Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008796.1 Hibiscus syriacus cultivar Beakdansim tig00111941_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: 1607457
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 7
Found at i:691770 original size:18 final size:18
Alignment explanation
Indices: 691749--691788 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
691739 ATATTGATTT
*
691749 TTTTGGATATAATTTTTA
1 TTTTGGATATAATTTTGA
* *
691767 TTTTGGATCTTATTTTGA
1 TTTTGGATATAATTTTGA
691785 TTTT
1 TTTT
691789 TTTTAGATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (18 bp):
TTTTGGATATAATTTTGA
Found at i:692206 original size:21 final size:21
Alignment explanation
Indices: 692089--692226 Score: 77
Period size: 21 Copynumber: 6.7 Consensus size: 21
692079 ACGCGAAATA
**
692089 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
692109 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
* *
692129 AAAATCGAAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* ** *
692150 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
692171 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * *
692192 AAAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
692212 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
692227 ACACATAAAT
Statistics
Matches: 87, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.44
21 46 0.53
22 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:692255 original size:20 final size:20
Alignment explanation
Indices: 692193--692462 Score: 269
Period size: 20 Copynumber: 13.5 Consensus size: 20
692183 CGATTTTCCA
* ** *
692193 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
692213 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
692233 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
692253 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
692273 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
692293 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
692313 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
692333 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
692353 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
692373 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
692393 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
692413 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
692433 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
692453 AAATCACAAC
1 AAATCGCAAC
692463 ACTGAAATTT
Statistics
Matches: 210, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 206 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:693182 original size:24 final size:24
Alignment explanation
Indices: 693143--693189 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
693133 AAATTTGGTC
693143 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
693167 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
693190 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:693381 original size:12 final size:12
Alignment explanation
Indices: 693364--693388 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
693354 ATATAATCCT
693364 GAAGAAGAAAAA
1 GAAGAAGAAAAA
693376 GAAGAAGAAAAA
1 GAAGAAGAAAAA
693388 G
1 G
693389 TCCTCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:695689 original size:19 final size:19
Alignment explanation
Indices: 695667--695935 Score: 300
Period size: 19 Copynumber: 15.4 Consensus size: 19
695657 CGGAAATTAC
*
695667 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
695686 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
695700 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
695720 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
695734 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
695753 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
695772 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
695786 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
695805 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
695824 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
695838 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
695857 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
695876 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
695890 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
695909 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
695928 AATCGCAA
1 AATCGCAA
695936 CGAGAGAATC
Statistics
Matches: 214, Mismatches: 10, Indels: 52
0.78 0.04 0.19
Matches are distributed among these distances:
14 52 0.24
15 4 0.02
16 9 0.04
17 8 0.04
18 5 0.02
19 123 0.57
20 13 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:695754 original size:33 final size:33
Alignment explanation
Indices: 695667--695957 Score: 244
Period size: 33 Copynumber: 8.5 Consensus size: 33
695657 CGGAAATTAC
* *
695667 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
695700 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
695734 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
695772 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
695805 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
695838 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
695876 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
695909 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
695942 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
695958 TATAAACGCA
Statistics
Matches: 225, Mismatches: 11, Indels: 44
0.80 0.04 0.16
Matches are distributed among these distances:
33 131 0.58
34 33 0.15
35 9 0.04
36 8 0.04
37 4 0.02
38 40 0.18
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:695973 original size:52 final size:52
Alignment explanation
Indices: 695695--695957 Score: 517
Period size: 52 Copynumber: 5.0 Consensus size: 52
695685 AAATCCCAAC
695695 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
695748 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
695800 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
695852 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
695904 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
695956 AT
1 AT
695958 TATAAACGCA
Statistics
Matches: 210, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
52 194 0.92
53 16 0.08
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:696076 original size:52 final size:53
Alignment explanation
Indices: 695964--696079 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
695954 AAATTATAAA
695964 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
696017 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
696069 CGCATTGCGAT
1 CGCATTGCGAT
696080 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:696087 original size:19 final size:19
Alignment explanation
Indices: 695982--696079 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
695972 GATTCTCTCG
695982 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
696002 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
696021 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
696035 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
696054 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
696073 TTGCGAT
1 TTGCGAT
696080 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:696205 original size:14 final size:14
Alignment explanation
Indices: 696186--696222 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
696176 CATCAATTAC
696186 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
696200 ACAAATCATCTTTT
1 ACAAATCAACTTTT
696214 ACAAATCAA
1 ACAAATCAA
696223 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:698184 original size:19 final size:19
Alignment explanation
Indices: 698144--698242 Score: 91
Period size: 19 Copynumber: 5.4 Consensus size: 19
698134 TAGTTTACTT
* *
698144 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
698164 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
698183 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
698202 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
**
698216 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
698235 TCGCAACG
1 TCGCAACG
698243 AAAGAATCGC
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 38 0.58
20 13 0.20
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:698223 original size:33 final size:33
Alignment explanation
Indices: 698181--698259 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
698171 GCGAAACCAA
*
698181 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
698214 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
698247 AATCGCAATGCGA
1 AATCGCAACGCGA
698260 TTTTGGTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:698252 original size:14 final size:14
Alignment explanation
Indices: 698200--698254 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
698190 GCGAAATGAA
*
698200 AATCGCAACGACAG
1 AATCGCAACGAAAG
698214 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
698231 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
698247 AATCGCAA
1 AATCGCAA
698255 TGCGATTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.46
16 5 0.14
17 6 0.17
19 8 0.23
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:699315 original size:14 final size:14
Alignment explanation
Indices: 699296--699385 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
699286 TTGAAATGAA
699296 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
699310 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
699329 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
699343 AATCGCAACGCGAAATAAA
1 AATCGCAA--CG--A-GAG
699362 AATCGCAACGAGAG
1 AATCGCAACGAGAG
699376 AATCGCAACG
1 AATCGCAACG
699386 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:699328 original size:33 final size:33
Alignment explanation
Indices: 699288--699402 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
699278 TCTTTTGGTT
699288 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
699321 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
699354 GAAATAAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
699387 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
699403 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:699334 original size:19 final size:19
Alignment explanation
Indices: 699310--699407 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
699300 GCAACGAGAG
699310 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
699329 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
699343 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
699362 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
699376 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
699395 AATCGCAATGCGA
1 AATCGCAACGCGA
699408 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:699425 original size:19 final size:18
Alignment explanation
Indices: 699403--699461 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
699393 AAAATCGCAA
*
699403 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
*
699422 TGCGA--TTCTTT--CGT
1 TGCGATTTTATTTCGCGT
699436 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-ATTTCGCGT
699455 TGCGATT
1 TGCGATT
699462 CTCTCGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 8 0.24
16 5 0.15
17 5 0.15
19 15 0.45
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:699438 original size:14 final size:14
Alignment explanation
Indices: 699419--699475 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
699409 TTTGGTTTCG
699419 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
699433 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
699450 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTTT
699466 CGTTGCGATT
1 CGTTGCGATT
699476 TTCATTTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:699451 original size:33 final size:33
Alignment explanation
Indices: 699403--699483 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
699393 AAAATCGCAA
** *
699403 TGCGATTTTGGTTTCGCGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
699436 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
699469 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
699484 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:699516 original size:41 final size:41
Alignment explanation
Indices: 699459--699536 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
699449 TCGCGTTGCG
*
699459 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
699500 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
699537 TCTTCTGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:699521 original size:20 final size:21
Alignment explanation
Indices: 699460--699535 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
699450 CGCGTTGCGA
699460 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
699481 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
699501 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
699522 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
699536 CTCTTCTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:699657 original size:33 final size:33
Alignment explanation
Indices: 699615--699685 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
699605 AATACTAACT
*
699615 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
699648 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
699681 TGAAA
1 TGAAA
699686 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:699919 original size:22 final size:22
Alignment explanation
Indices: 699867--699921 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
699857 TGGTTGTGAG
**
699867 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
699889 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
699911 GGATTTCTTCG
1 GGATTTCTTCG
699922 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:700192 original size:20 final size:20
Alignment explanation
Indices: 700068--700221 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
700058 CTTTAAATAT
700068 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
700088 CACGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
700110 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
700129 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
700149 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
700169 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
700189 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
700209 CGCGTTGCGATTT
1 CGCGTTGCGATTT
700222 TGGAAACTGA
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 93 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:700195 original size:40 final size:40
Alignment explanation
Indices: 700067--700221 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
700057 GCTTTAAATA
* *
700067 TCGCGTTGCGATTTACGGATACACGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
700108 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
700148 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
700188 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
700222 TGGAAACTGA
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
40 66 0.69
41 29 0.31
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:705262 original size:14 final size:14
Alignment explanation
Indices: 705243--705270 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
705233 CTATGCAAAA
705243 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
705257 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
705271 AAGTCTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (14 bp):
TGTAGAAAACAGAC
Found at i:707297 original size:51 final size:51
Alignment explanation
Indices: 707221--707321 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
707211 TAAGGAAAGG
* *
707221 ATAGGTTGTAAAGAAATATCGGTTTGAACAGGTTGAAATTCCTTGTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
707272 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
707322 CTCCCCCTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
Found at i:709100 original size:14 final size:14
Alignment explanation
Indices: 709081--709108 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
709071 CCTGATACCA
709081 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
709095 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
709109 AAGTCTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (14 bp):
TGTAGAAAACAGAC
Found at i:713108 original size:14 final size:15
Alignment explanation
Indices: 713078--713114 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
713068 TTTATTATAT
*
713078 ATTT-TTTATTTTTA
1 ATTTATTTATTTTGA
713092 ATTTATTTA-TTTGA
1 ATTTATTTATTTTGA
713106 ATTTATTTA
1 ATTTATTTA
713115 AATATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
ATTTATTTATTTTGA
Found at i:714074 original size:12 final size:12
Alignment explanation
Indices: 714051--714097 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
714041 ATTTTTCAAT
714051 TTTAATTTTTTTA
1 TTTAA-TTTTTTA
714064 TTTAATTTTTTA
1 TTTAATTTTTTA
714076 TTTAATTTCATTTA
1 TTTAATTT--TTTA
*
714090 TATAATTT
1 TTTAATTT
714098 GAATTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 15 0.48
13 5 0.16
14 11 0.35
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:714078 original size:26 final size:28
Alignment explanation
Indices: 714044--714115 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 28
714034 GAGGTACATT
*
714044 TTTCAATTTTAATTTTTTTATTTAATTT-
1 TTTC-ATTTTAATTTTTTTATATAATTTA
*
714072 TTT-A-TTTAATTTCATTTATATAATTTGAA
1 TTTCATTTTAATTT-TTTTATATAATTT--A
714101 TTTCATTTTAATTTT
1 TTTCATTTTAATTTT
714116 GATAAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
25 8 0.23
26 12 0.34
28 3 0.09
29 3 0.09
30 1 0.03
31 8 0.23
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTCATTTTAATTTTTTTATATAATTTA
Found at i:716168 original size:23 final size:23
Alignment explanation
Indices: 716141--716204 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
716131 GAGTTGAGGG
**
716141 ATTCTATGTGGTCTTTCGGGAT-A
1 ATTCTATGTGGTCTTTCACG-TCA
* *
716164 ATTCTATGTAGTCCTTCACGTCA
1 ATTCTATGTGGTCTTTCACGTCA
716187 ATTCTATGTGGTCTTTCA
1 ATTCTATGTGGTCTTTCA
716205 GAGACTTTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (23 bp):
ATTCTATGTGGTCTTTCACGTCA
Found at i:716591 original size:16 final size:16
Alignment explanation
Indices: 716570--716600 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
716560 TTTGAAGAAA
716570 CTCAAATCAAACCGAG
1 CTCAAATCAAACCGAG
*
716586 CTCAAATCAGACCGA
1 CTCAAATCAAACCGA
716601 TTTGAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.32, G:0.13, T:0.13
Consensus pattern (16 bp):
CTCAAATCAAACCGAG
Found at i:717940 original size:31 final size:32
Alignment explanation
Indices: 717888--717952 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 32
717878 TTTTAGGTGT
*
717888 GTGTATGTGTATGCTTTTATTTACTGTTTTAG
1 GTGTATGTGTATGCTTTTATTTACTGTTTAAG
*
717920 GTGTATGTGTATG-TTTTATTTATTGTTTAAG
1 GTGTATGTGTATGCTTTTATTTACTGTTTAAG
717951 GT
1 GT
717953 TTGTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 18 0.58
32 13 0.42
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.57
Consensus pattern (32 bp):
GTGTATGTGTATGCTTTTATTTACTGTTTAAG
Found at i:718050 original size:26 final size:27
Alignment explanation
Indices: 717998--718050 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
717988 GGTATGCTTC
*
717998 ATGTCATGTTTAGTAGTTTGTTGTTTA
1 ATGTAATGTTTAGTAGTTTGTTGTTTA
* *
718025 ATGTAATGTTTA-TGGTTTGTTTTTTA
1 ATGTAATGTTTAGTAGTTTGTTGTTTA
718051 TAGTTCACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.19, C:0.02, G:0.21, T:0.58
Consensus pattern (27 bp):
ATGTAATGTTTAGTAGTTTGTTGTTTA
Found at i:719019 original size:82 final size:82
Alignment explanation
Indices: 718923--719188 Score: 295
Period size: 83 Copynumber: 3.2 Consensus size: 82
718913 ATATCATAGT
* * *
718923 GTTTTCTATTATTATTTAGAGAATCTCTGCCATGTCATAGTGTTTCATCCCATCCGAAATGAAA-
1 GTTTTCCATTATTATTCAGAGAATCTCTGACATGTCATAGTGTTTCATCCCATCCGAAATGAAAG
718987 GACGCATTATAGGGAAAC
66 GACGCATTA-AGGGAAAC
* * * * * *
719005 ATTTTCCTTTATTATTCAGATAATCTCTTACATGTCATAGTGTTCCATCCCATCCGAAATGAAAT
1 GTTTTCCATTATTATTCAGAGAATCTCTGACATGTCATAGTGTTTCATCCCATCCGAAATGAAAG
* *
719070 G-TGCATTCCAGGGGAAAC
66 GACGCATT--AAGGGAAAC
* * * * * * *
719088 GTTTTCCATTATTATTGAAAGGATATATGTCATATCATAGTGTTTCATCCCATCCGAAATGAAAG
1 GTTTTCCATTATTATTCAGAGAATCTCTGACATGTCATAGTGTTTCATCCCATCCGAAATGAAAG
*
719153 GTACG-GTTCAAGGGAAAC
66 G-ACGCATT-AAGGGAAAC
719171 GTTTTCCATTATTATTCA
1 GTTTTCCATTATTATTCA
719189 ACCCATCTAA
Statistics
Matches: 152, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
82 61 0.40
83 87 0.57
84 3 0.02
85 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (82 bp):
GTTTTCCATTATTATTCAGAGAATCTCTGACATGTCATAGTGTTTCATCCCATCCGAAATGAAAG
GACGCATTAAGGGAAAC
Found at i:719332 original size:82 final size:82
Alignment explanation
Indices: 719198--719436 Score: 302
Period size: 82 Copynumber: 2.9 Consensus size: 82
719188 AACCCATCTA
* * *
719198 AAAATGAAAGGAGCGTTCCAGGAGAAGTGTTTTCCATTATTATTCAGAGAATCTCTATCATGTCA
1 AAAATGAAAGGAGCATTCCAGG-GAAGCGTTTTCCATTATTATTCAGAGAATCTCTGTCATGTCA
719263 TAGTG-TTCAACCCCATCC
65 TAGTGTTTC-ACCCCATCC
* * * *
719281 GAAATGAAAGGTGCATTCCAGGGAAGCGTTTTCCATTATTATTCAGAGAATCTCCGTCATTTCAT
1 AAAATGAAAGGAGCATTCCAGGGAAGCGTTTTCCATTATTATTCAGAGAATCTCTGTCATGTCAT
* *
719346 AATGTTTCATCCCATCC
66 AGTGTTTCACCCCATCC
* * * * *
719363 AAAATGAAAAGAGCTTTCCAAGGGAAGCATTTTCCATTATTATT-AAAGAATCTTTGTCATGTCA
1 AAAATGAAAGGAGCATTCC-AGGGAAGCGTTTTCCATTATTATTCAGAGAATCTCTGTCATGTCA
*
719427 TAGTATTTCA
65 TAGTGTTTCA
719437 TCATATCTGA
Statistics
Matches: 134, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
82 89 0.66
83 45 0.34
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (82 bp):
AAAATGAAAGGAGCATTCCAGGGAAGCGTTTTCCATTATTATTCAGAGAATCTCTGTCATGTCAT
AGTGTTTCACCCCATCC
Found at i:719398 original size:220 final size:221
Alignment explanation
Indices: 719006--719406 Score: 576
Period size: 220 Copynumber: 1.8 Consensus size: 221
718996 TAGGGAAACA
* * * * *
719006 TTTTCCTTTATTATTCAGATAATCTCTTACATGTCATAGTGTTCCATCCCATCCGAAATGAAATG
1 TTTTCCATTATTATTCAGAGAATCTCTTACATGTCATAGTGTTCAACCCCATCCGAAATGAAAGG
* * * *
719071 TGCATTCCAGGGGAAACGTTTTCCATTATTATTGAAAGGATATATGTCATATCATAGTGTTTCAT
66 TGCATTCCAGGGGAAACGTTTTCCATTATTATTCAAAGAATATACGTCATATCATAATGTTTCAT
* * *
719136 CCCATCCGAAATGAAAGGTACGGTTCAAGGGAAACGTTTTCCATTATTATTCAACCCATCTAAAA
131 CCCATCCAAAATGAAAAGTACGGTTCAAGGGAAACATTTTCCATTATTATTCAACCCATCTAAAA
719201 ATGAAAGGAGCGTTCCAGGAGAAGTG
196 ATGAAAGGAGCGTTCCAGGAGAAGTG
719227 TTTTCCATTATTATTCAGAGAATCTC-TATCATGTCATAGTGTTCAACCCCATCCGAAATGAAAG
1 TTTTCCATTATTATTCAGAGAATCTCTTA-CATGTCATAGTGTTCAACCCCATCCGAAATGAAAG
* * * * *
719291 GTGCATTCCA-GGGAAGCGTTTTCCATTATTATTCAGAGAATCTCCGTCATTTCATAATGTTTCA
65 GTGCATTCCAGGGGAAACGTTTTCCATTATTATTCAAAGAATATACGTCATATCATAATGTTTCA
* *
719355 TCCCATCCAAAATGAAAAG-A-GCTTTCCAAGGGAAGCATTTTCCATTATTATT
130 TCCCATCCAAAATGAAAAGTACG-GTT-CAAGGGAAACATTTTCCATTATTATT
719407 AAAGAATCTT
Statistics
Matches: 158, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
218 1 0.01
219 3 0.02
220 88 0.56
221 66 0.42
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (221 bp):
TTTTCCATTATTATTCAGAGAATCTCTTACATGTCATAGTGTTCAACCCCATCCGAAATGAAAGG
TGCATTCCAGGGGAAACGTTTTCCATTATTATTCAAAGAATATACGTCATATCATAATGTTTCAT
CCCATCCAAAATGAAAAGTACGGTTCAAGGGAAACATTTTCCATTATTATTCAACCCATCTAAAA
ATGAAAGGAGCGTTCCAGGAGAAGTG
Found at i:719602 original size:30 final size:29
Alignment explanation
Indices: 719567--719625 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
719557 CAATTTAAGG
719567 CAAAATGGT-TTTGGACTTGAATTAAATTTA
1 CAAAAT-GTATTTGGACTT-AATTAAATTTA
*
719597 CAAAATGTATTTGGACTTAATTGAATTTA
1 CAAAATGTATTTGGACTTAATTAAATTTA
719626 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (29 bp):
CAAAATGTATTTGGACTTAATTAAATTTA
Found at i:719716 original size:19 final size:19
Alignment explanation
Indices: 719689--719750 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 19
719679 AATGTTTTTA
* *
719689 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
719708 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
719727 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
719746 TGAAC
1 TGAAC
719751 CCCGAGGCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:719882 original size:21 final size:21
Alignment explanation
Indices: 719856--719897 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
719846 ATTTGAATAT
*
719856 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
719877 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
719898 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:719959 original size:21 final size:21
Alignment explanation
Indices: 719926--719965 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
719916 TTTTTGCAGA
*
719926 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
719948 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
719966 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:721506 original size:65 final size:63
Alignment explanation
Indices: 721390--721597 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 63
721380 TTTCAAAGTG
* * **
721390 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATT-AAACATCAAATGCATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCAAATGCATT
721453 TC
62 TC
* *
721455 ATGCATCGATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCAAATGCCTT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAG-GCTATTT-TG-AAACATCAAATGCATT
*
721518 TG
62 TC
* * * *
721520 ATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATTCATTTC
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCAAATGCATTTC
721584 ATGCATCGATGCAC
1 ATGCATCGATGCAC
721598 TCTTAGTGAA
Statistics
Matches: 121, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 46 0.38
65 66 0.55
66 5 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCAAATGCATTTC
Found at i:721841 original size:7 final size:7
Alignment explanation
Indices: 721829--721854 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
721819 CAAGAAAACA
721829 CAAGAAT
1 CAAGAAT
721836 CAAGAAT
1 CAAGAAT
721843 CAAGAAT
1 CAAGAAT
721850 CAAGA
1 CAAGA
721855 GAGAATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (7 bp):
CAAGAAT
Found at i:727441 original size:23 final size:22
Alignment explanation
Indices: 727371--727448 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 22
727361 CACTTAACAT
*
727371 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATG-AACCC-TTGAATG
* *
727395 TGCATCGAT--ACACCATGAAGG
1 TGCATCGATGAAC-CCTTGAATG
727416 TGCATCGATGAACGCCTTGAATG
1 TGCATCGATGAAC-CCTTGAATG
727439 TGCATCGATG
1 TGCATCGATG
727449 CACAAGGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 19 0.42
24 9 0.20
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (22 bp):
TGCATCGATGAACCCTTGAATG
Found at i:730309 original size:57 final size:56
Alignment explanation
Indices: 730240--730346 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
730230 TGCACATACT
* * *
730240 ATGCATCAATGCACT-TAGAGT-TTTATGAAAACATCGAATGCATTTGATGCACCAGCC
1 ATGCATCAATGCACTAT-GACTATTT-TG-AAACATCGAATACATTTCATGCACCAGCC
*
730297 ATGCATCGATGCACTATGACTATTTTGAAACATCGAATACATTTCATGCA
1 ATGCATCAATGCACTATGACTATTTTGAAACATCGAATACATTTCATGCA
730347 TCGATGCACT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
56 21 0.48
57 19 0.43
58 4 0.09
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (56 bp):
ATGCATCAATGCACTATGACTATTTTGAAACATCGAATACATTTCATGCACCAGCC
Found at i:732081 original size:330 final size:330
Alignment explanation
Indices: 731480--733131 Score: 3065
Period size: 330 Copynumber: 5.0 Consensus size: 330
731470 TATATCGTGG
731480 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
1 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
*
731545 TTTAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTGTGTCCAACGTGATAAC
66 TTCAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTGTGTCCAACGTGATAAC
*
731610 GGATGCAATTGGATAGTTTGTATTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
131 GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
*
731675 CAACAGTCCCCATACATGTTATGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
196 CAACAGTCCCCATACATGTTGTGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
*
731740 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCTCATATACCTATTGCAATGTTGATT
261 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCCCATATACCTATTGCAATGTTGATT
731805 TCTGC
326 TCTGC
*
731810 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTATAATATTCGTAATTCAG
1 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
* *
731875 TTCAGTCCAGAGTCGATCGATCTGCCACCAAAAAGTATGTTTGTTACTGTGTCCAACGTGATAAC
66 TTCAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTGTGTCCAACGTGATAAC
731940 GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
131 GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
*
732005 CAACAGTCCCCATACATATTGTGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
196 CAACAGTCCCCATACATGTTGTGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
732070 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCCCATATACCTATTGCAATGTTGATT
261 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCCCATATACCTATTGCAATGTTGATT
732135 TCTGC
326 TCTGC
*
732140 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCATAATTCAG
1 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
*
732205 TTCAGTCCAGAGTCGATCGATCTACCACCAAAAATTATGTTTGTTATTGTGTCCAACGTGATAAC
66 TTCAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTGTGTCCAACGTGATAAC
* *
732270 GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATATTGATATATAGGAACTAATAAAATA
131 GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
732335 CAACAGTCCCCATACATGTTGTGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
196 CAACAGTCCCCATACATGTTGTGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
*
732400 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGTAAGCTCCCATATACCTATTGCAATGTTGATT
261 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCCCATATACCTATTGCAATGTTGATT
**
732465 TCTAT
326 TCTGC
732470 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
1 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
*
732535 TTCAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTGTGTCCAACGTGATAAA
66 TTCAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTGTGTCCAACGTGATAAC
*
732600 GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATATTGATATATAGGAACTAACAAAATA
131 GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
*
732665 CAACAGTCCCCATACATGTTGTGCACATGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
196 CAACAGTCCCCATACATGTTGTGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
* *
732730 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGTTCCCATATACCTATTGCAATGTTAATT
261 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCCCATATACCTATTGCAATGTTGATT
* *
732795 TATGT
326 TCTGC
732800 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
1 AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
*
732865 TTCAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTATGTCCAACGTGATAAC
66 TTCAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTGTGTCCAACGTGATAAC
*
732930 GGATGCAATTGGATAGTTTATGTTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
131 GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
*
732995 CAACAGT-CCCATACATGTTGTGCACAGGATAT-AACTAGAATCATCTAAACTTGGACTCCAACG
196 CAACAGTCCCCATACATGTTGTGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
733058 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCCCATATACCTATTGCAATGTTGATT
261 TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCCCATATACCTATTGCAATGTTGATT
733123 TCTGC
326 TCTGC
733128 AATA
1 AATA
733132 CAATCTCAAT
Statistics
Matches: 1283, Mismatches: 39, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
328 100 0.08
329 24 0.02
330 1159 0.90
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (330 bp):
AATAGAGTTCACATCTAAAGAAGAAACAATTATGTCAATTAAGAATTACAATATTCGTAATTCAG
TTCAGTCCAGAGTCGATCGATCTACCACCAAAAAGTATGTTTGTTATTGTGTCCAACGTGATAAC
GGATGCAATTGGATAGTTTGTGTTTCAAAGAAGAAGAATACTGATATATAGGAACTAACAAAATA
CAACAGTCCCCATACATGTTGTGCACAGGATATCAACTAGAACCATCTAAACTTGGACTCCAACG
TGATTTGCCAAACTATCATGCCCTTGGTCAGAGCAAGCTCCCATATACCTATTGCAATGTTGATT
TCTGC
Found at i:738531 original size:20 final size:21
Alignment explanation
Indices: 738506--738557 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
738496 TTTTCCCAAT
*
738506 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
738526 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
738547 TCGCAATGCGA
1 TCGCAATGCGA
738558 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:738571 original size:20 final size:20
Alignment explanation
Indices: 738546--738659 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
738536 AATTGGAAAA
*
738546 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
738566 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
738586 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
738607 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
738627 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
738647 TTCGCAACGCGAT
1 ATCGCAACGCGAT
738660 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:738590 original size:61 final size:61
Alignment explanation
Indices: 738543--738659 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
738533 GCGAATTGGA
* * * * *
738543 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
738604 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
738660 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:739262 original size:19 final size:19
Alignment explanation
Indices: 739215--739256 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
739205 ACGAGAGAAT
*
739215 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
739234 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
739253 CGCA
1 CGCA
739257 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:739274 original size:19 final size:19
Alignment explanation
Indices: 739252--739302 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
739242 GAAACAAAAA
739252 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
739271 TCGCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
739290 TCGCATTGCGATT
1 TCGCATTGCGATT
739303 CTCTCGTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:739316 original size:14 final size:14
Alignment explanation
Indices: 739297--739329 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
739287 ATTTCGCATT
739297 GCGATTCTCTCGTC
1 GCGATTCTCTCGTC
739311 GCGATTCTCTCGTC
1 GCGATTCTCTCGTC
739325 GCGAT
1 GCGAT
739330 AGTCATTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.33, G:0.24, T:0.33
Consensus pattern (14 bp):
GCGATTCTCTCGTC
Found at i:739348 original size:33 final size:34
Alignment explanation
Indices: 739311--739386 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
739301 TTCTCTCGTC
*
739311 GCGATTCTCTCGTCGCGATAGTCATTT-CGCGTT
1 GCGATTCTCTCGTCGCGATAGTCATTTCCGCATT
*
739344 GCGATTCTCTCGTTGCGATAGTCATTTCCGCATT
1 GCGATTCTCTCGTCGCGATAGTCATTTCCGCATT
739378 GCGATTCTC
1 GCGATTCTC
739387 ATTATCTCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 26 0.65
34 14 0.35
ACGTcount: A:0.13, C:0.28, G:0.22, T:0.37
Consensus pattern (34 bp):
GCGATTCTCTCGTCGCGATAGTCATTTCCGCATT
Found at i:739357 original size:14 final size:14
Alignment explanation
Indices: 739295--739362 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 14
739285 TTATTTCGCA
739295 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
739309 TCGCGATTCTCTCG
1 TTGCGATTCTCTCG
* *
739323 TCGCGATAGTCATTTCGCG
1 TTGCGAT--TC---TCTCG
739342 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
739356 TTGCGAT
1 TTGCGAT
739363 AGTCATTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 31 0.69
16 2 0.04
17 2 0.04
19 10 0.22
ACGTcount: A:0.10, C:0.28, G:0.24, T:0.38
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:739388 original size:20 final size:19
Alignment explanation
Indices: 739351--739411 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
739341 GTTGCGATTC
**
739351 TCTCGTTGCGATAGTCATT
1 TCTCGTTGCGATTCTCATT
739370 TC-CGCATTGCGATTCTCATT
1 TCTCG--TTGCGATTCTCATT
*
739390 ATCTCGTTGCGATTTTCATT
1 -TCTCGTTGCGATTCTCATT
739410 TC
1 TC
739412 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 4 0.11
20 25 0.71
21 2 0.06
22 2 0.06
ACGTcount: A:0.15, C:0.25, G:0.16, T:0.44
Consensus pattern (19 bp):
TCTCGTTGCGATTCTCATT
Found at i:741485 original size:21 final size:21
Alignment explanation
Indices: 741461--741527 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
741451 TCATTCCTCG
741461 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
741482 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
741503 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
741524 AGAG
1 AGAG
741528 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:741485 original size:42 final size:42
Alignment explanation
Indices: 741409--741527 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
741399 GACTCGCCTG
* * * * * * *
741409 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
741451 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
741493 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
741528 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:742890 original size:14 final size:14
Alignment explanation
Indices: 742871--742906 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
742861 ATTGTTTAAT
742871 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
742885 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
742899 TGATTTGT
1 TGATTTGT
742907 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:743111 original size:33 final size:33
Alignment explanation
Indices: 743069--743228 Score: 250
Period size: 33 Copynumber: 4.8 Consensus size: 33
743059 ATTAAATTCG
*
743069 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* **
743102 CGTTGCGATTTTCATTTCGCATTGCGAAAT-TAG
1 CGTTGCGATTTTCATTTCGCATTGCG-ATTCTCT
743135 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
743168 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
743201 CATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
743229 AGTAATTTCC
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
32 2 0.02
33 113 0.97
34 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:743173 original size:14 final size:14
Alignment explanation
Indices: 743154--743210 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
743144 TTTCATTTCG
743154 CATTGCGATTCTCT
1 CATTGCGATTCTCT
*
743168 CATTGCGATTTTCATTTCG
1 CATTGCGA--TTC---TCT
743187 CATTGCGATTCTCT
1 CATTGCGATTCTCT
743201 CATTGCGATT
1 CATTGCGATT
743211 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (14 bp):
CATTGCGATTCTCT
Found at i:745534 original size:12 final size:12
Alignment explanation
Indices: 745517--745541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
745507 TCTTCGGGGA
745517 CTTTTTCTTCTT
1 CTTTTTCTTCTT
745529 CTTTTTCTTCTT
1 CTTTTTCTTCTT
745541 C
1 C
745542 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:745750 original size:24 final size:24
Alignment explanation
Indices: 745716--745769 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
745706 CTGAAACATC
* *
745716 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
745740 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
745764 ATCAAA
1 ATCAAA
745770 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:746852 original size:20 final size:20
Alignment explanation
Indices: 746827--746884 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
746817 ATTCATTTGA
746827 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
746847 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
746867 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
746885 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:746927 original size:14 final size:16
Alignment explanation
Indices: 746907--746980 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
746897 TGAAAATCGC
746907 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
746922 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
746939 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
746958 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
746974 -TTGCGAT
1 ATTGCGAT
746981 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:746944 original size:19 final size:19
Alignment explanation
Indices: 746903--746970 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
746893 GAAATGAAAA
746903 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
746919 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
746936 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
746955 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
746971 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:747106 original size:14 final size:14
Alignment explanation
Indices: 747087--747123 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
747077 CATCAATTAA
747087 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
747101 ACAAATCATCTTTT
1 ACAAATCAACATTT
747115 ACAAATCAA
1 ACAAATCAA
747124 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:749013 original size:20 final size:19
Alignment explanation
Indices: 748990--749057 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
748980 GAAACTTAAA
748990 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
* *
749010 ATCGCAACACGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
749030 ATCGTAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
749049 ATCGCAACG
1 ATCGCAACG
749058 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
19 13 0.35
20 23 0.62
21 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:749065 original size:14 final size:14
Alignment explanation
Indices: 749046--749103 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
749036 ATGCGAAATG
749046 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
749060 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
749076 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
749092 AAAATCGCAACG
1 AAAATCGCAACG
749104 TGAAACATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:749088 original size:32 final size:33
Alignment explanation
Indices: 749038--749108 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 33
749028 CTATCGTAAT
749038 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
749071 GCGAAATG-AAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
*
749103 GTGAAA
1 GCGAAA
749109 CATAAATCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 29 0.78
33 8 0.22
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAACGACAAAATCGCAAC
Found at i:749160 original size:14 final size:14
Alignment explanation
Indices: 749137--749194 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
749127 TTTCATTTCG
*
749137 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
749151 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
749167 CACATTGCGATTTTGT
1 --CGTTGCGATTTTGT
749183 CGTTGCGATTTT
1 CGTTGCGATTTT
749195 CATTTCGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 21 0.60
16 4 0.11
18 10 0.29
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:749207 original size:33 final size:33
Alignment explanation
Indices: 749120--749210 Score: 139
Period size: 32 Copynumber: 2.8 Consensus size: 33
749110 ATAAATCGCA
* *
749120 TTGCGATTTTCATTTCGCGTTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
749153 TTGCGA-TTTCATTTCACATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
749185 TTGCGATTTTCATTTCGTATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
749211 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 29 0.56
33 23 0.44
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:749229 original size:20 final size:20
Alignment explanation
Indices: 749204--749249 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
749194 TCATTTCGTA
749204 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
749224 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
749244 TTGCGA
1 TTGCGA
749250 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:749753 original size:18 final size:18
Alignment explanation
Indices: 749730--749769 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
749720 TCAGATAATG
*
749730 GCTCTGGGTGAGGTGATA
1 GCTCTGGGCGAGGTGATA
*
749748 GCTCTGGGCGAGGTGATG
1 GCTCTGGGCGAGGTGATA
749766 GCTC
1 GCTC
749770 CCGAAGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.17, G:0.45, T:0.25
Consensus pattern (18 bp):
GCTCTGGGCGAGGTGATA
Found at i:751115 original size:20 final size:20
Alignment explanation
Indices: 751090--751132 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
751080 AATAGTTTCT
751090 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
751110 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
751130 GAA
1 GAA
751133 TTTGACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:751138 original size:20 final size:20
Alignment explanation
Indices: 751100--751168 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
751090 GAAAATGAAA
* **
751100 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATTTGACT
751120 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
751140 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
751160 ATCGCAACG
1 ATCGCAACG
751169 AGACAATCGC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:751449 original size:20 final size:21
Alignment explanation
Indices: 751424--751472 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
751414 TCTGAGAGAT
751424 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
751444 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
*
751466 AGAGATG
1 GGAGATG
751473 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:751458 original size:22 final size:22
Alignment explanation
Indices: 751431--751474 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
751421 GATGGAGATA
*
751431 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
751453 GACGGATTTCGTCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
751475 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:751687 original size:20 final size:20
Alignment explanation
Indices: 751662--751755 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
751652 GATTATGTAT
751662 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
751682 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
751702 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
751723 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
751743 TATCGCATTGCGA
1 TATCGCGTTGCGA
751756 TTTTCCCAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 45 0.73
21 12 0.19
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:751756 original size:20 final size:19
Alignment explanation
Indices: 751642--751756 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 19
751632 CGCTTTGAAA
*
751642 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* *
751663 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* *
751683 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
751703 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
751724 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
751744 ATCGCATTGCGAT
1 ATCGCATTGCGAT
751757 TTTCCCAATT
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.06
20 48 0.62
21 23 0.29
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:751774 original size:21 final size:21
Alignment explanation
Indices: 751745--751837 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
751735 ATAGTCAGTA
751745 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
751766 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
751786 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
751807 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
751827 TCGCATTGCGA
1 TCGCATTGCGA
751838 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:751775 original size:41 final size:41
Alignment explanation
Indices: 751684--751818 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
751674 AAAGTCAGTA
* * * ** *
751684 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
751724 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
751766 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
751807 TCGCGTTGCGAT
1 TCGCGTTGCGAT
751819 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:751819 original size:41 final size:41
Alignment explanation
Indices: 751745--751837 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
751735 ATAGTCAGTA
751745 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
751786 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
751827 TCGCATTGCGA
1 TCGCATTGCGA
751838 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:752622 original size:21 final size:20
Alignment explanation
Indices: 752578--752622 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
752568 TTTATGGATT
* *
752578 GAATATCGATATTCAAGTGA
1 GAATATCGATACTCAAGGGA
*
752598 GAATATCGATAGCTCACGGGA
1 GAATATCGATA-CTCAAGGGA
752619 GAAT
1 GAAT
752623 TGATATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (20 bp):
GAATATCGATACTCAAGGGA
Found at i:753062 original size:2 final size:2
Alignment explanation
Indices: 753055--753086 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
753045 AATACAAGCA
753055 AT 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 AT
753087 GACGATTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:755616 original size:9 final size:9
Alignment explanation
Indices: 755585--755618 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
755575 ATTTAATTTC
755585 ATTTTTCTT
1 ATTTTTCTT
*
755594 ATTATTTATT
1 ATT-TTTCTT
755604 ATTTTTCTT
1 ATTTTTCTT
755613 ATTTTT
1 ATTTTT
755619 TTCGTCTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTCTT
Found at i:755659 original size:2 final size:2
Alignment explanation
Indices: 755652--755690 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
755642 TAGTATTCTA
*
755652 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
755691 CATTTTGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:757091 original size:10 final size:10
Alignment explanation
Indices: 757070--757104 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
757060 TTCCTTTACC
757070 ATTTATTTTTT
1 ATTTA-TTTTT
757081 ATTTATTTTT
1 ATTTATTTTT
*
757091 ATTTATTTCT
1 ATTTATTTTT
757101 ATTT
1 ATTT
757105 TACTAACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:767173 original size:5 final size:5
Alignment explanation
Indices: 767160--767202 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
767150 AGCATCTCCA
*
767160 AAAAA AAAAC AAAAC AAAA- AAAAC AAAAC AAAAC AAAA- AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
767203 CCAGAATGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
4 8 0.23
5 27 0.77
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:767180 original size:14 final size:14
Alignment explanation
Indices: 767161--767202 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
767151 GCATCTCCAA
767161 AAAAAAAACAAAAC
1 AAAAAAAACAAAAC
767175 AAAAAAAACAAAAC
1 AAAAAAAACAAAAC
767189 AAAACAAAA-AAAAC
1 AAAA-AAAACAAAAC
767203 CCAGAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 23 0.85
15 4 0.15
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:767187 original size:19 final size:19
Alignment explanation
Indices: 767159--767202 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
767149 GAGCATCTCC
767159 AAAAAA-AAAACAAAACAA
1 AAAAAACAAAACAAAACAA
767177 AAAAAACAAAACAAAACAA
1 AAAAAACAAAACAAAACAA
767196 AAAAAAC
1 AAAAAAC
767203 CCAGAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAACAAAACAAAACAA
Found at i:767601 original size:105 final size:105
Alignment explanation
Indices: 767419--768274 Score: 1310
Period size: 105 Copynumber: 8.3 Consensus size: 105
767409 AGGTTTTACC
767419 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
767484 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
767524 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
767589 ATGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
767629 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
767694 ACGAAGGGACCGCTGGTTGTCAA-TAA-A-----CAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
767727 C----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
767788 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
767828 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
767893 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
767933 CAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
767998 ACGAAGGGACCGCTGGTTGTCAA-TAA-A-----CAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
768031 C----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * * *
768092 ACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAA-CATTTCTCAAATT
* * *
768133 CAGAGCCAATTTCAACTTCACAACGAAGGAGATTGGGC-CCTAGACAACACAAGTTCAACTTCAC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCAC
* * * ***
768197 AACGAAGGGACCGCTGGTTGCCAACAAGTA-ATTTCCCGGTTT
65 GACGAAGGGACCGCTGGTTGTCAACAA--ACATTTCTCAAATT
* *
768239 TAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
768275 CCACGAAACA
Statistics
Matches: 702, Mismatches: 23, Indels: 51
0.90 0.03 0.07
Matches are distributed among these distances:
94 165 0.24
95 4 0.01
96 1 0.00
97 1 0.00
98 12 0.02
101 6 0.01
102 7 0.01
103 2 0.00
104 4 0.01
105 380 0.54
106 119 0.17
108 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:767700 original size:43 final size:43
Alignment explanation
Indices: 767639--767794 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
767629 CAGAGCCAAT
767639 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *** ** * * * *
767682 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
1 TTCAACTTCACAACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
767733 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
767776 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
767795 GACCGCTGGT
Statistics
Matches: 84, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
43 38 0.45
44 3 0.04
45 3 0.04
46 7 0.08
48 7 0.08
49 3 0.04
50 3 0.04
51 20 0.24
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:767869 original size:199 final size:200
Alignment explanation
Indices: 767419--768274 Score: 1153
Period size: 199 Copynumber: 4.2 Consensus size: 200
767409 AGGTTTTACC
767419 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
767484 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCAA-TAA-A----TCAATTTC--A-CCAATTTCAACTTCACAACG
*
767549 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACA
122 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
767614 AACATTTCTCAAATT
187 AA-ATTTCTCAAATT
767629 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
767694 ACGAAGGGACCGCTGGTTGTCAATAAA-CAATTTC-CCAATTTCAACTTCACAACGAAGGATATT
66 ACGAAGGGACCGCTGGTTGTCAATAAATCAATTTCACCAATTTCAACTTCACAACGAAGGATATT
767757 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCT
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-ATTTCT
767822 CAAATT
195 CAAATT
767828 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
767893 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCAA-TAA-A----TCAATTTC--A-CCAATTTCAACTTCACAACG
* *
767958 AAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-T
122 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
*
768022 AAA-----CAATTT
187 AAATTTCTCAAATT
768031 C----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
768092 ACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
66 ACGAAGGGACCGCTGGTTGTCAAT--A-AA--T--CAATTTC--A-CCAATTTCAACTTCACAAC
* * * * *
768157 GAAGGAGATTGGGC-CCTAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGCCAA
121 GAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
* ***
768221 CAAGTAATTTCCCGGTTT
185 CAA--AATTTCTCAAATT
* *
768239 TAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
768275 CCACGAAACA
Statistics
Matches: 594, Mismatches: 23, Indels: 56
0.88 0.03 0.08
Matches are distributed among these distances:
198 1 0.00
199 272 0.46
200 88 0.15
201 3 0.01
203 14 0.02
206 6 0.01
208 6 0.01
209 4 0.01
210 170 0.29
212 30 0.05
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (200 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAATAAATCAATTTCACCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAATTTCTC
AAATT
Found at i:767973 original size:304 final size:304
Alignment explanation
Indices: 767424--768274 Score: 1490
Period size: 304 Copynumber: 2.8 Consensus size: 304
767414 TTACCCAGAG
767424 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
767489 GGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGA
66 GGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGA
*
767554 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAT
131 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAT
767619 TTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
196 TTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
767684 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
261 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
767728 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
767793 GGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGA
66 GGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGA
767858 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAT
131 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAT
*
767923 TTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTT
196 TTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
767988 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
261 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
768032 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * * * *
768097 GGGACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 GGGACCGCTGGTTGTCAACAAA-CATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGG
* * * * *
768162 AGATTGGGC-CCTAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGCCAACAAGT
130 ATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA--
* *** * *
768226 A-ATTTCCCGGTTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
192 ACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
768275 CCACGAAACA
Statistics
Matches: 524, Mismatches: 19, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
304 390 0.74
305 92 0.18
306 41 0.08
307 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (304 bp):
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGA
TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAT
TTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
Found at i:768098 original size:43 final size:43
Alignment explanation
Indices: 767943--768098 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 43
767933 CAGAGCCAAT
*
767943 TTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *** ** * * * *
767986 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
1 TTCAACTTCACAACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
768037 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
768080 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
768099 GACCGCTGGT
Statistics
Matches: 83, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
43 38 0.46
44 2 0.02
45 3 0.04
46 7 0.08
48 7 0.08
49 3 0.04
50 3 0.04
51 20 0.24
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:769893 original size:9 final size:9
Alignment explanation
Indices: 769862--769895 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
769852 ATTTAATTTC
769862 ATTTTTCTT
1 ATTTTTCTT
*
769871 ATTATTTATT
1 ATT-TTTCTT
769881 ATTTTTCTT
1 ATTTTTCTT
769890 ATTTTT
1 ATTTTT
769896 TTCGTCTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTCTT
Found at i:769936 original size:2 final size:2
Alignment explanation
Indices: 769929--769985 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
769919 TAGTATTCTA
769929 AT AT AT AT AT AT 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 AT AT AT AT AT AT
*
769971 AT AT CT AT AT AT AT A
1 AT AT AT AT AT AT AT A
769986 CATTTTGTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:795241 original size:20 final size:20
Alignment explanation
Indices: 795216--795253 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
795206 CAAATGTTAA
795216 AGAATGCATCGATACACTGT
1 AGAATGCATCGATACACTGT
* *
795236 AGAATGTATCGATGCACT
1 AGAATGCATCGATACACT
795254 TCAAGGGAAA
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:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATACACTGT
Found at i:796265 original size:30 final size:29
Alignment explanation
Indices: 796204--796267 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
796194 ACTGGCAATA
* *
796204 AACCGACTGAAACCGATAAAACTGGGGTG
1 AACCGACTGAAACCGACAAAACCGGGGTG
* **
796233 AACCGGCTGAAAACCGACAAAACCGGTTTG
1 AACCGACTG-AAACCGACAAAACCGGGGTG
796263 AACCG
1 AACCG
796268 TCGGTTCACT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.38, C:0.25, G:0.25, T:0.12
Consensus pattern (29 bp):
AACCGACTGAAACCGACAAAACCGGGGTG
Found at i:798291 original size:39 final size:41
Alignment explanation
Indices: 798236--798316 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
798226 AACACAAATA
798236 CAATTTATTTGTTCAAACC-G-ACATTTACAACCTACAATC
1 CAATTTATTTGTTCAAACCAGAACATTTACAACCTACAATC
*
798275 CAATTTA-TTGTGTCAAACCGAGAACATTTACAGCCTACAATC
1 CAATTTATTTGT-TCAAACC-AGAACATTTACAACCTACAATC
798317 GTTGCGGGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
38 4 0.11
39 14 0.38
41 1 0.03
42 18 0.49
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.31
Consensus pattern (41 bp):
CAATTTATTTGTTCAAACCAGAACATTTACAACCTACAATC
Found at i:800304 original size:18 final size:20
Alignment explanation
Indices: 800283--800332 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
800273 GCTAAATTTG
800283 GTATCGATACTCA-GGT-GA
1 GTATCGATACTCAGGGTCGA
*
800301 GTATCGATACCCAGGGTCGA
1 GTATCGATACTCAGGGTCGA
*
800321 GTATGGATACTC
1 GTATCGATACTC
800333 CCTATAGGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 12 0.44
19 3 0.11
20 12 0.44
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (20 bp):
GTATCGATACTCAGGGTCGA
Found at i:811052 original size:10 final size:10
Alignment explanation
Indices: 811027--811076 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
811017 GGTCTTTTTA
811027 TATTATTTAAT
1 TATTA-TTAAT
811038 T-TTATTAAT
1 TATTATTAAT
811047 TATTATTAAT
1 TATTATTAAT
811057 TATTATT-AT
1 TATTATTAAT
*
811066 TATTATCAAT
1 TATTATTAAT
811076 T
1 T
811077 TTACATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 14 0.39
10 21 0.58
11 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTAAT
Found at i:811085 original size:19 final size:19
Alignment explanation
Indices: 811045--811086 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
811035 AATTTTATTA
* *
811045 ATTATTATTAATTATTATT
1 ATTATTATCAATTATTAAT
811064 ATTATTATCAATT-TTACAT
1 ATTATTATCAATTATTA-AT
811083 ATTA
1 ATTA
811087 CATTTTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATTATCAATTATTAAT
Found at i:811234 original size:25 final size:25
Alignment explanation
Indices: 811206--811328 Score: 246
Period size: 25 Copynumber: 4.9 Consensus size: 25
811196 CCCAACCTAG
811206 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
811231 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
811256 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
811281 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
811306 CAGATTAGGGTTTCAAACCCTAA
1 CAGATTAGGGTTTCAAACCCTAA
811329 TCCCCTACTC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 98 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:812668 original size:2 final size:2
Alignment explanation
Indices: 812656--812710 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
812646 AATATTTATT
812656 TA TA T- TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
812696 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
812711 TCCCTTATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:824686 original size:11 final size:11
Alignment explanation
Indices: 824670--824705 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
824660 TATTACACTT
824670 AAAAAAAATGA
1 AAAAAAAATGA
824681 AAAAAAAATGA
1 AAAAAAAATGA
824692 AAAAAAAATGA
1 AAAAAAAATGA
824703 AAA
1 AAA
824706 GAAGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:825721 original size:44 final size:44
Alignment explanation
Indices: 825670--825773 Score: 208
Period size: 44 Copynumber: 2.4 Consensus size: 44
825660 TGACCGGACT
825670 TCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCG
1 TCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCG
825714 TCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCG
1 TCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCG
825758 TCCTCATCACGTAGGA
1 TCCTCATCACGTAGGA
825774 ACCGAGTTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (44 bp):
TCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCG
Found at i:825776 original size:24 final size:24
Alignment explanation
Indices: 825705--825776 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
825695 ACATTAGGAT
825705 AACCAGCCGTCCTCATCACGTAGG
1 AACCAGCCGTCCTCATCACGTAGG
* * *
825729 ----AGCCGT-GTCAACA-TTAGG
1 AACCAGCCGTCCTCATCACGTAGG
825747 ATAACCAGCCGTCCTCATCACGTAGG
1 --AACCAGCCGTCCTCATCACGTAGG
825773 AACC
1 AACC
825777 GAGTTATCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 16
0.61 0.11 0.29
Matches are distributed among these distances:
18 4 0.12
19 5 0.15
20 6 0.18
24 10 0.29
25 5 0.15
26 4 0.12
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.18
Consensus pattern (24 bp):
AACCAGCCGTCCTCATCACGTAGG
Found at i:825918 original size:134 final size:130
Alignment explanation
Indices: 825714--826001 Score: 395
Period size: 134 Copynumber: 2.2 Consensus size: 130
825704 TAACCAGCCG
825714 TCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTAGGAACCGA
1 TCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTAGGAACCGA
* * * * *
825779 GTTATCACCCTTCCTAAAGGTGGCC-AGAGTTTTTCATCATGTATGAACCGTGTCATCCCCAGAC
66 GTTATCA-----CCTAAAGATGGCCAAGAATTCTTCATCATGTAGGAACAGTGTCAT-CCCAGAC
825843 CAGATC
125 CAGATC
* *
825849 TCTTCATCACGTATGAGCCGTGTCAACCA-TA-GATAACCAGCCGTCCTCATCACGTAGGAACCG
1 TCCTCATCACGTAGGAGCCGTGTCAA-CATTAGGATAACCAGCCGTCCTCATCACGTAGGAACCG
* * *
825912 TGTTATCACCTAAAGATGGCCAAGAATTCTTCATCATGTAGGAGCAGTGTCATCCCTGACCAGAT
65 AGTTATCACCTAAAGATGGCCAAGAATTCTTCATCATGTAGGAACAGTGTCATCCCAGACCAGAT
825977 C
130 C
825978 TCCTCATCA-GTAGGAGCCGTGTCA
1 TCCTCATCACGTAGGAGCCGTGTCA
826002 CCCTTAGACG
Statistics
Matches: 139, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
128 14 0.10
129 32 0.23
130 26 0.19
134 39 0.28
135 26 0.19
136 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (130 bp):
TCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTAGGAACCGA
GTTATCACCTAAAGATGGCCAAGAATTCTTCATCATGTAGGAACAGTGTCATCCCAGACCAGATC
Found at i:826222 original size:10 final size:10
Alignment explanation
Indices: 826197--826246 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
826187 GGTCTTTTTA
826197 TATTATTTAAT
1 TATTA-TTAAT
826208 T-TTATTAAT
1 TATTATTAAT
826217 TATTATTAAT
1 TATTATTAAT
826227 TATTATT-AT
1 TATTATTAAT
*
826236 TATTATCAAT
1 TATTATTAAT
826246 T
1 T
826247 TTACATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 14 0.39
10 21 0.58
11 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTAAT
Found at i:826255 original size:19 final size:19
Alignment explanation
Indices: 826215--826256 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
826205 AATTTTATTA
* *
826215 ATTATTATTAATTATTATT
1 ATTATTATCAATTATTAAT
826234 ATTATTATCAATT-TTACAT
1 ATTATTATCAATTATTA-AT
826253 ATTA
1 ATTA
826257 CATTTTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATTATCAATTATTAAT
Found at i:826404 original size:25 final size:25
Alignment explanation
Indices: 826376--826523 Score: 278
Period size: 25 Copynumber: 5.9 Consensus size: 25
826366 CCCAACCTAG
826376 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
826401 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
*
826426 CAGATTAGGGTTTTAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
826451 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
*
826476 CAGATTAGGGTTTTAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
826501 CAGATTAGGGTTTCAAACCCTAA
1 CAGATTAGGGTTTCAAACCCTAA
826524 TCCCCTACTC
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 119 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:827881 original size:2 final size:2
Alignment explanation
Indices: 827874--827900 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
827864 ATATTTATTT
827874 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 T
827901 TCCCTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:832829 original size:20 final size:20
Alignment explanation
Indices: 832804--832869 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
832794 TGTTTGGCTA
832804 TGAATGGAACCATTCAGCTT
1 TGAATGGAACCATTCAGCTT
*
832824 TGAATGGAACCATTCAGCTC
1 TGAATGGAACCATTCAGCTT
* *
832844 TGAATGGAACCATTAAGCGT
1 TGAATGGAACCATTCAGCTT
832864 TGAATG
1 TGAATG
832870 TTGAATTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (20 bp):
TGAATGGAACCATTCAGCTT
Found at i:833075 original size:15 final size:16
Alignment explanation
Indices: 833037--833077 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
833027 ACAGAGCTTC
833037 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
*
833053 TGAATCATTCAGCGTT
1 TGAATCATTCAGCATT
833069 T-AATCATTC
1 TGAATCATTC
833078 TGAAGTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (16 bp):
TGAATCATTCAGCATT
Found at i:837329 original size:18 final size:18
Alignment explanation
Indices: 837306--837342 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
837296 TGTTTGTTTG
837306 TGTAAGTATGACGAAAGT
1 TGTAAGTATGACGAAAGT
837324 TGTAAGTATGACGAAAGT
1 TGTAAGTATGACGAAAGT
837342 T
1 T
837343 CACGGCTGTC
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:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (18 bp):
TGTAAGTATGACGAAAGT
Found at i:843861 original size:28 final size:29
Alignment explanation
Indices: 843810--843870 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
843800 CGTAAATTGT
** *
843810 TAAATAATTTATTTTATATTGTATTATGC
1 TAAATAATTTATTTTATAGAGTATTAGGC
843839 TAAATAATTT-TTTTATAGAGTATTAGGC
1 TAAATAATTTATTTTATAGAGTATTAGGC
843867 TAAA
1 TAAA
843871 CAATAGCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (29 bp):
TAAATAATTTATTTTATAGAGTATTAGGC
Found at i:845659 original size:17 final size:17
Alignment explanation
Indices: 845634--845668 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
845624 TTAAACAAAG
845634 TTTAAATTTTGAAATTT
1 TTTAAATTTTGAAATTT
*
845651 TTTATATTTTGAAATTT
1 TTTAAATTTTGAAATTT
845668 T
1 T
845669 AATAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTAAATTTTGAAATTT
Done.