Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 31 of 335
Found at i:11381384 original size:30 final size:32
Alignment explanation
Indices: 11381340--11381399 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
11381330 TCAAGTTTGG
* *
11381340 ATTTGAGTCTTAAAT-CTATGAATG-ATAATA
1 ATTTGAATCCTAAATACTATGAATGCATAATA
11381370 ATTTGAATCCTAAATACTATGAATGCATAA
1 ATTTGAATCCTAAATACTATGAATGCATAA
11381400 GTGTTTGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 13 0.50
31 9 0.35
32 4 0.15
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (32 bp):
ATTTGAATCCTAAATACTATGAATGCATAATA
Found at i:11382290 original size:19 final size:18
Alignment explanation
Indices: 11382266--11382310 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
11382256 CCGCAACAAT
11382266 AAAAAAAGAACTGAAAAAG
1 AAAAAAA-AACTGAAAAAG
* *
11382285 AAAAAAACACTGAAAACG
1 AAAAAAAAACTGAAAAAG
11382303 AAAAAAAA
1 AAAAAAAA
11382311 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.76, C:0.09, G:0.11, T:0.04
Consensus pattern (18 bp):
AAAAAAAAACTGAAAAAG
Found at i:11382642 original size:23 final size:24
Alignment explanation
Indices: 11382616--11382674 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
11382606 TAGTTATTAA
* **
11382616 TATTGTTAGTAAAAAATCCTTGTTAT
1 TATTGTTAGTAAAAAA-CCATAAT-T
11382642 TATTGTTAGTAAAAAACCATAA-T
1 TATTGTTAGTAAAAAACCATAATT
11382665 TATTGTTAGT
1 TATTGTTAGT
11382675 TATTATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.37
25 3 0.10
26 16 0.53
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (24 bp):
TATTGTTAGTAAAAAACCATAATT
Found at i:11382667 original size:26 final size:26
Alignment explanation
Indices: 11382611--11382668 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
11382601 GTTGTTAGTT
* *
11382611 ATTAATATTGTTAGTAAAAAATCCTT
1 ATTATTATTGTTAGTAAAAAATCCTA
*
11382637 GTTATTATTGTTAGTAAAAAA-CCATA
1 ATTATTATTGTTAGTAAAAAATCC-TA
11382663 ATTATT
1 ATTATT
11382669 GTTAGTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (26 bp):
ATTATTATTGTTAGTAAAAAATCCTA
Found at i:11387700 original size:46 final size:46
Alignment explanation
Indices: 11387550--11387758 Score: 201
Period size: 46 Copynumber: 4.5 Consensus size: 46
11387540 TTTGTGTGCC
* * * * *
11387550 AGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCT
* * * *
11387598 AGTGTAAGACATGTTTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-ATGAGAGCT
* **
11387644 AGCGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCT
* * * *
11387690 AGTGTCAGACATGTCTAGGACATGCGTCGG-CTACGAGAT--GTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCT
*
11387734 AGTGTAAGACATGTCTGGAACATGC
1 AGTGTAAGACATGTCTGGGACATGC
11387759 GTCAGCACGG
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
44 25 0.19
45 4 0.03
46 81 0.60
47 15 0.11
48 9 0.07
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCT
Found at i:11388797 original size:28 final size:28
Alignment explanation
Indices: 11388740--11388797 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11388730 TTCTTTTGGA
*
11388740 TTATATTCTTGAATTTCTAATATAGTCT
1 TTATATTCTTGAATTTCTAATATAGGCT
* *
11388768 TTATA-TCTTGGAATTTCTTATATGGGCT
1 TTATATTCTT-GAATTTCTAATATAGGCT
11388796 TT
1 TT
11388798 TTTCTCGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.53
Consensus pattern (28 bp):
TTATATTCTTGAATTTCTAATATAGGCT
Found at i:11390613 original size:20 final size:18
Alignment explanation
Indices: 11390588--11390624 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
11390578 ATTGCTAAGT
11390588 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
11390608 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
11390625 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:11392408 original size:50 final size:50
Alignment explanation
Indices: 11392350--11392454 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
11392340 TTTTAATGTG
11392350 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
11392399 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
11392449 AGTATT
1 AGTATT
11392455 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:11394727 original size:146 final size:146
Alignment explanation
Indices: 11394319--11395516 Score: 1479
Period size: 146 Copynumber: 8.2 Consensus size: 146
11394309 ATAAGTAAAA
* * * * *
11394319 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
** * * *
11394383 TTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTTTTCGTATTTTTTTCATATC
66 --TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATC
11394448 TTATTTTTTAAAATATAT
129 TTATTTTTTAAAATATAT
*
11394466 TATTTTCGTATTTTATTTCTTTATATCATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
*
11394530 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTTCGTATCTT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
11394595 ATTTTTTAAAATATAT
131 ATTTTTTAAAATATAT
* * *
11394611 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTTAAATATATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
*
11394676 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
11394741 ATTTTTTAAAATATAT
131 ATTTTTTAAAATATAT
* * * * * * *
11394757 TATTTTTGTATTTTATTTTTTTATATTATTTTAGCA-AAAATATTTTAAATGTATTATGTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
* ** * *
11394821 TTTTTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTTTTCGTCTTTTTATTTTCGT
65 ATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCG--TATTT-TTTTCGT
*
11394885 AACTTA-TTTTTAAAATATAT
126 ATCTTATTTTTTAAAATATAT
* * * *
11394905 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTGCGTAATGTTTCAAATATATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* *
11394970 TTTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
66 -TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCT
11395035 TATTTTTTAAAATATAT
130 TATTTTTTAAAATATAT
* * * * *
11395052 TATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
** *
11395116 TTTCTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCGTAATTTTTTATTTTC
66 TTT-TTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A---TTT-TTTTC
11395180 GTATCTTATTTTTTAAAATATAT
124 GTATCTTATTTTTTAAAATATAT
* * *
11395203 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTCCATAATATTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* * *
11395268 TTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTTGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
11395332 ATTTTTTAAAATATAT
131 ATTTTTTAAAATATAT
** *
11395348 TATTTTCGTATTTTA------T-T-TTA--GCA-TA-A-AATCTTTCAAATGTATTATTTAAGT-
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
** * * * * * **
11395399 TTTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTGTTCATATTTTTTTATTTTCAA
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA----TTT-TTTTCGT
* *
11395464 ATTTTATTTTTTAAAATATAC
126 ATCTTATTTTTTAAAATATAT
*
11395485 TATTTTCATATTTTATTT-TTTATATTATTTTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTA
11395517 ACAAAAAACT
Statistics
Matches: 922, Mismatches: 94, Indels: 71
0.85 0.09 0.07
Matches are distributed among these distances:
131 9 0.01
132 58 0.06
133 1 0.00
134 1 0.00
135 1 0.00
136 3 0.00
137 40 0.04
138 1 0.00
139 1 0.00
142 1 0.00
143 1 0.00
144 3 0.00
145 205 0.22
146 247 0.27
147 54 0.06
148 89 0.10
149 75 0.08
150 37 0.04
151 52 0.06
152 43 0.05
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (146 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATCTT
ATTTTTTAAAATATAT
Found at i:11394747 original size:15 final size:14
Alignment explanation
Indices: 11394727--11394788 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 14
11394717 TTATTCGTAT
11394727 TTTTTTCGTATATTA
1 TTTTTT-GTATATTA
*
11394742 TTTTTTAAAATATATTA
1 TTTTTT---GTATATTA
*
11394759 -TTTTTGTATTTTA
1 TTTTTTGTATATTA
11394772 TTTTTT-TATATTA
1 TTTTTTGTATATTA
11394785 TTTT
1 TTTT
11394789 AGCAAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
13 16 0.41
14 5 0.13
15 6 0.15
16 5 0.13
17 7 0.18
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTTTTGTATATTA
Found at i:11395026 original size:295 final size:293
Alignment explanation
Indices: 11394319--11395516 Score: 1625
Period size: 295 Copynumber: 4.1 Consensus size: 293
11394309 ATAAGTAAAA
* * * * * * *
11394319 TATTTTCGTATATTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATATATTATTTAAGTA
* * * * *
11394383 TTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTTTTCGTATTTTTTTCATATC
66 -TTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATA
* * * *
11394448 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATCATTTTAGTACATAATGTTTC
129 TTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGCACAAAATATTTC
**
11394513 AAATGTATTATTTAAGTTTTTTTATATTTTTTTAATAAATAACCCTGATTTT-AGCACTTTATTT
193 AAATGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTT-TTT
* *
11394577 -G--TATTT-TTTTCGTATCTTATTTTTTAAAATATAT
256 CGTTTTTTTATTTTCGTAACTTATTTTTTAAAATATAT
*
11394611 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTTAAATATATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATATATTATTTAAGTA
11394676 -TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
66 TTTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
* *
11394740 TATTTTTTAAAATATATTATTTTTGTATTTTATTTTTTTATATTATTTTAGCA-AAAATATTTTA
130 TATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTTATATTATTTTAGCACAAAATATTTCA
*
11394804 AATGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTTC
194 AATGTATTATTTAA--GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTTC
*
11394869 GTCTTTTTATTTTCGTAACTTA-TTTTTAAAATATAT
257 GTTTTTTTATTTTCGTAACTTATTTTTTAAAATATAT
* * * *
11394905 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTGCGTAATGTTTCAAATATATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATATATTATTTAAGTA
11394970 TTTTTTTATATTTTTTCAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
66 TTTTTTTATATTTTTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
* *
11395035 TATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAA
130 TATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCACAAAATATTTCAA
* *
11395100 ATGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCG
195 ATGTATTATTTAAGT-TTT-TTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTTCG
*
11395165 TAATTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
258 T--TTTTTTATTTTCGTAACTTATTTTTTAAAATATAT
* *
11395203 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTCCATAATATTTCAAATGTATTATTTAAGT-
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATATATTATTTAAGTA
* * *
11395267 GTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTTGTATATT
66 TTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
* *
11395332 ATTTTTTAAAATATATTATTTTCG-----TA-----T-T-TTATTTTAGCATAAAATCTTTCAAA
131 ATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCACAAAATATTTCAAA
* * * * *
11395385 TGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTGTTCATAT
196 TGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTTC--GT
* * *
11395450 TTTTTTATTTTC-AAATTTTATTTTTTAAAATATAC
259 TTTTTTATTTTCGTAA-CTTATTTTTTAAAATATAT
*
11395485 TATTTTCATATTTTATTT-TTTATATTATTTTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTA
11395517 ACAAAAAACT
Statistics
Matches: 827, Mismatches: 58, Indels: 53
0.88 0.06 0.06
Matches are distributed among these distances:
281 15 0.02
282 86 0.10
283 3 0.00
284 37 0.04
285 1 0.00
286 1 0.00
290 21 0.03
291 107 0.13
292 64 0.08
293 42 0.05
294 107 0.13
295 166 0.20
296 71 0.09
297 33 0.04
298 73 0.09
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (293 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATATATTATTTAAGTA
TTTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
ATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCACAAAATATTTCAAA
TGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTTTTCGTTT
TTTTATTTTCGTAACTTATTTTTTAAAATATAT
Found at i:11395382 original size:132 final size:135
Alignment explanation
Indices: 11395246--11395503 Score: 380
Period size: 132 Copynumber: 1.9 Consensus size: 135
11395236 GTCCATAATA
* * *
11395246 TTTCAAATGTATTATTTAAGTGTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTT
1 TTTCAAATGTATTATTTAAGT-TTTTTTATATTAATTTAATAAATAACCCTGACTTTAGCACCTT
* *
11395310 ATTCATA-TTTTTT-TTGT-ATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTAGCAT
65 ATTCATATTTTTTTATTGTAATATTATTTTTTAAAATATACTATTTTCATATTTTATTTTAGCAT
11395372 AAAATC
130 AAAATC
* *
11395378 TTTCAAATGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTG
1 TTTCAAATGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAACCCTGACTTTAGCACCTTA
* *
11395443 TTCATATTTTTTTATTTTCAAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTT
66 TTCATATTTTTTTATTGT--AATATTATTTTTTAAAATATACTATTTTCATATTTTATTTT
11395504 TTATATTATT
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
131 11 0.10
132 54 0.49
133 6 0.05
134 3 0.03
137 37 0.33
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (135 bp):
TTTCAAATGTATTATTTAAGTTTTTTTATATTAATTTAATAAATAACCCTGACTTTAGCACCTTA
TTCATATTTTTTTATTGTAATATTATTTTTTAAAATATACTATTTTCATATTTTATTTTAGCATA
AAATC
Found at i:11396015 original size:19 final size:17
Alignment explanation
Indices: 11395993--11396051 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
11395983 ACCTTTTTTT
11395993 TTCTTCTTTTCCTTCCCTC
1 TTCTTCTTTTCCTT--CTC
*
11396012 TTCTTCTTCTCCTTCTC
1 TTCTTCTTTTCCTTCTC
* * *
11396029 TTTTTCTTTTTCTT-TT
1 TTCTTCTTTTCCTTCTC
11396045 TTCTTCT
1 TTCTTCT
11396052 GTCAACTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 7 0.21
17 14 0.41
19 13 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTTCTTTTCCTTCTC
Found at i:11396096 original size:3 final size:3
Alignment explanation
Indices: 11396079--11396145 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
11396069 TCCTCCTCCC
* * *
11396079 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTT -TC CTT CTT CTC CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
11396123 CTT -TT CTT TTT CTC CTC CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT
11396146 TGTTCTCGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
2 5 0.10
3 42 0.84
4 3 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:11396100 original size:16 final size:19
Alignment explanation
Indices: 11396086--11396146 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 19
11396076 CCCCTTCTTT
11396086 TTCTTT-CTTCTTCTTCTC
1 TTCTTTCCTTCTTCTTCTC
11396104 TTCTTTCCTTCTTC-TC-C
1 TTCTTTCCTTCTTCTTCTC
* * *
11396121 TTCTTTTCTTTTTCTCCTCC
1 TTCTTTCCTTCTTCTTCT-C
11396141 TTCTTT
1 TTCTTT
11396147 GTTCTCGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 13 0.36
18 9 0.25
19 7 0.19
20 7 0.19
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
TTCTTTCCTTCTTCTTCTC
Found at i:11396115 original size:22 final size:22
Alignment explanation
Indices: 11396081--11396144 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
11396071 CTCCTCCCCT
* *
11396081 TCTT-TTTCTTTCTTCTTCTTC
1 TCTTCTTTCCTTCTTCTCCTTC
11396102 TCTTCTTTCCTTCTTCTCCTTC
1 TCTTCTTTCCTTCTTCTCCTTC
* *
11396124 TTTTCTTT--TTCTCCTCCTTC
1 TCTTCTTTCCTTCTTCTCCTTC
11396144 T
1 T
11396145 TTGTTCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 12 0.32
21 4 0.11
22 22 0.58
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (22 bp):
TCTTCTTTCCTTCTTCTCCTTC
Found at i:11396151 original size:22 final size:21
Alignment explanation
Indices: 11396078--11396151 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
11396068 CTCCTCCTCC
11396078 CCTTCTTTTTCTTTCTTCTTCT
1 CCTTCTTTTTCTTT-TTCTTCT
* *
11396100 TC-TCTTCTTTC--CTTCTTCT
1 CCTTCTT-TTTCTTTTTCTTCT
*
11396119 CCTTC-TTTTCTTTTTCTCCT
1 CCTTCTTTTTCTTTTTCTTCT
11396139 CCTTCTTTGTTCT
1 CCTTCTTT-TTCT
11396152 CGAAAATGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
18 4 0.10
19 9 0.22
20 13 0.32
21 6 0.15
22 9 0.22
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (21 bp):
CCTTCTTTTTCTTTTTCTTCT
Found at i:11396319 original size:18 final size:18
Alignment explanation
Indices: 11396296--11396337 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
11396286 TTTATTTTTA
*
11396296 TTTTTTCGTTTTCAGTGTT
1 TTTTTTCGTTTTCAAT-TT
*
11396315 TTTTTTCTTTTTCAATTT
1 TTTTTTCGTTTTCAATTT
11396333 TTTTT
1 TTTTT
11396338 ACTGTTGCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.76
Consensus pattern (18 bp):
TTTTTTCGTTTTCAATTT
Found at i:11403060 original size:26 final size:29
Alignment explanation
Indices: 11403014--11403082 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 29
11403004 TTAATTGTTA
* * *
11403014 TTTGATAAATTAAGATTTTAATAA-TA-T
1 TTTGAAAAATTAAGATATTAAAAATTATT
11403041 TTTGAAAAATTAA-ATATTAAAAATTATT
1 TTTGAAAAATTAAGATATTAAAAATTATT
*
11403069 TTTAAAAAATTAAG
1 TTTGAAAAATTAAG
11403083 TATGGAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.23
27 14 0.40
28 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (29 bp):
TTTGAAAAATTAAGATATTAAAAATTATT
Found at i:11404625 original size:19 final size:19
Alignment explanation
Indices: 11404601--11404637 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11404591 TTAAATGTTA
11404601 AAATTTTAATTTAATATAT
1 AAATTTTAATTTAATATAT
*
11404620 AAATTTTAATTTGATATA
1 AAATTTTAATTTAATATA
11404638 ATTACATATT
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AAATTTTAATTTAATATAT
Found at i:11414758 original size:18 final size:18
Alignment explanation
Indices: 11414735--11414799 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
11414725 TCTTTAGTAT
11414735 TTTTTAAATTATTATAAA
1 TTTTTAAATTATTATAAA
* *
11414753 TTTTTAAAATAATATAAA
1 TTTTTAAATTATTATAAA
*
11414771 -TTTTAGAATTTTTATAAA
1 TTTTTA-AATTATTATAAA
*
11414789 TATTTTGAATT
1 T-TTTTAAATT
11414800 TTTTTTTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 5 0.13
18 25 0.66
19 4 0.11
20 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTTTAAATTATTATAAA
Found at i:11414801 original size:18 final size:18
Alignment explanation
Indices: 11414765--11414802 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
11414755 TTTAAAATAA
11414765 TATAAATTTTAGAATTTT
1 TATAAATTTTAGAATTTT
*
11414783 TATAAATATTTTGAATTTT
1 TATAAAT-TTTAGAATTTT
11414802 T
1 T
11414803 TTTTTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TATAAATTTTAGAATTTT
Found at i:11416746 original size:27 final size:29
Alignment explanation
Indices: 11416698--11416757 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
11416688 CAGCAGACAA
*
11416698 TACTTACCTTTCAAATTTTTTTTTTGTTTTT
1 TACTTACCTTTCAAA--TTTTTTTTATTTTT
11416729 TACTTACCTTTC-AA-TTTTTTTATTTTT
1 TACTTACCTTTCAAATTTTTTTTATTTTT
11416756 TA
1 TA
11416758 TTTTGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 14 0.50
30 2 0.07
31 12 0.43
ACGTcount: A:0.18, C:0.13, G:0.02, T:0.67
Consensus pattern (29 bp):
TACTTACCTTTCAAATTTTTTTTATTTTT
Found at i:11423249 original size:31 final size:32
Alignment explanation
Indices: 11423212--11423273 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
11423202 ATAAGTTTTC
*
11423212 ATTAATAAGTGATATGTGAAAAATA-AATTAA
1 ATTAATAAGTGAAATGTGAAAAATATAATTAA
11423243 ATTAATAAGTGAAATGTGAAAAATATAATTA
1 ATTAATAAGTGAAATGTGAAAAATATAATTA
11423274 CTTTTTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (32 bp):
ATTAATAAGTGAAATGTGAAAAATATAATTAA
Found at i:11425758 original size:35 final size:34
Alignment explanation
Indices: 11425709--11425774 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
11425699 ATTTAATTAT
*
11425709 TTTTTAAAATTTTAAAAATATATAATTTTTATAG
1 TTTTTAAAAATTTAAAAATATATAATTTTTATAG
** *
11425743 TTTTTAATAAATTTAATGATTTATAATTTTTA
1 TTTTTAA-AAATTTAAAAATATATAATTTTTA
11425775 AAAATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 7 0.26
35 20 0.74
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (34 bp):
TTTTTAAAAATTTAAAAATATATAATTTTTATAG
Found at i:11425781 original size:17 final size:17
Alignment explanation
Indices: 11425762--11425797 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11425752 AATTTAATGA
11425762 TTTATAATTTTTAAAAAT
1 TTTA-AATTTTTAAAAAT
11425780 TTTAAATTTTTAAAAAT
1 TTTAAATTTTTAAAAAT
11425797 T
1 T
11425798 AAATAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATTTTTAAAAAT
Found at i:11425791 original size:26 final size:25
Alignment explanation
Indices: 11425709--11425791 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 25
11425699 ATTTAATTAT
* *
11425709 TTTTTA-AAATTTTAAAAATATATAA
1 TTTTTATAATTTTTAAAAATTTA-AA
*
11425734 TTTTTATAGTTTTTAATAAATTT-AA
1 TTTTTATAATTTTTAA-AAATTTAAA
*
11425759 TGATTTATAATTTTTAAAAATTTTAAA
1 T-TTTTATAATTTTTAAAAA-TTTAAA
11425786 TTTTTA
1 TTTTTA
11425792 AAAATTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
25 12 0.26
26 27 0.57
27 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTTTATAATTTTTAAAAATTTAAA
Found at i:11445789 original size:24 final size:24
Alignment explanation
Indices: 11445762--11445813 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
11445752 TCAGATTATG
* *
11445762 CAGCAGAAGCATCAA-CTAATGCAA
1 CAGCAGAAGCAGCAAGC-AAAGCAA
*
11445786 CAGCAGCAGCAGCAAGCAAAGCAA
1 CAGCAGAAGCAGCAAGCAAAGCAA
11445810 CAGC
1 CAGC
11445814 TGCCCACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (24 bp):
CAGCAGAAGCAGCAAGCAAAGCAA
Found at i:11461372 original size:18 final size:18
Alignment explanation
Indices: 11461331--11461372 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11461321 ATTTTGATAA
11461331 TTCAA-ATAATTAATATT
1 TTCAATATAATTAATATT
*
11461348 TTTAATATAATT-ATATT
1 TTCAATATAATTAATATT
11461365 TGTCAATA
1 T-TCAATA
11461373 ATATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (18 bp):
TTCAATATAATTAATATT
Found at i:11462162 original size:17 final size:19
Alignment explanation
Indices: 11462128--11462171 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11462118 CTTTCTTAGT
*
11462128 AAAACTTAATTCAAAGTA-A
1 AAAATTTAATTC-AAGTAGA
11462147 AAAATTTAATTC-AGTAGA
1 AAAATTTAATTCAAGTAGA
11462165 AAAATTT
1 AAAATTT
11462172 CTTAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (19 bp):
AAAATTTAATTCAAGTAGA
Found at i:11462756 original size:22 final size:23
Alignment explanation
Indices: 11462725--11462773 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
11462715 CTTAATTCGA
* *
11462725 TTTTAGTTAAATTTAA-CATTAT
1 TTTTAGTTAAACTTAATCATAAT
*
11462747 TTTTATTTAAACTTAATCATAAT
1 TTTTAGTTAAACTTAATCATAAT
11462770 TTTT
1 TTTT
11462774 TAAAAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTAGTTAAACTTAATCATAAT
Found at i:11469369 original size:22 final size:21
Alignment explanation
Indices: 11469339--11469385 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
11469329 GGTTGATAAG
* *
11469339 AAAAAGTAAATATAAATTGTA
1 AAAAAGTAAAAATAAATTATA
*
11469360 AAAAAGGTAAAAATATATTATA
1 AAAAA-GTAAAAATAAATTATA
11469382 AAAA
1 AAAA
11469386 TTTAAAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (21 bp):
AAAAAGTAAAAATAAATTATA
Found at i:11470361 original size:3 final size:3
Alignment explanation
Indices: 11470353--11470383 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11470343 TATTTTAACG
11470353 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11470384 TAATTAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11471102 original size:3 final size:3
Alignment explanation
Indices: 11471094--11471122 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11471084 TAAATTCTCT
11471094 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11471123 TAAATTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11484922 original size:11 final size:12
Alignment explanation
Indices: 11484891--11484923 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11484881 TTTTACATTG
11484891 GTTTCTTTTCCA
1 GTTTCTTTTCCA
*
11484903 GTTTTTTTTCCA
1 GTTTCTTTTCCA
11484915 -TTTCTTTTC
1 GTTTCTTTTC
11484924 TAAGATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (12 bp):
GTTTCTTTTCCA
Found at i:11499051 original size:32 final size:32
Alignment explanation
Indices: 11499003--11499086 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 32
11498993 TTATAATTAA
11499003 TATAATTTATTATTTTAATAAAACCA-TTTAATAT
1 TATAA-TT-TTATTTTAATAAAA-CATTTTAATAT
* *
11499037 TATAATTTTATTTTAATAATACATTTTAATGT
1 TATAATTTTATTTTAATAAAACATTTTAATAT
*
11499069 TAATAATTTAAATTTTAA
1 T-ATAATTT-TATTTTAA
11499087 ATATTTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 2 0.05
32 21 0.48
33 9 0.20
34 12 0.27
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (32 bp):
TATAATTTTATTTTAATAAAACATTTTAATAT
Found at i:11499714 original size:42 final size:42
Alignment explanation
Indices: 11499667--11499750 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
11499657 AATGTTTCCA
11499667 ACTTAAAATAATTTGAAAAAAAGTGTCGAAAATTTTTAAATT
1 ACTTAAAATAATTTGAAAAAAAGTGTCGAAAATTTTTAAATT
11499709 ACTTAAAATAATTTGAAAAAAAGTGTCGAAAATTTTTAAATT
1 ACTTAAAATAATTTGAAAAAAAGTGTCGAAAATTTTTAAATT
11499751 TGAACCGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (42 bp):
ACTTAAAATAATTTGAAAAAAAGTGTCGAAAATTTTTAAATT
Found at i:11502769 original size:23 final size:24
Alignment explanation
Indices: 11502724--11502769 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
11502714 AACTTTAATT
*
11502724 TTTTAATGTAATATTAATTTATAG
1 TTTTAATGAAATATTAATTTATAG
11502748 TTTTAAT-AAATA-TAATTGTATA
1 TTTTAATGAAATATTAATT-TATA
11502770 AAAGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTTAATGAAATATTAATTTATAG
Found at i:11508008 original size:53 final size:53
Alignment explanation
Indices: 11507867--11508017 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
11507857 ATAAGTGCGC
* **
11507867 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
11507920 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
11507973 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
11508018 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:11515481 original size:53 final size:53
Alignment explanation
Indices: 11515340--11515490 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
11515330 ATAAGTGCGC
* **
11515340 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
11515393 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
11515446 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
11515491 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:11522925 original size:54 final size:54
Alignment explanation
Indices: 11522789--11522957 Score: 220
Period size: 54 Copynumber: 3.1 Consensus size: 54
11522779 ATTGACGAAA
* * **
11522789 ATATGTGATAA-GTG-CGCCCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGC
1 ATATGTGATAATGTGAC-TCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
11522842 A-ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
1 ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * *
11522895 ATATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTAT
1 ATATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT
11522949 GATATGTGA
1 -ATATGTGA
11522958 ACCGTGTAAG
Statistics
Matches: 104, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
52 9 0.09
53 39 0.38
54 48 0.46
55 8 0.08
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
ATATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:11526057 original size:12 final size:12
Alignment explanation
Indices: 11526036--11526065 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11526026 ATCCTGTTGT
11526036 TGATGATGATGC
1 TGATGATGATGC
*
11526048 TGATGCTGATGC
1 TGATGATGATGC
11526060 TGATGA
1 TGATGA
11526066 ATTTGAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.33
Consensus pattern (12 bp):
TGATGATGATGC
Found at i:11530633 original size:112 final size:111
Alignment explanation
Indices: 11530436--11530664 Score: 343
Period size: 112 Copynumber: 2.0 Consensus size: 111
11530426 AATATTTGAG
*
11530436 TATACAATTATAGATGGACCATAAGGAACCGTACATATTGACTAATAAAAACATTGCATGCTTTG
1 TATACAATTATAGATGGACCATAAGGAACCATACA-ATTGACTAATAAAAACATTGCATGCTTTG
* * *
11530501 TAAATAAATTAGACCACACTTTAGAGCTTATTGTATGTCTTATGCTT
65 TAAATAAACTAAACCACACTTTAGAGCTTATTATATGTCTTATGCTT
* *
11530548 TATACATATATATGGATGGACCATAAGGAACCATAC-ATTGACTAATAAAAACATTGCATGTTTT
1 TATACA-AT-TATAGATGGACCATAAGGAACCATACAATTGACTAATAAAAACATTGCATGCTTT
* * *
11530612 GTAGATAAACTAAACCACACTTTGGAGTTTATTATATGTCTTATGCTT
64 GTAAATAAACTAAACCACACTTTAGAGCTTATTATATGTCTTATGCTT
11530660 TATAC
1 TATAC
11530665 GTGCATATAG
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
112 80 0.75
113 2 0.02
114 24 0.23
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (111 bp):
TATACAATTATAGATGGACCATAAGGAACCATACAATTGACTAATAAAAACATTGCATGCTTTGT
AAATAAACTAAACCACACTTTAGAGCTTATTATATGTCTTATGCTT
Found at i:11534121 original size:20 final size:18
Alignment explanation
Indices: 11534096--11534143 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
11534086 AAAAATTATA
11534096 AAAAAAATTATTAAATTTT
1 AAAAAAA-TATTAAATTTT
11534115 AATAAAAA-ATTAATATTTT
1 AA-AAAAATATTAA-ATTTT
11534134 AAAAAAATAT
1 AAAAAAATAT
11534144 AAAAATAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAAAATATTAAATTTT
Found at i:11534132 original size:19 final size:17
Alignment explanation
Indices: 11534105--11534140 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
11534095 AAAAAAAATT
11534105 ATTAAATTTTAATAAAAA
1 ATTAAATTTTAA-AAAAA
11534123 ATTAATATTTTAAAAAAA
1 ATTAA-ATTTTAAAAAAA
11534141 TATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTAAATTTTAAAAAAA
Found at i:11534139 original size:18 final size:19
Alignment explanation
Indices: 11534088--11534140 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
11534078 ATGTGGTAAA
*
11534088 AAATTATAAAAAAAATTATT
1 AAATTTTAAAAAAAATTA-T
11534108 AAATTTTAATAAAAAATTA-
1 AAATTTTAA-AAAAAATTAT
*
11534127 ATATTTTAAAAAAA
1 AAATTTTAAAAAAA
11534141 TATAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 8 0.27
20 8 0.27
21 9 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTTTAAAAAAAATTAT
Found at i:11534155 original size:9 final size:8
Alignment explanation
Indices: 11534136--11534176 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
11534126 AATATTTTAA
11534136 AAAAATAT
1 AAAAATAT
11534144 AAAAATAGT
1 AAAAATA-T
11534153 AAAAAATAT
1 -AAAAATAT
11534162 AAAAATA-
1 AAAAATAT
11534169 AAAAATAT
1 AAAAATAT
11534177 TGTAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.23
8 14 0.47
9 2 0.07
10 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:11534626 original size:25 final size:25
Alignment explanation
Indices: 11534596--11534651 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
11534586 AACGGTCAAC
11534596 CGTTAAAGTTAACGGTCAAAGAATT
1 CGTTAAAGTTAACGGTCAAAGAATT
**
11534621 CGTTAACTTTAACGGTCAAAGAATT
1 CGTTAAAGTTAACGGTCAAAGAATT
11534646 CGTTAA
1 CGTTAA
11534652 CTTTAATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (25 bp):
CGTTAAAGTTAACGGTCAAAGAATT
Found at i:11534652 original size:25 final size:25
Alignment explanation
Indices: 11534604--11534664 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
11534594 ACCGTTAAAG
11534604 TTAACGGTCAAAGAATTCGTTAACT
1 TTAACGGTCAAAGAATTCGTTAACT
11534629 TTAACGGTCAAAGAATTCGTTAACT
1 TTAACGGTCAAAGAATTCGTTAACT
*
11534654 TTAATGGTCAA
1 TTAACGGTCAA
11534665 CCGTTAAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (25 bp):
TTAACGGTCAAAGAATTCGTTAACT
Found at i:11541834 original size:25 final size:22
Alignment explanation
Indices: 11541812--11541854 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11541802 TTCATTATAA
11541812 ATGGTTTTTAATTATTTTTTTAT
1 ATGGTTTTT-ATTATTTTTTTAT
* *
11541835 TTGGTTTTTTTTATTTTTTT
1 ATGGTTTTTATTATTTTTTT
11541855 TAATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (22 bp):
ATGGTTTTTATTATTTTTTTAT
Found at i:11546698 original size:18 final size:19
Alignment explanation
Indices: 11546677--11546718 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
11546667 ATTCCGGATT
*
11546677 TTTTATAACTA-TTAAGTA
1 TTTTATAACTATTTAAGAA
*
11546695 TTTTA-AATTATTTAAGAA
1 TTTTATAACTATTTAAGAA
11546713 TTTTAT
1 TTTTAT
11546719 GTCAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTATAACTATTTAAGAA
Found at i:11549142 original size:13 final size:13
Alignment explanation
Indices: 11549124--11549149 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11549114 TACCATTCCG
11549124 AACTTTTTTTTTT
1 AACTTTTTTTTTT
11549137 AACTTTTTTTTTT
1 AACTTTTTTTTTT
11549150 CTTTTCATCC
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:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
AACTTTTTTTTTT
Found at i:11550141 original size:183 final size:183
Alignment explanation
Indices: 11549821--11550190 Score: 551
Period size: 183 Copynumber: 2.0 Consensus size: 183
11549811 CAACTGGCAC
11549821 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
1 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
* ** * * *
11549886 ATCCTGAGACCTGACAGACTGAGTAACAGGTCCCTTTCGCAACGCTTGCTGCTCTTCGAACTCAC
66 ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
* *
11549951 AGAGGGCATATTGAATTCCTTGGCCATGTTCCAAACTATCACTAGTCTTTGAT
131 AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
* *** *
11550004 AAATTGTCCCATGAACTGGTTCTGTCTTCTAAGGGGATCTTTGGTTGATTTGAAGTCTCAACTAC
1 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
* * * *
11550069 ATCTTGAAACCTGGCAGACTGAGTAACAGACCCCTTTTGCAACCCTTGCAGCTCTTCAAACTCGC
66 ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
* ** *
11550134 TGAGGGCATATTGAATTCCTTGGCCATATTCTGAGCTATCACTAGTCTTTAAT
131 AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
11550187 AAAT
1 AAAT
11550191 GACTGATTCT
Statistics
Matches: 166, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
183 166 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (183 bp):
AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
Found at i:11558511 original size:27 final size:27
Alignment explanation
Indices: 11558462--11558531 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
11558452 AAATAAATAA
* *
11558462 AAAAATATAAATATTTAACTTTAACTT
1 AAAAATATAAATATTTAAATTTAAATT
*
11558489 AAAAATAT-AATTTTTAAAATTTAAATT
1 AAAAATATAAATATTT-AAATTTAAATT
* *
11558516 TAAAATTTAAAATATT
1 AAAAATAT-AAATATT
11558532 ACACTTAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 6 0.18
27 23 0.68
29 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAAATATAAATATTTAAATTTAAATT
Found at i:11558519 original size:13 final size:13
Alignment explanation
Indices: 11558501--11558526 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11558491 AAATATAATT
11558501 TTTAAAATTTAAA
1 TTTAAAATTTAAA
11558514 TTTAAAATTTAAA
1 TTTAAAATTTAAA
11558527 ATATTACACT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAAATTTAAA
Found at i:11559175 original size:93 final size:93
Alignment explanation
Indices: 11559006--11559175 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
11558996 AATATTAACC
* * * *
11559006 GTAAAACGGACATGAAATATACAAAAAATAAAAGAATCTATTGAATGTTTTATGATTTGTAAAAT
1 GTAAAACGGACATAAAACATACAAAAAATAAAAGAAACAATTGAATGTTTTATGATTTGTAAAAT
*
11559071 TTAACGTTTCAAATCTCAAACATGGACA
66 TTAACGATTCAAATCTCAAACATGGACA
* * *
11559099 GTAAAATGGACATAAAACATACCAAAAATAAAATAAACAATTGAATGTTTTATGATTTGTAAAAT
1 GTAAAACGGACATAAAACATACAAAAAATAAAAGAAACAATTGAATGTTTTATGATTTGTAAAAT
*
11559164 TTAATGATTCAA
66 TTAACGATTCAA
11559176 TTCAATCTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (93 bp):
GTAAAACGGACATAAAACATACAAAAAATAAAAGAAACAATTGAATGTTTTATGATTTGTAAAAT
TTAACGATTCAAATCTCAAACATGGACA
Found at i:11560591 original size:70 final size:75
Alignment explanation
Indices: 11560517--11560661 Score: 246
Period size: 75 Copynumber: 2.0 Consensus size: 75
11560507 CTTTAAATTT
11560517 TAAATTATAATTTTAATAGA-TTGTGATTATT-AAAA-AA-AT-TATTAATATTAAAATAGTTTT
1 TAAATTATAATTTTAATAGATTTGTGATTATTAAAAATAACATATATTAATATTAAAATAGTTTT
11560577 ATCTAAAAAA
66 ATCTAAAAAA
*
11560587 TAAATTATAATTTTAATAGATTTGTGATTATTAAAAATAACATATATTAATGTTAAAATAGTTTT
1 TAAATTATAATTTTAATAGATTTGTGATTATTAAAAATAACATATATTAATATTAAAATAGTTTT
11560652 ATCTAAAAAA
66 ATCTAAAAAA
11560662 ATGTAAAGGA
Statistics
Matches: 69, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
70 20 0.29
71 11 0.16
72 4 0.06
73 2 0.03
74 2 0.03
75 30 0.43
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (75 bp):
TAAATTATAATTTTAATAGATTTGTGATTATTAAAAATAACATATATTAATATTAAAATAGTTTT
ATCTAAAAAA
Found at i:11561333 original size:17 final size:18
Alignment explanation
Indices: 11561311--11561344 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11561301 CATACCTTGT
*
11561311 TATATATTATAT-ATATA
1 TATATATGATATGATATA
11561328 TATATATGATATGATAT
1 TATATATGATATGATAT
11561345 GGCATGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TATATATGATATGATATA
Found at i:11561915 original size:19 final size:21
Alignment explanation
Indices: 11561877--11561915 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11561867 TCTGAGTGAA
*
11561877 AATAAAATTGTAATATATTGG
1 AATAAAAATGTAATATATTGG
11561898 AATAAAAAT-TAA-ATATTG
1 AATAAAAATGTAATATATTG
11561916 TGTTGGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (21 bp):
AATAAAAATGTAATATATTGG
Found at i:11566981 original size:19 final size:19
Alignment explanation
Indices: 11566957--11566993 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11566947 CATCTCATCA
11566957 TTGGCCTTGTTGGAATTTG
1 TTGGCCTTGTTGGAATTTG
11566976 TTGGCCTTGTTGGAATTT
1 TTGGCCTTGTTGGAATTT
11566994 ATAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.30, T:0.49
Consensus pattern (19 bp):
TTGGCCTTGTTGGAATTTG
Found at i:11586339 original size:3 final size:3
Alignment explanation
Indices: 11586331--11586357 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11586321 TAACTTATTT
11586331 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
11586358 ATTTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11589646 original size:27 final size:27
Alignment explanation
Indices: 11589616--11589672 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11589606 AATTACGGTT
* *
11589616 TATTCAAAATAATTAT-TCAATTTAACA
1 TATTCAAAATAATAATAACAA-TTAACA
*
11589643 TATTCAAATTAATAATAACAATTAACA
1 TATTCAAAATAATAATAACAATTAACA
11589670 TAT
1 TAT
11589673 ACGAATCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.39
Consensus pattern (27 bp):
TATTCAAAATAATAATAACAATTAACA
Found at i:11597891 original size:18 final size:20
Alignment explanation
Indices: 11597867--11597917 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
11597857 CCTAAATTAA
11597867 AAAATATATA-AAT-ATTTT
1 AAAATATATATAATAATTTT
* *
11597885 GAAATATGTATAATAATTTT
1 AAAATATATATAATAATTTT
11597905 AAAATATATATAA
1 AAAATATATATAA
11597918 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 16 0.59
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
AAAATATATATAATAATTTT
Found at i:11609256 original size:31 final size:31
Alignment explanation
Indices: 11609213--11609273 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
11609203 AATAAGTTTC
11609213 TTTTAATAA-TTTTATAGTTTATTTTA-CTTTT
1 TTTTAATAATTTTTATA-TTT-TTTTAGCTTTT
*
11609244 TTTTGATAATTTTTATATTTTTTTAGCTTT
1 TTTTAATAATTTTTATATTTTTTTAGCTTT
11609274 ATAATAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 5 0.19
31 15 0.56
32 7 0.26
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (31 bp):
TTTTAATAATTTTTATATTTTTTTAGCTTTT
Found at i:11619628 original size:30 final size:31
Alignment explanation
Indices: 11619580--11619642 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
11619570 AATAGGTATA
* *
11619580 TTTATAATTTTTAAAAAATTAAATTA-AATT
1 TTTATAATTTTTAAAAAATCAAAATATAATT
11619610 TTTAT-ATTTTTAAGAAAATCAAAATATAATT
1 TTTATAATTTTTAA-AAAATCAAAATATAATT
11619641 TT
1 TT
11619643 ACTTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 15 0.52
31 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (31 bp):
TTTATAATTTTTAAAAAATCAAAATATAATT
Found at i:11629277 original size:31 final size:32
Alignment explanation
Indices: 11629241--11629309 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
11629231 ACTTTTTTTA
11629241 AAAAATAATTT-AACAATTCAAAGACTT-AAAT
1 AAAAAT-ATTTAAACAATTCAAAGACTTAAAAT
* * * *
11629272 AAAAATTTTTAAATAATTTAATGACTTAAAAT
1 AAAAATATTTAAACAATTCAAAGACTTAAAAT
11629304 AAAAAT
1 AAAAAT
11629310 TTTGAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 3 0.09
31 19 0.59
32 10 0.31
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (32 bp):
AAAAATATTTAAACAATTCAAAGACTTAAAAT
Found at i:11629304 original size:32 final size:31
Alignment explanation
Indices: 11629263--11629327 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 31
11629253 ACAATTCAAA
* *
11629263 GACTTAAATAAAAATTTTTAAATAATTTAAT
1 GACTTAAATAAAAATTTTGAAATAATTGAAT
11629294 GACTTAAAATAAAAATTTTGAAATAATTGAAT
1 GACTT-AAATAAAAATTTTGAAATAATTGAAT
11629326 GA
1 GA
11629328 TAATTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 5 0.16
32 26 0.84
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (31 bp):
GACTTAAATAAAAATTTTGAAATAATTGAAT
Found at i:11630757 original size:22 final size:22
Alignment explanation
Indices: 11630700--11630757 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
11630690 ATGGTTTTAG
11630700 GGTTTTAGGGTTTTAAGGTATAT
1 GGTTTTAGGG-TTTAAGGTATAT
*
11630723 -GATTTAGGGTTTAAGGTATAT
1 GGTTTTAGGGTTTAAGGTATAT
11630744 GGTTTTAGGGTTTA
1 GGTTTTAGGGTTTA
11630758 TGATACAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (22 bp):
GGTTTTAGGGTTTAAGGTATAT
Found at i:11630902 original size:18 final size:18
Alignment explanation
Indices: 11630879--11630920 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
11630869 TGATTTATGA
11630879 TTTAGGGTTTTAGAGTTG
1 TTTAGGGTTTTAGAGTTG
11630897 TTTAGGGTTTTAGAGTTG
1 TTTAGGGTTTTAGAGTTG
11630915 TTTAGG
1 TTTAGG
11630921 ATTTAGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (18 bp):
TTTAGGGTTTTAGAGTTG
Found at i:11632697 original size:5 final size:5
Alignment explanation
Indices: 11632687--11632721 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
11632677 AAATTTAAAG
*
11632687 TTATA TTATA TTTTA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
11632722 ATGATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:11632752 original size:4 final size:4
Alignment explanation
Indices: 11632745--11632813 Score: 54
Period size: 4 Copynumber: 17.0 Consensus size: 4
11632735 GAATAAATAA
* *
11632745 AAAG AAAG GAAG ATAG AAACG AAACAG AAAG -AA- AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
*
11632794 AAAAG AAA- AATG AAAG AAAG
1 -AAAG AAAG AAAG AAAG AAAG
11632814 GAAGGAGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
3 6 0.12
4 35 0.67
5 7 0.13
6 3 0.06
7 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.23, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:11632785 original size:33 final size:34
Alignment explanation
Indices: 11632743--11632812 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
11632733 AAGAATAAAT
* * * *
11632743 AAAAAGAAAGGAAGATAGAAACGAAACA-GAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAATGAAAG
11632776 AAAAAGAAAGAAAGAAAGAAAAGAAAAATGAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAATGAAAG
11632810 AAA
1 AAA
11632813 GGAAGGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 24 0.75
34 8 0.25
ACGTcount: A:0.73, C:0.03, G:0.21, T:0.03
Consensus pattern (34 bp):
AAAAAGAAAGAAAGAAAGAAAAGAAAAATGAAAG
Found at i:11633136 original size:18 final size:19
Alignment explanation
Indices: 11633101--11633138 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11633091 ATGAAAATTT
* *
11633101 TGAAATTTAGGGATTTAAA
1 TGAAATTTAGAGAGTTAAA
11633120 TGAAA-TTAGAGAGTTAAA
1 TGAAATTTAGAGAGTTAAA
11633138 T
1 T
11633139 CTAGTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (19 bp):
TGAAATTTAGAGAGTTAAA
Found at i:11633802 original size:37 final size:40
Alignment explanation
Indices: 11633708--11633802 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 40
11633698 TGACTTCGAG
* *
11633708 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGCCAATTTA-TACTTCGGATTAAC
* * * *
11633749 TCGATGAGGCATTGGGTGCCAA-TT-TACTTCGGTTTAGC
1 TCGATGAGACACTGGGTGCCAATTTATACTTCGGATTAAC
11633787 T-GATGAGACACTGGGT
1 TCGATGAGACACTGGGT
11633803 ATCCGTTCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
37 13 0.28
38 12 0.26
40 2 0.04
41 19 0.41
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGCCAATTTATACTTCGGATTAAC
Found at i:11634939 original size:20 final size:20
Alignment explanation
Indices: 11634892--11634940 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
11634882 TTCCCTTTAA
*
11634892 ATTATTTTATTTATAAGGTT
1 ATTATTTTATTTATAAGATT
* *
11634912 GTTGTTTTATTTAT-AGAATT
1 ATTATTTTATTTATAAG-ATT
11634932 ATTATTTTA
1 ATTATTTTA
11634941 ATAAATAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (20 bp):
ATTATTTTATTTATAAGATT
Found at i:11635075 original size:18 final size:20
Alignment explanation
Indices: 11635048--11635087 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
11635038 TTTTTATTGA
11635048 AAAATGAAATTTT-ATTTTT
1 AAAATGAAATTTTAATTTTT
11635067 AAAAT-AAATTTTAATTTTT
1 AAAATGAAATTTTAATTTTT
11635086 AA
1 AA
11635088 GAATCAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAATGAAATTTTAATTTTT
Found at i:11636663 original size:15 final size:15
Alignment explanation
Indices: 11636629--11636674 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
11636619 TCTCTTATTT
*
11636629 TGAATATA-TATATA
1 TGAATATATTATAAA
*
11636643 TAAATATATTATAAA
1 TGAATATATTATAAA
11636658 TGAATATATTATAAA
1 TGAATATATTATAAA
11636673 TG
1 TG
11636675 GAGATAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
TGAATATATTATAAA
Found at i:11637761 original size:12 final size:12
Alignment explanation
Indices: 11637744--11637777 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11637734 TGGCCCGCCG
11637744 ATATTAATTTTT
1 ATATTAATTTTT
*
11637756 ATATTATTTTTT
1 ATATTAATTTTT
11637768 ATA-TAATTTT
1 ATATTAATTTT
11637778 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11637935 original size:30 final size:30
Alignment explanation
Indices: 11637900--11637961 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
11637890 CTTAACAAGT
11637900 AAATATCTCTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
* *
11637930 AAATATCTTTAATATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
11637960 AA
1 AA
11637962 TAAAACAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAC
Found at i:11640676 original size:26 final size:25
Alignment explanation
Indices: 11640643--11640694 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
11640633 AGAAAAGTAA
*
11640643 ATATGATATTAATACATATATATAT
1 ATATGATATTAATACATATAGATAT
*
11640668 ATATAGATATTGATACATATAGATAT
1 ATAT-GATATTAATACATATAGATAT
11640694 A
1 A
11640695 ACAGCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (25 bp):
ATATGATATTAATACATATAGATAT
Found at i:11640985 original size:19 final size:21
Alignment explanation
Indices: 11640952--11640990 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11640942 ACACAAACAA
11640952 TTAAAATGAAATAA-TAAAAT
1 TTAAAATGAAATAATTAAAAT
*
11640972 TTAAAAT-AAGTAATTAAAA
1 TTAAAATGAAATAATTAAAA
11640991 ACTTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
TTAAAATGAAATAATTAAAAT
Found at i:11647961 original size:3 final size:3
Alignment explanation
Indices: 11647955--11647985 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11647945 CATCATCATC
11647955 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11647986 ATGAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11649715 original size:16 final size:17
Alignment explanation
Indices: 11649678--11649724 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
11649668 CATATGGCGG
11649678 GTTCTTTTTT-TAATTAT
1 GTTCTTTTTTAT-ATTAT
*
11649695 TTTCTTTTTTATATT-T
1 GTTCTTTTTTATATTAT
*
11649711 GTTCTTTGTTATAT
1 GTTCTTTTTTATAT
11649725 GGGAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 13 0.50
17 12 0.46
18 1 0.04
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.72
Consensus pattern (17 bp):
GTTCTTTTTTATATTAT
Found at i:11652051 original size:193 final size:193
Alignment explanation
Indices: 11651699--11652054 Score: 523
Period size: 193 Copynumber: 1.8 Consensus size: 193
11651689 TTCGAGAGCG
* *
11651699 TCATTATTTTCTGTCAGCTTACCCAAAGCAATATTGAAGAGCGCTTGTAACATGTCCATATTGGA
1 TCATTATTTTCTGTCAACTTACCCAAAGCAATATTGAAGAGCGCTTATAACATGTCCATATTGGA
** * *
11651764 ACTAAAGGCCTCGGCAACATATTCCTCAAGTTGCTCTTTCATTAAGTCCAGCTCATTAATGCGTC
66 ACTAAAGGCCTCCACAACATATTCCTCAAGTTGCTCTTTCATCAAGTCCAACTCATTAATGCGTC
*
11651829 CCTCAACTATCTCGAATGTTTCATTCACCTCACCCATGGATTCCTCAACTAAGGGCTTCCGCA
131 CCTCAACTATCTCGAATATTTCATTCACCTCACCCATGGATTCCTCAACTAAGGGCTTCCGCA
* ** * * * *
11651892 TCATTCTTTTCTGTCAACTTACCCGGAGCAGTATTGAGGAGTGCTTATAATATGTCCATATTGGA
1 TCATTATTTTCTGTCAACTTACCCAAAGCAATATTGAAGAGCGCTTATAACATGTCCATATTGGA
* * * *
11651957 ACTAAGGGCCTCCATAACATATTCCTCAAGTTGCTCTTTCATCGAGTCCAACTTATTAATGCGTC
66 ACTAAAGGCCTCCACAACATATTCCTCAAGTTGCTCTTTCATCAAGTCCAACTCATTAATGCGTC
* * *
11652022 CCTCAACTATCTTGAGTATTTCCTTCACCTCAC
131 CCTCAACTATCTCGAATATTTCATTCACCTCAC
11652055 TTACAAGTTT
Statistics
Matches: 142, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
193 142 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (193 bp):
TCATTATTTTCTGTCAACTTACCCAAAGCAATATTGAAGAGCGCTTATAACATGTCCATATTGGA
ACTAAAGGCCTCCACAACATATTCCTCAAGTTGCTCTTTCATCAAGTCCAACTCATTAATGCGTC
CCTCAACTATCTCGAATATTTCATTCACCTCACCCATGGATTCCTCAACTAAGGGCTTCCGCA
Found at i:11652996 original size:20 final size:20
Alignment explanation
Indices: 11652973--11653021 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
11652963 TATTTATAAA
*
11652973 TATTTTTATAATTAT-ATATG
1 TATTTTTATAA-AATCATATG
* *
11652993 TATTTTTGTAAAATCTTATG
1 TATTTTTATAAAATCATATG
11653013 TATTTTTAT
1 TATTTTTAT
11653022 TGAAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (20 bp):
TATTTTTATAAAATCATATG
Found at i:11656585 original size:46 final size:46
Alignment explanation
Indices: 11656528--11656694 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
11656518 ACACACCGTA
11656528 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * *
11656574 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
11656627 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
11656673 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
11656695 TTCCGTCAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
46 44 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:11657827 original size:42 final size:44
Alignment explanation
Indices: 11657758--11657853 Score: 126
Period size: 42 Copynumber: 2.2 Consensus size: 44
11657748 ACCTGATCAG
* * *
11657758 AATACGACACA-TAAGTGCCTGAAACGACACACGAGGTGCCT-A
1 AATACGACACACGAGGTGCCTGAAACGACACACAAGGTGCCTGA
* *
11657800 AA-ACGACACACGAGGTGCCTGATACGACACATAAGGTGCCTGA
1 AATACGACACACGAGGTGCCTGAAACGACACACAAGGTGCCTGA
11657843 AATACGACACA
1 AATACGACACA
11657854 TAAAGTGTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 8 0.17
42 27 0.59
43 3 0.07
44 8 0.17
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.14
Consensus pattern (44 bp):
AATACGACACACGAGGTGCCTGAAACGACACACAAGGTGCCTGA
Found at i:11657851 original size:23 final size:23
Alignment explanation
Indices: 11657758--11657865 Score: 113
Period size: 21 Copynumber: 5.0 Consensus size: 23
11657748 ACCTGATCAG
11657758 AATACGACACATAA-GTGCCTG-
1 AATACGACACATAAGGTGCCTGA
**
11657779 AA-ACGACACACGAGGTGCCT-A
1 AATACGACACATAAGGTGCCTGA
**
11657800 AA-ACGACACACGAGGTGCCTG-
1 AATACGACACATAAGGTGCCTGA
11657821 -ATACGACACATAAGGTGCCTGA
1 AATACGACACATAAGGTGCCTGA
* *
11657843 AATACGACACATAAAGTGTCTGA
1 AATACGACACATAAGGTGCCTGA
11657866 TCAATATAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
20 10 0.13
21 45 0.60
23 20 0.27
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
AATACGACACATAAGGTGCCTGA
Found at i:11658877 original size:22 final size:22
Alignment explanation
Indices: 11658848--11658915 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
11658838 TGCACAAACG
11658848 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
11658870 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
11658892 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
11658915 A
1 A
11658916 TAATAGTACA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:11660701 original size:25 final size:23
Alignment explanation
Indices: 11660645--11660707 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
11660635 CAATGTCCAA
11660645 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGTATAATCCT
11660668 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGTATAATCCT
11660691 CCAAAACACACCAGTAT
1 CCAAAACACACCAGTAT
11660708 CATATAATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (23 bp):
CCAAAACACACCAGTATAATCCT
Found at i:11660737 original size:23 final size:23
Alignment explanation
Indices: 11660645--11660738 Score: 116
Period size: 23 Copynumber: 3.9 Consensus size: 23
11660635 CAATGTCCAA
*
11660645 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
*
11660668 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
11660691 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
11660719 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
11660739 ATAATCCATC
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
23 42 0.66
24 1 0.02
28 21 0.33
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:11660764 original size:29 final size:28
Alignment explanation
Indices: 11660659--11660794 Score: 183
Period size: 29 Copynumber: 5.0 Consensus size: 28
11660649 AACACACCAG
11660659 TATAATCCTCCAAAACACACCAG-----
1 TATAATCCTCCAAAACACACCAGAATAA
* *
11660682 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
11660710 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
11660738 TATAATCCATCCAAAACATACCAGAATAA
1 TATAATCC-TCCAAAACACACCAGAATAA
11660767 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
11660795 GCACAAAGTG
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
23 23 0.23
28 33 0.33
29 45 0.45
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:11663214 original size:21 final size:21
Alignment explanation
Indices: 11663190--11663231 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11663180 CTTTTTAATT
11663190 AATTGTCTAACCAAACGTTAA
1 AATTGTCTAACCAAACGTTAA
* * *
11663211 AATTTTCTAACGAAACTTTAA
1 AATTGTCTAACCAAACGTTAA
11663232 TACTAACTTA
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:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (21 bp):
AATTGTCTAACCAAACGTTAA
Found at i:11665310 original size:20 final size:21
Alignment explanation
Indices: 11665267--11665310 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11665257 TTAAGTATTT
*
11665267 TTTTTAAAAATCAAAATATTA
1 TTTTTAAAAATCAAAATATAA
*
11665288 TTTTTAAAAAT-ATAATATAA
1 TTTTTAAAAATCAAAATATAA
11665308 TTT
1 TTT
11665311 CATAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTAAAAATCAAAATATAA
Found at i:11669974 original size:20 final size:21
Alignment explanation
Indices: 11669936--11669975 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11669926 TCTTCAGTAT
* *
11669936 CCATGATGGTAAAGCATAGGC
1 CCATGAAGGTAAAGAATAGGC
11669957 CCATGAAGG-AAAGAATAGG
1 CCATGAAGGTAAAGAATAGG
11669976 AGGTCTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.15, G:0.30, T:0.15
Consensus pattern (21 bp):
CCATGAAGGTAAAGAATAGGC
Found at i:11672600 original size:3 final size:3
Alignment explanation
Indices: 11672594--11672626 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
11672584 CAATAATAAT
11672594 AAC AAC AAC AAC AAC AAC AAC AAC AAC ATAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC A-AC AA
11672627 AAGAATCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:11672940 original size:15 final size:15
Alignment explanation
Indices: 11672916--11672950 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11672906 TATCGAAGAG
*
11672916 CTTCCGGCTCTTAAA
1 CTTCCGGCTCGTAAA
*
11672931 CTTCCTGCTCGTAAA
1 CTTCCGGCTCGTAAA
11672946 CTTCC
1 CTTCC
11672951 CCGTAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.11, T:0.34
Consensus pattern (15 bp):
CTTCCGGCTCGTAAA
Found at i:11674827 original size:21 final size:21
Alignment explanation
Indices: 11674803--11674848 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11674793 TGAATATCTC
11674803 ATTTTTT-TTAAAGATATTTTA
1 ATTTTTTATTAAAGA-ATTTTA
*
11674824 ATTTTTTATTAAATAATTTTA
1 ATTTTTTATTAAAGAATTTTA
11674845 ATTT
1 ATTT
11674849 AAAGTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTTTTTATTAAAGAATTTTA
Found at i:11676942 original size:64 final size:64
Alignment explanation
Indices: 11676845--11676970 Score: 225
Period size: 64 Copynumber: 2.0 Consensus size: 64
11676835 TGGAATTTGC
* *
11676845 TTAATGATGAGTTGTATTTATGAAGATTGATGAAGAGTATCTTATATAATTAAGTAGAATTTAT
1 TTAATGATGAGTTGTATTTATGAAGATTAATGAAGAGTATCTTACATAATTAAGTAGAATTTAT
*
11676909 TTAATGATGAGTTGTATTTATGAAGATTAATGAAGAGTATCTTACATAATTAAGTAGTATTT
1 TTAATGATGAGTTGTATTTATGAAGATTAATGAAGAGTATCTTACATAATTAAGTAGAATTT
11676971 TATAATTGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.42
Consensus pattern (64 bp):
TTAATGATGAGTTGTATTTATGAAGATTAATGAAGAGTATCTTACATAATTAAGTAGAATTTAT
Found at i:11679757 original size:65 final size:65
Alignment explanation
Indices: 11679638--11679760 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 65
11679628 TTTGATAAAT
* * * *
11679638 TTAAATTTTATAAGCGTTGAATTTATATTAGAAATGTATTTGATAAATTTAAATTTTAAATGCGG
1 TTAAATTTTATAAGCGTTGAATTTATATTAAAAATGTACTTGACAAATTCAAATTTTAAATGCGG
*
11679703 TTAAATTTTATAAGTGTTGAATTTATATTAAAAAT-TACTTGACCCAAA-TCAAATTTTA
1 TTAAATTTTATAAGCGTTGAATTTATATTAAAAATGTACTTGA--CAAATTCAAATTTTA
11679761 TGTTTTCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 6 0.12
65 42 0.82
66 3 0.06
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.44
Consensus pattern (65 bp):
TTAAATTTTATAAGCGTTGAATTTATATTAAAAATGTACTTGACAAATTCAAATTTTAAATGCGG
Found at i:11686959 original size:18 final size:18
Alignment explanation
Indices: 11686855--11686960 Score: 51
Period size: 18 Copynumber: 5.9 Consensus size: 18
11686845 AGATGACACA
*
11686855 TAAATATTTAATTAATTTT
1 TAAAT-TTTAATAAATTTT
* *
11686874 TAAATTTTAAAAAATTATA
1 TAAATTTTAATAAATT-TT
* *
11686893 TATATTTT--TTAATTTT
1 TAAATTTTAATAAATTTT
*
11686909 TAATAATTTTAAT--GTTTT
1 T-A-AATTTTAATAAATTTT
** *
11686927 TATGTTTT-TTAAAATTTT
1 TAAATTTTAAT-AAATTTT
11686945 TAAATTTTAATAAATT
1 TAAATTTTAATAAATT
11686961 AATTAAATTA
Statistics
Matches: 62, Mismatches: 16, Indels: 19
0.64 0.16 0.20
Matches are distributed among these distances:
15 1 0.02
16 6 0.10
17 6 0.10
18 34 0.55
19 14 0.23
20 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TAAATTTTAATAAATTTT
Found at i:11690395 original size:17 final size:17
Alignment explanation
Indices: 11690336--11690395 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
11690326 ACCTGACACT
*
11690336 TTTTTTTTTCATACTTC
1 TTTTTTTTTCATATTTC
*
11690353 TTTTGTTTTT--TTTTTCC
1 TTTT-TTTTTCATATTT-C
*
11690370 TTTTATTTTCATATTTC
1 TTTTTTTTTCATATTTC
11690387 TTTTTTTTT
1 TTTTTTTTT
11690396 ACTTTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 7 0.21
17 18 0.53
18 9 0.26
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTTTTTCATATTTC
Found at i:11690447 original size:16 final size:16
Alignment explanation
Indices: 11690426--11690483 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
11690416 AATAAATTGT
11690426 CTTTTTATTTTTTTAC
1 CTTTTTATTTTTTTAC
11690442 CTTTTTGATTTTTTT-C
1 CTTTTT-ATTTTTTTAC
*
11690458 TTATTTTATTTTGTTTA-
1 CT-TTTTATTTT-TTTAC
*
11690475 TTTTTTATT
1 CTTTTTATT
11690484 ATTAACTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 20 0.54
17 17 0.46
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (16 bp):
CTTTTTATTTTTTTAC
Found at i:11690642 original size:14 final size:14
Alignment explanation
Indices: 11690625--11690651 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11690615 TTTTTTAAAA
11690625 TTTTAAATATTAAT
1 TTTTAAATATTAAT
11690639 TTTTAAATATTAA
1 TTTTAAATATTAA
11690652 CCATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:11690651 original size:37 final size:37
Alignment explanation
Indices: 11690524--11690651 Score: 115
Period size: 37 Copynumber: 3.5 Consensus size: 37
11690514 TTTTATTTTA
*
11690524 ATTATTATTTTTAAAA-TATATTTTTT--AATTTTAGAT
1 ATTA-TATTTTTAAAATTA-ATTTTTTAAAATTTTAAAT
* * * *
11690560 A-TATATTTGTGAAATTATTTTTTTATATATTTTAAA-
1 ATTATATTTTTAAAATTAATTTTTTA-AAATTTTAAAT
* *
11690596 AATATATTTTTCAAATTAATTTTTTAAAATTTTAAAT
1 ATTATATTTTTAAAATTAATTTTTTAAAATTTTAAAT
11690633 ATTA-ATTTTTAAATATTAA
1 ATTATATTTTTAAA-ATTAA
11690652 CCATATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
34 15 0.20
35 4 0.05
36 19 0.26
37 36 0.49
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (37 bp):
ATTATATTTTTAAAATTAATTTTTTAAAATTTTAAAT
Found at i:11690658 original size:23 final size:23
Alignment explanation
Indices: 11690610--11690651 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
11690600 TATTTTTCAA
*
11690610 ATTAATTTTTTAAAATTTTAAAT
1 ATTAATTTTTTAAAATATTAAAT
11690633 ATTAA-TTTTT-AAATATTAA
1 ATTAATTTTTTAAAATATTAA
11690652 CCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTTAAAATATTAAAT
Found at i:11690804 original size:20 final size:19
Alignment explanation
Indices: 11690775--11690821 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
11690765 CATATTTTTT
11690775 AAAAATTAAAAA-AAAGTTA
1 AAAAATTAAAAAGAAA-TTA
11690794 AAAAATGTAAAAAGAAATTA
1 AAAAAT-TAAAAAGAAATTA
11690814 AAGAAATT
1 AA-AAATT
11690822 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (19 bp):
AAAAATTAAAAAGAAATTA
Found at i:11690891 original size:14 final size:14
Alignment explanation
Indices: 11690872--11690898 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11690862 TAAAATATGG
11690872 TTAATATTTAAAAA
1 TTAATATTTAAAAA
11690886 TTAATATTTAAAA
1 TTAATATTTAAAA
11690899 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:11690914 original size:14 final size:14
Alignment explanation
Indices: 11690896--11690933 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
11690886 TTAATATTTA
11690896 AAATTTTAAAAAAT
1 AAATTTTAAAAAAT
* *
11690910 TAA-TTTGAAAAAT
1 AAATTTTAAAAAAT
11690923 AAATTTTAAAA
1 AAATTTTAAAA
11690934 TATATAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AAATTTTAAAAAAT
Found at i:11690942 original size:36 final size:35
Alignment explanation
Indices: 11690877--11691011 Score: 125
Period size: 36 Copynumber: 3.9 Consensus size: 35
11690867 TATGGTTAAT
* *
11690877 ATTTAAAAATTAATATTTAAAATTTTAAAAAATTA
1 ATTTAAAAATAAATATTTAAAATTATAAAAAATTA
11690912 ATTTGAAAAATAAAT-TTTAAAATATATAAAAAATTA
1 ATTT-AAAAATAAATATTTAAAAT-TATAAAAAATTA
* * * *
11690948 ATTTCACAAATATATATCTAAAATT-TCAAAAA-TA
1 ATTT-AAAAATAAATATTTAAAATTATAAAAAATTA
* * * *
11690982 TTTTTAAAAT-AATAATTAAAATTTTAAAAA
1 ATTTAAAAATAAATATTTAAAATTATAAAAA
11691012 TATACATTAC
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
32 10 0.12
33 9 0.11
34 5 0.06
35 18 0.22
36 33 0.40
37 7 0.09
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (35 bp):
ATTTAAAAATAAATATTTAAAATTATAAAAAATTA
Found at i:11690943 original size:23 final size:24
Alignment explanation
Indices: 11690917--11690963 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
11690907 AATTAATTTG
*
11690917 AAAAATAAATTTTA-AAATATATA
1 AAAAATAAATTTCACAAATATATA
*
11690940 AAAAATTAATTTCACAAATATATA
1 AAAAATAAATTTCACAAATATATA
11690964 TCTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAAATAAATTTCACAAATATATA
Found at i:11691011 original size:21 final size:22
Alignment explanation
Indices: 11690981--11691028 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
11690971 TTTCAAAAAT
*
11690981 ATTTTTAAAATAATA-ATTA-AA
1 ATTTTAAAAAT-ATACATTACAA
11691002 ATTTTAAAAATATACATTACAA
1 ATTTTAAAAATATACATTACAA
11691024 ATTTT
1 ATTTT
11691029 TTAAAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 7 0.29
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTAAAAATATACATTACAA
Found at i:11691122 original size:13 final size:13
Alignment explanation
Indices: 11691106--11691139 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11691096 ACAATTTATT
*
11691106 AAGAAATAAAATA
1 AAGAAATAAAAAA
*
11691119 AAGAAGTAAAAAA
1 AAGAAATAAAAAA
11691132 AAGAAATA
1 AAGAAATA
11691140 TGAAAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (13 bp):
AAGAAATAAAAAA
Found at i:11691166 original size:28 final size:28
Alignment explanation
Indices: 11691126--11691179 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
11691116 ATAAAGAAGT
*
11691126 AAAAAAAAGAAATATGAAAATAAAAGGA
1 AAAAAAAAGAAATATGAAAAAAAAAGGA
11691154 AAAAAAAAGAAATATGAAAAAAAAAG
1 AAAAAAAAGAAATATGAAAAAAAAAG
11691180 TGTCAGGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (28 bp):
AAAAAAAAGAAATATGAAAAAAAAAGGA
Found at i:11691174 original size:17 final size:17
Alignment explanation
Indices: 11691126--11691179 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
11691116 ATAAAGAAGT
11691126 AAAAAAAAGAAATATGA
1 AAAAAAAAGAAATATGA
*
11691143 AAATAAAAG------GA
1 AAAAAAAAGAAATATGA
11691154 AAAAAAAAGAAATATGA
1 AAAAAAAAGAAATATGA
11691171 AAAAAAAAG
1 AAAAAAAAG
11691180 TGTCAGGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
11 10 0.34
17 19 0.66
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAAAAAAGAAATATGA
Found at i:11695309 original size:15 final size:15
Alignment explanation
Indices: 11695286--11695315 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11695276 ACTAAATAAT
11695286 TAATAAATCAAAATA
1 TAATAAATCAAAATA
*
11695301 TAATGAATCAAAATA
1 TAATAAATCAAAATA
11695316 AATCTAGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (15 bp):
TAATAAATCAAAATA
Found at i:11697133 original size:3 final size:3
Alignment explanation
Indices: 11697125--11697171 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
11697115 TTTGGATTAC
11697125 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11697172 ACAAAATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11700395 original size:18 final size:21
Alignment explanation
Indices: 11700367--11700405 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
11700357 ATATTGCATA
11700367 AAAAATAAATA-TTT-ATATT
1 AAAAATAAATACTTTAATATT
11700386 AAAAAT-AATACTTTAATATT
1 AAAAATAAATACTTTAATATT
11700406 TGTTTATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATAAATACTTTAATATT
Found at i:11702653 original size:22 final size:22
Alignment explanation
Indices: 11702628--11702669 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11702618 TTTTAATGTG
11702628 TTGATAATAATA-TCAATATTAA
1 TTGA-AATAATATTCAATATTAA
*
11702650 TTGAATTAATATTCAATATT
1 TTGAAATAATATTCAATATT
11702670 TTCAAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
TTGAAATAATATTCAATATTAA
Found at i:11703886 original size:17 final size:18
Alignment explanation
Indices: 11703850--11703886 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
11703840 AAATTTAAAA
11703850 ATTAAAAATATGTTTTATT
1 ATTAAAAATATG-TTTATT
11703869 ATTAAAAATATG-TTATT
1 ATTAAAAATATGTTTATT
11703886 A
1 A
11703887 GTACTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTAAAAATATGTTTATT
Done.