGTCAATAACTCAATAAAACAACATCCTATAATTGAAGGATC
*
837023 ATTTTGTAACTTTTAATAGT
1 ATTTTATAACTTTTAATAGT
837043 TATGAGATTC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
58 1 0.01
59 71 0.99
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (59 bp):
ATTTTATAACTTTTAATAGTCAATAACTCAATAAAACAACATCCTATAATTGAAGGATC
Found at i:837660 original size:41 final size:41
Alignment explanation
Indices: 837607--837686 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
837597 AATCATATGT
*
837607 TGAAGGTTAATGAGACATTGTTAATCATTTCCGTTGACATA
1 TGAAGGTTAATGAGACACTGTTAATCATTTCCGTTGACATA
837648 TGAAGGTTAATGAGACACTGTTAATCATTTCCGTTGACA
1 TGAAGGTTAATGAGACACTGTTAATCATTTCCGTTGACA
837687 CCCGCTGTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (41 bp):
TGAAGGTTAATGAGACACTGTTAATCATTTCCGTTGACATA
Found at i:840185 original size:11 final size:12
Alignment explanation
Indices: 840156--840188 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
840146 TATCGATGAT
*
840156 TATAAAAATATA
1 TATACAAATATA
840168 TATACAAATATA
1 TATACAAATATA
840180 -ATACAAATA
1 TATACAAATA
840189 CTTCCATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (12 bp):
TATACAAATATA
Found at i:840237 original size:17 final size:17
Alignment explanation
Indices: 840215--840247 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
840205 TTTACAATAC
840215 AAATTAT-TAACATATAA
1 AAATTATATAA-ATATAA
840232 AAATTATATAAATATA
1 AAATTATATAAATATA
840248 GAATGATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTATATAAATATAA
Found at i:840273 original size:2 final size:2
Alignment explanation
Indices: 840266--840290 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
840256 CATGATTATC
840266 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
840291 ATAAGAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:853189 original size:299 final size:295
Alignment explanation
Indices: 852541--853398 Score: 1010
Period size: 299 Copynumber: 2.9 Consensus size: 295
852531 TTCAGTTTGT
* * * * *
852541 GTGCATATTCAAATTTATTTTTTCTTGGAAG-TTGTTTCTTGCAGTGATGAAGCAATAACATGCA
1 GTGCATATCCAAATTAATTTTTTCTTGGAAGATT-TGTGTTGCAGTGATGAAGCAATAACATGTA
* * * ** *
852605 AGAAGGATCCATTTGTTGGATTCTTCTGTGAAAAATACTTGTTACGCTTGGCTTCTGAGCTTCCA
65 AGAAGGATCTATTTGTTGGATTCTTCTATGAGATGTGCTTGTTACGCTTGGCTTCTGAGCTTCCA
* ** * *
852670 AAGTTTAAACAGT-CATATTCAATGAGAAGGATTGTAGAATAT-AGTTGCAAATCTG-C-A-CTG
130 AAGTTTAAACAATGCATATTTGATGAAAAGGATT-TAGAATATCA-TTGCAAATCTGTCTATGTG
* ** * *
852730 TG-TG--TG-GAATTTTCC-CCTCTAACCTTTATGTAGCTGGCTTATGTCATGCTTGCTCTTGTA
193 TGCTGTATGTGAATTTCCCTCCTCTAAAGTTCATGTAGCTAGCTTATGTCATGCTTGCTCTTGTA
* * *
852790 TTATGTCCCTTTTTTATTTTGTCTAGATGTGTGATTTGA
258 TTATGTCCC-TTTTTAATTTGTCTAGAGGTGTGATTTCA
* * ** *
852829 TTGCTTATCCAAATTTGTGTTTTCTTGGAAGATTTG-GCTTGCAGTGATGAAGCAATAACATGTA
1 GTGCATATCCAAATTAATTTTTTCTTGGAAGATTTGTG-TTGCAGTGATGAAGCAATAACATGTA
852893 AGAAGGATCTATTTGTTGGATTCTTCTATGAGATGTGCTTGTTACGCTTGGCTTCTGAGCTTCCA
65 AGAAGGATCTATTTGTTGGATTCTTCTATGAGATGTGCTTGTTACGCTTGGCTTCTGAGCTTCCA
* *
852958 AAGTTTAAACAATGCATGTTTGGTGAAAAGGATTTAGAATATCATTGCAAATCTGTACTATGTGT
130 AAGTTTAAACAATGCATATTTGATGAAAAGGATTTAGAATATCATTGCAAATCTGT-CTATGTGT
853023 GTCTGTATGTGAAATTTCCCTCCTCTAAAGTTCATGTAGCTAGCTTATGTCATGCTTGCTCTTGT
194 G-CTGTATGTG-AATTTCCCTCCTCTAAAGTTCATGTAGCTAGCTTATGTCATGCTTGCTCTTGT
* *
853088 ATTATGTCCCTTTTTAATTTGTCTAGAGGTGTGGTTTCC
257 ATTATGTCCCTTTTTAATTTGTCTAGAGGTGTGATTTCA
*** * *
853127 GTGCATATTGGAATATAATTTTTTTTTGGAAGATTTGTGTTGCTGTGATGAAGCAATAACATGTA
1 GTGCATATCCAAAT-TAATTTTTTCTTGGAAGATTTGTGTTGCAGTGATGAAGCAATAACATGTA
853192 AGAAGGATCTATTTGTTGGATTCTTCTATGAGATGTGCTTGTTACGCTTGGCTTCTGAGCTTCCA
65 AGAAGGATCTATTTGTTGGATTCTTCTATGAGATGTGCTTGTTACGCTTGGCTTCTGAGCTTCCA
* * * * * *
853257 ACA-TTTAAA-AAGTGAATATTTGCTGAAAAGAATTTTAGAATATCATTGAAAATCTGTGTATGC
130 A-AGTTTAAACAA-TGCATATTTGATGAAAAGGA-TTTAGAATATCATTGCAAATCTGTCTATGT
* * * *
853320 GCATGC-ATATGTGCTCAA-TTCCCTCCTCTAAAGTTCATGTAGCTAGCTTTTGTCATGTTTGTT
192 G--TGCTGTATGTG---AATTTCCCTCCTCTAAAGTTCATGTAGCTAGCTTATGTCATGCTTGCT
*
853383 TTTGTATTATGTCCCT
252 CTTGTATTATGTCCCT
853399 ATCACGCAAA
Statistics
Matches: 492, Mismatches: 54, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
288 142 0.29
289 18 0.04
290 1 0.00
291 1 0.00
292 4 0.01
294 2 0.00
296 2 0.00
297 1 0.00
298 42 0.09
299 192 0.39
300 83 0.17
301 4 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (295 bp):
GTGCATATCCAAATTAATTTTTTCTTGGAAGATTTGTGTTGCAGTGATGAAGCAATAACATGTAA
GAAGGATCTATTTGTTGGATTCTTCTATGAGATGTGCTTGTTACGCTTGGCTTCTGAGCTTCCAA
AGTTTAAACAATGCATATTTGATGAAAAGGATTTAGAATATCATTGCAAATCTGTCTATGTGTGC
TGTATGTGAATTTCCCTCCTCTAAAGTTCATGTAGCTAGCTTATGTCATGCTTGCTCTTGTATTA
TGTCCCTTTTTAATTTGTCTAGAGGTGTGATTTCA
Found at i:864244 original size:66 final size:66
Alignment explanation
Indices: 864133--864265 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
864123 CCCCCTGAAA
* *
864133 TTCCTGTGTGAATTTTGGCATGTGGGATGATTTAGTGTTTATGAATGCATTGGTAGAGAGGTTTG
1 TTCCTGTGTGAATGTTGGCATGTGGGATGATTTAGTGTTTATGAATGCATTGGTAGAGAGGTCTG
864198 C
66 C
*
864199 TTCCTGTGTGAATGTTGGCATGTGGGATGATTTAGTGTTTGTGAATGCATTGGTAGAGAGGTCTG
1 TTCCTGTGTGAATGTTGGCATGTGGGATGATTTAGTGTTTATGAATGCATTGGTAGAGAGGTCTG
864264 C
66 C
864265 T
1 T
864266 AGGTTGTTGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.19, C:0.08, G:0.33, T:0.40
Consensus pattern (66 bp):
TTCCTGTGTGAATGTTGGCATGTGGGATGATTTAGTGTTTATGAATGCATTGGTAGAGAGGTCTG
C
Found at i:868305 original size:24 final size:23
Alignment explanation
Indices: 868278--868331 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
868268 CAAGTCACTC
*
868278 TAAAATTAATAAAATTTTAATTCT
1 TAAAATTAATAAAATTCTAA-TCT
**
868302 TAAAATTTCTAAAATTCTAATCT
1 TAAAATTAATAAAATTCTAATCT
*
868325 TCAAATT
1 TAAAATT
868332 TCATTAGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAAATTAATAAAATTCTAATCT
Found at i:871091 original size:2 final size:2
Alignment explanation
Indices: 871086--871110 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
871076 CTTTTTTTTA
871086 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
871111 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:871115 original size:2 final size:2
Alignment explanation
Indices: 871110--871140 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
871100 ATATATATAT
871110 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
871141 ACTTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:874999 original size:23 final size:24
Alignment explanation
Indices: 874955--875000 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
874945 TATAATAATA
* * *
874955 AAAAATAAAATTAGATATATTTTT
1 AAAAAGAAAATTACATAAATTTTT
874979 AAAAAGAAAA-TACATAAATTTT
1 AAAAAGAAAATTACATAAATTTT
875001 GAAATAACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (24 bp):
AAAAAGAAAATTACATAAATTTTT
Found at i:876373 original size:17 final size:17
Alignment explanation
Indices: 876342--876425 Score: 87
Period size: 17 Copynumber: 4.8 Consensus size: 17
876332 TCTACGTGTA
*
876342 ATAACTGTAAAACATATG
1 ATAACTGT-AAACATCTG
876360 ATAACTGTAAACATCTG
1 ATAACTGTAAACATCTG
* *
876377 ATAACTGTAAATATTTG
1 ATAACTGTAAACATCTG
* *
876394 ATAATTGAAAATCATCTG
1 ATAACTGTAAA-CATCTG
* *
876412 ATAATTATAAACAT
1 ATAACTGTAAACAT
876426 TTATAATTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
17 35 0.62
18 21 0.38
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (17 bp):
ATAACTGTAAACATCTG
Found at i:876410 original size:35 final size:34
Alignment explanation
Indices: 876342--876433 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 34
876332 TCTACGTGTA
* * *
876342 ATAACTGTAAAACATATGATAACTGTAAACATCTG
1 ATAACTGT-AAACATTTGATAATTGAAAACATCTG
*
876377 ATAACTGTAAATATTTGATAATTGAAAATCATCTG
1 ATAACTGTAAACATTTGATAATTGAAAA-CATCTG
* *
876412 ATAATTATAAACATTT-ATAATT
1 ATAACTGTAAACATTTGATAATT
876434 CATCATCATA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 22 0.45
35 27 0.55
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (34 bp):
ATAACTGTAAACATTTGATAATTGAAAACATCTG
Found at i:878706 original size:27 final size:27
Alignment explanation
Indices: 878675--878746 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
878665 TCGGTTTCAG
* *
878675 TTTGGTATCTAATATTTTTTATTTTAA
1 TTTGGTGTCTAATGTTTTTTATTTTAA
*
878702 TTTGGTGTCTAACGTTTTTTATTTTAA
1 TTTGGTGTCTAATGTTTTTTATTTTAA
878729 TTTGGTGTCTAATGTTTT
1 TTTGGTGTCTAATGTTTT
878747 ATTTTATAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.19, C:0.06, G:0.14, T:0.61
Consensus pattern (27 bp):
TTTGGTGTCTAATGTTTTTTATTTTAA
Found at i:878900 original size:16 final size:17
Alignment explanation
Indices: 878879--878943 Score: 91
Period size: 16 Copynumber: 3.9 Consensus size: 17
878869 TTTATTTATT
878879 TCTTTCTC-TCTCTTCC
1 TCTTTCTCTTCTCTTCC
*
878895 TCTTTCTCTTCCCCTTCC
1 TCTTTCTCTT-CTCTTCC
878913 TCTTTC-CTTCTCTTCC
1 TCTTTCTCTTCTCTTCC
878929 TCTTTCTC-TCTCTTC
1 TCTTTCTCTTCTCTTC
878944 ACCGAAGGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
16 27 0.61
17 5 0.11
18 12 0.27
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (17 bp):
TCTTTCTCTTCTCTTCC
Found at i:878904 original size:12 final size:12
Alignment explanation
Indices: 878887--878937 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
878877 TTTCTTTCTC
878887 TCTCTTCCTCTT
1 TCTCTTCCTCTT
*
878899 TCTCTTCCCCTT
1 TCTCTTCCTCTT
* *
878911 CCTCTT--TCCT
1 TCTCTTCCTCTT
878921 TCTCTTCCTCTT
1 TCTCTTCCTCTT
878933 TCTCT
1 TCTCT
878938 CTCTTCACCG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 7 0.23
12 24 0.77
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (12 bp):
TCTCTTCCTCTT
Found at i:889591 original size:149 final size:148
Alignment explanation
Indices: 889322--889627 Score: 504
Period size: 149 Copynumber: 2.1 Consensus size: 148
889312 GAGTCGAGGG
* * * * * *
889322 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGGTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACATA
* *
889387 CTTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
*
889452 ATGGCACTACGGTGCAAT
131 AAGGCACTACGGTGCAAT
* *
889470 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTT-TAAGACACAT
889535 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
889600 TAAGGCACTACGGTGCAAT
130 TAAGGCACTACGGTGCAAT
889619 TCTACGCGG
1 TCTACGCGG
889628 CACTACGGTG
Statistics
Matches: 146, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
148 48 0.33
149 98 0.67
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTATGAAGTCTTTAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
AAGGCACTACGGTGCAAT
Found at i:889652 original size:22 final size:23
Alignment explanation
Indices: 889603--889663 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
889593 ATTATTATAA
889603 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
889626 GGCACTACGGTG-AATTTCTACG-
1 GGCACTACGGTGCAA-TTCTACGC
* *
889648 TGCACTTCGGTGCAAT
1 GGCACTACGGTGCAAT
889664 GATACGAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:896115 original size:15 final size:15
Alignment explanation
Indices: 896097--896131 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
896087 CGAGGGTTCT
896097 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
896112 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
896127 GTAGT
1 GTAGT
896132 GGTCCTACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:902976 original size:15 final size:15
Alignment explanation
Indices: 902958--902992 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
902948 CAAGGGTTCT
902958 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
*
902973 GTAGTCCTTTGGGAC
1 GTAGTCCTTCGGGAC
902988 GTAGT
1 GTAGT
902993 GGTCCTACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.20, G:0.34, T:0.31
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:903831 original size:22 final size:23
Alignment explanation
Indices: 903765--903825 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
903755 ATTATTATAA
903765 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGT
903788 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGT
*
903811 -GCACTTCGGTGCAAT
1 GGCACTACGGTGCAAT
903826 GATACGAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 14 0.38
23 23 0.62
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGT
Found at i:907195 original size:27 final size:27
Alignment explanation
Indices: 907164--907216 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
907154 ATTTAAGACG
907164 TAAACCA-AAACCTCATGTTTAATTAAA
1 TAAACCATAAA-CTCATGTTTAATTAAA
* *
907191 TAAACTATAAACTCATGTTTACTTAA
1 TAAACCATAAACTCATGTTTAATTAA
907217 TTAATCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (27 bp):
TAAACCATAAACTCATGTTTAATTAAA
Found at i:912303 original size:18 final size:18
Alignment explanation
Indices: 912280--912320 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
912270 TGATAGTGCG
912280 TTATTATTAAATATAT-TT
1 TTATTA-TAAATATATATT
*
912298 TTATTATAATTATATATT
1 TTATTATAAATATATATT
912316 TTATT
1 TTATT
912321 TGTATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATTATAAATATATATT
Found at i:912844 original size:24 final size:23
Alignment explanation
Indices: 912810--912855 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
912800 ACGACACCTT
912810 TAAAATTCACTTTTCAAAACATA
1 TAAAATTCACTTTTCAAAACATA
*
912833 TAAAAGTTCACTTTTCTAAACAT
1 TAAAA-TTCACTTTTCAAAACAT
912856 GGATCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAATTCACTTTTCAAAACATA
Found at i:914729 original size:24 final size:26
Alignment explanation
Indices: 914702--914759 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
914692 GGATTAAATA
914702 TTTAATTTAGAAAT-TAATTTT-TAT
1 TTTAATTTAGAAATATAATTTTATAT
* * * *
914726 TTTAATATATATATATAATTTTATTT
1 TTTAATTTAGAAATATAATTTTATAT
914752 TTTAATTT
1 TTTAATTT
914760 TAATAGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 11 0.41
25 7 0.26
26 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTAATTTAGAAATATAATTTTATAT
Found at i:914786 original size:32 final size:31
Alignment explanation
Indices: 914719--914785 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
914709 TAGAAATTAA
*
914719 TTTTTATTTTAATATATATATATAATTTTAT
1 TTTTTATTTTAATAGATATATATAATTTTAT
* *
914750 TTTTTAATTTTAATAGATATCTA-AATTTTGT
1 TTTTT-ATTTTAATAGATATATATAATTTTAT
914781 TTTTT
1 TTTTT
914786 TGGCTTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 17 0.53
32 15 0.47
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTTTATTTTAATAGATATATATAATTTTAT
Found at i:921604 original size:2 final size:2
Alignment explanation
Indices: 921597--921631 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
921587 GTCAAACCTT
921597 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
921632 TTATATGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:935049 original size:18 final size:19
Alignment explanation
Indices: 935026--935067 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
935016 CAGTAATCCT
935026 ATTCCCA-GGTAATCTTAC
1 ATTCCCACGGTAATCTTAC
935044 ATTCCCACTGGTAATCTTAC
1 ATTCCCAC-GGTAATCTTAC
935064 -TTCC
1 ATTCC
935068 GTGAATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.36
Consensus pattern (19 bp):
ATTCCCACGGTAATCTTAC
Found at i:935524 original size:12 final size:12
Alignment explanation
Indices: 935509--935563 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
935499 GTTATTTAAA
935509 CGGGTATTGGGC
1 CGGGTATTGGGC
*
935521 CGGGTATTGGGT
1 CGGGTATTGGGC
935533 CGGGTATTGGGC
1 CGGGTATTGGGC
* * *
935545 CGAGAATCGGGC
1 CGGGTATTGGGC
935557 CGGGTAT
1 CGGGTAT
935564 ATATATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.13, C:0.16, G:0.47, T:0.24
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:935651 original size:32 final size:32
Alignment explanation
Indices: 935566--935667 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
935556 CCGGGTATAT
* *
935566 ATATATATATATATATTTAAATTAAATATATAA
1 ATAT-TATATATATATTTAAATTAAATTTATTA
* *
935599 ATA-TATATTTTTTATTTAAATTAAATTTATTA
1 ATATTATA-TATATATTTAAATTAAATTTATTA
*
935631 ATATTATATATATATATAAA-TAATTATTT-TTA
1 ATATTATATATATATTTAAATTAA--ATTTATTA
935663 ATATT
1 ATATT
935668 TATCGGGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
31 7 0.12
32 40 0.69
33 11 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
ATATTATATATATATTTAAATTAAATTTATTA
Found at i:935702 original size:13 final size:13
Alignment explanation
Indices: 935669--935712 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
935659 TTTAATATTT
*
935669 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
*
935681 ATCGAGGCGGGTA
1 ATCGGGGCGGGTA
935694 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
935707 ATCGGG
1 ATCGGG
935713 TAATCGGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.16, C:0.16, G:0.50, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:949219 original size:41 final size:41
Alignment explanation
Indices: 949139--949220 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
949129 TTTTTTTAAC
**
949139 GGATACTGAATACCGACATCATTTACGATGAAACATTGCTG
1 GGATACTGAATACCGACATCATTTACGACAAAACATTGCTG
* * *
949180 GGATACTGAATACTGACATTATTTACGACAAAACGTTGCTG
1 GGATACTGAATACCGACATCATTTACGACAAAACATTGCTG
949221 ATATAAAGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (41 bp):
GGATACTGAATACCGACATCATTTACGACAAAACATTGCTG
Found at i:957893 original size:2 final size:2
Alignment explanation
Indices: 957845--957873 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
957835 CTATACCTAC
957845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
957874 ACAGTAACAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:970262 original size:30 final size:30
Alignment explanation
Indices: 970227--970299 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
970217 TTTTCAAGTT
970227 AATTAAGATAAAAATAAAATATATTTAATA
1 AATTAAGATAAAAATAAAATATATTTAATA
* * *
970257 AATTAA-AGTGATAATATAATATATTTAATA
1 AATTAAGA-TAAAAATAAAATATATTTAATA
970287 AATTAAGATAAAA
1 AATTAAGATAAAA
970300 TATATACTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 1 0.03
30 34 0.94
31 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (30 bp):
AATTAAGATAAAAATAAAATATATTTAATA
Found at i:970368 original size:2 final size:2
Alignment explanation
Indices: 970361--970386 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
970351 TATAAGAATA
970361 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
970387 TGTCTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:971995 original size:14 final size:14
Alignment explanation
Indices: 971976--972004 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
971966 AACTGTTAAC
971976 GCAATTAACCTGTG
1 GCAATTAACCTGTG
971990 GCAATTAACCTGTG
1 GCAATTAACCTGTG
972004 G
1 G
972005 TGATCACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (14 bp):
GCAATTAACCTGTG
Found at i:972934 original size:20 final size:20
Alignment explanation
Indices: 972898--972935 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
972888 ATCATATTCC
**
972898 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
972918 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
972936 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:976131 original size:24 final size:24
Alignment explanation
Indices: 976102--976147 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
976092 ACAACTCCCT
976102 CGATCTCCTCCTCT-TCCTTCGCTC
1 CGATCT-CTCCTCTCTCCTTCGCTC
*
976126 CGATCTTTCCTCTCTCCTTCGC
1 CGATCTCTCCTCTCTCCTTCGC
976148 CAGGTAGCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.04, C:0.48, G:0.09, T:0.39
Consensus pattern (24 bp):
CGATCTCTCCTCTCTCCTTCGCTC
Found at i:981604 original size:2 final size:2
Alignment explanation
Indices: 981597--981635 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
981587 TTAAAAAGGG
981597 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
981636 GATGTTTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:982457 original size:29 final size:29
Alignment explanation
Indices: 982415--982473 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
982405 ATTTTCACCT
982415 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
982444 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
982473 A
1 A
982474 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:987133 original size:29 final size:29
Alignment explanation
Indices: 987091--987149 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
987081 ATTTTCACCT
987091 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
987120 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
987149 A
1 A
987150 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Done.