Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 277 of 295
Found at i:94479319 original size:16 final size:14
Alignment explanation
Indices: 94479265--94479335 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 14
94479255 AATCAGCGGT
94479265 AAGGAGAAGAAAATA
1 AAGGAGAAGAAAA-A
*
94479280 AAGG-GAAAGAAAGGAG
1 AAGGAG-AAGAAA--AA
94479296 AA-GAGAAGGAAGAAA
1 AAGGAGAA-GAA-AAA
94479311 AAGGAGAAGAAAAA
1 AAGGAGAAGAAAAA
94479325 AA-GA-AAGAAAA
1 AAGGAGAAGAAAA
94479336 GAAAAAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
12 7 0.15
13 2 0.04
14 6 0.13
15 19 0.40
16 11 0.23
17 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (14 bp):
AAGGAGAAGAAAAA
Found at i:94479330 original size:8 final size:8
Alignment explanation
Indices: 94479317--94479346 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
94479307 GAAAAAGGAG
94479317 AAGAAAAA
1 AAGAAAAA
94479325 AAGAAAGAA
1 AAGAAA-AA
94479334 AAGAAAAA
1 AAGAAAAA
94479342 AAGAA
1 AAGAA
94479347 GGTATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:94479500 original size:23 final size:25
Alignment explanation
Indices: 94479446--94479504 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
94479436 TAGTTATTAA
*
94479446 TATTGTTAGTAAAAAATCCTTATTAT
1 TATTGTTAGTAAAAAATCC-TATAAT
94479472 TATTGTTAGTAAAAAA-CC-ATAAT
1 TATTGTTAGTAAAAAATCCTATAAT
94479495 TATTGTTAGT
1 TATTGTTAGT
94479505 TATTATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 14 0.44
25 2 0.06
26 16 0.50
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (25 bp):
TATTGTTAGTAAAAAATCCTATAAT
Found at i:94484869 original size:71 final size:72
Alignment explanation
Indices: 94484780--94484916 Score: 213
Period size: 72 Copynumber: 1.9 Consensus size: 72
94484770 CCCCGATGAT
* *
94484780 CCCGGGAAATTGTCATTGCTCG-CAAATCCGGATGATAAGAAATATCAGCCGAATGTGAATGCGA
1 CCCGGGAAATAGTCATTGCTCGCCAAATCCGGATGATAAGAAATATCAGCCGAATGCGAATGCGA
94484844 TGACGAG
66 TGACGAG
* * * *
94484851 CCCGGGAAATAGTCATTGCTTGCCAAATTCGGATGATAAGAAGTATCAGTCGAATGCGAATGCGA
1 CCCGGGAAATAGTCATTGCTCGCCAAATCCGGATGATAAGAAATATCAGCCGAATGCGAATGCGA
94484916 T
66 T
94484917 CGCTCGGACT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
71 20 0.34
72 39 0.66
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (72 bp):
CCCGGGAAATAGTCATTGCTCGCCAAATCCGGATGATAAGAAATATCAGCCGAATGCGAATGCGA
TGACGAG
Found at i:94486977 original size:154 final size:145
Alignment explanation
Indices: 94486762--94487825 Score: 1130
Period size: 154 Copynumber: 7.2 Consensus size: 145
94486752 ATAAGTAAAA
* * * *
94486762 TATTTTCGTATATTATTTTTTATATTGTTTTAGCA-AAAATGTTTCAAATGTATTATGTAAGTGT
1 TATTTT-GTATTTTATTTTTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTAAGTGT
* * *
94486826 TTTTTATATTAATTTAATAAATAACACTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTA
65 TTTTTATATTATTTTAATAAATAACCCTGATTTTGGCACTTTATTCGTA---TTTT-TTTTCGTA
*
94486891 TCTTATTTTTTAAAATATAT
126 TATTATTTTTTAAAATATAT
*
94486911 TACTTTCGTGTTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAA
1 TA-TTT--TG-TATTTTATTT-TTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTAA
*
94486976 GTGTTTTTTAATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTT-GT
61 GTGTTTTTT-ATATTATTTTAATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTTTTCGT
94487038 ATATTATTTTTTAAAATATAT
125 ATATTATTTTTTAAAATATAT
* *
94487059 TATTTTTGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAACGTATTATGTATATT
1 TA-TTTTGTATTTTA-TTTTTTATATTATTTTAGTACAAAATGTTTC--A---A--ATG--TATT
* * * * * *
94487124 ATGTAAGTGTTTTTTATACTATTTTAATAAATAACCTTGATTTTGACACTTTCTTTGTA-TTTTT
55 ATTTAAGTGTTTTTTATATTATTTTAATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTT
*
94487188 TTCGTATCTTATTTTTTAAAATATAT
120 TTCGTATATTATTTTTTAAAATATAT
* * * *
94487214 TATTTTCATATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTT-GTATTTTATTT-TTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTAAGTG
* *
94487279 TTTTTTATATTTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTTCGTATA
64 TTTTTTATATTATTTT-AATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTTTTCGTATA
94487343 -T-TTTTTT-AAATATAT
128 TTATTTTTTAAAATATAT
* * ** * *
94487358 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAAAATTTCAAATGTATTACTTAAGTAT
1 TATTTT-GTATTTTATTTTTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTAAGTGT
* * ** *
94487423 TTCTTTATATTAATTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTCG
65 TT-TTTATATTATTTTAATAAATAACCCTGATTTTGGCACTTTATTCGT-A---TTTT-TTTTCG
94487488 TATATTATTTTTTAAAATATAT
124 TATATTATTTTTTAAAATATAT
94487510 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTAAGTG
1 TATTTT-GTATTTTATTT-TTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTAAGTG
* *
94487575 TTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTCATA-TTTTTTTCGTATA
64 -TTTTTTATATTATTTTAATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTTTTCGTATA
94487638 TTATTTTTTAAAATATAT
128 TTATTTTTTAAAATATAT
* * * * *
94487656 TATTTTG----GTA-----T-T-TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGTTTT
1 TATTTTGTATTTTATTTTTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTAAGTGTT
* * * * * *
94487710 TTTTATATTAATTTAATAAATAA-CCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTTGGAT
66 TTTTATATTATTTTAATAAATAACCCTGATTTTGGCACTTTATTCGTA---TTTT-TTTTCGTAT
* *
94487774 TTTATTTTTTAAAATATAC
127 ATTATTTTTTAAAATATAT
*
94487793 TATTTTCATATTTTATTTTTTTATATTATTTTA
1 TATTTT-GTATTTTA-TTTTTTATATTATTTTA
94487826 ACAAAAAACT
Statistics
Matches: 780, Mismatches: 82, Indels: 105
0.81 0.08 0.11
Matches are distributed among these distances:
132 30 0.04
133 48 0.06
134 1 0.00
135 1 0.00
136 3 0.00
137 30 0.04
141 2 0.00
142 2 0.00
143 70 0.09
144 37 0.05
145 39 0.05
146 65 0.08
147 45 0.06
148 34 0.04
149 17 0.02
150 17 0.02
151 8 0.01
152 69 0.09
153 68 0.09
154 134 0.17
155 60 0.08
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (145 bp):
TATTTTGTATTTTATTTTTTATATTATTTTAGTACAAAATGTTTCAAATGTATTATTTAAGTGTT
TTTTATATTATTTTAATAAATAACCCTGATTTTGGCACTTTATTCGTATTTTTTTTCGTATATTA
TTTTTTAAAATATAT
Found at i:94487047 original size:15 final size:15
Alignment explanation
Indices: 94487027--94487090 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
94487017 ACTTTATTCG
94487027 TATTTTTTTGTATAT
1 TATTTTTTTGTATAT
***
94487042 TATTTTTTAAAATA-
1 TATTTTTTTGTATAT
*
94487056 TATTATTTTTGTATTT
1 TATT-TTTTTGTATAT
94487072 TA-TTTTTT-TATAT
1 TATTTTTTTGTATAT
94487085 TATTTT
1 TATTTT
94487091 AGCAAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
13 6 0.16
14 12 0.32
15 18 0.47
16 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTTTTTGTATAT
Found at i:94487076 original size:13 final size:13
Alignment explanation
Indices: 94487027--94487090 Score: 58
Period size: 13 Copynumber: 4.7 Consensus size: 13
94487017 ACTTTATTCG
94487027 TATT-TTTTTGTA
1 TATTATTTTTGTA
*
94487039 TATTATTTTTTAAAATA
1 TATTA-TTTTT---GTA
94487056 TATTATTTTTGTA
1 TATTATTTTTGTA
* *
94487069 TTTTATTTTTTTA
1 TATTATTTTTGTA
94487082 TATTATTTT
1 TATTATTTT
94487091 AGCAAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 4 0.10
13 21 0.50
14 5 0.12
16 5 0.12
17 7 0.17
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TATTATTTTTGTA
Found at i:94487382 original size:27 final size:27
Alignment explanation
Indices: 94487328--94487388 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
94487318 ACTTTATTCG
*
94487328 TATTTTTTTCGTATATTTTTTTAAATA
1 TATTATTTTCGTATATTTTTTTAAATA
*
94487355 TATTATTTTCGTAT-TTTATTTT--TTA
1 TATTATTTTCGTATATTT-TTTTAAATA
94487380 TATTATTTT
1 TATTATTTT
94487389 AGCAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 11 0.35
26 3 0.10
27 17 0.55
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (27 bp):
TATTATTTTCGTATATTTTTTTAAATA
Found at i:94487387 original size:12 final size:13
Alignment explanation
Indices: 94487324--94487388 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
94487314 TAGCACTTTA
94487324 TTCGTAT-TT-TT
1 TTCGTATATTATT
*
94487335 TTCGTATATTTTT
1 TTCGTATATTATT
**
94487348 TTAAATATATTATT
1 TT-CGTATATTATT
*
94487362 TTCGTATTTTATT
1 TTCGTATATTATT
*
94487375 TT-TTATATTATT
1 TTCGTATATTATT
94487387 TT
1 TT
94487389 AGCAAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
11 7 0.16
12 12 0.28
13 14 0.33
14 10 0.23
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.69
Consensus pattern (13 bp):
TTCGTATATTATT
Found at i:94487419 original size:143 final size:146
Alignment explanation
Indices: 94487120--94487825 Score: 779
Period size: 143 Copynumber: 4.9 Consensus size: 146
94487110 GTATTATGTA
* * * * * *
94487120 TATTATGTAAGTGTTTTTTATACTATTTTAATAAATAACCTTGATTTTGACACTTTCTTTGTATT
1 TATTATTTAAGTATTTTTTATATTATTTTAATAAATAACCCTGATTTTGACACTTTATTCGTATT
* * *
94487185 TTTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTCATATTATTTTAGTA
66 TTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTA
*
94487250 CATAATGTTTCAAATG
131 CAAAATGTTTCAAATG
*
94487266 TATTATTTAAGTATTTTTTATATTTTTTTCAATAAATAACCCTGATTTT-AGCACTTTATTCGTA
1 TATTATTTAAGTATTTTTTATATTATTTT-AATAAATAACCCTGATTTTGA-CACTTTATTCGTA
94487330 TTTTTTTCGTATA-T-TTTTTT-AAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAG
64 TTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAG
* * **
94487391 CAAAAAAAATTTCAAATG
129 TACAAAATGTTTCAAATG
* * * * *
94487409 TATTACTTAAGTATTTCTTTATATTAATTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAA
1 TATTATTTAAGTATTT-TTTATATTATTTTAATAAATAACCCTGATTTTGACACTTTATTCGT-A
94487474 TTTTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTAT
64 ----TTT-TTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTAT
94487539 TTTAGTACAAAATGTTTCAAATG
124 TTTAGTACAAAATGTTTCAAATG
* *
94487562 TATTATTTAAGTGTTTTTTTATATT-TTTTAATAAATAACCCTGATTTT-AGCACTTTATTCATA
1 TATTATTTAAGT-ATTTTTTATATTATTTTAATAAATAACCCTGATTTTGA-CACTTTATTCGTA
*
94487625 TTTTTTTCGTATATTATTTTTTAAAATATATTATTTT-G----GTA------T-T-TTATTTTAG
64 TTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAG
* * *
94487677 CATAAAATCTTTCAAATG
129 TACAAAATGTTTCAAATG
* * * * * *
94487695 TATTATTTAAGTTTTTTTTATATTAATTTAATAAATAA-CCTGACTTTGGCACCTTGTTCGTATT
1 TATTATTTAAGTATTTTTTATATTATTTTAATAAATAACCCTGATTTTGACACTTTATTCGTA--
* * * * * *
94487759 TTTTTATTTTTGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATTATTT
64 --TTT-TTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTT
94487824 TA
126 TA
94487826 ACAAAAAACT
Statistics
Matches: 476, Mismatches: 48, Indels: 68
0.80 0.08 0.11
Matches are distributed among these distances:
132 30 0.06
133 48 0.10
134 1 0.00
135 1 0.00
136 3 0.01
137 30 0.06
141 2 0.00
142 2 0.00
143 70 0.15
144 38 0.08
145 7 0.01
146 61 0.13
147 44 0.09
148 4 0.01
149 11 0.02
150 9 0.02
151 8 0.02
152 56 0.12
153 48 0.10
154 3 0.01
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (146 bp):
TATTATTTAAGTATTTTTTATATTATTTTAATAAATAACCCTGATTTTGACACTTTATTCGTATT
TTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTA
CAAAATGTTTCAAATG
Found at i:94487555 original size:296 final size:298
Alignment explanation
Indices: 94486762--94487825 Score: 1448
Period size: 296 Copynumber: 3.6 Consensus size: 298
94486752 ATAAGTAAAA
* * * *
94486762 TATTTTCGTATATTATTTTTTATATTGTTTTAGC-AAAAATGTTTCAAATGTATTATGTAAGT-G
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATATAAGTAT
* *
94486825 TTTTTTATATTAATTTAATAAATAACACTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGT
66 TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTTCGT
**
94486890 ATCTTATTTTTTAAAATATATTACTTTCGTGTTATTTTATTTCTTTATATTATTTTAGTACATAA
131 ATCTTATTTTTTAAAATATATTA-TTT--TCATATTTTATTTCTTTATATTATTTTAGTACATAA
94486955 TGTTTCAAATGTATTATTTAAGTGTTTTTTA-ATATTTTTTAATAAATAACCCTGATTTTAGCAC
193 TGTTTCAAATGTATTATTTAAGTGTTTTTTATATATTTTTTAATAAATAACCCTGATTTTAGCAC
94487019 TTTATTCGTATTTTTTT-GTATATTATTTTTTAAAATATAT
258 TTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
* *
94487059 TATTTTTGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAACGTATTATGTATATT
1 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTA--TATA--
* * * *
94487124 ATGTAAGTGTTTTTTATACTATTTTAATAAATAACCTTGATTTTGACACTTTCTTTGTA----TT
61 A-GT-A-T-TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTT
*
94487185 T-TTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTCATATTATTTTAGT
122 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGT
*
94487249 ACATAATGTTTCAAATGTATTATTTAAGTATTTTTTATAT-TTTTTTCAATAAATAACCCTGATT
187 ACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATATTTTTT-AATAAATAACCCTGATT
94487313 TTAGCACTTTATTCGTATTTTTTTCGTATA-T-TTTTTT-AAATATAT
251 TTAGCACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
**
94487358 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAAAATTTCAAATGTATTACT-TAAGTA
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTA-TATAAGTA
* * *
94487422 TTTCTTTATATTAATTTACTAAATAACCCTGATTTTGATACTTTCTTCGTAATTTTTTTATTTTC
65 TTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGT-ATTTTTTTATTTTC
* * *
94487487 GTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACAAAAT
129 GTATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGTACATAAT
94487552 GTTTCAAATGTATTATTTAAGTGTTTTTT-TATATTTTTTAATAAATAACCCTGATTTTAGCACT
194 GTTTCAAATGTATTATTTAAGTGTTTTTTATATATTTTTTAATAAATAACCCTGATTTTAGCACT
*
94487616 TTATTCATATTTTTTTCGTATATTATTTTTTAAAATATAT
259 TTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
* * * *
94487656 TATTTT-G----GTA-----T-T-TTATTTTAGCATAAAATCTTTCAAATGTATTATTTAAGT-T
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATATAAGTAT
* * * * * *
94487708 TTTTTTATATTAATTTAATAAATAA-CCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTTGG
66 TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTTCGT
* * *
94487772 ATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATTATTTTA
131 ATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTTATATTATTTTA
94487826 ACAAAAAACT
Statistics
Matches: 691, Mismatches: 51, Indels: 64
0.86 0.06 0.08
Matches are distributed among these distances:
283 64 0.09
284 18 0.03
285 25 0.04
286 34 0.05
287 1 0.00
288 1 0.00
290 42 0.06
291 2 0.00
292 1 0.00
293 4 0.01
294 1 0.00
295 52 0.08
296 103 0.15
297 21 0.03
298 70 0.10
299 42 0.06
300 75 0.11
301 47 0.07
302 8 0.01
303 31 0.04
304 5 0.01
308 44 0.06
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (298 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATATAAGTAT
TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTATTTTTTTATTTTCGT
ATCTTATTTTTTAAAATATATTATTTTCATATTTTATTTCTTTATATTATTTTAGTACATAATGT
TTCAAATGTATTATTTAAGTGTTTTTTATATATTTTTTAATAAATAACCCTGATTTTAGCACTTT
ATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
Found at i:94488416 original size:3 final size:3
Alignment explanation
Indices: 94488410--94488458 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
94488400 TTTTTTTTCT
* *
94488410 TTC TTC TTC TTC -TC TTC TT- TCC TTC TTC -TC TTC TT- TCC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
94488454 TTC TT
1 TTC TT
94488459 TGTTCCTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.16
3 32 0.84
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:94488427 original size:8 final size:8
Alignment explanation
Indices: 94488414--94488454 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
94488404 TTTTCTTTCT
94488414 TCTTCTTC
1 TCTTCTTC
94488422 TCTTCTT-
1 TCTTCTTC
94488429 TCCTTCTTC
1 T-CTTCTTC
94488438 TCTTCTT-
1 TCTTCTTC
94488445 TCCTTCTTC
1 T-CTTCTTC
94488454 T
1 T
94488455 TCTTTGTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 2 0.07
8 25 0.86
9 2 0.07
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (8 bp):
TCTTCTTC
Found at i:94488436 original size:16 final size:16
Alignment explanation
Indices: 94488415--94488454 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
94488405 TTTCTTTCTT
94488415 CTTCTTCTCTTCTTTC
1 CTTCTTCTCTTCTTTC
94488431 CTTCTTCTCTTCTTTC
1 CTTCTTCTCTTCTTTC
94488447 CTTCTTCT
1 CTTCTTCT
94488455 TCTTTGTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTCTTCTCTTCTTTC
Found at i:94488642 original size:18 final size:18
Alignment explanation
Indices: 94488600--94488642 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
94488590 CCATTTTTAA
*
94488600 TTTTTTTTCGTTTTCAGT
1 TTTTTTTTCGTTTTCAAT
* *
94488618 ATTTTTTTCTTTTTCAAT
1 TTTTTTTTCGTTTTCAAT
94488636 TTTTTTT
1 TTTTTTT
94488643 ACTGTTGGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTTTTCGTTTTCAAT
Found at i:94489102 original size:14 final size:16
Alignment explanation
Indices: 94489074--94489106 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
94489064 TATATAATTA
94489074 AAAAAATTAATATTTT
1 AAAAAATTAATATTTT
94489090 AAAAAA-TAA-ATTTT
1 AAAAAATTAATATTTT
94489104 AAA
1 AAA
94489107 TTGATTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 3 0.18
16 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAAATTAATATTTT
Found at i:94495711 original size:35 final size:35
Alignment explanation
Indices: 94495672--94495742 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
94495662 CATCTTCGGA
*
94495672 GCTTGAAAAATATGGAAAGTGATCTTCAAAGATAT
1 GCTTGAAAAATATGGAAAGGGATCTTCAAAGATAT
** *
94495707 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGAAAAATATGGAAAGGGATCTTCAAAGATAT
94495742 G
1 G
94495743 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (35 bp):
GCTTGAAAAATATGGAAAGGGATCTTCAAAGATAT
Found at i:94503676 original size:35 final size:35
Alignment explanation
Indices: 94503637--94503707 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
94503627 CATCTTTGGA
*
94503637 GCTTGGAAAATATAGAAAGTGATCTTCAAAGATAT
1 GCTTGGAAAATATAGAAAGGGATCTTCAAAGATAT
* * *
94503672 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATAGAAAGGGATCTTCAAAGATAT
94503707 G
1 G
94503708 TGATTCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATAGAAAGGGATCTTCAAAGATAT
Found at i:94507217 original size:9 final size:9
Alignment explanation
Indices: 94507203--94507233 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
94507193 TATCGTATGA
94507203 TTATTATTG
1 TTATTATTG
94507212 TTATTATTG
1 TTATTATTG
94507221 TTATTATTG
1 TTATTATTG
94507230 TTAT
1 TTAT
94507234 CTTGTATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:94511099 original size:15 final size:15
Alignment explanation
Indices: 94511079--94511107 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94511069 CCCTCCTCCT
94511079 GGTGTTGCATTTGTC
1 GGTGTTGCATTTGTC
94511094 GGTGTTGCATTTGT
1 GGTGTTGCATTTGT
94511108 AAAGCCAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.10, G:0.34, T:0.48
Consensus pattern (15 bp):
GGTGTTGCATTTGTC
Found at i:94515519 original size:42 final size:42
Alignment explanation
Indices: 94515448--94515542 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 42
94515438 TTATTTTGGA
*
94515448 TGAACAGTTTAAGCTCATACTTAAGAGCAT-AATCATTTAGGT
1 TGAACAGTTTAAGCTCATACTTAAAAGCATCAA-CATTTAGGT
* * ** * *
94515490 TGAATAGTTTAAGCTCGTGTTTAAAAGCATCAACATTTTGGA
1 TGAACAGTTTAAGCTCATACTTAAAAGCATCAACATTTAGGT
*
94515532 TGAACAATTTA
1 TGAACAGTTTA
94515543 GACTCGTACT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
42 41 0.95
43 2 0.05
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (42 bp):
TGAACAGTTTAAGCTCATACTTAAAAGCATCAACATTTAGGT
Found at i:94524493 original size:26 final size:26
Alignment explanation
Indices: 94524423--94524496 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
94524413 TTTTTCATCC
94524423 CAATTTTA-CT-CAAATAAATTTGTGA
1 CAATTTTACCTCCAAA-AAATTTGTGA
* * *
94524448 CGATTTTACCCTCGATAAAATTT-TGA
1 CAATTTTA-CCTCCAAAAAATTTGTGA
94524474 CAATTTTACCTCCAACAAAATTT
1 CAATTTTACCTCCAA-AAAATTT
94524497 CAAGAAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
25 12 0.31
26 17 0.44
27 8 0.21
28 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (26 bp):
CAATTTTACCTCCAAAAAATTTGTGA
Found at i:94527031 original size:40 final size:41
Alignment explanation
Indices: 94526974--94527223 Score: 257
Period size: 40 Copynumber: 6.3 Consensus size: 41
94526964 CTAACGGGGT
* * * *
94526974 TAAGTCCCAAAGACATTTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
94527014 TAAGTCCCGAAGGCATTTGTGCGAGTTAATAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * *
94527054 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT-TCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
94527094 TAAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAATATCCGGGC
* * * *
94527134 TAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * * *
94527174 TAAGACCTGAAGGC-CTTGTGCGAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
94527212 TAAATCCCGAAG
1 TAAGTCCCGAAG
94527224 ATACTTGGGT
Statistics
Matches: 182, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
38 12 0.07
39 19 0.10
40 150 0.82
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:94532415 original size:25 final size:25
Alignment explanation
Indices: 94532378--94532465 Score: 83
Period size: 25 Copynumber: 3.5 Consensus size: 25
94532368 GTACATGTAT
* * * *
94532378 GCTCATACAAGCTGTGAATTGGTAT
1 GCTCATACGAGCTGAGAATCGGTAA
*
94532403 GCTC-TCACGAGCT-ACAAATCGGTAA
1 GCTCAT-ACGAGCTGA-GAATCGGTAA
94532428 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
94532453 GCTC-TCACGAGCT
1 GCTCAT-ACGAGCT
94532466 ACAAATTGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
24 2 0.04
25 48 0.92
26 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:94532441 original size:50 final size:50
Alignment explanation
Indices: 94532378--94532487 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
94532368 GTACATGTAT
* * * * *
94532378 GCTCATACAAGCTGTGAATTGGTATGCTCTCACGAGCTACAAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAAGCTCTCACGAGCTACAAATCGATAA
*
94532428 GCTCATACGAGCTGAGAATCGGTAAGCTCTCACGAGCTACAAATTGATAA
1 GCTCATACGAGCTGAGAATCGGTAAGCTCTCACGAGCTACAAATCGATAA
*
94532478 TCTCATACGA
1 GCTCATACGA
94532488 TCTATGGCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATCGGTAAGCTCTCACGAGCTACAAATCGATAA
Found at i:94532487 original size:25 final size:25
Alignment explanation
Indices: 94532409--94532487 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
94532399 GTATGCTCTC
94532409 ACGAGCTACAAATCGGTAAGCTCAT
1 ACGAGCTACAAATCGGTAAGCTCAT
*
94532434 ACGAGCTGA-GAATCGGTAAGCTC-T
1 ACGAGCT-ACAAATCGGTAAGCTCAT
* * *
94532458 CACGAGCTACAAATTGATAATCTCAT
1 -ACGAGCTACAAATCGGTAAGCTCAT
94532484 ACGA
1 ACGA
94532488 TCTATGGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
24 2 0.04
25 41 0.91
26 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (25 bp):
ACGAGCTACAAATCGGTAAGCTCAT
Found at i:94536524 original size:14 final size:14
Alignment explanation
Indices: 94536501--94536545 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
94536491 TAAAAAATAT
*
94536501 TTAAATTATATAAA
1 TTAAAATATATAAA
94536515 TTAAAATATATATAA
1 TTAAAATATATA-AA
94536530 TGTAAAATATTATAAA
1 T-TAAAATA-TATAAA
94536546 AAGGTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 9 0.33
17 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TTAAAATATATAAA
Found at i:94536528 original size:16 final size:17
Alignment explanation
Indices: 94536503--94536545 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
94536493 AAAAATATTT
94536503 AAAT-TATATAAAT-TA
1 AAATATATATAAATGTA
94536518 AAATATATAT-AATGTA
1 AAATATATATAAATGTA
94536534 AAATAT-TATAAA
1 AAATATATATAAA
94536546 AAGGTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAATATATATAAATGTA
Found at i:94536969 original size:18 final size:17
Alignment explanation
Indices: 94536948--94537066 Score: 87
Period size: 18 Copynumber: 6.4 Consensus size: 17
94536938 TTTTGTAATT
94536948 TTTTATGATTTTTAATAA
1 TTTTAT-ATTTTTAATAA
*
94536966 TTTTATACTTTTTAATGA
1 TTTTATA-TTTTTAATAA
*
94536984 TATTTATATTTTT-ATGA
1 T-TTTATATTTTTAATAA
*
94537001 TTTTTTATATTTTAATAA
1 TTTTATAT-TTTTAATAA
94537019 TCTTATTTATATTTTTAATAA
1 ---T-TTTATATTTTTAATAA
*
94537040 TTTTTAATAATTTTTAAGTAG
1 -TTTT-AT-ATTTTTAA-TAA
94537061 TTTTAT
1 TTTTAT
94537067 CAAGACATGC
Statistics
Matches: 85, Mismatches: 5, Indels: 21
0.77 0.05 0.19
Matches are distributed among these distances:
16 6 0.07
17 10 0.12
18 27 0.32
19 12 0.14
20 12 0.14
21 12 0.14
22 6 0.07
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTTATATTTTTAATAA
Found at i:94537064 original size:11 final size:10
Alignment explanation
Indices: 94536943--94537056 Score: 82
Period size: 10 Copynumber: 12.0 Consensus size: 10
94536933 ATTTTTTTTG
*
94536943 TAATTTTTTA
1 TAATTTTTAA
*
94536953 TGATTTTTAA
1 TAATTTTTAA
94536963 TAA-TTTT-A
1 TAATTTTTAA
*
94536971 TACTTTTTAA
1 TAATTTTTAA
* *
94536981 TGATATTT-A
1 TAATTTTTAA
94536990 T-ATTTTT-A
1 TAATTTTTAA
* *
94536998 TGATTTTTTA
1 TAATTTTTAA
94537008 T-A-TTTTAA
1 TAATTTTTAA
*
94537016 TAATCTTATTTA
1 TAAT-TT-TTAA
94537028 T-ATTTTTAA
1 TAATTTTTAA
94537037 TAATTTTTAA
1 TAATTTTTAA
94537047 TAATTTTTAA
1 TAATTTTTAA
94537057 GTAGTTTTAT
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
8 16 0.19
9 22 0.26
10 38 0.45
11 4 0.05
12 4 0.05
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:94537066 original size:38 final size:36
Alignment explanation
Indices: 94536949--94537056 Score: 105
Period size: 38 Copynumber: 2.9 Consensus size: 36
94536939 TTTGTAATTT
*
94536949 TTTATGATTTTTAATAA-TTTTATACTTTTTAATGATA
1 TTTAT-ATTTTTAATAATTTTTATAATTTTTAATG-TA
* *
94536986 TTTATATTTTT-ATGATTTTT-TATATTTTAATAATCTTA
1 TTTATATTTTTAATAATTTTTATA-ATTTT--TAAT-GTA
94537024 TTTATATTTTTAATAATTTTTAATAATTTTTAA
1 TTTATATTTTTAATAATTTTT-ATAATTTTTAA
94537057 GTAGTTTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
35 5 0.08
36 14 0.24
37 5 0.08
38 20 0.34
39 8 0.14
40 5 0.08
41 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (36 bp):
TTTATATTTTTAATAATTTTTATAATTTTTAATGTA
Found at i:94538076 original size:26 final size:26
Alignment explanation
Indices: 94538047--94538128 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
94538037 TGATACAAAT
94538047 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCTA
94538073 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCTA
* *
94538099 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCTA
94538125 TGAT
1 TGAT
94538129 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCTA
Found at i:94540078 original size:15 final size:15
Alignment explanation
Indices: 94540058--94540092 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
94540048 TACCTGAATG
94540058 GGCTTAGGCCCAATA
1 GGCTTAGGCCCAATA
94540073 GGCTTAGGCCCAATA
1 GGCTTAGGCCCAATA
94540088 GGCTT
1 GGCTT
94540093 GAGCTGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (15 bp):
GGCTTAGGCCCAATA
Found at i:94541555 original size:6 final size:6
Alignment explanation
Indices: 94541544--94541569 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
94541534 TTTTGTTTTC
94541544 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
94541570 ATAATTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:94543863 original size:15 final size:15
Alignment explanation
Indices: 94543843--94543877 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
94543833 GACTAAATAA
94543843 CACCTATGTACATGC
1 CACCTATGTACATGC
94543858 CACCTATGTACATGC
1 CACCTATGTACATGC
94543873 CACCT
1 CACCT
94543878 TTACCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (15 bp):
CACCTATGTACATGC
Found at i:94545451 original size:12 final size:12
Alignment explanation
Indices: 94545436--94545466 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
94545426 TTCTCTTTTA
94545436 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
94545448 TTTTTCTTTCTC
1 TTTTTCTTTCCC
94545460 TTTTTCT
1 TTTTTCT
94545467 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:94545567 original size:16 final size:16
Alignment explanation
Indices: 94545546--94545576 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94545536 TTTATTATTT
94545546 TATTAACATAATATAA
1 TATTAACATAATATAA
*
94545562 TATTAATATAATATA
1 TATTAACATAATATA
94545577 TTAAAATATC
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:94546572 original size:21 final size:20
Alignment explanation
Indices: 94546544--94546582 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
94546534 CAAAACTTGT
94546544 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
94546564 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
94546583 CAAAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:94548324 original size:15 final size:15
Alignment explanation
Indices: 94548292--94548325 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
94548282 TTTGATGATC
* *
94548292 TAAAAAATTAAGTGT
1 TAAAAAATTAAATAT
94548307 TAAAAAATTAAATAT
1 TAAAAAATTAAATAT
94548322 TAAA
1 TAAA
94548326 CTATCAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
TAAAAAATTAAATAT
Found at i:94548729 original size:21 final size:21
Alignment explanation
Indices: 94548663--94548730 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
94548653 GAAAATTTAT
* * *
94548663 TTTTCTTTTTATGTATTTTTAA
1 TTTTATTTTT-TGTAATTATAA
* *
94548685 TTTTA-TTTTT-TAAATAT-T
1 TTTTATTTTTTGTAATTATAA
94548703 TATTTATTTTTTGTAATTATAA
1 T-TTTATTTTTTGTAATTATAA
94548725 TTTTAT
1 TTTTAT
94548731 GAATTTCTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 9
0.69 0.14 0.18
Matches are distributed among these distances:
18 1 0.03
19 8 0.23
20 6 0.17
21 15 0.43
22 5 0.14
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTTGTAATTATAA
Found at i:94549730 original size:132 final size:130
Alignment explanation
Indices: 94549409--94549807 Score: 451
Period size: 132 Copynumber: 3.0 Consensus size: 130
94549399 TATTTTAGAA
** * * *
94549409 TTTAGAAAGTATGAGTGAAATTCTAAAGGAATCTTCGATCATTTTG-GACAAAC-AGGAAATCGC
1 TTTAGAAAACATGAGTGAAATTTTAAAGG-ATCTTCGATTATTTTGAG-CAAACGA-GAAATTGC
* * * * * * * *
94549472 AATCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAATATTACCTTTGTTTTGAAG
63 AACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCACCTTCGTTTTAAAA
*
94549537 AGT
128 ATT
* ** * *
94549540 TTTAGAAAACATAAGTGAAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAA
1 TTTAGAAAACATGAGTGAAATTTTAAA-GGATCTTCGATTATTTTGAGCAAACGAGAAATTGCAA
* * *
94549605 CCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAATA
65 CCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCACCTTCGTTTTAAAA-A
94549670 TT
129 TT
* * *
94549672 TTTAGAAGACATGAGTGAAATTTTGAAAGGATATTAGATTATTTTGAGCAAACGAGAAATTGCAA
1 TTTAGAAAACATGAGTGAAATTTT-AAAGGATCTTCGATTATTTTGAGCAAACGAGAAATTGCAA
* * * * *
94549737 CCTAGCACGTTAGGGCACGATTTCGTGAATTGCCAAATATCAAATGTCACCTTCGTTTTAAAGAA
65 CCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCACCTTCGTTTTAAA-AA
94549802 TT
129 TT
94549804 TTTA
1 TTTA
94549808 AACGAATAAT
Statistics
Matches: 226, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
131 103 0.46
132 119 0.53
133 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (130 bp):
TTTAGAAAACATGAGTGAAATTTTAAAGGATCTTCGATTATTTTGAGCAAACGAGAAATTGCAAC
CCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATATCACCTTCGTTTTAAAAATT
Found at i:94556439 original size:21 final size:22
Alignment explanation
Indices: 94556413--94556471 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
94556403 GTTTTAAGAA
*
94556413 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
94556434 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
94556456 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
94556472 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:94556486 original size:26 final size:24
Alignment explanation
Indices: 94556442--94556491 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
94556432 ATTTGTTTTA
*
94556442 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
94556466 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
94556492 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:94556569 original size:25 final size:25
Alignment explanation
Indices: 94556535--94556594 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
94556525 GGGCCGGGCC
94556535 GGGCCGGGCTCCGTAATTTTATTTT
1 GGGCCGGGCTCCGTAATTTTATTTT
94556560 GGGCCGGGCTCCGTAATTTTATTTT
1 GGGCCGGGCTCCGTAATTTTATTTT
94556585 GGGCCGGGCT
1 GGGCCGGGCT
94556595 TGGACAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.10, C:0.22, G:0.33, T:0.35
Consensus pattern (25 bp):
GGGCCGGGCTCCGTAATTTTATTTT
Found at i:94557313 original size:19 final size:20
Alignment explanation
Indices: 94557291--94557341 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
94557281 ATACAATAAA
*
94557291 TAAATAATAAAT-TAAATTT
1 TAAAAAATAAATCTAAATTT
* *
94557310 TAAAAAATAACTCTTAATTT
1 TAAAAAATAAATCTAAATTT
94557330 TAAAAAAATAAA
1 T-AAAAAATAAA
94557342 CATATTTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 7 0.27
21 9 0.35
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAAATAAATCTAAATTT
Found at i:94557969 original size:87 final size:86
Alignment explanation
Indices: 94557826--94558063 Score: 275
Period size: 88 Copynumber: 2.7 Consensus size: 86
94557816 AAAGACTTTT
* * * **
94557826 AAACTTTTTCAAAAAAAGCAATTAAGCCCCTATTTCTTTTTTTACTCACTTGGGTATTTGACCTT
1 AAACTTTTT-AAAAAAAGCAATTAAG-CCCTCTTT-TTTTTTCACTCAATTGGGTATTTGAAATT
*
94557891 TT-ACAATGCAT-AAAAAGACCCTC
63 TTCAAAATGCATAAAAAAG-CCCTC
* *
94557914 AAACTTTTTTAAAAAAGCAAGTAAGTCCCTGCTTTTTTTTTCACTCAATTGGGTATTT-AAATTT
1 AAACTTTTTAAAAAAAGCAATTAAG-CCCT-CTTTTTTTTTCACTCAATTGGGTATTTGAAATTT
*
94557978 TCAAAATGCATAAAAAATGCCCTT
64 TCAAAATGCATAAAAAA-GCCCTC
*
94558002 AAACTTTTTCAAAAAAGCAATTAAGCCCGTACTTTTTTTTTGCACTCAATTGGGTATTTGAA
1 AAACTTTTTAAAAAAAGCAATTAAGCCC-T-CTTTTTTTTT-CACTCAATTGGGTATTTGAA
94558064 CCACTCCTAA
Statistics
Matches: 130, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
86 5 0.04
87 50 0.38
88 55 0.42
89 18 0.14
90 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (86 bp):
AAACTTTTTAAAAAAAGCAATTAAGCCCTCTTTTTTTTTCACTCAATTGGGTATTTGAAATTTTC
AAAATGCATAAAAAAGCCCTC
Found at i:94558242 original size:29 final size:29
Alignment explanation
Indices: 94558210--94558285 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
94558200 ATCGTAATTT
94558210 TTTTATAGAAATATAAAAAAATTATAAAA
1 TTTTATAGAAATATAAAAAAATTATAAAA
*
94558239 TTTTATA-AAGTCA-AAAGAAAATTATAAAA
1 TTTTATAGAAAT-ATAAA-AAAATTATAAAA
* * *
94558268 ATGTAAAGAAATATAAAA
1 TTTTATAGAAATATAAAA
94558286 TTCGTAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
28 6 0.16
29 26 0.68
30 6 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (29 bp):
TTTTATAGAAATATAAAAAAATTATAAAA
Found at i:94562909 original size:22 final size:22
Alignment explanation
Indices: 94562881--94562937 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
94562871 TGTCTGGGTG
94562881 GTATTCTGTTAGCATTTGTAGC
1 GTATTCTGTTAGCATTTGTAGC
*
94562903 GTATTCTGATTGGGCATTTGTAGC
1 GTATTCTG-TT-AGCATTTGTAGC
94562927 --ATTCTGTTAGC
1 GTATTCTGTTAGC
94562938 CTTGGTGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 14 0.45
23 2 0.06
24 11 0.35
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.44
Consensus pattern (22 bp):
GTATTCTGTTAGCATTTGTAGC
Found at i:94562954 original size:20 final size:20
Alignment explanation
Indices: 94562925--94562981 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
94562915 GGCATTTGTA
*
94562925 GCATTCTGTTAGCCTTGGTG
1 GCATTATGTTAGCCTTGGTG
*
94562945 GCATTATGTTAGCCTTTTGTG
1 GCATTATGTTAGCC-TTGGTG
**
94562966 ATATTATGTTAGCCTT
1 GCATTATGTTAGCCTT
94562982 TATGGCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.46
Consensus pattern (20 bp):
GCATTATGTTAGCCTTGGTG
Found at i:94565862 original size:43 final size:42
Alignment explanation
Indices: 94565799--94565911 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
94565789 TACCATACCA
**
94565799 ATGCCATATCCCAGATATGGTCTTACATGGAA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAAGTCTCATATCG
* *
94565841 ATGCCAATAGCCCAGCA-ATGGTCTTACACAAAGTCTCATATTG
1 ATGCC-ATATCCCAG-ATATGGTCTTACACAAAGTCTCATATCG
*
94565884 ATGCCATATCCCAGATATGGTCTGACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
94565912 GTAATCTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 33 0.54
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATATCG
Found at i:94579294 original size:18 final size:18
Alignment explanation
Indices: 94579260--94579316 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
94579250 TAAATGATTT
*
94579260 TTTTAATTAAGTTATAATA
1 TTTTAA-TAAGTAATAATA
94579279 TTTTAATAAGTAATAATA
1 TTTTAATAAGTAATAATA
* *
94579297 TTTTATTAATTAATATATA
1 TTTTAATAAGTAATA-ATA
94579316 T
1 T
94579317 ATATAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 24 0.71
19 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (18 bp):
TTTTAATAAGTAATAATA
Found at i:94584350 original size:21 final size:21
Alignment explanation
Indices: 94584324--94584383 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
94584314 TTCTCTAACC
94584324 ATGGTCAAAATTATTTTGAAA
1 ATGGTCAAAATTATTTTGAAA
** *
94584345 ATGGTCAAAATTATAATGGAA
1 ATGGTCAAAATTATTTTGAAA
* *
94584366 GTGGTCAGAATTATTTTG
1 ATGGTCAAAATTATTTTG
94584384 CTGGTCAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGGTCAAAATTATTTTGAAA
Found at i:94584406 original size:18 final size:17
Alignment explanation
Indices: 94584366--94584411 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
94584356 TATAATGGAA
* *
94584366 GTGGTCAGAATTATTTT
1 GTGGTCAAAATTATATT
94584383 GCTGGTCAAAATTATGATT
1 G-TGGTCAAAATTAT-ATT
94584402 GTGGTCAAAA
1 GTGGTCAAAA
94584412 GTGGTATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (17 bp):
GTGGTCAAAATTATATT
Found at i:94590712 original size:476 final size:476
Alignment explanation
Indices: 94589820--94590774 Score: 1910
Period size: 476 Copynumber: 2.0 Consensus size: 476
94589810 TTTCTATTAT
94589820 TCCAGAAGTTCCATAAGGTTGTTATGAGATGGGCTATAGCTTTCTTGTCAAGAACCCGCATCATA
1 TCCAGAAGTTCCATAAGGTTGTTATGAGATGGGCTATAGCTTTCTTGTCAAGAACCCGCATCATA
94589885 TCTTCTAGCCAGTCAATGCATCGACTATACTTATTCGAGATCGTATTTTTGTCCCACCCTTCTAT
66 TCTTCTAGCCAGTCAATGCATCGACTATACTTATTCGAGATCGTATTTTTGTCCCACCCTTCTAT
94589950 AGAGAGAACCGCTCGATATGTGGGGCAATCTTTAAGTGCATGCATTAGGGTCTCATCCTCAACCC
131 AGAGAGAACCGCTCGATATGTGGGGCAATCTTTAAGTGCATGCATTAGGGTCTCATCCTCAACCC
94590015 CACATTTGGGACAACTCTGCTCAAAGTTGTGCTAAATCAAAGCAATCTTAACATTTGTTGGGAGA
196 CACATTTGGGACAACTCTGCTCAAAGTTGTGCTAAATCAAAGCAATCTTAACATTTGTTGGGAGA
94590080 ATCTCGTACCCCACACGCCAAGTAAGCACCCAAACCTTAGAAATAGTATTAAGTTTCCAAAGTTC
261 ATCTCGTACCCCACACGCCAAGTAAGCACCCAAACCTTAGAAATAGTATTAAGTTTCCAAAGTTC
94590145 TTTCCAAAAAAACCTATGAGGGCCACACCCCATCTCTTTCAACAATAACTAGGAATAACCAAACT
326 TTTCCAAAAAAACCTATGAGGGCCACACCCCATCTCTTTCAACAATAACTAGGAATAACCAAACT
94590210 TTGACGTGAAACAACCATAAGGGTTATGAAACCATACTATTTTGTCGCCATAGCCCTTACTCCCA
391 TTGACGTGAAACAACCATAAGGGTTATGAAACCATACTATTTTGTCGCCATAGCCCTTACTCCCA
94590275 ATAGGCCAATTGTAAAATTTA
456 ATAGGCCAATTGTAAAATTTA
94590296 TCCAGAAGTTCCATAAGGTTGTTATGAGATGGGCTATAGCTTTCTTGTCAAGAACCCGCATCATA
1 TCCAGAAGTTCCATAAGGTTGTTATGAGATGGGCTATAGCTTTCTTGTCAAGAACCCGCATCATA
94590361 TCTTCTAGCCAGTCAATGCATCGACTATACTTATTCGAGATCGTATTTTTGTCCCACCCTTCTAT
66 TCTTCTAGCCAGTCAATGCATCGACTATACTTATTCGAGATCGTATTTTTGTCCCACCCTTCTAT
94590426 AGAGAGAACCGCTCGATATGTGGGGCAATCTTTAAGTGCATGCATTAGGGTCTCATCCTCAACCC
131 AGAGAGAACCGCTCGATATGTGGGGCAATCTTTAAGTGCATGCATTAGGGTCTCATCCTCAACCC
94590491 CACATTTGGGACAACTCTGCTCAAAGTTGTGCTAAATCAAAGCAATCTTAACATTTGTTGGGAGA
196 CACATTTGGGACAACTCTGCTCAAAGTTGTGCTAAATCAAAGCAATCTTAACATTTGTTGGGAGA
94590556 ATCTCGTACCCCACACGCCAAGTAAGCACCCAAACCTTAGAAATAGTATTAAGTTTCCAAAGTTC
261 ATCTCGTACCCCACACGCCAAGTAAGCACCCAAACCTTAGAAATAGTATTAAGTTTCCAAAGTTC
94590621 TTTCCAAAAAAACCTATGAGGGCCACACCCCATCTCTTTCAACAATAACTAGGAATAACCAAACT
326 TTTCCAAAAAAACCTATGAGGGCCACACCCCATCTCTTTCAACAATAACTAGGAATAACCAAACT
94590686 TTGACGTGAAACAACCATAAGGGTTATGAAACCATACTATTTTGTCGCCATAGCCCTTACTCCCA
391 TTGACGTGAAACAACCATAAGGGTTATGAAACCATACTATTTTGTCGCCATAGCCCTTACTCCCA
94590751 ATAGGCCAATTGTAAAATTTA
456 ATAGGCCAATTGTAAAATTTA
94590772 TCC
1 TCC
94590775 CCCCAATCCT
Statistics
Matches: 479, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
476 479 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (476 bp):
TCCAGAAGTTCCATAAGGTTGTTATGAGATGGGCTATAGCTTTCTTGTCAAGAACCCGCATCATA
TCTTCTAGCCAGTCAATGCATCGACTATACTTATTCGAGATCGTATTTTTGTCCCACCCTTCTAT
AGAGAGAACCGCTCGATATGTGGGGCAATCTTTAAGTGCATGCATTAGGGTCTCATCCTCAACCC
CACATTTGGGACAACTCTGCTCAAAGTTGTGCTAAATCAAAGCAATCTTAACATTTGTTGGGAGA
ATCTCGTACCCCACACGCCAAGTAAGCACCCAAACCTTAGAAATAGTATTAAGTTTCCAAAGTTC
TTTCCAAAAAAACCTATGAGGGCCACACCCCATCTCTTTCAACAATAACTAGGAATAACCAAACT
TTGACGTGAAACAACCATAAGGGTTATGAAACCATACTATTTTGTCGCCATAGCCCTTACTCCCA
ATAGGCCAATTGTAAAATTTA
Found at i:94591686 original size:34 final size:34
Alignment explanation
Indices: 94591643--94591709 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
94591633 AGGAATAAGG
94591643 AACGTGATCCATAGTTTCAAATACTGAAAGAAAA
1 AACGTGATCCATAGTTTCAAATACTGAAAGAAAA
94591677 AACGTGATCCATAGTTTCAAATACTGAAAGAAA
1 AACGTGATCCATAGTTTCAAATACTGAAAGAAA
94591710 TAGACTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (34 bp):
AACGTGATCCATAGTTTCAAATACTGAAAGAAAA
Found at i:94604902 original size:17 final size:18
Alignment explanation
Indices: 94604861--94604900 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
94604851 TATAATTTTA
*
94604861 AAAAATATATAAACTATC
1 AAAAATATAAAAACTATC
94604879 AAAAATACTAAAAAC-ATC
1 AAAAATA-TAAAAACTATC
94604897 AAAA
1 AAAA
94604901 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATATAAAAACTATC
Found at i:94612674 original size:42 final size:42
Alignment explanation
Indices: 94612627--94612712 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
94612617 TATACATATT
94612627 TAAAAGAAAGAATATAAATGGAAATGTTGTATCTATATTTTG
1 TAAAAGAAAGAATATAAATGGAAATGTTGTATCTATATTTTG
94612669 TAAAAGAAAGAATATAAATGGAAATGTTGTATCTATATTTTG
1 TAAAAGAAAGAATATAAATGGAAATGTTGTATCTATATTTTG
94612711 TA
1 TA
94612713 TCCCTTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (42 bp):
TAAAAGAAAGAATATAAATGGAAATGTTGTATCTATATTTTG
Found at i:94617656 original size:14 final size:14
Alignment explanation
Indices: 94617637--94617668 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
94617627 TCCAATCACC
94617637 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
94617651 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
94617665 GGGC
1 GGGC
94617669 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:94622780 original size:14 final size:14
Alignment explanation
Indices: 94622761--94622792 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
94622751 TCCAATCACC
94622761 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
94622775 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
94622789 GGGC
1 GGGC
94622793 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:94632551 original size:40 final size:40
Alignment explanation
Indices: 94632496--94632797 Score: 491
Period size: 40 Copynumber: 7.6 Consensus size: 40
94632486 TATTCAGATG
94632496 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
94632536 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
94632576 ATAACCGGGCTAAGTCCCGAAGGAATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
94632616 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
94632656 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
94632696 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
94632736 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
94632776 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
94632798 TACTTGGTTT
Statistics
Matches: 251, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 17 0.07
40 234 0.93
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:94639585 original size:17 final size:18
Alignment explanation
Indices: 94639539--94639585 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
94639529 TAATTAAACT
94639539 CTAAAATATAAATAAAAG
1 CTAAAATATAAATAAAAG
* *
94639557 AT-AAATAAAAATAAAAG
1 CTAAAATATAAATAAAAG
94639574 CTAAAAT-TAAAT
1 CTAAAATATAAAT
94639586 CTAATTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (18 bp):
CTAAAATATAAATAAAAG
Found at i:94640941 original size:70 final size:69
Alignment explanation
Indices: 94640828--94641057 Score: 207
Period size: 70 Copynumber: 3.3 Consensus size: 69
94640818 AGTCCCTCCC
* * * * *
94640828 AAATAGTTAGCGAGAACTCAAGCTCCTAGCTGTAATTTTAAGGCTCGTAGGTTCAATACCACAGA
1 AAATAGTTAGCGAGAGCTCAAGCTAC-AACTGTAATCTTAAGGCTCGTAGGTTTAATACCACAGA
94640893 CCCCA
65 CCCCA
*
94640898 AAATAGTTAGCGAGAGCTCAAGCTA-ACACTTGTAATCTTAAGGCTCGTAGGTTTAATACTAC-G
1 AAATAGTTAGCGAGAGCTCAAGCTACA-AC-TGTAATCTTAAGGCTCGTAGGTTTAATACCACAG
* *
94640961 GCCTCTA
64 ACC-CCA
* * * * * * * *
94640968 AAACAGTTAG-TACGAGCTTAAGCTCTCAACTATAATCTTAAGGCTTGTAGGTTTAATAGCGCA-
1 AAATAGTTAGCGA-GAGCTCAAGCT-ACAACTGTAATCTTAAGGCTCGTAGGTTTAATACCACAG
*
94641031 ACCTCA
64 ACCCCA
*
94641037 AAAGTAGTTAGCGCGAGCTCA
1 AAA-TAGTTAGCGAGAGCTCA
94641058 CGCTCCCAAA
Statistics
Matches: 127, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
68 1 0.01
69 9 0.07
70 114 0.90
71 2 0.02
72 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (69 bp):
AAATAGTTAGCGAGAGCTCAAGCTACAACTGTAATCTTAAGGCTCGTAGGTTTAATACCACAGAC
CCCA
Found at i:94641206 original size:17 final size:18
Alignment explanation
Indices: 94641179--94641213 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
94641169 AAGGTTCACA
94641179 TAAGTTTGAAAATTTGCT
1 TAAGTTTGAAAATTTGCT
94641197 TAAG-TTGAAAATTTGCT
1 TAAGTTTGAAAATTTGCT
94641214 GCAGTTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (18 bp):
TAAGTTTGAAAATTTGCT
Found at i:94641219 original size:17 final size:17
Alignment explanation
Indices: 94641184--94641219 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
94641174 TCACATAAGT
*
94641184 TTGAAAATTTGCTTAAG
1 TTGAAAATTTGCTGAAG
*
94641201 TTGAAAATTTGCTGCAG
1 TTGAAAATTTGCTGAAG
94641218 TT
1 TT
94641220 CACTTAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (17 bp):
TTGAAAATTTGCTGAAG
Found at i:94651318 original size:3 final size:3
Alignment explanation
Indices: 94651310--94651364 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
94651300 GTAAAACGTA
* * * *
94651310 ATT ATT ATT ATT ATT ATT ACT ATT ACT GTT GCATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT --ATT ATT ATT ATT ATT
94651357 ATT ATT AT
1 ATT ATT AT
94651365 ATTTTTCTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
3 40 0.95
5 2 0.05
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:94651477 original size:14 final size:14
Alignment explanation
Indices: 94651436--94651474 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
94651426 ATTACCATTA
*
94651436 TTATTTTTCTTT-T
1 TTATTTTTATTTAT
94651449 TTATTTTTATTTAT
1 TTATTTTTATTTAT
94651463 TTACTTTTTATT
1 TTA-TTTTTATT
94651475 ATTGTCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 4 0.17
15 8 0.35
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTTATTTAT
Found at i:94652539 original size:45 final size:44
Alignment explanation
Indices: 94652486--94652582 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
94652476 ACTGCCTAGG
** **
94652486 GAGATAAGATCTGTAATCTTCAGTCTGCT-TCCTTGCTACCTCAG-
1 GAGATAAGA-CTACAATCTTCAACCTGCTCT-CTTGCTACCTCAGA
*
94652530 GAAGATAAGACTACAATTTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGA
94652575 GAGATAAG
1 GAGATAAG
94652583 GTCTTGAGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 35 0.78
45 10 0.22
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
GAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:94652953 original size:180 final size:177
Alignment explanation
Indices: 94652657--94653043 Score: 535
Period size: 180 Copynumber: 2.2 Consensus size: 177
94652647 CAATCTTCAG
*
94652657 TCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTCAATCTTTAAACTGCTCTCTTACTACCTCAG
1 TCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTCAATCTTCAAACTGCTCTCTTACTACCTCAG
* * *
94652722 ATAAGGTTTGGGGCTCAAATCTACTCCATTGCCGATACATGGAGATAAGATTAGCCATCTGTGAA
66 ATAAGGTCTGGGGCTCAAATCTACCCCATTGCCGATACATGGAGATAAGATTAGCCATCTGCGAA
*
94652787 GATCTACTTCGCTGCAATTTCAGGGAGATAAAATCTTCAATTCACAA
131 GATCTACTCCGCTGCAATTTCAGGGAGATAAAATCTTCAATTCACAA
* * * * * *
94652834 TCTGCTTCCTTGTTACCTTAGGAAGATAAGACTT-ACTCTTCAACCTGCTCTCTTGCTACCTCAA
1 TCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTCAATCTTCAAACTGCTCTCTTACTACCTC--
* *
94652898 AGAGATAAGG-CTGGTGGCTTAAATCTGCCCCATTGCCGATACATGGAGATAAGATTAGCCATCT
64 --AGATAAGGTCTGG-GGCTCAAATCTACCCCATTGCCGATACATGGAGATAAGATTAGCCATCT
* * * *
94652962 GCGAAGATCTGCTCCGCTGCAATTTTAGGGAGATAAAATCTTCAATTCCCAG
126 GCGAAGATCTACTCCGCTGCAATTTCAGGGAGATAAAATCTTCAATTCACAA
* * *
94653014 TCTGCTTCCTTCCTACATCAAGGAGATAAG
1 TCTGCTTCCTTGCTACCTCAAGAAGATAAG
94653044 GCTGGTGACT
Statistics
Matches: 182, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
176 24 0.13
177 31 0.17
179 3 0.02
180 124 0.68
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (177 bp):
TCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTCAATCTTCAAACTGCTCTCTTACTACCTCAG
ATAAGGTCTGGGGCTCAAATCTACCCCATTGCCGATACATGGAGATAAGATTAGCCATCTGCGAA
GATCTACTCCGCTGCAATTTCAGGGAGATAAAATCTTCAATTCACAA
Found at i:94655565 original size:6 final size:6
Alignment explanation
Indices: 94655556--94655587 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
94655546 AATCAAATTG
*
94655556 AAATGA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
94655588 TCAATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:94655571 original size:12 final size:11
Alignment explanation
Indices: 94655556--94655610 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 11
94655546 AATCAAATTG
94655556 AAATGAAAATAA
1 AAAT-AAAATAA
94655568 AAATAAAAATAA
1 AAAT-AAAATAA
94655580 AAATAAAATCAA
1 AAATAAAAT-AA
94655592 TAAAT-AAATAA
1 -AAATAAAATAA
*
94655603 GAATAAAA
1 AAATAAAA
94655611 AGATAGGAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 3 0.08
11 10 0.26
12 21 0.55
13 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:94663556 original size:42 final size:42
Alignment explanation
Indices: 94663497--94663630 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 42
94663487 TGACATTAGG
*
94663497 GTTATGAG-TTTACGTGTAAGACCATATCTGAGATATGGCATT
1 GTTATGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATT
* * * * *
94663539 GTTATGAGATTTTGTGTAAGACCATGTTTGGGCTATAGGCAAT
1 GTTATGAGATTTCGTGTAAGACCATATCTGGGATAT-GGCATT
* ** * *
94663582 GATATGAGATCCCATGTAAGACCATATCTGGGATATGGAATT
1 GTTATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATT
*
94663624 GGTATGA
1 GTTATGA
94663631 TTCTATGTGT
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 37 0.51
43 36 0.49
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (42 bp):
GTTATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATT
Found at i:94665196 original size:15 final size:15
Alignment explanation
Indices: 94665176--94665207 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
94665166 ACTGTGTATC
94665176 AATTTAATCAAATAG
1 AATTTAATCAAATAG
94665191 AATTTAATCAAATAG
1 AATTTAATCAAATAG
94665206 AA
1 AA
94665208 AGCCCTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (15 bp):
AATTTAATCAAATAG
Found at i:94666612 original size:18 final size:18
Alignment explanation
Indices: 94666582--94666616 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
94666572 GCTTACACAA
94666582 AAAATCAAAAAATAAATC
1 AAAATCAAAAAATAAATC
94666600 AAAAT-AAATAAATAAAT
1 AAAATCAAA-AAATAAAT
94666617 AACCAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATCAAAAAATAAATC
Found at i:94669670 original size:17 final size:16
Alignment explanation
Indices: 94669619--94669671 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
94669609 TTAAATAACA
94669619 ATTAAAATAAATACGAT
1 ATTAAAATAAATA-GAT
*
94669636 ATTTTAAAA-AAATGGAT
1 A--TTAAAATAAATAGAT
94669653 ATTAAAATAATATAGAT
1 ATTAAAATAA-ATAGAT
94669670 AT
1 AT
94669672 AAAGAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 12 0.40
18 4 0.13
19 6 0.20
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (16 bp):
ATTAAAATAAATAGAT
Found at i:94673297 original size:21 final size:21
Alignment explanation
Indices: 94673273--94673314 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94673263 AATACATTAA
94673273 TCTTAAAAAATATCGATACTC
1 TCTTAAAAAATATCGATACTC
* **
94673294 TCTTAATAGGTATCGATACTC
1 TCTTAAAAAATATCGATACTC
94673315 GTTGCTGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (21 bp):
TCTTAAAAAATATCGATACTC
Found at i:94675214 original size:16 final size:18
Alignment explanation
Indices: 94675188--94675226 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
94675178 ATCAACGACG
*
94675188 ATAATATGCG-TAACAAA
1 ATAATATGCGTTAAAAAA
94675205 ATAA-ATGCGTTAAAAAA
1 ATAATATGCGTTAAAAAA
94675222 ATAAT
1 ATAAT
94675227 GAGAAAGACG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (18 bp):
ATAATATGCGTTAAAAAA
Found at i:94675708 original size:3 final size:3
Alignment explanation
Indices: 94675700--94675756 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
94675690 AAAGAAAAAT
* * * *
94675700 ATA ATA ATA ATA ATA ATA GTA ATA ATGCA ACA GTA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA ATA
94675747 ATA ATA ATA A
1 ATA ATA ATA A
94675757 AGCGTTTTAG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 42 0.95
5 2 0.05
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:94682607 original size:41 final size:41
Alignment explanation
Indices: 94682544--94682654 Score: 204
Period size: 41 Copynumber: 2.7 Consensus size: 41
94682534 CCTTTCGGGG
**
94682544 CTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
94682585 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
94682626 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
94682655 AAAAACATTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
Found at i:94683045 original size:22 final size:23
Alignment explanation
Indices: 94682995--94683045 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
94682985 ATATGATTTA
94682995 GAGTTTAAGGTTTAGGAGTTACT
1 GAGTTTAAGGTTTAGGAGTTACT
*
94683018 -ATTTTAAGGTTTATGGA-TTA-T
1 GAGTTTAAGGTTTA-GGAGTTACT
94683039 GAGTTTA
1 GAGTTTA
94683046 GGGGTTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (23 bp):
GAGTTTAAGGTTTAGGAGTTACT
Found at i:94683128 original size:34 final size:34
Alignment explanation
Indices: 94683062--94683142 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
94683052 ATAGTTTACA
*
94683062 GTTTATGGTTTAAGATATAGGGTTTAAGGGTTGCG
1 GTTTATGGTTTAAGATATA-GGATTAAGGGTTGCG
* *
94683097 GTTTATGGTTTAAGGTTATA-GATTAAGGGTTGGG
1 GTTTATGGTTTAA-GATATAGGATTAAGGGTTGCG
*
94683131 GTTTAAGGTTTA
1 GTTTATGGTTTA
94683143 GGGGTTGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
34 23 0.56
35 13 0.32
36 5 0.12
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.42
Consensus pattern (34 bp):
GTTTATGGTTTAAGATATAGGATTAAGGGTTGCG
Found at i:94683313 original size:16 final size:17
Alignment explanation
Indices: 94683294--94683335 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
94683284 AAATTCTTTA
94683294 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
94683310 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
94683327 TAAAATAAT
1 T-AAATAAT
94683336 GATTATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:94683546 original size:21 final size:22
Alignment explanation
Indices: 94683528--94683568 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
94683518 ATGGTTTATT
94683528 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
*
94683549 GTTTAGGGGTTAGGGATTTA
1 GTTTAAGGGTTAGGGATTTA
94683569 GGGTTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:94683823 original size:23 final size:23
Alignment explanation
Indices: 94683795--94683841 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
94683785 AACTAATAAT
94683795 TTTTAACAAATAAAATAAA-AAAA
1 TTTTAACAAAT-AAATAAATAAAA
94683818 TTTTAACAAATAAATAAATAAAA
1 TTTTAACAAATAAATAAATAAAA
94683841 T
1 T
94683842 CACTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
TTTTAACAAATAAATAAATAAAA
Found at i:94683927 original size:38 final size:39
Alignment explanation
Indices: 94683844--94683928 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
94683834 AATAAAATCA
*
94683844 CTAAAAATAAGCATTAGCTGCGCTTTTCGGAAAACGCCG
1 CTAAAAATAAGCATTAGCTGCGCTTTTCAGAAAACGCCG
* *
94683883 CTAAAAATGAGCATTAG-TG-GCGTTTTTAGAAAAGCGCCG
1 CTAAAAATAAGCATTAGCTGCGC-TTTTCAGAAAA-CGCCG
*
94683922 CAAAAAA
1 CTAAAAA
94683929 ACTAGGCCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
37 2 0.05
38 11 0.28
39 27 0.68
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (39 bp):
CTAAAAATAAGCATTAGCTGCGCTTTTCAGAAAACGCCG
Found at i:94684798 original size:38 final size:38
Alignment explanation
Indices: 94684718--94684799 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
94684708 GGTTACAAAC
* * * *
94684718 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
94684756 TTTATCTGCTTTTTACATGTTTATCTCACAAA-GTTCGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTC-G
94684794 TTTATC
1 TTTATC
94684800 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 3 0.08
38 36 0.92
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.55
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
Found at i:94687563 original size:43 final size:43
Alignment explanation
Indices: 94687516--94687700 Score: 264
Period size: 43 Copynumber: 4.3 Consensus size: 43
94687506 TTTGTTTTTT
* * *
94687516 AAGCGTCGCTAAAGGTCAGGGTCTTTAGCGGCATTTGTCGGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
* * * *
94687559 AAGCGTCGCTAAAAGTCATCGTCTTTAGCGGCGTTTGTCGAAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
*
94687602 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
** *
94687645 AAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGT-GGGA
1 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
94687687 AAGCGCCGCTAAAG
1 AAGCGCCGCTAAAG
94687701 TTAGCGACGC
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 17 0.13
43 112 0.87
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAA
Found at i:94687571 original size:85 final size:85
Alignment explanation
Indices: 94687455--94687700 Score: 255
Period size: 86 Copynumber: 2.9 Consensus size: 85
94687445 AAAGCCATGT
** * * *****
94687455 TTTAGCGGCGTTTGTTAAAAAGCGCCGCTAAAACTCATCTTCATT-GTGGCGTTTGTTTTTTAAG
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAACTCATCGTCATTAGCGGCGTTTGTCGAAAAAG
*
94687519 CGTCGCTAAAGGTCAGGGTC
66 CGCCGCTAAAGGTCAGGGTC
* * * *
94687539 TTTAGCGGCATTTGTCGGAAAAGCGTCGCTAAAAGTCATCGTCTTTAGCGGCGTTTGTCGAAAAA
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAACTCATCGTCATTAGCGGCGTTTGTCGAAAAA
*
94687604 GCGCCGCTAAAGGTCATGGTC
65 GCGCCGCTAAAGGTCAGGGTC
** * * **
94687625 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAT-GACCTTTAGCGGCGTTTGT-GGGAA
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAACTCATCG-TCATTAGCGGCGTTTGTCGAAAA
94687688 AGCGCCGCTAAAG
64 AGCGCCGCTAAAG
94687701 TTAGCGACGC
Statistics
Matches: 137, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
84 14 0.10
85 41 0.30
86 82 0.60
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAACTCATCGTCATTAGCGGCGTTTGTCGAAAAAG
CGCCGCTAAAGGTCAGGGTC
Found at i:94690316 original size:89 final size:87
Alignment explanation
Indices: 94690187--94690348 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 87
94690177 ATTCGACGGA
* *
94690187 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACAC-T-GAAGTAGATCCAAGATG
94690252 ATTTGGCATCCTTGCGTTGACAAG
64 ATTTGGCATCCTTGCGTTGACAAG
* * ** * * *
94690276 GAGCAGATCGAAGACATAGTAGATTTGGCTTTCACG-TGTTTACGCTGAAGTAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATGTTTACACTGAAGTAGATCCAAGATGA
94690340 TTTGGCATC
65 TTTGGCATC
94690349 TTTGTACTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 26 0.41
88 1 0.02
89 35 0.56
90 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTACACTGAAGTAGATCCAAGATGAT
TTGGCATCCTTGCGTTGACAAG
Found at i:94690515 original size:78 final size:78
Alignment explanation
Indices: 94690383--94690597 Score: 236
Period size: 78 Copynumber: 2.8 Consensus size: 78
94690373 AAGAAACAGG
** * * * * * *
94690383 TTTGGCATCTCCATATTCGATGGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAGT
1 TTTGGCATCTCTGTATTAGACGGAGAGCAGATAAAAGACATAACAAATCTGACCTTCATTGAAGC
* *
94690448 AGATCCAAGATGA
66 AGATCCAAAATAA
* *
94690461 TTTGGCATCTCTGTATTAGACGGGGAGCAGATAAAAGACATAACAAAT-TCGACCTTCTTTGAAG
1 TTTGGCATCTCTGTATTAGACGGAGAGCAGATAAAAGACATAACAAATCT-GACCTTCATTGAAG
94690525 CAGATCCAAAATAA
65 CAGATCCAAAATAA
* * * * * *
94690539 TTTGGCATCTCTGTATTAGACAGAGAGTAGGTCAAAA-ACATAGCAGATCTGACTTTCAT
1 TTTGGCATCTCTGTATTAGACGGAGAGCAGAT-AAAAGACATAACAAATCTGACCTTCAT
94690598 GTGTTTACAT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
77 1 0.01
78 108 0.95
79 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (78 bp):
TTTGGCATCTCTGTATTAGACGGAGAGCAGATAAAAGACATAACAAATCTGACCTTCATTGAAGC
AGATCCAAAATAA
Found at i:94695696 original size:21 final size:21
Alignment explanation
Indices: 94695652--94695696 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
94695642 TAATTTGGAC
*
94695652 TTTATTTTGGTTATTTATTTA
1 TTTATTTTGGTTATTTATTGA
*
94695673 TTTATTTTGATTTATTT-TTGA
1 TTTATTTTG-GTTATTTATTGA
94695694 TTT
1 TTT
94695697 TTTGTGTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (21 bp):
TTTATTTTGGTTATTTATTGA
Found at i:94695698 original size:18 final size:18
Alignment explanation
Indices: 94695664--94695697 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94695654 TATTTTGGTT
*
94695664 ATTTATTTATTTATTTTG
1 ATTTATTTATTGATTTTG
94695682 ATTTATTT-TTGATTTT
1 ATTTATTTATTGATTTT
94695698 TTGTGTAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
ATTTATTTATTGATTTTG
Found at i:94696869 original size:15 final size:15
Alignment explanation
Indices: 94696831--94696886 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
94696821 CTTACCTTTG
94696831 TTTATTTATTTATTATA
1 TTTATTTA--TATTATA
94696848 TTTATTTATATTA-A
1 TTTATTTATATTATA
*
94696862 TTTGATTTGATTTTATA
1 TTT-ATTT-ATATTATA
*
94696879 ATTATTTA
1 TTTATTTA
94696887 GACATACCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.12
15 10 0.29
16 9 0.26
17 11 0.32
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTTATTTATATTATA
Found at i:94697092 original size:15 final size:15
Alignment explanation
Indices: 94697072--94697103 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
94697062 ACAAAGGGCT
94697072 TTCTATTTGATTAAA
1 TTCTATTTGATTAAA
94697087 TTCTATTTGATTAAA
1 TTCTATTTGATTAAA
94697102 TT
1 TT
94697104 GATACACAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (15 bp):
TTCTATTTGATTAAA
Found at i:94698478 original size:23 final size:22
Alignment explanation
Indices: 94698443--94698493 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
94698433 ATGTCACTTT
94698443 TTAGAA-TAATGCAGCCAAGCCG
1 TTAGAATTAATGCAG-CAAGCCG
* *
94698465 TTAGAATTAATGCAGTAATCCG
1 TTAGAATTAATGCAGCAAGCCG
94698487 TTAGAAT
1 TTAGAAT
94698494 CAAGTAGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (22 bp):
TTAGAATTAATGCAGCAAGCCG
Found at i:94710356 original size:20 final size:20
Alignment explanation
Indices: 94710318--94710356 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
94710308 AACGGATCAA
94710318 ACACGGCCTGGCAAACACGTC
1 ACACGGCCTGG-AAACACGTC
94710339 ACACGGCCGTGG-AACACG
1 ACACGGCC-TGGAAACACG
94710357 GCGTGTCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.28, C:0.36, G:0.28, T:0.08
Consensus pattern (20 bp):
ACACGGCCTGGAAACACGTC
Found at i:94711212 original size:13 final size:13
Alignment explanation
Indices: 94711196--94711228 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
94711186 TTCAATTAAA
*
94711196 TTAGTTAATTAGT
1 TTAGATAATTAGT
94711209 TTAGATAATTAGT
1 TTAGATAATTAGT
94711222 TTA-ATAA
1 TTAGATAA
94711229 AAAACACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:94717188 original size:149 final size:149
Alignment explanation
Indices: 94716918--94717216 Score: 580
Period size: 149 Copynumber: 2.0 Consensus size: 149
94716908 CTCCATCCAA
94716918 TATTCAGCTACGGTGGGAGTCGTACCAACAATACCTTTAAAATTTTTTTCCCCATTTAACAGAGT
1 TATTCAGCTACGGTGGGAGTCGTACCAACAATACCTTTAAAATTTTTTTCCCCATTTAACAGAGT
94716983 CTCTCTACAATAGATCCACGACTCTCCAATCCAATTTAGGCTCCACTAACCTTATTCAGAACCCT
66 CTCTCTACAATAGATCCACGACTCTCCAATCCAATTTAGGCTCCACTAACCTTATTCAGAACCCT
94717048 CAGCATTTCCTCTGTCACG
131 CAGCATTTCCTCTGTCACG
*
94717067 TATTCATCTACGGTGGGAGTCGTACCAACAATACCTTTAAAATTTTTTTCCCCATTTAACAGAGT
1 TATTCAGCTACGGTGGGAGTCGTACCAACAATACCTTTAAAATTTTTTTCCCCATTTAACAGAGT
*
94717132 CTCTCTACAATAGATCCACGGCTCTCCAATCCAATTTAGGCTCCACTAACCTTATTCAGAACCCT
66 CTCTCTACAATAGATCCACGACTCTCCAATCCAATTTAGGCTCCACTAACCTTATTCAGAACCCT
94717197 CAGCATTTCCTCTGTCACG
131 CAGCATTTCCTCTGTCACG
94717216 T
1 T
94717217 TGTTATCATT
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.31
Consensus pattern (149 bp):
TATTCAGCTACGGTGGGAGTCGTACCAACAATACCTTTAAAATTTTTTTCCCCATTTAACAGAGT
CTCTCTACAATAGATCCACGACTCTCCAATCCAATTTAGGCTCCACTAACCTTATTCAGAACCCT
CAGCATTTCCTCTGTCACG
Found at i:94727208 original size:21 final size:21
Alignment explanation
Indices: 94727175--94727229 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
94727165 CATGTATACT
* *
94727175 TTTAATAC-CAAAACGTAAGA
1 TTTAAAACTCAAAACGTAAAA
*
94727195 TTTAAAACTCAAAACTTAAAA
1 TTTAAAACTCAAAACGTAAAA
**
94727216 CCTAAAACTCAAAA
1 TTTAAAACTCAAAA
94727230 AATATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.24
Consensus pattern (21 bp):
TTTAAAACTCAAAACGTAAAA
Found at i:94739216 original size:32 final size:32
Alignment explanation
Indices: 94739138--94739218 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
94739128 TGTACGATTA
* * *
94739138 GGCCCACATGGCCCATATTGCCATGCCTGTGT
1 GGCCCACATGGCCCAAATTGCCATGCCCGTAT
** *
94739170 GGCCCACACAGCCCAAATTGCCTTGCCCGTAT
1 GGCCCACATGGCCCAAATTGCCATGCCCGTAT
*
94739202 GGCCCACGTGGCCCAAA
1 GGCCCACATGGCCCAAA
94739219 ATGGCCTAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.20, C:0.38, G:0.23, T:0.19
Consensus pattern (32 bp):
GGCCCACATGGCCCAAATTGCCATGCCCGTAT
Found at i:94741893 original size:40 final size:40
Alignment explanation
Indices: 94741829--94741907 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
94741819 GATTCCCCTC
94741829 TTAACATTGGTATATTTAGAATTTGGACCTAAATTCTCTA
1 TTAACATTGGTATATTTAGAATTTGGACCTAAATTCTCTA
* *
94741869 TTAATATTGGTATATTTAGGATTTGGACCTAAATTCTCT
1 TTAACATTGGTATATTTAGAATTTGGACCTAAATTCTCT
94741908 CTTTAACAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.44
Consensus pattern (40 bp):
TTAACATTGGTATATTTAGAATTTGGACCTAAATTCTCTA
Found at i:94752998 original size:17 final size:17
Alignment explanation
Indices: 94752972--94753004 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94752962 TGTGATCTTG
94752972 GATTAAACTCATGTTAA
1 GATTAAACTCATGTTAA
*
94752989 GATTATACTCATGTTA
1 GATTAAACTCATGTTA
94753005 TAGAATGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
GATTAAACTCATGTTAA
Found at i:94767496 original size:20 final size:20
Alignment explanation
Indices: 94767467--94767511 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
94767457 AGCACATGTA
* *
94767467 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
94767487 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
94767507 TTCAT
1 TTCAT
94767512 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:94768916 original size:15 final size:15
Alignment explanation
Indices: 94768896--94768927 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
94768886 AAGGTAGTAC
94768896 AACAGAACAAAGCAA
1 AACAGAACAAAGCAA
*
94768911 AACAGAACAGAGCAA
1 AACAGAACAAAGCAA
94768926 AA
1 AA
94768928 TAGGATAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.19, G:0.16, T:0.00
Consensus pattern (15 bp):
AACAGAACAAAGCAA
Found at i:94770597 original size:16 final size:15
Alignment explanation
Indices: 94770571--94770600 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
94770561 AGAAGGCAGA
94770571 AATAAAATAACAAAT
1 AATAAAATAACAAAT
94770586 AATAAGAATAACAAA
1 AATAA-AATAACAAA
94770601 CTAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (15 bp):
AATAAAATAACAAAT
Found at i:94770717 original size:8 final size:8
Alignment explanation
Indices: 94770704--94770738 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
94770694 GATGATATTA
94770704 ATAATAAT
1 ATAATAAT
94770712 ATAATAAT
1 ATAATAAT
94770720 ATAATAAT
1 ATAATAAT
*
94770728 AAAATAA-
1 ATAATAAT
94770735 ATAA
1 ATAA
94770739 AAAAACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 3 0.12
8 22 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAATAAT
Found at i:94770798 original size:17 final size:17
Alignment explanation
Indices: 94770769--94770803 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
94770759 TATCTAAAAG
94770769 GATATAAATAGATAAAT
1 GATATAAATAGATAAAT
94770786 GATA-AAATAAGATAAAT
1 GATATAAAT-AGATAAAT
94770803 G
1 G
94770804 TATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (17 bp):
GATATAAATAGATAAAT
Found at i:94784575 original size:16 final size:15
Alignment explanation
Indices: 94784551--94784581 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
94784541 ACAAGCCACA
94784551 AATAAAATAACAAAC
1 AATAAAATAACAAAC
94784566 AATAAGAATAACAAAC
1 AATAA-AATAACAAAC
94784582 TAAAAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13
Consensus pattern (15 bp):
AATAAAATAACAAAC
Found at i:94784653 original size:3 final size:3
Alignment explanation
Indices: 94784647--94784712 Score: 64
Period size: 3 Copynumber: 22.7 Consensus size: 3
94784637 ACAATTTAAG
* * * * * *
94784647 AAT AAT AAT AAT ATT AAT AAT AAT GAT GAT GAT GAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
94784695 AAT -AT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AA
94784713 ATAAAAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 4 0.07
3 51 0.93
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:94784776 original size:17 final size:17
Alignment explanation
Indices: 94784747--94784781 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
94784737 TATATAAAAG
94784747 GATATAAATAGATAAAT
1 GATATAAATAGATAAAT
94784764 GATA-AAATAAGATAAAT
1 GATATAAAT-AGATAAAT
94784781 G
1 G
94784782 TATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (17 bp):
GATATAAATAGATAAAT
Found at i:94792781 original size:28 final size:28
Alignment explanation
Indices: 94792750--94792872 Score: 148
Period size: 28 Copynumber: 4.6 Consensus size: 28
94792740 ACAACCGATC
94792750 TCGCACACATAGTGCTCGGTTAATAAAT
1 TCGCACACATAGTGCTCGGTTAATAAAT
94792778 TCGCACACATAGTGCTCGGTTAATAAAT
1 TCGCACACATAGTGCTCGGTTAATAAAT
* ****
94792806 TCGTACACATAGTGCT--G---CCCCAT
1 TCGCACACATAGTGCTCGGTTAATAAAT
*
94792829 TCGCACACATAGTGCCCGGTTAATAAAT
1 TCGCACACATAGTGCTCGGTTAATAAAT
*
94792857 TCGTACACATAGTGCT
1 TCGCACACATAGTGCT
94792873 GCCCCATTCG
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
23 16 0.21
25 1 0.01
26 1 0.01
28 59 0.77
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAATAAAT
Found at i:94792836 original size:23 final size:23
Alignment explanation
Indices: 94792804--94792894 Score: 74
Period size: 23 Copynumber: 3.7 Consensus size: 23
94792794 CGGTTAATAA
*
94792804 ATTCGTACACATAGTGCTGCCCC
1 ATTCGCACACATAGTGCTGCCCC
*****
94792827 ATTCGCACACATAGTGCCCGGTTAATAA
1 ATTCGCACACATAGTG--C---TGCCCC
*
94792855 ATTCGTACACATAGTGCTGCCCC
1 ATTCGCACACATAGTGCTGCCCC
94792878 ATTCGCACACATAGTGC
1 ATTCGCACACATAGTGC
94792895 CCTTTTCATT
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
23 32 0.64
25 1 0.02
26 1 0.02
28 16 0.32
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (23 bp):
ATTCGCACACATAGTGCTGCCCC
Found at i:94792850 original size:51 final size:51
Alignment explanation
Indices: 94792776--94792896 Score: 233
Period size: 51 Copynumber: 2.4 Consensus size: 51
94792766 CGGTTAATAA
*
94792776 ATTCGCACACATAGTGCTCGGTTAATAAATTCGTACACATAGTGCTGCCCC
1 ATTCGCACACATAGTGCCCGGTTAATAAATTCGTACACATAGTGCTGCCCC
94792827 ATTCGCACACATAGTGCCCGGTTAATAAATTCGTACACATAGTGCTGCCCC
1 ATTCGCACACATAGTGCCCGGTTAATAAATTCGTACACATAGTGCTGCCCC
94792878 ATTCGCACACATAGTGCCC
1 ATTCGCACACATAGTGCCC
94792897 TTTTCATTCA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (51 bp):
ATTCGCACACATAGTGCCCGGTTAATAAATTCGTACACATAGTGCTGCCCC
Found at i:94795428 original size:37 final size:37
Alignment explanation
Indices: 94795375--94795477 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
94795365 CGAATAGTCC
*
94795375 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
94795412 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
94795449 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
94795478 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:94795676 original size:48 final size:48
Alignment explanation
Indices: 94795618--94796339 Score: 1183
Period size: 48 Copynumber: 15.0 Consensus size: 48
94795608 ATATACACAC
* *
94795618 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94795666 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94795714 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
94795762 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
94795810 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94795858 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94795906 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
94795954 ATCTCATATATATTTCAAATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
94796002 ATCTCATATATATTTCAAATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
94796050 ATCTTATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94796098 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
94796146 ATCTCATAGATATTTCATATTAGCCATTCTGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94796194 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
94796242 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
94796290 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
94796338 AT
1 AT
94796340 ATTTATCTTG
Statistics
Matches: 642, Mismatches: 32, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 642 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:94799912 original size:55 final size:55
Alignment explanation
Indices: 94799847--94799982 Score: 263
Period size: 55 Copynumber: 2.5 Consensus size: 55
94799837 CGTGCCCTTA
*
94799847 GCCCGTGTACAACATTGACTTTAAAACACGACCATGACACACGCACGTGTGGCAT
1 GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCACGTGTGGCAT
94799902 GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCACGTGTGGCAT
1 GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCACGTGTGGCAT
94799957 GCCCGTGTACAACACTGACTTTAAAA
1 GCCCGTGTACAACACTGACTTTAAAA
94799983 TTTTAAGTGC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 80 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (55 bp):
GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCACGTGTGGCAT
Found at i:94800897 original size:47 final size:46
Alignment explanation
Indices: 94800795--94801012 Score: 239
Period size: 47 Copynumber: 4.7 Consensus size: 46
94800785 TATACGTGTT
* * * * * *
94800795 GATGCATGTCCCAGATATGTCTTACACTAGCA--CAACTCTTA-GCT
1 GATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTC-AAGGCC
94800839 GATGCATGTCCCAAACATGTCTTACACTGGCTA-TCATCGTCAAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGC-ACTCATC-TCAAGGCC
* * *
94800886 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCAAGGCC
* *
94800932 GATGCTATGTCCCAAACATGGTCTTACACTGGCACTCATAAT-GAGGCC
1 GATGC-ATGTCCCAAACAT-GTCTTACACTGGCACTCAT-CTCAAGGCC
*
94800980 GATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GATGCATGTCCCAAACATGTCTTACACTGGCAC
94801013 ACAAGTAATC
Statistics
Matches: 152, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
44 28 0.18
45 1 0.01
46 31 0.20
47 63 0.41
48 28 0.18
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCAAGGCC
Found at i:94800987 original size:94 final size:92
Alignment explanation
Indices: 94800795--94801012 Score: 300
Period size: 94 Copynumber: 2.4 Consensus size: 92
94800785 TATACGTGTT
* * *
94800795 GATGCATGTCCCAGATATGTCTTACACTAGCA-CAACTCTTAGCTGATGCATGTCCCAAACATGT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACCAACTCTTAGCCGATGCATGTCCCAAACATGT
**
94800859 CTTACACTGGCTATCATCGTCAAGGCC
66 CTTACACTGGCTATCATAATCAAGGCC
*
94800886 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTC-TACGCCGATGCTATGTCCCAAACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-CAACTCTTA-GCCGATGC-ATGTCCCAAACA
*
94800950 TGGTCTTACACTGGC-ACTCATAAT-GAGGCC
63 T-GTCTTACACTGGCTA-TCATAATCAAGGCC
94800980 GATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
94801013 ACAAGTAATC
Statistics
Matches: 114, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
91 30 0.26
92 2 0.02
93 12 0.11
94 52 0.46
95 18 0.16
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACCAACTCTTAGCCGATGCATGTCCCAAACATGT
CTTACACTGGCTATCATAATCAAGGCC
Found at i:94807348 original size:55 final size:54
Alignment explanation
Indices: 94807289--94807402 Score: 174
Period size: 55 Copynumber: 2.1 Consensus size: 54
94807279 GACCGTGTGT
* *
94807289 AACACCGACTTTAAAACACGGCCATGACACACGCCTGTGTGGCCTGCCCATGTAC
1 AACACCGACTTTAAAACACGGCCATGACACACGCCTATGTGGCC-ACCCATGTAC
* * *
94807344 AACACTGACTTTAAAACACGGCCATGACACATGCCTATGTGGCCACCCGTGTAC
1 AACACCGACTTTAAAACACGGCCATGACACACGCCTATGTGGCCACCCATGTAC
94807398 AACAC
1 AACAC
94807403 TAATTTTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 13 0.24
55 41 0.76
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.18
Consensus pattern (54 bp):
AACACCGACTTTAAAACACGGCCATGACACACGCCTATGTGGCCACCCATGTAC
Found at i:94808351 original size:48 final size:45
Alignment explanation
Indices: 94808177--94808398 Score: 189
Period size: 48 Copynumber: 4.8 Consensus size: 45
94808167 GATAAGTTGT
* * * *
94808177 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTCTATATATGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC-TC-ATATCT-AGC
* * * *
94808227 TGATGCATGTCTCAGACATGTCTTACACTAGCA--CA-ACTCTTAGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATA-TC-TAGC
* * *
94808271 AGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTACGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATCTA-GC
* * *
94808317 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-ATCTAGC
*
94808365 CGATGCATGTCGCAGACATGTCTTACACTGGCAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCAC
94808399 ACAAGTAATG
Statistics
Matches: 144, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 32 0.22
45 4 0.03
46 24 0.17
47 26 0.18
48 38 0.26
49 15 0.10
50 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATCTAGC
Found at i:94816388 original size:43 final size:43
Alignment explanation
Indices: 94816341--94816463 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
94816331 TATCTCATAT
* *
94816341 CGATGCCACTGTCCCAAAC-TGCGTCTTACACGTAATCG-ATTAA
1 CGATGCCAATGTCCCAGACATG-GTCTTACACGTAATCGTA-TAA
* *
94816384 CGATGCCAATGTCCTAGACATGGCCTTACACGTAATCGTATAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCGTATAA
* *
94816427 TGATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATC
94816464 TCATCTTAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 67 0.96
44 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCGTATAA
Done.