Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3724
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: 125580
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Found at i:3243 original size:47 final size:47
Alignment explanation
Indices: 3191--3825 Score: 1141
Period size: 47 Copynumber: 13.5 Consensus size: 47
3181 GATAATTGTG
* *
3191 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
3238 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3285 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3334 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3381 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3428 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3475 ATGTGAAAGTGTATATATGTG-TGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3521 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3568 ATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3616 ATGTGAAAGTGTAATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGT-ATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
3664 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3711 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3758 ATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
3804 ATGTGAAAGTGTATATATGTGA
1 ATGTGAAAGTGTATATATGTGA
3826 CAGGCCAGTG
Statistics
Matches: 569, Mismatches: 12, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
46 81 0.14
47 367 0.64
48 60 0.11
49 61 0.11
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:3722 original size:283 final size:284
Alignment explanation
Indices: 3191--3825 Score: 1195
Period size: 283 Copynumber: 2.2 Consensus size: 284
3181 GATAATTGTG
* *
3191 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
3256 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
3321 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
3386 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
196 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
3451 AAGGCCTAATGGCCGATGTGATGA
261 AAGGCCTAATGGCCGATGTGATGA
*
3475 ATGTGAAAGTGTATATATGTG-TGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
3539 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG-CTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
3603 GCCGATGTGATGAATGTGAAAGTGTAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
131 GCCGATGTGATGAATGTGAAAGTGT-ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
3668 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
195 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
3733 TAAGGCCTAATGGCCGATGTGATGA
260 TAAGGCCTAATGGCCGATGTGATGA
3758 ATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
3822 GTGA
66 GTGA
3826 CAGGCCAGTG
Statistics
Matches: 343, Mismatches: 6, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
282 31 0.09
283 283 0.83
284 29 0.08
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (284 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATGGCCGATGTGATGA
Found at i:6184 original size:40 final size:40
Alignment explanation
Indices: 6139--6348 Score: 302
Period size: 39 Copynumber: 5.3 Consensus size: 40
6129 GAGTGATAAG
*
6139 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC
6179 GGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC
*
6218 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC
* * *
6258 GGACTAAGT-CCAAAGAGCATTCGTGCTAGTGATATAT-C
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC
* * *
6296 -GGCTAAATCCCGAAGAGCATTCGTGCTACTGTTGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC
* *
6335 GGACTAAGTTCCGA
1 GGGCTAAGTCCCGA
6349 CCGACTAAGT
Statistics
Matches: 151, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
37 6 0.04
38 25 0.17
39 64 0.42
40 56 0.37
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC
Found at i:6235 original size:79 final size:78
Alignment explanation
Indices: 6139--6348 Score: 332
Period size: 79 Copynumber: 2.7 Consensus size: 78
6129 GAGTGATAAG
*
6139 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTG
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTG
*
6204 CTAGTGATGTATCC
66 CTAGTGATATAT-C
*
6218 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTCCAAAGAGCATTCGTG
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTG
6283 CTAGTGATATATC
66 CTAGTGATATATC
* * * *
6296 -GGCTAAATCCCGAAGAGCATTCGTGCTACTGTTGTATCCGGACTAAGTTCCGA
1 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAG-TCCGA
6349 CCGACTAAGT
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
77 43 0.35
78 5 0.04
79 74 0.61
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTG
CTAGTGATATATC
Found at i:6435 original size:93 final size:92
Alignment explanation
Indices: 6271--6441 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 92
6261 CTAAGTCCAA
* *
6271 AGAGCATTCGTGCTAGTGATATATCGGCTAAATCCCGAAGAGCATTCGTGCTACTGTTGTATCCG
1 AGAGCATTCGTGCTAGTGATATATCGGCTAAATCCCAAAGAGCATTCGTGCTACTGATGTATCCG
6336 GACTAAGTTCCGACCGACTAAGTTCCG
66 GACTAAGTTCCGACCGACTAAGTTCCG
*
6363 AGAG-ATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCTAGTGATGTATC
1 AGAGCATTCGTGCTAGTGATATAT-C-GGCTAAATCCCAAAGAGCATTCGTGCTACTGATGTATC
*
6427 CGGGCTAAGTTCCGA
64 CGGACTAAGTTCCGA
6442 AGAGCGTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
91 19 0.26
92 5 0.07
93 49 0.67
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (92 bp):
AGAGCATTCGTGCTAGTGATATATCGGCTAAATCCCAAAGAGCATTCGTGCTACTGATGTATCCG
GACTAAGTTCCGACCGACTAAGTTCCG
Found at i:6477 original size:133 final size:132
Alignment explanation
Indices: 6221--6477 Score: 349
Period size: 133 Copynumber: 1.9 Consensus size: 132
6211 TGTATCCGGG
* *
6221 CTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTCCAAAGAGCATTCGTGCTA
1 CTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGACTAAATCCAAAGAGCATTCGTGCTA
* *
6286 GTGATATATCGGCTAAATCCCGAAGAGCATTCGTGCTACTGTTGTATCCGGACTAAGTTCCGACC
66 GTGATATATCGGCTAAATCCCGAAGAGCATTCGTGCTACTGATATATCCGGACTAAGTTCCGACC
6351 GA
131 GA
* * *
6353 CTAAGTTCCG-AGAG-ATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCT
1 CTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGACTAAAT-CCAAAGAGCATTCGTGCT
* * * * *
6416 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCGTTCGTGCTAGTGATATATCCGTG-CTAAGTT
65 AGTGATATAT-C-GGCTAAATCCCGAAGAGCATTCGTGCTACTGATATATCCG-GACTAAGTT
6478 TCGAAGAGCA
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
130 26 0.24
131 31 0.28
132 10 0.09
133 41 0.38
134 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (132 bp):
CTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGACTAAATCCAAAGAGCATTCGTGCTA
GTGATATATCGGCTAAATCCCGAAGAGCATTCGTGCTACTGATATATCCGGACTAAGTTCCGACC
GA
Found at i:6539 original size:40 final size:40
Alignment explanation
Indices: 6353--6527 Score: 228
Period size: 40 Copynumber: 4.4 Consensus size: 40
6343 TTCCGACCGA
*
6353 CTAAGTTCCG-AGAG-ATTCGTGCTAGTGATATATCCGGG
1 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
* * *
6391 CTAAATCCCAAAGAGCATTCGTGCTAGTGATGTATCCGGG
1 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
* * *
6431 CTAAGTTCCGAAGAGCGTTCGTGCTAGTGATATATCCGTG
1 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
** * *
6471 CTAAGTTTCGAAGAGCATTCGTGCTGGTGTTATATCCGGG
1 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
*
6511 CTAGGTCCCGAAGAGCA
1 CTAAGTCCCGAAGAGCA
6528 ATCATGCTGG
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
38 7 0.06
39 4 0.03
40 106 0.91
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
Found at i:6813 original size:11 final size:11
Alignment explanation
Indices: 6797--6822 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6787 GAGATCGGTC
6797 AGTGGGCACTA
1 AGTGGGCACTA
6808 AGTGGGCACTA
1 AGTGGGCACTA
6819 AGTG
1 AGTG
6823 TGTGAAGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.15, G:0.38, T:0.19
Consensus pattern (11 bp):
AGTGGGCACTA
Found at i:10166 original size:47 final size:47
Alignment explanation
Indices: 10114--10856 Score: 1157
Period size: 47 Copynumber: 15.6 Consensus size: 47
10104 GATATTTGTG
* *
10114 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
10161 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
10208 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10257 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10306 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
10353 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10402 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10449 ATGTGAAAGTGTATATATGTGATGAGTG-CTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
10496 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10543 ATGTGAAAGTGTATATATATGTGATAATGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10592 ATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10641 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
10688 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10737 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
10784 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTCGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
10831 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
10857 TCCCGAAGGG
Statistics
Matches: 652, Mismatches: 32, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
46 3 0.00
47 369 0.57
48 3 0.00
49 277 0.42
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:10221 original size:96 final size:94
Alignment explanation
Indices: 10114--10856 Score: 1157
Period size: 96 Copynumber: 7.8 Consensus size: 94
10104 GATATTTGTG
* *
10114 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
10179 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
10208 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
10273 ATATGTGATAAGGCCTAATGGCCAATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10306 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
10371 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10402 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
10467 GTGATGAGTG-CTAATGGCCGATGTGATGA
66 GTGATAAG-GCCTAATGGCCGATGTGATGA
*
10496 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
10561 ATGTGATAATGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
10592 ATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
10657 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
10688 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
10753 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
10784 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTCGCCAACGTGATGGATGTGAAAGTGTATAAA
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
10848 TGTGATAAG
65 TGTGATAAG
10857 TCCCGAAGGG
Statistics
Matches: 615, Mismatches: 23, Indels: 22
0.93 0.03 0.03
Matches are distributed among these distances:
93 2 0.00
94 149 0.24
95 2 0.00
96 371 0.60
98 91 0.15
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:10708 original size:335 final size:334
Alignment explanation
Indices: 10114--10856 Score: 1315
Period size: 335 Copynumber: 2.2 Consensus size: 334
10104 GATATTTGTG
* * *
10114 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATGAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
10179 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
65 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
*
10244 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
130 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCAATGTGATGAATG
10309 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
195 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
10374 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
260 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
10439 GATGTGATGA
325 GATGTGATGA
10449 ATGTGAAAGTGTATATATGTGATGAGTGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATGAG-GCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
10514 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAATGCCTAATG
65 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
*
10579 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATG
130 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCAATGTGATGAATG
10644 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
195 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
10709 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
260 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
10774 GATGTGATGA
325 GATGTGATGA
* * * * * * * * *
10784 ATGTGAAAGTGTATATATGTGACAGAGCCGAGTCGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGA-TGAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
10849 GTGATAAG
65 GTGATAAG
10857 TCCCGAAGGG
Statistics
Matches: 390, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
335 386 0.99
336 4 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (334 bp):
ATGTGAAAGTGTATATATGTGATGAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCAATGTGATGAATGT
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGT
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
ATGTGATGA
Found at i:16190 original size:18 final size:18
Alignment explanation
Indices: 16169--16203 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16159 ACTCTTGTAC
*
16169 TCATGTTCATCTCCATCA
1 TCATCTTCATCTCCATCA
*
16187 TCATCTTCATCTTCATC
1 TCATCTTCATCTCCATC
16204 TCTACCTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.34, G:0.03, T:0.43
Consensus pattern (18 bp):
TCATCTTCATCTCCATCA
Found at i:16976 original size:13 final size:13
Alignment explanation
Indices: 16958--16983 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16948 GAGCAATCGT
16958 ACACGGGCGTGTC
1 ACACGGGCGTGTC
16971 ACACGGGCGTGTC
1 ACACGGGCGTGTC
16984 CCTGTCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:25059 original size:3 final size:3
Alignment explanation
Indices: 25051--25080 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
25041 GTTCTTAAAA
25051 AAT AAT AAT AAT AA- AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
25081 CATACATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:25068 original size:14 final size:14
Alignment explanation
Indices: 25049--25078 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25039 TTGTTCTTAA
25049 AAAATAATAATAAT
1 AAAATAATAATAAT
25063 AAAATAATAATAAT
1 AAAATAATAATAAT
25077 AA
1 AA
25079 TACATACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:25073 original size:17 final size:16
Alignment explanation
Indices: 25046--25080 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
25036 GACTTGTTCT
25046 TAAAAAATAATAATAA
1 TAAAAAATAATAATAA
25062 TAAAATAATAATAATAA
1 TAAAA-AATAATAATAA
25079 TA
1 TA
25081 CATACATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAAATAATAATAA
Found at i:25103 original size:16 final size:16
Alignment explanation
Indices: 25082--25112 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25072 ATAATAATAC
25082 ATACATACATGCATAT
1 ATACATACATGCATAT
*
25098 ATACATACATTCATA
1 ATACATACATGCATA
25113 GCGATTTTAG
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:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (16 bp):
ATACATACATGCATAT
Found at i:34304 original size:63 final size:63
Alignment explanation
Indices: 34204--34327 Score: 196
Period size: 63 Copynumber: 2.0 Consensus size: 63
34194 AGCAACAAAT
* * *
34204 TAGCCTCCAATCCATAGTTTTCACTCATTGATAATCATGGTAGAGAAAGGACTAACAATAAAC
1 TAGCCTCCAATCCATAATTTCCACTCATTGATAATCATGGTAGAGAAAAGACTAACAATAAAC
*
34267 TAGCCTCCAATCCATAATTTCCACTTC-TTGATCATCATGGTAGAGAAAAGACTAACAATAA
1 TAGCCTCCAATCCATAATTTCCAC-TCATTGATAATCATGGTAGAGAAAAGACTAACAATAA
34328 CAAAGTTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
63 54 0.96
64 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (63 bp):
TAGCCTCCAATCCATAATTTCCACTCATTGATAATCATGGTAGAGAAAAGACTAACAATAAAC
Found at i:38669 original size:19 final size:16
Alignment explanation
Indices: 38635--38682 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
38625 AAAAAAAGTG
38635 ACTATTTTAATAATAT
1 ACTATTTTAATAATAT
38651 ACTATTATT-ATATATAT
1 ACTATT-TTAATA-ATAT
38668 A-TATTTTACATAATA
1 ACTATTTTA-ATAATA
38683 CCTAGAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.07
16 16 0.57
17 10 0.36
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
ACTATTTTAATAATAT
Found at i:39338 original size:3 final size:3
Alignment explanation
Indices: 39330--39369 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
39320 GAGATTGTTA
39330 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
39370 CACTTCTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44094 original size:25 final size:27
Alignment explanation
Indices: 44061--44123 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
44051 AAAATTTACA
* *
44061 ACAATAATATAAAATA-AT-GATATGT
1 ACAAAAATATAAAATATATACATATGT
*
44086 ACAAAAATAT-ATATATATACATATGT
1 ACAAAAATATAAAATATATACATATGT
44112 ACATAAAATATA
1 ACA-AAAATATA
44124 CACTAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 4 0.13
25 11 0.35
26 9 0.29
27 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (27 bp):
ACAAAAATATAAAATATATACATATGT
Found at i:44840 original size:24 final size:24
Alignment explanation
Indices: 44804--44893 Score: 144
Period size: 25 Copynumber: 3.7 Consensus size: 24
44794 TTTTTGGGGG
44804 GGGTTAGGTTTTTCTTTTTTTTTTT
1 GGGTTAGGTTTTT-TTTTTTTTTTT
44829 GGGTTAGGTTTTTTTTTTTTTTTT
1 GGGTTAGGTTTTTTTTTTTTTTTT
44853 GGGTTAGGTTTTTTTCTTTTTTTTT
1 GGGTTAGGTTTTTTT-TTTTTTTTT
* *
44878 TGGTTAAGTTTTTTTT
1 GGGTTAGGTTTTTTTT
44894 GGGGAGGGCT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
24 27 0.44
25 35 0.56
ACGTcount: A:0.06, C:0.02, G:0.20, T:0.72
Consensus pattern (24 bp):
GGGTTAGGTTTTTTTTTTTTTTTT
Found at i:44844 original size:49 final size:49
Alignment explanation
Indices: 44791--44893 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 49
44781 GGTTTCTTGG
*
44791 TTTTTTTTGGGGGGGGTTAGGTTTTTCTT-TTTTTTTTTGGGTTAGGTTT
1 TTTTTTTTGGGGGGGGTTAGGTTTTT-TTCTTTTTTTTTGGGTTAAGTTT
***** *
44840 TTTTTTTTTTTTTGGGTTAGGTTTTTTTCTTTTTTTTTTGGTTAAGTTT
1 TTTTTTTTGGGGGGGGTTAGGTTTTTTTCTTTTTTTTTGGGTTAAGTTT
44889 TTTTT
1 TTTTT
44894 GGGGAGGGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
48 2 0.04
49 44 0.96
ACGTcount: A:0.05, C:0.02, G:0.22, T:0.71
Consensus pattern (49 bp):
TTTTTTTTGGGGGGGGTTAGGTTTTTTTCTTTTTTTTTGGGTTAAGTTT
Found at i:45946 original size:75 final size:74
Alignment explanation
Indices: 45762--46412 Score: 718
Period size: 72 Copynumber: 8.7 Consensus size: 74
45752 GTGATCTGAA
45762 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA--
* * *
45827 ATGTGAAC-CGAG
63 ACGTG-TCTTGAG
*
45839 GCTCAACTCA-CTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
45903 TGTCTTGAG
66 TGTCTTGAG
** * * * *
45912 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
**
45975 TGTCCCGAG
66 TGTCTTGAG
*
45984 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGA-A-AAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAAC
*
46046 ATGTCTTGAG
65 GTGTCTTGAG
** * *
46056 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTTGACAACAGAAATTGAAATTACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTTTGAAAACAGAAATTGAAAATACCT
* * *
46121 CAGCGTGTCCTGAA
61 CAACGTGTCTTGAG
* * * * *
46135 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTAAAAACAGAAATCGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
**
46198 TGTCCCGAG
66 TGTCTTGAG
*
46207 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA--
46272 AC-T-TCTTGAG
63 ACGTGTCTTGAG
** * *
46282 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAA-TGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGAAATTGAAAATACCTCA-
46346 CAC-T-TCTTGAG
63 -ACGTGTCTTGAG
** *
46357 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAA
46413 ACGGAAATTG
Statistics
Matches: 504, Mismatches: 49, Indels: 44
0.84 0.08 0.07
Matches are distributed among these distances:
72 185 0.37
73 36 0.07
74 31 0.06
75 131 0.26
76 36 0.07
77 22 0.04
78 10 0.02
79 53 0.11
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTGAG
Found at i:46160 original size:151 final size:152
Alignment explanation
Indices: 45757--46722 Score: 893
Period size: 151 Copynumber: 6.3 Consensus size: 152
45747 AGTGTGTGAT
*
45757 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA----TTT-TTTTGAAAGACAGAAATTGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTTTGAAA-ACAGAAATTGAAA
* *
45817 ATACCTCAGCATGTGAACC-GAGGCTCAACTCA-CTCTCGCAATATAAGTTGATTTTTTTGAAAA
65 ATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAA
* * *
45880 CAGAAATTGAAAATACCTCAACGTGTC
126 CAAAAATTGAAATTACCTCAGCGTGTC
* ** *
45907 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-------ATTTTGAAAACAGAAATTGAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTTTGAAAACAGAAATTGAAAA
* * *
45965 TACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGAAAA
66 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAA
* *
46029 ATTGAAAATACCTCAGCATGTC
131 ATTGAAATTACCTCAGCGTGTC
* ** * * *
46051 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTTGACAACAGAAATTGAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTTTGAAAACAGAAATTGAAAA
* * ** *
46116 TACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTAAAAACAGAA
66 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAA
*
46180 ATCGAAATTACCTCAGCGTGTC
131 ATTGAAATTACCTCAGCGTGTC
* *
46202 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTT-TTTTGAAAGACAAAAATTGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTTTGAAA-ACAGAAATTGAAA
* * **
46262 ATACCTCAGCACT-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAA
65 ATACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGA-AA
* *
46326 CAGAAA-TGAAATTACCTCAGCACT-TC
126 CAAAAATTGAAATTACCTCAGC-GTGTC
* ** ** *
46352 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGG
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT---------ATTTTG-AAAACAG
* * * * *
46417 AAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTT
56 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
46482 TTTGACAACAGAAATTGAAATTACCTCAGTGTGTC
119 TTTGA-AACAAAAATTGAAATTACCTCAGCGTGTC
** ** *
46517 CTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAGGCAGAAATTGAAAAACGG
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT---------ATTTTG-AAAACAG
* * *
46582 AAATTG-AAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATATGAGTTGATTTT
56 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
*
46646 TTTTGAAAGACAGAAATTGAAATTACCTCAGCGTGTC
118 TTTTG-AA-ACAAAAATTGAAATTACCTCAGCGTGTC
46683 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
46723 AAAAAGTAGA
Statistics
Matches: 705, Mismatches: 71, Indels: 64
0.84 0.08 0.08
Matches are distributed among these distances:
144 63 0.09
145 22 0.03
146 25 0.04
147 79 0.11
148 9 0.01
150 83 0.12
151 136 0.19
154 3 0.00
163 1 0.00
164 95 0.13
165 94 0.13
166 95 0.13
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (152 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTTTGAAAACAGAAATTGAAAA
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAA
ATTGAAATTACCTCAGCGTGTC
Found at i:46531 original size:165 final size:165
Alignment explanation
Indices: 46295--46722 Score: 700
Period size: 165 Copynumber: 2.6 Consensus size: 165
46285 CAACTCATTT
* *
46295 CTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAA-TGAAATTACCTCAGCACT-TCTTGAGG
1 CTCGCAATATGAGTTGA-TTTTTTTTGACAACAGAAATTGAAATTACCTCAG-AGTGTCCTGAGG
**
46358 CTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
64 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
46423 AAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCG
129 -AAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCG
* *
46461 CTCGCAATACGAGTTGA-TTTTTTTGACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCT
1 CTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCAGAGTGTCCTGAGGCT
**
46525 CAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAA
66 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAA
*
46590 ATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCG
131 ATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCG
* *
46625 CTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
1 CTCGCAATATGAGTTGATTTTTTTTGACA-ACAGAAATTGAAATTACCTCAGAGTGTCCTGAGGC
46690 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
65 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
46723 AAAAAGTAGA
Statistics
Matches: 244, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
164 71 0.29
165 92 0.38
166 81 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (165 bp):
CTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCAGAGTGTCCTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAA
ATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCG
Found at i:46539 original size:74 final size:75
Alignment explanation
Indices: 46416--46577 Score: 202
Period size: 74 Copynumber: 2.1 Consensus size: 75
46406 TTGAAAAACG
* * **
46416 GAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTC-GAGTGTGACCTAAGGCTCAACTCACCGCTCGCAATACGAGTCAATTT
46481 TTTTGACAA-CA
65 TTTTGA-AAGCA
* * * * *
46492 GAAATTGAAATTACCTC-AGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTT
1 GAAATTGAAAATACCTCGAGTGTGACCTAAGGCTCAACTCACCGCTCGCAATACGAGTCAATTTT
46556 TTTGAAAGGCA
66 TTTGAAA-GCA
46567 GAAATTGAAAA
1 GAAATTGAAAA
46578 ACGGAAATTG
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
73 2 0.03
74 44 0.59
75 12 0.16
76 16 0.22
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGAGTGTGACCTAAGGCTCAACTCACCGCTCGCAATACGAGTCAATTTT
TTTGAAAGCA
Found at i:46645 original size:90 final size:90
Alignment explanation
Indices: 46492--46667 Score: 257
Period size: 90 Copynumber: 2.0 Consensus size: 90
46482 TTTGACAACA
* *
46492 GAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAA-TTTT
1 GAAATTGAAATTACCTCAGTGTGACCTGAGGCTCAACTCACCGCTCGCAATATGAGTCAATTTTT
*
46556 TTTGAAAGGCAGAAATTGAAAAACG
66 TTTGAAAGACAGAAATTGAAAAACG
* * **
46581 GAAATTGAAA-TACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATATGAGTTGATTT
1 GAAATTGAAATTACCTC--AGTGTGACCTGAGGCTCAACTCACCGCTCGCAATATGAGTCAATTT
46645 TTTTTGAAAGACAGAAATTGAAA
64 TTTTTGAAAGACAGAAATTGAAA
46668 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
88 6 0.08
89 10 0.13
90 37 0.48
91 24 0.31
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (90 bp):
GAAATTGAAATTACCTCAGTGTGACCTGAGGCTCAACTCACCGCTCGCAATATGAGTCAATTTTT
TTTGAAAGACAGAAATTGAAAAACG
Found at i:46705 original size:76 final size:76
Alignment explanation
Indices: 46571--46722 Score: 234
Period size: 76 Copynumber: 2.0 Consensus size: 76
46561 AAGGCAGAAA
* * *
46571 TTGAAAAACGGAAATTGAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATATG
1 TTGAAAAACAGAAATTGAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATATG
46636 AGTTGATTTTTT
65 AGTTGATTTTTT
* *
46648 TTGAAAGACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAA-TACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATATG
46712 AGTTGATTTTT
65 AGTTGATTTTT
46723 AAAAAGTAGA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
76 39 0.57
77 18 0.26
78 12 0.17
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (76 bp):
TTGAAAAACAGAAATTGAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATATGA
GTTGATTTTTT
Found at i:46968 original size:123 final size:126
Alignment explanation
Indices: 46659--46975 Score: 489
Period size: 126 Copynumber: 2.5 Consensus size: 126
46649 TGAAAGACAG
* *
46659 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
* *
46724 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTAACAACAT
66 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTCAATCTTAACAACAT
* * *
46785 AAATTGAAAATACCTCAGCGTGTCCTGGGGCTCAACTCACCTCTCACAATATGAGATGATTTTGA
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
*
46850 AAAAGTAGAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAG-TCAAT-TTAA-AACAT
66 AAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGTTCAATCTTAACAACAT
* * * *
46908 AAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
46973 AAA
66 AAA
46976 CAAAAATTAA
Statistics
Matches: 175, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
123 66 0.38
124 4 0.02
125 3 0.02
126 100 0.57
127 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (126 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTCAATCTTAACAACAT
Found at i:47009 original size:71 final size:70
Alignment explanation
Indices: 46866--47041 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 70
46856 AGAAATTAAA
* * * * * *
46866 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAATTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
46930 CCCCG
66 CCCCG
46935 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAATTAAAAATACCTCAACGT
* **
47000 GTCTTG
65 GCCCCG
*
47006 AGGCTCAACTTA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
47042 CCTTGAAAAG
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.06
71 62 0.66
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:57793 original size:19 final size:18
Alignment explanation
Indices: 57767--57818 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
57757 AGGGTTTCTT
57767 GGTTTTTTTTGGGGGTTA
1 GGTTTTTTTTGGGGGTTA
**
57785 GGTTTTTTTTTTTGGGTTA
1 GG-TTTTTTTTGGGGGTTA
57804 GGTTTTTTTTGGGGG
1 GGTTTTTTTTGGGGG
57819 GCTTAATGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.04, C:0.00, G:0.37, T:0.60
Consensus pattern (18 bp):
GGTTTTTTTTGGGGGTTA
Found at i:61532 original size:20 final size:20
Alignment explanation
Indices: 61494--61532 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61484 TAACATTAAT
* *
61494 AATAAATATAGTAGGAATAA
1 AATAAATATAATAAGAATAA
*
61514 AATAAATATAATAATAATA
1 AATAAATATAATAAGAATA
61533 TACACACAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
AATAAATATAATAAGAATAA
Found at i:61885 original size:22 final size:20
Alignment explanation
Indices: 61830--61886 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
61820 AACAATAGTA
61830 ATAAAGATAAAAAT-ATATAC
1 ATAAA-ATAAAAATAATATAC
** *
61850 ATAAAATAGTAATAATATAT
1 ATAAAATAAAAATAATATAC
61870 ATAACTAATAAAAATAA
1 ATAA--AATAAAAATAA
61887 AAATAAAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
22 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAATAAAAATAATATAC
Found at i:68431 original size:18 final size:17
Alignment explanation
Indices: 68399--68432 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
68389 AATCATAGAT
68399 ATCAAAATAAAATATAA
1 ATCAAAATAAAATATAA
*
68416 ATCAAAGATAATATATA
1 ATCAAA-ATAAAATATA
68433 TGTGTTGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (17 bp):
ATCAAAATAAAATATAA
Found at i:72575 original size:60 final size:60
Alignment explanation
Indices: 72482--72601 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
72472 AGCAATCTTC
* * *
72482 TCATTATACCTTAAGACTCTATCAGCCCTACCACCACTACAAAACTTGCTGAAAATCCTA
1 TCATTATACCTCAAGACTCTATCAGCCCTACCACCACTACAAAACCTGATGAAAATCCTA
72542 TCATTATACCTCAAGACTCTATCAGCCCTACCACCACTACAAAACCTGATGAAAATCCTA
1 TCATTATACCTCAAGACTCTATCAGCCCTACCACCACTACAAAACCTGATGAAAATCCTA
72602 CAGCCACTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.36, C:0.33, G:0.07, T:0.25
Consensus pattern (60 bp):
TCATTATACCTCAAGACTCTATCAGCCCTACCACCACTACAAAACCTGATGAAAATCCTA
Found at i:75582 original size:132 final size:130
Alignment explanation
Indices: 75342--75588 Score: 334
Period size: 132 Copynumber: 1.9 Consensus size: 130
75332 TCAGACATGA
* * * * *
75342 ATACAGTATCAAACGCATGCAGTGACAAACATCTTGTTTGTCATAAGTAATCTACTTAGAGCTAG
1 ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGTAATCTACTCAGAGCTAG
* *
75407 ACACATGCATAATTTCTCAAAACATCTACAGTGAAACCACCAGAGTTGTAAATTACCCTTAAACT
66 ACACATACATAATTTCTCAAAACACCTACAGTGAAACCACCAGAGTTGTAAATTACCCTTAAACT
* * * *
75472 ATACAATATCAAACACATGCTGTGACCAACATTTTATTTATCATAGGTAATATCTACTCAGAGCT
1 ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGT-A-ATCTACTCAGAGCT
* * *
75537 AGACGCATACAT-ATTTCCTCAAAATACCTACAGTGAAACCTCCAGAGTTGTA
64 AGACACATACATAATTT-CTCAAAACACCTACAGTGAAACCACCAGAGTTGTA
75589 TGACACCCTT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 40 0.40
131 5 0.05
132 55 0.55
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (130 bp):
ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGTAATCTACTCAGAGCTAG
ACACATACATAATTTCTCAAAACACCTACAGTGAAACCACCAGAGTTGTAAATTACCCTTAAACT
Found at i:80160 original size:13 final size:13
Alignment explanation
Indices: 80144--80182 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
80134 TTAAAATTAT
80144 TTTTACTTATAAA
1 TTTTACTTATAAA
80157 TTTTA-TTAT---
1 TTTTACTTATAAA
80166 TTTTACTTATAAA
1 TTTTACTTATAAA
80179 TTTT
1 TTTT
80183 CTTTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
9 5 0.23
10 4 0.18
12 4 0.18
13 9 0.41
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTACTTATAAA
Found at i:80165 original size:22 final size:22
Alignment explanation
Indices: 80139--80182 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
80129 TGTTTTTAAA
80139 ATTATTTTTACTTATAAATTTT
1 ATTATTTTTACTTATAAATTTT
80161 ATTATTTTTACTTATAAATTTT
1 ATTATTTTTACTTATAAATTTT
80183 CTTTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATTTTTACTTATAAATTTT
Found at i:80194 original size:2 final size:2
Alignment explanation
Indices: 80187--80215 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
80177 AATTTTCTTT
80187 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 T
80216 TTCAAGTAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85431 original size:21 final size:20
Alignment explanation
Indices: 85398--85442 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
85388 TAACCACAAG
*
85398 TTGACCTATGTTGATCGACA
1 TTGACCTATGTTGATCAACA
* *
85418 TTGACTTAGTGTTGATTAACA
1 TTGACCTA-TGTTGATCAACA
85439 TTGA
1 TTGA
85443 TAGATCAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGACCTATGTTGATCAACA
Found at i:88130 original size:50 final size:51
Alignment explanation
Indices: 88054--88222 Score: 243
Period size: 52 Copynumber: 3.3 Consensus size: 51
88044 GGACCATGAC
* *
88054 AACAAGTGATAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAG
1 AACAAGTGACAAGTGATAAATGATAGCTTCGGCTACACTTATTTGATCAAG
*
88105 AACAAGTGA-AAGTGATAAATGATAGCTTCGGCTACACTGATCTCTGATCAAG
1 AACAAGTGACAAGTGATAAATGATAGCTTCGGCTACACTTAT-T-TGATCAAG
* *
88157 AACAAGTGA-AAGTGATAAATGATAGCTTCGGCTACACCTATCTGATCAAG
1 AACAAGTGACAAGTGATAAATGATAGCTTCGGCTACACTTATTTGATCAAG
* *
88207 GACAAATGACAAGTGA
1 AACAAGTGACAAGTGA
88223 AAAGTAGTAG
Statistics
Matches: 108, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
50 45 0.42
51 16 0.15
52 47 0.44
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (51 bp):
AACAAGTGACAAGTGATAAATGATAGCTTCGGCTACACTTATTTGATCAAG
Found at i:88172 original size:52 final size:51
Alignment explanation
Indices: 88054--88222 Score: 238
Period size: 50 Copynumber: 3.3 Consensus size: 51
88044 GGACCATGAC
* *
88054 AACAAGTGATAAGTGATAAGTGATAGCTTCGGCTACACTTATT-TGATCAAG
1 AACAAGTGACAAGTGATAAATGATAGCTTCGGCTACAC-TATTCTGATCAAG
88105 AACAAGTGA-AAGTGATAAATGATAGCTTCGGCTACACTGATCTCTGATCAAG
1 AACAAGTGACAAGTGATAAATGATAGCTTCGGCTACACT-AT-TCTGATCAAG
88157 AACAAGTGA-AAGTGATAAATGATAGCTTCGGCTACACCTA-TCTGATCAAG
1 AACAAGTGACAAGTGATAAATGATAGCTTCGGCTACA-CTATTCTGATCAAG
* *
88207 GACAAATGACAAGTGA
1 AACAAGTGACAAGTGA
88223 AAAGTAGTAG
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
49 1 0.01
50 46 0.42
51 16 0.15
52 45 0.41
53 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (51 bp):
AACAAGTGACAAGTGATAAATGATAGCTTCGGCTACACTATTCTGATCAAG
Found at i:88256 original size:31 final size:31
Alignment explanation
Indices: 88218--88397 Score: 306
Period size: 31 Copynumber: 5.8 Consensus size: 31
88208 ACAAATGACA
* * *
88218 AGTGAAAAGTAGTAGCTTCGACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
88249 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
88280 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
88311 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
88342 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
88373 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
88398 AAGTGACAAG
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 141 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:89999 original size:26 final size:26
Alignment explanation
Indices: 89955--90029 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
89945 TTTTCACCCT
89955 AATTTTA-CCCT-GTAAAATTTTGAC
1 AATTTTAGCCCTGGTAAAATTTTGAC
89979 AATTTTA-CTCGC-GGTAAAATTTTGAC
1 AATTTTAGC-C-CTGGTAAAATTTTGAC
*
90005 GATTTTAGCCCTGGTAAAATTTTGA
1 AATTTTAGCCCTGGTAAAATTTTGA
90030 AAAAATTCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
24 8 0.18
25 2 0.04
26 34 0.76
27 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (26 bp):
AATTTTAGCCCTGGTAAAATTTTGAC
Found at i:93845 original size:19 final size:18
Alignment explanation
Indices: 93817--93854 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
93807 TTGAATTGTG
*
93817 ATTGAAAGTGAATTTGAA
1 ATTGAAAGTGAATTAGAA
93835 ATTGAAAAGTGAATTAGAA
1 ATTG-AAAGTGAATTAGAA
93854 A
1 A
93855 CCCTATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
ATTGAAAGTGAATTAGAA
Found at i:100033 original size:17 final size:16
Alignment explanation
Indices: 100006--100051 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
99996 GGCTAAGGTT
100006 TTCTTTTCTTTTCTTC
1 TTCTTTTCTTTTCTTC
*
100022 TTCTTCTTCTTTTTTTC
1 TTCTT-TTCTTTTCTTC
*
100039 TT-TTTTTTTTTCT
1 TTCTTTTCTTTTCT
100052 ATTTTTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.27
16 7 0.27
17 12 0.46
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTCTTTTCTTTTCTTC
Found at i:100129 original size:13 final size:13
Alignment explanation
Indices: 100091--100130 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
100081 ATATTAGATT
*
100091 ATATCAAAAAAAA
1 ATATAAAAAAAAA
**
100104 ATATTTAAAAAAA
1 ATATAAAAAAAAA
100117 ATATAAAAAAAAA
1 ATATAAAAAAAAA
100130 A
1 A
100131 CAAAAAAGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
ATATAAAAAAAAA
Found at i:100818 original size:12 final size:12
Alignment explanation
Indices: 100803--100850 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
100793 TATTTCTCTC
100803 TTTATATTTATG
1 TTTATATTTATG
100815 TTTATATTTTATG
1 TTTATA-TTTATG
** *
100828 TATTATACCTATC
1 T-TTATATTTATG
100841 TTTATATTTA
1 TTTATATTTA
100851 CGCATGAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:101032 original size:22 final size:22
Alignment explanation
Indices: 101004--101045 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
100994 TAACGTGCTA
* *
101004 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
101026 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
101046 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:101120 original size:38 final size:36
Alignment explanation
Indices: 101084--101163 Score: 70
Period size: 38 Copynumber: 2.2 Consensus size: 36
101074 TACCATTATT
* * * * *
101084 ATTACTACTTCCATTATCTTTTATCTCTAACTATTATG
1 ATTACTACGTACATTATCATTTATAT-T-ACTATTATT
** *
101122 ATTTTTACGTACATTATCATTTATATTATTATTATT
1 ATTACTACGTACATTATCATTTATATTACTATTATT
101158 ATTACT
1 ATTACT
101164 TCTTTTTATT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
36 11 0.34
37 1 0.03
38 20 0.62
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.54
Consensus pattern (36 bp):
ATTACTACGTACATTATCATTTATATTACTATTATT
Found at i:111650 original size:19 final size:19
Alignment explanation
Indices: 111626--111662 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
111616 TTAATGTGCG
*
111626 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
111645 AATATATATATATGTGTG
1 AATATATATATATGTGTG
111663 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:111936 original size:41 final size:41
Alignment explanation
Indices: 111874--112213 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
111864 GTTTGGAATT
* *
111874 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
111915 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
111956 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
111997 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
112038 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
112079 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
112120 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
112161 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
112202 GGTGATCCGAAT
1 GGTGATCTGAAT
112214 ATGATGAATT
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:112011 original size:82 final size:82
Alignment explanation
Indices: 111874--112207 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
111864 GTTTGGAATT
111874 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
111939 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
111956 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
112021 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
112038 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
112103 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
112120 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
112185 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
112202 GGTGAT
1 GGTGAT
112208 CCGAATATGA
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:112642 original size:103 final size:103
Alignment explanation
Indices: 112459--112669 Score: 415
Period size: 103 Copynumber: 2.1 Consensus size: 103
112449 TTTATAGTTT
112459 ATAA-GTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
112523 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
112561 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
112626 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
112664 ATAATG
1 ATAATG
112670 ATTATGTTAG
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 4 0.04
103 104 0.96
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (103 bp):
ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
Found at i:118644 original size:19 final size:19
Alignment explanation
Indices: 118620--118656 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
118610 TTAATGTGCG
*
118620 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
118639 AATATATATATATGTGTG
1 AATATATATATATGTGTG
118657 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Done.