Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 93 of 189
Found at i:25807938 original size:16 final size:16
Alignment explanation
Indices: 25807904--25807958 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
25807894 ATTATTAAGA
25807904 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
25807921 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
25807937 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
25807951 ATGTTTAA
1 AT-TTTAA
25807959 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:25808195 original size:16 final size:16
Alignment explanation
Indices: 25808174--25808241 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
25808164 GATTTGCTAT
25808174 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
25808190 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
25808206 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25808222 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25808238 TACA
1 TACA
25808242 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25809234 original size:11 final size:11
Alignment explanation
Indices: 25809218--25809242 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25809208 GATTTTCTGA
25809218 TTTTCACTCAT
1 TTTTCACTCAT
25809229 TTTTCACTCAT
1 TTTTCACTCAT
25809240 TTT
1 TTT
25809243 GCTCCCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCACTCAT
Found at i:25812016 original size:9 final size:9
Alignment explanation
Indices: 25812002--25812029 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25811992 TTTTGTTACA
25812002 ACAATTAAT
1 ACAATTAAT
25812011 ACAATTAAT
1 ACAATTAAT
25812020 ACAATTAAT
1 ACAATTAAT
25812029 A
1 A
25812030 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:25812051 original size:68 final size:68
Alignment explanation
Indices: 25811972--25812181 Score: 379
Period size: 68 Copynumber: 3.1 Consensus size: 68
25811962 TCAAGTTTGT
*
25811972 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
25812037 AAA
66 AAA
25812040 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
25812105 AAA
66 AAA
*
25812108 TTTACTAATCAAATGTTAGATTTTATTACAAAAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
25812171 AAT
66 AAA
25812174 TTTACTAA
1 TTTACTAA
25812182 CAATTAATTT
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 111 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:25812082 original size:9 final size:9
Alignment explanation
Indices: 25812070--25812097 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25812060 TTTTATTACA
25812070 ACAATTAAT
1 ACAATTAAT
25812079 ACAATTAAT
1 ACAATTAAT
25812088 ACAATTAAT
1 ACAATTAAT
25812097 A
1 A
25812098 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:25812191 original size:16 final size:16
Alignment explanation
Indices: 25812170--25812211 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
25812160 AATAATTTGA
*
25812170 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
25812186 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
25812202 TAGTTTTAAT
1 TAATTTTAAT
25812212 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:25812195 original size:22 final size:23
Alignment explanation
Indices: 25812185--25812246 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
25812175 TTACTAACAA
* * *
25812185 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
25812207 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
25812230 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
25812247 CAGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:25817236 original size:14 final size:14
Alignment explanation
Indices: 25817214--25817248 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25817204 TATTTACTAT
* *
25817214 GTATGGTCATTTTA
1 GTATAGTCATTCTA
25817228 GTATAGTCATTCTA
1 GTATAGTCATTCTA
25817242 GTATAGT
1 GTATAGT
25817249 TAAAACTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.46
Consensus pattern (14 bp):
GTATAGTCATTCTA
Found at i:25832972 original size:26 final size:26
Alignment explanation
Indices: 25832932--25832982 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25832922 TAGGTTGAGT
25832932 CATGTAAATGGTCTCATCAAGATAGC
1 CATGTAAATGGTCTCATCAAGATAGC
*
25832958 CATGTAAATGTTCTCATCAAGATAG
1 CATGTAAATGGTCTCATCAAGATAG
25832983 TCATTCGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (26 bp):
CATGTAAATGGTCTCATCAAGATAGC
Found at i:25836244 original size:7 final size:7
Alignment explanation
Indices: 25836232--25836289 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
25836222 TAAGAATAGA
25836232 AAATAAT
1 AAATAAT
*
25836239 AGATAAT
1 AAATAAT
25836246 AAATAAT
1 AAATAAT
25836253 AAATAA-
1 AAATAAT
* *
25836259 AGAGAAT
1 AAATAAT
25836266 AAAATAACT
1 -AAATAA-T
25836275 -AATAAT
1 AAATAAT
25836281 -AATAAT
1 AAATAAT
25836287 AAA
1 AAA
25836290 CAAGAAACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
6 11 0.27
7 25 0.61
8 4 0.10
9 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (7 bp):
AAATAAT
Found at i:25836256 original size:21 final size:22
Alignment explanation
Indices: 25836232--25836289 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
25836222 TAAGAATAGA
25836232 AAATAATAGATAATAAATAA-T
1 AAATAATAGATAATAAATAACT
*
25836253 AAATAA-AGAGAATAAAATAACT
1 AAATAATAGATAAT-AAATAACT
25836275 -AATAATA-ATAATAAA
1 AAATAATAGATAATAAA
25836290 CAAGAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 9 0.28
21 21 0.66
22 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
AAATAATAGATAATAAATAACT
Found at i:25841710 original size:47 final size:47
Alignment explanation
Indices: 25841623--25842079 Score: 725
Period size: 47 Copynumber: 9.6 Consensus size: 47
25841613 GTATATTTGA
*
25841623 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
25841672 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
25841719 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25841768 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
25841815 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
**
25841862 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAACCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
25841909 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
25841956 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * ** *
25842003 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGACTGGCTAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
25842050 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
25842080 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
47 320 0.84
49 60 0.16
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:25842248 original size:37 final size:37
Alignment explanation
Indices: 25842198--25842342 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
25842188 CCGAGCTCTA
* * *
25842198 AAGACCCGATGACTATGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
25842235 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
25842272 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
25842309 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
25842343 AGCTAAAGGT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:25843558 original size:9 final size:9
Alignment explanation
Indices: 25843544--25843576 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
25843534 GATTAGAGAT
25843544 AGAAATTTG
1 AGAAATTTG
*
25843553 AGAAA-TTA
1 AGAAATTTG
25843561 AGAAATTTG
1 AGAAATTTG
25843570 AGAAATT
1 AGAAATT
25843577 AAGTATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (9 bp):
AGAAATTTG
Found at i:25843566 original size:17 final size:17
Alignment explanation
Indices: 25843544--25843579 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25843534 GATTAGAGAT
25843544 AGAAATTTGAGAAATTA
1 AGAAATTTGAGAAATTA
25843561 AGAAATTTGAGAAATTA
1 AGAAATTTGAGAAATTA
25843578 AG
1 AG
25843580 TATTTAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (17 bp):
AGAAATTTGAGAAATTA
Found at i:25846511 original size:22 final size:22
Alignment explanation
Indices: 25846476--25846543 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
25846466 TTCACAAACA
* * *
25846476 AATTCCTTTTAAAAATTCTCTT
1 AATTCCCTTCAAAAATTCTCTC
*
25846498 AATTCCCTTCAAAATTTCTCTC
1 AATTCCCTTCAAAAATTCTCTC
* *
25846520 AATTTCCTTCCAAAATTCTCTC
1 AATTCCCTTCAAAAATTCTCTC
25846542 AA
1 AA
25846544 ACTCTCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTCCCTTCAAAAATTCTCTC
Found at i:25846691 original size:29 final size:30
Alignment explanation
Indices: 25846629--25846691 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
25846619 TAAATTTCAT
* *
25846629 TTTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
*
25846659 TTTTTTAA-ATAATTTTAAAATTTTTAATA
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
25846688 TTTT
1 TTTT
25846692 CAACAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:25846836 original size:24 final size:23
Alignment explanation
Indices: 25846781--25846836 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
25846771 TATATTTTAA
*
25846781 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
25846804 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
25846830 ATTTTTT
1 ATTTTTT
25846837 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:25848988 original size:23 final size:24
Alignment explanation
Indices: 25848954--25849028 Score: 100
Period size: 23 Copynumber: 3.2 Consensus size: 24
25848944 ACATTATTTG
*
25848954 ATTAAAATCCCTAACCCT-ACTTA
1 ATTAAAAACCCTAACCCTAACTTA
*
25848977 ATTAAAAACCCTAA-CCTAATTTA
1 ATTAAAAACCCTAACCCTAACTTA
* *
25849000 ATTAAAAACCCAAACCCTAACCTA
1 ATTAAAAACCCTAACCCTAACTTA
25849024 ATTAA
1 ATTAA
25849029 TTAAATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 3 0.07
23 30 0.67
24 12 0.27
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (24 bp):
ATTAAAAACCCTAACCCTAACTTA
Found at i:25849130 original size:94 final size:92
Alignment explanation
Indices: 25848986--25849508 Score: 653
Period size: 94 Copynumber: 5.7 Consensus size: 92
25848976 AATTAAAAAC
25848986 CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTA
1 CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTA
*
25849051 ACTTAATTTAAATAATTAAAAACCCTAA
66 ACCTAATTT-AATAATTAAAAACCCTAA
*
25849079 CCCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAATTAAAAACCCTAACCT
1 -CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCT
*
25849144 AACTTAA-TT--TAATTAAAAACCCTAA
65 AACCTAATTTAATAATTAAAAACCCTAA
* * *
25849169 CCTAACCTAATTTAATTAAAAACCCAAATCCTAACCTATTTAAATAAATTAAAAACCCTAACCTA
1 CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTA
25849234 ACCTAATTTAACTAAATTAAAAACCCTAA
66 ACCTAATTTAA-T-AATTAAAAACCCTAA
* *
25849263 CCTAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAA-T--TT-AATTAAAAACCCAAACCCT
1 CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAA-CCT
25849323 AACCT-ATTTAATTAAATTAAAAACCCTAA
65 AACCTAATTTAA-T-AATTAAAAACCCTAA
* * *
25849352 CCTAACCTAATTTAACTAAATTAA---AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAAC
1 CCTAACCTAATTTAATTAAA--AACCCAAACCCTAACCTAA-TTAATTAAATTAAAAACCCTAAC
*
25849414 CTAACCTAATTTAATTAA-AAACTCAAACCCTAA
63 CTAACCTAATTTAA-TAATTAA---AAACCCTAA
** * * *
25849447 CCT-ATTTAATTAAATTAAAAACCCTAA-CCTAACCTAATTTAACTAAATTAAAAACCCTAACC
1 CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAA-TTAATTAAATTAAAAACCCTAACC
25849509 CTATTTAATT
Statistics
Matches: 384, Mismatches: 24, Indels: 42
0.85 0.05 0.09
Matches are distributed among these distances:
88 2 0.01
89 132 0.34
90 27 0.07
91 3 0.01
92 5 0.01
93 24 0.06
94 177 0.46
95 14 0.04
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (92 bp):
CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAACCTA
ACCTAATTTAATAATTAAAAACCCTAA
Found at i:25849167 original size:23 final size:25
Alignment explanation
Indices: 25849105--25849529 Score: 161
Period size: 28 Copynumber: 14.4 Consensus size: 25
25849095 TTAAAAACCC
* *
25849105 AAACCCAAACCTAATTAATTAAATTAA
1 AAACCCTAACCT-A-TAATTTAATTAA
25849132 AAACCCTAACCTAACTTAATTTAATTAA
1 AAACCCTAACCT-A--TAATTTAATTAA
25849160 AAACCCTAACCTAACCTAATTTAATTAA
1 AAACCCTAACCT-A--TAATTTAATTAA
* *
25849188 AAACCCAAATCCTAACCTATTTAAATAAATTAA
1 AAA--C----CCTAACCTA--TAATTTAATTAA
25849221 AAACCCTAACCTAACCTAATTTAACTAAATTAA
1 AAACCCTAACCT-A--TAA-TT---T-AATTAA
25849254 AAACCCTAACCTAACCTAATTTAATTAA
1 AAACCCTAACCT-A--TAATTTAATTAA
25849282 AAACCCTAACCTAACCTAATTTAATTAAAAA
1 AAACCCTAACCT-A--TAATTTAATT---AA
*
25849313 CCCAAACCCTAACCTATTTAATTAAATTAA
1 ---AAACCCTAACCTA--TAATTTAATTAA
25849343 AAACCCTAACCTAACCTAATTTAACTAAATTAA
1 AAACCCTAACCT-A--TAA-TT---T-AATTAA
25849376 AAACCCTAACCTAACCTAATTTAATTAA
1 AAACCCTAACCT-A--TAATTTAATTAA
25849404 AAACCCTAACCTAACCTAATTTAATTAAAAA
1 AAACCCTAACCT-A--TAATTTAATT---AA
*
25849435 CTCAAACCCTAACCTATTTAATTAAATTAA
1 ---AAACCCTAACCTA--TAATTTAATTAA
25849465 AAACCCTAACCTAACCTAATTTAACTAAATTAA
1 AAACCCTAACCT-A--TAA-TT---T-AATTAA
*
25849498 AAACCCTAACC-CT-ATTTAATTAA
1 AAACCCTAACCTATAATTTAATTAA
25849521 AAACCCTAA
1 AAACCCTAA
25849530 TTAAATTGTA
Statistics
Matches: 337, Mismatches: 24, Indels: 78
0.77 0.05 0.18
Matches are distributed among these distances:
23 15 0.04
24 1 0.00
27 47 0.14
28 119 0.35
29 8 0.02
30 5 0.01
31 5 0.01
32 4 0.01
33 101 0.30
34 32 0.09
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (25 bp):
AAACCCTAACCTATAATTTAATTAA
Found at i:25849174 original size:122 final size:119
Alignment explanation
Indices: 25848986--25849529 Score: 748
Period size: 122 Copynumber: 4.5 Consensus size: 119
25848976 AATTAAAAAC
* * *
25848986 CCTAACCTAATTTAATTAAA--AACCCAAACCCTAACCTAA-TTAATTAAATTAAAAACCCTAAC
1 CCTAACCTAATTTAACTAAATTAA---AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAAC
* * * *
25849048 CTAACTTAATTTAAATAATTAAAAACCCTAACCCTAACC-TAATTTAATTAAAAACCCAAA
63 CTAACCTAA-TT---TAATTAAAAACCCAAACCCTAACCTTAATTAAATTAAAAACCCTAA
* * *
25849108 CCCAAACCTAA-TTAATTAAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCT
1 -CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCT
* *
25849172 AACCTAATTTAATTAAAAACCCAAATCCTAACCTATTTAAATAAATTAAAAACCCTAA
65 AACCTAATTTAATTAAAAACCCAAACCCTAACC---TTAATTAAATTAAAAACCCTAA
25849230 CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTA
1 CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTA
25849295 ACCTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAA
66 ACCTAATTTAATTAAAAACCCAAACCCTAACC---TTAATTAAATTAAAAACCCTAA
25849352 CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTA
1 CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTA
*
25849417 ACCTAATTTAATTAAAAACTCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAA
66 ACCTAATTTAATTAAAAACCCAAACCCTAACC---TTAATTAAATTAAAAACCCTAA
25849474 CCTAACCTAATTTAACTAAATTAAAAACCCTAA-C---CCT-ATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA
25849530 TTAAATTGTA
Statistics
Matches: 399, Mismatches: 14, Indels: 22
0.92 0.03 0.05
Matches are distributed among these distances:
117 19 0.05
118 25 0.06
121 26 0.07
122 318 0.80
123 9 0.02
124 2 0.01
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (119 bp):
CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTA
ACCTAATTTAATTAAAAACCCAAACCCTAACCTTAATTAAATTAAAAACCCTAA
Found at i:25849512 original size:61 final size:60
Alignment explanation
Indices: 25848986--25849521 Score: 642
Period size: 61 Copynumber: 8.8 Consensus size: 60
25848976 AATTAAAAAC
*
25848986 CCTAACCTAATTTAATTAAA--AACCCAAACCCTAACCTAATTAATTAAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAATTAA---AAACCCTAACCTACTTAATTAAATTAAAAACCCTAA
* * * * *
25849047 CCTAACTTAATTTAAAT-AATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCAAA
1 CCTAACCTAATTTAATTAAATTAAAAACCCTAA-CCT-ACTTAATTAAATTAAAAACCCTAA
* *
25849108 CCCAAACCTAA-TTAATTAAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAA
1 -CCTAACCTAATTTAATTAAATTAAAAACCCTAACCT-ACTTAATTAAATTAAAAACCCTAA
* * *
25849169 CCTAACCTAATTTAATTAAA--AACCCAAATCCTAACCTATTTAAATAAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAATTAA---AAACCCTAACCTACTTAATTAAATTAAAAACCCTAA
* * *
25849230 CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAATTAAAAACCCTAACCT-ACTTAATTAAATTAAAAACCCTAA
*
25849291 CCTAACCTAATTTAATTAAA--AACCCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAATTAA---AAACCCTAACCTACTTAATTAAATTAAAAACCCTAA
* * *
25849352 CCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAATTAAAAACCCTAACCT-ACTTAATTAAATTAAAAACCCTAA
*
25849413 CCTAACCTAATTTAATTAAA--AACTCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAATTAA---AAACCCTAACCTACTTAATTAAATTAAAAACCCTAA
* *
25849474 CCTAACCTAATTTAACTAAATTAAAAACCCTAACCCTATTTAATTAAA
1 CCTAACCTAATTTAATTAAATTAAAAACCCTAA-CCTACTTAATTAAA
25849522 AACCCTAATT
Statistics
Matches: 415, Mismatches: 35, Indels: 50
0.83 0.07 0.10
Matches are distributed among these distances:
59 15 0.04
60 46 0.11
61 288 0.69
62 60 0.14
63 6 0.01
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (60 bp):
CCTAACCTAATTTAATTAAATTAAAAACCCTAACCTACTTAATTAAATTAAAAACCCTAA
Found at i:25852959 original size:125 final size:125
Alignment explanation
Indices: 25852696--25852961 Score: 374
Period size: 125 Copynumber: 2.1 Consensus size: 125
25852686 CACGAGGGCA
* * *
25852696 CGATTTGACACTGTTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTATAGCG
1 CGATTTCACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTATAGCG
* * * **
25852761 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTAGTATCAG
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAG
* * *
25852821 CGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTAG
1 CGATTTCACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTATAG
* *
25852884 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAG
64 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAG
*
25852946 CGATTTCCCACTATTT
1 CGATTTCACACTATTT
25852962 AACCAGAAAC
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 94 0.76
126 30 0.24
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (125 bp):
CGATTTCACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTATAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAG
Found at i:25857041 original size:44 final size:44
Alignment explanation
Indices: 25856993--25857078 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
25856983 TGTATGCACA
* * *
25856993 TAAAATTGTGAAAATATGAAAA-ATGTATGTATGTATACATATTT
1 TAAAATTAT-AAAATATAAAAATATGTAAGTATGTATACATATTT
* *
25857037 TAAAATTATTAAATATAAAAATATGTAAGTATGTATATATAT
1 TAAAATTATAAAATATAAAAATATGTAAGTATGTATACATAT
25857079 AGATAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 10 0.28
44 26 0.72
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (44 bp):
TAAAATTATAAAATATAAAAATATGTAAGTATGTATACATATTT
Found at i:25858732 original size:7 final size:7
Alignment explanation
Indices: 25858720--25858748 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
25858710 TAGTTGGGTC
25858720 TTTTGGG
1 TTTTGGG
25858727 TTTTGGG
1 TTTTGGG
25858734 TTTTGGG
1 TTTTGGG
25858741 TTTTGGG
1 TTTTGGG
25858748 T
1 T
25858749 AGGTTTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.41, T:0.59
Consensus pattern (7 bp):
TTTTGGG
Found at i:25872614 original size:12 final size:12
Alignment explanation
Indices: 25872597--25872672 Score: 74
Period size: 11 Copynumber: 6.8 Consensus size: 12
25872587 AACTAATCCT
25872597 CTCTCAAATTTC
1 CTCTCAAATTTC
* *
25872609 CTCTC-ATTTTT
1 CTCTCAAATTTC
25872620 CTCT-AAATTTC
1 CTCTCAAATTTC
*
25872631 CTCTC-AATTTG
1 CTCTCAAATTTC
25872642 CTCTCAAA-TTC
1 CTCTCAAATTTC
25872653 CT-TCCAAATTT-
1 CTCT-CAAATTTC
25872664 CTCTCAAAT
1 CTCTCAAAT
25872673 CCATATTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
10 1 0.02
11 41 0.79
12 10 0.19
ACGTcount: A:0.24, C:0.30, G:0.01, T:0.45
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:25872628 original size:22 final size:23
Alignment explanation
Indices: 25872596--25872672 Score: 97
Period size: 22 Copynumber: 3.4 Consensus size: 23
25872586 AAACTAATCC
*
25872596 TCTCTCAAATTTCCTCTCATTTT
1 TCTCTCAAATTTCCTCTCAATTT
25872619 TCTCT-AAATTTCCTCTCAATTT
1 TCTCTCAAATTTCCTCTCAATTT
* *
25872641 GCTCTCAAA-TTCCT-TCCAAATT
1 TCTCTCAAATTTCCTCT-CAATTT
25872663 TCTCTCAAAT
1 TCTCTCAAAT
25872673 CCATATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.02
22 38 0.81
23 8 0.17
ACGTcount: A:0.23, C:0.30, G:0.01, T:0.45
Consensus pattern (23 bp):
TCTCTCAAATTTCCTCTCAATTT
Found at i:25872690 original size:51 final size:51
Alignment explanation
Indices: 25872632--25872731 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
25872622 CTAAATTTCC
25872632 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
25872683 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
25872732 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:25873276 original size:125 final size:127
Alignment explanation
Indices: 25873023--25873281 Score: 387
Period size: 125 Copynumber: 2.1 Consensus size: 127
25873013 TAGAGAACTA
*
25873023 CCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAG
1 CCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATGTCTTCCAAG
* * * * * *
25873088 ACCTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCTTAAAGCAT
66 ACCTACTATAGCAAAAGCGCGTACACGAGGGCACGACTTCACAAATCCTTCTCATAAAACAT
* *
25873150 CCTGCTTGAAGCG-TTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATGT-TTCCAGG
1 CCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATGTCTTCCAAG
* * * *
25873213 ACCTACTGTAGCAAAAGCGCGTACACGTGGGCACGACTTCAGAAATCCTTCTGATAAAACAT
66 ACCTACTATAGCAAAAGCGCGTACACGAGGGCACGACTTCACAAATCCTTCTCATAAAACAT
25873275 CCTGCTT
1 CCTGCTT
25873282 TGATTTTATC
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 65 0.55
126 41 0.34
127 13 0.11
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (127 bp):
CCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATGTCTTCCAAG
ACCTACTATAGCAAAAGCGCGTACACGAGGGCACGACTTCACAAATCCTTCTCATAAAACAT
Found at i:25876007 original size:64 final size:63
Alignment explanation
Indices: 25875868--25875989 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 63
25875858 CAAACTATTT
*
25875868 ATTTA-TTTTTTTTAATAAAATGTAAATAAGTATGTTATTGATGTAAAAATACAATACAAATA
1 ATTTATTTTTTTTTAATAAAATGTAAATAAGTATGTTATTGATGTAAAAAGACAATACAAATA
* ** *
25875930 ATTTATTCATTTTTTGGTAAAATGTAAATAAGTA-GATTATTGATGTAACAAGACAATACA
1 ATTTATT-TTTTTTTAATAAAATGTAAATAAGTATG-TTATTGATGTAAAAAGACAATACA
25875990 TTTTTTGTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 5 0.10
63 2 0.04
64 45 0.87
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (63 bp):
ATTTATTTTTTTTTAATAAAATGTAAATAAGTATGTTATTGATGTAAAAAGACAATACAAATA
Found at i:25878751 original size:11 final size:11
Alignment explanation
Indices: 25878735--25878760 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25878725 TACTAAATAA
25878735 AATAATAAAAT
1 AATAATAAAAT
25878746 AATAATAAAAT
1 AATAATAAAAT
25878757 AATA
1 AATA
25878761 TTTAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:25879270 original size:23 final size:23
Alignment explanation
Indices: 25879239--25879290 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
25879229 ACCTACTTTC
*
25879239 TTACTGTAGTAATTTTCGAGG-TA
1 TTACAGTAGTAATTTTCG-GGATA
25879262 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
25879285 TTACAG
1 TTACAG
25879291 AAATATTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:25880350 original size:9 final size:9
Alignment explanation
Indices: 25880331--25880441 Score: 161
Period size: 9 Copynumber: 12.4 Consensus size: 9
25880321 TGGTTAAAAA
*
25880331 TTAATCGAT
1 TTAACCGAT
*
25880340 TTAACCTAT
1 TTAACCGAT
25880349 TTAACCGA-
1 TTAACCGAT
*
25880357 TTAACCGAC
1 TTAACCGAT
25880366 TTAACCGAT
1 TTAACCGAT
*
25880375 TTAACCGAC
1 TTAACCGAT
25880384 TTAACCGAT
1 TTAACCGAT
25880393 TTAACCGAT
1 TTAACCGAT
25880402 TTAACCGAT
1 TTAACCGAT
25880411 TTAACCGAT
1 TTAACCGAT
* *
25880420 TTAACCAAC
1 TTAACCGAT
25880429 TTAACCGAT
1 TTAACCGAT
25880438 TTAA
1 TTAA
25880442 ATCACTATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
8 8 0.09
9 83 0.91
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (9 bp):
TTAACCGAT
Found at i:25880564 original size:37 final size:37
Alignment explanation
Indices: 25880441--25880550 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
25880431 AACCGATTTA
* *
25880441 AATCACTATATAATTAAAAAAATTACATAAGTCTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
* * * *
25880478 AATCACTACATAACTAAAAACATTACATAAATTTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
25880515 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
25880551 AACACATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
Found at i:25880806 original size:7 final size:7
Alignment explanation
Indices: 25880794--25880852 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
25880784 GTACAGAAGA
25880794 AAACATG
1 AAACATG
25880801 AAACATG
1 AAACATG
* **
25880808 CAGTATG
1 AAACATG
25880815 AAACATG
1 AAACATG
*
25880822 AAATCGTG
1 AAA-CATG
25880830 AAACATG
1 AAACATG
25880837 AAACATG
1 AAACATG
25880844 AAACATG
1 AAACATG
25880851 AA
1 AA
25880853 TTGTTCTTGG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:25881092 original size:18 final size:19
Alignment explanation
Indices: 25881057--25881108 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
25881047 AACCGACCGA
**
25881057 TTAACCGAATTCGGTCGG-
1 TTAACCGAATTTTGTCGGT
*
25881075 TTAACCGAATTTTTTCGGTT
1 TTAACCGAATTTTGTCGG-T
25881095 TTAACCGAATTTTG
1 TTAACCGAATTTTG
25881109 CACACCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
20 13 0.46
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (19 bp):
TTAACCGAATTTTGTCGGT
Found at i:25886804 original size:99 final size:98
Alignment explanation
Indices: 25886677--25886860 Score: 323
Period size: 99 Copynumber: 1.9 Consensus size: 98
25886667 CCTTTACAGG
*
25886677 GCACATTAAAGAAAATGATAACCTATCTTCTCGCTTTTATATTTGATAACATATAAATTTAAGGG
1 GCACATTAAAGAAAATGATAACCTATCTTCTCGCTTTTATATTTGATAACATATAAATTTAAAGG
25886742 GGTAAAAAGAAAATGGCATTTTCTTTAAAGGCGA
66 GGT-AAAAGAAAATGGCATTTTCTTTAAAGGCGA
* * *
25886776 GCACTTTAAAGAAAATGATAACTTATCTTCTCTCTTTTATATTTGATAACATATAAATTTAAAGG
1 GCACATTAAAGAAAATGATAACCTATCTTCTCGCTTTTATATTTGATAACATATAAATTTAAAGG
25886841 GGTAAAAGAAAATGGCATTT
66 GGTAAAAGAAAATGGCATTT
25886861 GCATTTGCCA
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 17 0.21
99 64 0.79
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (98 bp):
GCACATTAAAGAAAATGATAACCTATCTTCTCGCTTTTATATTTGATAACATATAAATTTAAAGG
GGTAAAAGAAAATGGCATTTTCTTTAAAGGCGA
Found at i:25887901 original size:42 final size:42
Alignment explanation
Indices: 25887820--25887902 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
25887810 GACTAATGGG
* *
25887820 TTCCATTGATGCAGAAGGCATCAGTGACGACATGGCCATTGA
1 TTCCATTGATGCAGAAGACATCAGTGACGACATGACCATTGA
* * * *
25887862 TTCCATTGATGGAGAAGATATTAGTGATCG-CGTGACCATTG
1 TTCCATTGATGCAGAAGACATCAGTGA-CGACATGACCATTG
25887903 TAGGTTGACT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (42 bp):
TTCCATTGATGCAGAAGACATCAGTGACGACATGACCATTGA
Found at i:25901900 original size:16 final size:17
Alignment explanation
Indices: 25901839--25901903 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
25901829 TCTTTTAATT
*
25901839 AATAAAACATAAAATAA
1 AATAAAACATAATATAA
**
25901856 AATAAAAGGTTAATATAA
1 AATAAAA-CATAATATAA
25901874 TAATGAAAACATAATA-AA
1 -AAT-AAAACATAATATAA
25901892 AATAAAACATAA
1 AATAAAACATAA
25901904 GTGAATATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.22
17 10 0.25
18 9 0.22
19 8 0.20
20 4 0.10
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.22
Consensus pattern (17 bp):
AATAAAACATAATATAA
Found at i:25914183 original size:28 final size:28
Alignment explanation
Indices: 25914126--25914183 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
25914116 TCATTCTCTC
* *
25914126 TTCTTTTTCTTTTTTTCTTCTACTTCCT
1 TTCTTTTTCTTTTTTTCTTCGACTTACT
25914154 TTCTCTTTTCTTTCTTTT-TTCGA-TTACT
1 TTCT-TTTTCTTT-TTTTCTTCGACTTACT
25914182 TT
1 TT
25914184 GGTAACTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 10 0.38
29 12 0.46
30 4 0.15
ACGTcount: A:0.05, C:0.22, G:0.02, T:0.71
Consensus pattern (28 bp):
TTCTTTTTCTTTTTTTCTTCGACTTACT
Found at i:25923875 original size:20 final size:20
Alignment explanation
Indices: 25923850--25923888 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
25923840 CAGACGATAG
25923850 AGATTCATTTTGTGTGTTAA
1 AGATTCATTTTGTGTGTTAA
25923870 AGATTCATTTTGTGTGTTA
1 AGATTCATTTTGTGTGTTA
25923889 TCTGTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.21, T:0.51
Consensus pattern (20 bp):
AGATTCATTTTGTGTGTTAA
Found at i:25946314 original size:39 final size:41
Alignment explanation
Indices: 25946220--25946346 Score: 125
Period size: 39 Copynumber: 3.1 Consensus size: 41
25946210 CACGTAAGCA
** * * *
25946220 CGATTTGCTTCCACGTCAGC-AAATCGCGCTTACGTGGATG
1 CGATTTGCTAACACGTCAACTAAATCGCGCTGACGTGGACG
* ** *
25946260 CGATTTGTTGCCACGT-AAGT-AATCGCGCTGACGTGGACG
1 CGATTTGCTAACACGTCAACTAAATCGCGCTGACGTGGACG
**
25946299 CGATTTGCTAACACGTCCCCTAACATCGCGCTGACGTGGACG
1 CGATTTGCTAACACGTCAACTAA-ATCGCGCTGACGTGGACG
25946341 CGATTT
1 CGATTT
25946347 CGGAGAAAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 31 0.44
40 15 0.21
41 1 0.01
42 24 0.34
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (41 bp):
CGATTTGCTAACACGTCAACTAAATCGCGCTGACGTGGACG
Found at i:25951228 original size:24 final size:24
Alignment explanation
Indices: 25951201--25951252 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
25951191 TTAGTAAGTC
*
25951201 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
25951225 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
25951249 AAAT
1 AAAT
25951253 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:25953197 original size:24 final size:24
Alignment explanation
Indices: 25953170--25953221 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
25953160 TTAGTAAGTC
*
25953170 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
25953194 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
25953218 AAAT
1 AAAT
25953222 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:25955168 original size:24 final size:24
Alignment explanation
Indices: 25955141--25955192 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
25955131 TTAGTAAGTC
*
25955141 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
25955165 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
25955189 AAAT
1 AAAT
25955193 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:25957539 original size:25 final size:23
Alignment explanation
Indices: 25957507--25957567 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 23
25957497 GAACGAGTTT
25957507 TATA-ATAATTTTTATATTTATGTA
1 TATATATAATTTTTATATTT-T-TA
25957531 TATATATAATTTTTATATTTTTA
1 TATATATAATTTTTATATTTTTA
*
25957554 TA-ATAAAATTTTTA
1 TATATATAATTTTTA
25957568 ATAATTGTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
22 11 0.31
23 4 0.11
24 5 0.14
25 15 0.43
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATATAATTTTTATATTTTTA
Found at i:25957680 original size:8 final size:9
Alignment explanation
Indices: 25957535--25957683 Score: 62
Period size: 9 Copynumber: 16.3 Consensus size: 9
25957525 TATGTATATA
25957535 TATAATTTT
1 TATAATTTT
25957544 TAT-ATTTT
1 TATAATTTT
25957552 TATAA----
1 TATAATTTT
*
25957557 TAAAATTTT
1 TATAATTTT
*
25957566 TAATAATTGT
1 T-ATAATTTT
*
25957576 TATAAGTGTT
1 TATAA-TTTT
25957586 TAT-ATTTT
1 TATAATTTT
25957594 TATAAGTTATT
1 TATAA-TT-TT
*
25957605 TAT-ATGCTTA
1 TATAAT--TTT
*
25957615 TATAAAATTT
1 TAT-AATTTT
25957625 TA-ATATTTT
1 TATA-ATTTT
*
25957634 TATCATTTT
1 TATAATTTT
* **
25957643 TATCATACT
1 TATAATTTT
*
25957652 TACAATTTTTT
1 TATAA--TTTT
25957663 TATAATTTT
1 TATAATTTT
25957672 TATAATTTT
1 TATAATTTT
25957681 TAT
1 TAT
25957684 TAGAAATGTA
Statistics
Matches: 104, Mismatches: 18, Indels: 36
0.66 0.11 0.23
Matches are distributed among these distances:
5 4 0.04
8 15 0.14
9 49 0.47
10 23 0.22
11 12 0.12
12 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:25957680 original size:19 final size:19
Alignment explanation
Indices: 25957560--25957681 Score: 54
Period size: 19 Copynumber: 6.4 Consensus size: 19
25957550 TTTATAATAA
* *
25957560 AATTTTTAATAATTGTTAT
1 AATTTTTTATAATTTTTAT
* *
25957579 AAGTGTTTAT-ATTTTTAT
1 AATTTTTTATAATTTTTAT
* *
25957597 AAGTTATTTAT-ATGCTTATAT
1 AA-TTTTTTATAAT--TTTTAT
**
25957618 AAAATTTTA-ATATTTTTAT
1 AATTTTTTATA-ATTTTTAT
* * ** *
25957637 CA-TTTTTATCATACTTAC
1 AATTTTTTATAATTTTTAT
25957655 AATTTTTTTATAATTTTTAT
1 AA-TTTTTTATAATTTTTAT
25957675 AATTTTT
1 AATTTTT
25957682 ATTAGAAATG
Statistics
Matches: 73, Mismatches: 22, Indels: 16
0.66 0.20 0.14
Matches are distributed among these distances:
18 20 0.27
19 26 0.36
20 18 0.25
21 9 0.12
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (19 bp):
AATTTTTTATAATTTTTAT
Found at i:25958763 original size:18 final size:18
Alignment explanation
Indices: 25958732--25958766 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25958722 CTCACATAAA
* *
25958732 TTTTTTTATTTTTTTTTG
1 TTTTTGTATCTTTTTTTG
25958750 TTTTTGTATCTTTTTTT
1 TTTTTGTATCTTTTTTT
25958767 ATCACTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.86
Consensus pattern (18 bp):
TTTTTGTATCTTTTTTTG
Found at i:25959914 original size:21 final size:21
Alignment explanation
Indices: 25959889--25959966 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
25959879 ATTTTTAAGG
25959889 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
25959910 ATATGCAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
25959929 ATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
25959953 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
25959967 GATTTAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
19 12 0.25
20 3 0.06
21 18 0.38
22 6 0.12
23 9 0.19
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:25959950 original size:17 final size:19
Alignment explanation
Indices: 25959888--25959943 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
25959878 AATTTTTAAG
*
25959888 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
25959907 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
25959928 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
25959944 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
21 18 0.53
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:25967861 original size:88 final size:88
Alignment explanation
Indices: 25966843--25967831 Score: 1501
Period size: 88 Copynumber: 11.2 Consensus size: 88
25966833 GAAATCACAA
* * * * * * * *
25966843 AGCCTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAAATAACAAATCTTGCCTTCCTGTACTGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
25966908 CGGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * * * *
25966931 AGCCTTGCCTCACTGGGATGTAGTGGAGTAGGTTGAAGATAGAAGATCTCGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
25966996 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * *
25967019 AGCCTTGCCTCCCTAGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
25967084 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * ** *
25967107 AGCCTTGCCTCCCTAGGTTGTAGTGGAGTAGGTTGAAGATAGCAGATATTGCCTTCCTACATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
25967172 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * *
25967195 GGCCTTGCCTCCCTGGGTTGTAATGAAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGAATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
25967260 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * *
25967283 AGCCTTGCCTCCCTAGGTTGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
25967348 CAACGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
25967371 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAACAGATCTTTCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
25967436 CAGTGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
** *
25967459 AGCCTTGCCTCCCTGGGTCATAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* *
25967524 CAGTGAAGCAGATTGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
25967547 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCATATCTTGCCTTCCTGTACCAA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
25967612 CAGTGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
*
25967635 AGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
25967700 CAGTGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
25967723 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* *
25967788 CAGTGAAGCAGATCAAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
25967811 TGCCTTGCCTCCTTGGGTTGT
1 AGCCTTGCCTCCCTGGGTTGT
25967832 CATGAAGTAG
Statistics
Matches: 832, Mismatches: 69, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 832 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
CAGCGAAGCAGATCGAAGATACC
Found at i:25967882 original size:44 final size:44
Alignment explanation
Indices: 25967834--25968218 Score: 404
Period size: 44 Copynumber: 8.8 Consensus size: 44
25967824 TGGGTTGTCA
*
25967834 TGAAGTAGATCGAAGGAAGCAGATCTTGTCTTCATGTATTGGCA
1 TGAAGTAGATCGAAGGAAGCAGATCTTGTCTTCATGTATTGGCG
* *
25967878 TGAAGTAGATC-AAAGATAGCAGATTTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCGAAGGA-AGCAGATCTTGTCTTCATGTATTGGCG
*** * *
25967922 TGAAGTAGATCGAA-GATAGCAGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCGAAGGA-AGCAGATCTTGTCTTCATGTATTGG-CG
* * *
25967967 CGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCGAAGGAAGCAGATCTTGTCTTCATGTATTGGCG
* * *
25968011 TGAAGTAGATC-AAAGATAGCAAATCTTGTCTTCATGTATTAGCG
1 TGAAGTAGATCGAAGGA-AGCAGATCTTGTCTTCATGTATTGGCG
*** *
25968055 TGAAGTAGATCGAA-GATAGCAGATCTTGTCTTCCCATATTGGTGG
1 TGAAGTAGATCGAAGGA-AGCAGATCTTGTCTTCATGTATTGG-CG
* * *
25968100 CGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC-
1 TGAAGTAGATCGAAGGAAGCAGATCTTGTCTTCATGTATTGGCG
* * * * * *
25968143 -GAAGTAGATCGAAGAAAGCAAATATTATCTTCATGTATCGGCA
1 TGAAGTAGATCGAAGGAAGCAGATCTTGTCTTCATGTATTGGCG
* * *
25968186 TGAAATAGATCAAAGGTAGCAGATCTTGTCTTC
1 TGAAGTAGATCGAAGGAAGCAGATCTTGTCTTC
25968219 CCATACTGGT
Statistics
Matches: 284, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
42 37 0.13
43 7 0.02
44 165 0.58
45 73 0.26
46 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (44 bp):
TGAAGTAGATCGAAGGAAGCAGATCTTGTCTTCATGTATTGGCG
Found at i:25967998 original size:133 final size:132
Alignment explanation
Indices: 25967835--25968246 Score: 655
Period size: 133 Copynumber: 3.1 Consensus size: 132
25967825 GGGTTGTCAT
* *
25967835 GAAGTAGATCGAAGGAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC-TGAAGTAGATCAAAGATAGCAA
*
25967900 ATTTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
65 ATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
25967965 GGC
130 GGC
*
25967968 GAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC-TGAAGTAGATCAAAGATAGCAA
* * *
25968033 ATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGT
65 ATATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
25968098 GGC
130 GGC
* * *
25968101 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC-GAAGTAGATCGAAGAAAGCAAA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCTGAAGTAGATCAAAGATAGCAAA
* * * * * *
25968165 TATTATCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCATACTGGTG
66 TATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
25968230 GC
131 GC
25968232 GAAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
25968247 TACAAGTCTT
Statistics
Matches: 259, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 93 0.36
133 166 0.64
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCTGAAGTAGATCAAAGATAGCAAA
TATTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTG
GC
Found at i:25968000 original size:89 final size:88
Alignment explanation
Indices: 25967834--25968246 Score: 426
Period size: 89 Copynumber: 4.7 Consensus size: 88
25967824 TGGGTTGTCA
* * * *
25967834 TGAAGTAGATCGAAGGA-AGCAGATCTTGTCTT-CAT-GTATTGGCATGAAGTAGATCAAAGATA
1 TGAAGTAGATCGAA-GATAGCAGATCTTGTCTTCCATACTAGTGGC--GAAGTAGATCGAAGAAA
*
25967896 GCAGATTTTGTCTTCATGTATTGGCG
63 GCAGATCTTGTCTTCATGTATTGGCG
* *
25967922 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGC
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTT-CCATACTAGTGGCGAAGTAGATCGAAGAAAGC
25967987 AGATCTTGTCTTCATGTATTGGCG
65 AGATCTTGTCTTCATGTATTGGCG
* * * * * *
25968011 TGAAGTAGATCAAAGATAGCAAATCTTGTCTT-CATGTATTAG-CGTGAAGTAGATCGAAGATAG
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCA--TACTAGTGGCGAAGTAGATCGAAGAAAG
*** *
25968074 CAGATCTTGTCTTCCCATATTGGTGG
64 CAGATCTTGTCTTCATGTATTGG-CG
* * * * *
25968100 CGAAGTAGATCGAAGAAAGTAGATCTTGTCTT-CAT-GTATTGGCGAAGTAGATCGAAGAAAGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCATACTAGTGGCGAAGTAGATCGAAGAAAGCA
* * * * *
25968163 AATATTATCTTCATGTATCGGCA
66 GATCTTGTCTTCATGTATTGGCG
* * * *
25968186 TGAAATAGATCAAAGGTAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTT-CCATACTAGTGGCGAAGTAGATCGAAGA
25968247 TACAAGTCTT
Statistics
Matches: 269, Mismatches: 45, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
86 28 0.10
87 39 0.14
88 69 0.26
89 125 0.46
90 3 0.01
91 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (88 bp):
TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCATACTAGTGGCGAAGTAGATCGAAGAAAGCA
GATCTTGTCTTCATGTATTGGCG
Found at i:25968615 original size:19 final size:19
Alignment explanation
Indices: 25968591--25968662 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
25968581 AATCTTCAAG
25968591 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25968610 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
25968629 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
*
25968650 GATATACAATCTT
1 GATATGCAATCTT
25968663 GGAATATATG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25978819 original size:6 final size:6
Alignment explanation
Indices: 25978808--25978945 Score: 267
Period size: 6 Copynumber: 23.0 Consensus size: 6
25978798 TTTGTCCTTA
25978808 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
25978856 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
25978904 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT GCATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
25978946 CATTTTATAA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 131 1.00
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:25979854 original size:25 final size:26
Alignment explanation
Indices: 25979805--25979854 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
25979795 TCTTTTCTTT
** *
25979805 TCTTTTCATTTTTAATTTAGGTTTTC
1 TCTTTTCATTTTTAAAGTAGATTTTC
25979831 TCTTTTC-TTTTTAAAGTAGATTTT
1 TCTTTTCATTTTTAAAGTAGATTTT
25979855 ATTCTTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (26 bp):
TCTTTTCATTTTTAAAGTAGATTTTC
Found at i:25979860 original size:26 final size:26
Alignment explanation
Indices: 25979802--25979862 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
25979792 TTTTCTTTTC
** *
25979802 TTTTCTTTTCATTTTTAATTTAGGTT
1 TTTTCTTTTCATTTTTAAAGTAGATT
*
25979828 TTCTCTTTTC-TTTTTAAAGTAGATT
1 TTTTCTTTTCATTTTTAAAGTAGATT
25979853 TTATTCTTTT
1 TT-TTCTTTT
25979863 AGTTTCTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.16, C:0.10, G:0.07, T:0.67
Consensus pattern (26 bp):
TTTTCTTTTCATTTTTAAAGTAGATT
Found at i:25982745 original size:12 final size:12
Alignment explanation
Indices: 25982728--25982765 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
25982718 GTAATGGACA
25982728 TTGGACATTTAT
1 TTGGACATTTAT
25982740 TTGGACATTTAT
1 TTGGACATTTAT
25982752 TTGGACATTTAT
1 TTGGACATTTAT
25982764 TT
1 TT
25982766 TGGTGATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.53
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:25985105 original size:47 final size:47
Alignment explanation
Indices: 25985027--25985430 Score: 646
Period size: 47 Copynumber: 8.6 Consensus size: 47
25985017 CCCTTCGGGA
* * * * * *
25985027 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25985074 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25985121 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25985168 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25985217 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25985264 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25985311 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25985358 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25985405 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
25985431 CACAATTATC
Statistics
Matches: 331, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 286 0.86
49 45 0.14
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25985464 original size:143 final size:141
Alignment explanation
Indices: 25985027--25985430 Score: 691
Period size: 143 Copynumber: 2.9 Consensus size: 141
25985017 CCCTTCGGGA
* * * * * *
25985027 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
25985092 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
25985157 GGCCATTAGGC
131 GGCCATTAGGC
* *
25985168 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTCATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
25985233 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
25985298 TCGGCCATTAGGC
129 TCGGCCATTAGGC
25985311 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * *
25985376 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACAT
25985431 CACAATTATC
Statistics
Matches: 248, Mismatches: 13, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
141 115 0.46
143 133 0.54
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:25996966 original size:3 final size:3
Alignment explanation
Indices: 25996958--25997016 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
25996948 TTTTAGTTAG
* *
25996958 TAT TAT TAT TAC TAT TAT TAT TAT T-T TA- TAT TAT TAT TACT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* *
25997002 TCT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT
25997017 GATGGATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:25997007 original size:16 final size:16
Alignment explanation
Indices: 25996954--25997009 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 16
25996944 CGTTTTTTAG
25996954 TTAGTATTATTATTAC
1 TTAGTATTATTATTAC
*
25996970 -TATTATTATTATT--
1 TTAGTATTATTATTAC
25996983 TTA-TATTATTATTAC
1 TTAGTATTATTATTAC
*
25996998 TTAGTCTTATTA
1 TTAGTATTATTA
25997010 CTATTATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 10 0.29
14 2 0.06
15 15 0.44
16 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (16 bp):
TTAGTATTATTATTAC
Found at i:25999546 original size:80 final size:80
Alignment explanation
Indices: 25999409--25999597 Score: 263
Period size: 80 Copynumber: 2.4 Consensus size: 80
25999399 AGTGTCATTG
* * * *
25999409 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCATTGCTTGTACTTTGGCACCCCTGAATGC
1 TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCACTGCTTGTACTTCGGCACCCCTAAATGC
25999474 ACATCTGTGCCCCTA
66 ACATCTGTGCCCCTA
* * *
25999489 TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGC
1 TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCACTGCTTGTACTTCGGCACCCCTAAATGC
*
25999554 ACATTTGTGCCCCTA
66 ACATCTGTGCCCCTA
* * *
25999569 ATTGCACTTCAGTGCCCCTG-ATCGCACAT
1 TTTGTACTTCAGTACCCCTGAAT-GCACAT
25999598 GAGTATAATT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 2 0.02
80 95 0.98
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (80 bp):
TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCACTGCTTGTACTTCGGCACCCCTAAATGC
ACATCTGTGCCCCTA
Found at i:25999565 original size:40 final size:40
Alignment explanation
Indices: 25999407--25999567 Score: 241
Period size: 40 Copynumber: 4.0 Consensus size: 40
25999397 GAAGTGTCAT
**
25999407 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCAT
1 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
* * *
25999447 TGCTTGTACTTTGGCACCCCTGAATGCACATCTGTGCCCC
1 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
* *
25999487 TATTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCCC
1 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
* *
25999527 TGTTTGTACTTCGGTACCCCTAAATGCACATTTGTGCCCC
1 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
25999567 T
1 T
25999568 AATTGCACTT
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.34
Consensus pattern (40 bp):
TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
Found at i:25999578 original size:40 final size:40
Alignment explanation
Indices: 25999409--25999597 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
25999399 AGTGTCATTG
** *
25999409 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCATTG
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
* * *
25999449 CTTGTACTTTGGCACCCCTGAATGCACATCTGTGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
* *
25999489 TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCCCTG
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
* *
25999529 TTTGTACTTCGGTACCCCTAAATGCACATTTGTGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
* * * *
25999569 ATTGCACTTCAGTGCCCCTG-ATCGCACAT
1 TTTGTACTTCGGTACCCCTGAAT-GCACAT
25999598 GAGTATAATT
Statistics
Matches: 128, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
39 2 0.02
40 126 0.98
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (40 bp):
TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
Found at i:25999583 original size:20 final size:20
Alignment explanation
Indices: 25999480--25999587 Score: 76
Period size: 20 Copynumber: 5.4 Consensus size: 20
25999470 ATGCACATCT
* *
25999480 GTGCCCCTATTTGTACTTCA
1 GTGCCCCTAATTGCACTTCA
* * *
25999500 GTACCCCTGAA-TGCACATCT
1 GTGCCCCT-AATTGCACTTCA
** * *
25999520 GTGCCCCTGTTTGTACTTCG
1 GTGCCCCTAATTGCACTTCA
* * *
25999540 GTACCCCTAAATGCACATT-T
1 GTGCCCCTAATTGCAC-TTCA
25999560 GTGCCCCTAATTGCACTTCA
1 GTGCCCCTAATTGCACTTCA
25999580 GTGCCCCT
1 GTGCCCCT
25999588 GATCGCACAT
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
19 2 0.03
20 59 0.92
21 3 0.05
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.32
Consensus pattern (20 bp):
GTGCCCCTAATTGCACTTCA
Found at i:25999997 original size:20 final size:19
Alignment explanation
Indices: 25999972--26000037 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
25999962 AGAAACATTT
25999972 GTGCCCTTGATTGCACTTCG
1 GTGCCCTTGATT-CACTTCG
*
25999992 GTGCCCCTGATCTCACATTC-
1 GTGCCCTTGAT-TCAC-TTCG
* *
26000012 GTGCTCTTGATTTCACTTTG
1 GTGCCCTTGA-TTCACTTCG
26000032 GTGCCC
1 GTGCCC
26000038 CTATTATGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 2 0.05
20 30 0.81
21 5 0.14
ACGTcount: A:0.11, C:0.32, G:0.21, T:0.36
Consensus pattern (19 bp):
GTGCCCTTGATTCACTTCG
Found at i:26000854 original size:15 final size:15
Alignment explanation
Indices: 26000834--26000867 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
26000824 TAAGCATTTT
26000834 TGGCTAAGGTTATAA
1 TGGCTAAGGTTATAA
26000849 TGGCTAAGGTTATAA
1 TGGCTAAGGTTATAA
26000864 TGGC
1 TGGC
26000868 ATGTATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (15 bp):
TGGCTAAGGTTATAA
Found at i:26004860 original size:19 final size:16
Alignment explanation
Indices: 26004818--26004864 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
26004808 ATTGAGCTTT
26004818 GAATGCTCCTTTTGAA
1 GAATGCTCCTTTTGAA
26004834 -AA-GCTCCTTTTACGTAA
1 GAATGCTCCTTTT--G-AA
26004851 GAATGCTCCTTTTG
1 GAATGCTCCTTTTG
26004865 TTGGACTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.35
15 2 0.08
16 1 0.04
17 3 0.12
18 2 0.08
19 9 0.35
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (16 bp):
GAATGCTCCTTTTGAA
Found at i:26009596 original size:26 final size:26
Alignment explanation
Indices: 26009549--26009610 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
26009539 CATTAGGGTG
* ** *
26009549 TAGCAGGCTTTGTGTTGGTGTATATT
1 TAGCAGGCTTCGAATTGATGTATATT
26009575 TAGCAGGCTTCGAATTGATGTATATT
1 TAGCAGGCTTCGAATTGATGTATATT
*
26009601 TAGTAGGCTT
1 TAGCAGGCTT
26009611 TGTACTGGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.21, C:0.10, G:0.27, T:0.42
Consensus pattern (26 bp):
TAGCAGGCTTCGAATTGATGTATATT
Found at i:26012250 original size:3 final size:3
Alignment explanation
Indices: 26012242--26012274 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
26012232 TGATTGCTGT
26012242 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26012275 AAGACAACCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:26012977 original size:8 final size:8
Alignment explanation
Indices: 26012964--26012997 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
26012954 AATACTCTTT
26012964 AAAATTTA
1 AAAATTTA
26012972 AAAATTTA
1 AAAATTTA
26012980 AAAA-TTA
1 AAAATTTA
*
26012987 AAAATATA
1 AAAATTTA
26012995 AAA
1 AAA
26012998 TAAATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAATTTA
Found at i:26012981 original size:15 final size:15
Alignment explanation
Indices: 26012961--26012998 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
26012951 AAAAATACTC
26012961 TTTAAAATTTAAAAA
1 TTTAAAATTTAAAAA
*
26012976 TTTAAAAATTAAAAA
1 TTTAAAATTTAAAAA
*
26012991 TATAAAAT
1 TTTAAAAT
26012999 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAAAATTTAAAAA
Found at i:26026094 original size:44 final size:44
Alignment explanation
Indices: 26026014--26026410 Score: 285
Period size: 44 Copynumber: 8.8 Consensus size: 44
26026004 ATCATCGTGG
* * * *
26026014 CAAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
26026058 CAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * *
26026102 GCAAATCTTCTCTCTCTGAAGTTTCAGTAGAGTAGGTTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
26026147 CAAACCTTATCTCCCTGAAGATGTAGTGGAGCAGGATTGAAGAC-A
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAG-CTA
** ** * *
26026192 GCAAATCTTATCTCTTTGAAGTTGCAGTAAAGTATATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * **
26026237 TAAGTCTTATCTCCCTGAAGTTCCAGTAGAGCAGATTGAATATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * *
26026281 GCGAACCTTATTTCCTTGAAGTTGCAGTGTAACAGATTAAAGCTACAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---C----TA
* * * *
26026333 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGCTTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
*
26026377 CAAATCTTATCT-CCTCGAAGTTGTAGTGGAGCAG
1 CAAATCTTATCTCCCT-GAAGTTGCAGTGGAGCAG
26026411 GTTGAAGCGA
Statistics
Matches: 267, Mismatches: 72, Indels: 28
0.73 0.20 0.08
Matches are distributed among these distances:
43 3 0.01
44 127 0.48
45 77 0.29
46 26 0.10
51 32 0.12
52 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:26026132 original size:89 final size:89
Alignment explanation
Indices: 26026013--26026399 Score: 422
Period size: 89 Copynumber: 4.3 Consensus size: 89
26026003 AATCATCGTG
*
26026013 GCAAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
*
26026078 TTGCAATGGAGCAGATTGAAGATA
66 TTGCAGTGGAGCAGATTGAAGATA
* * *
26026102 GCAAATCTTCTCTCTCTGAAGTTTCAGTAGAGTAGGTTAAAGCTACAAACCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
* * *
26026167 ATGTAGTGGAGCAGGATTGAAGACA
66 TTGCAGTGGAGCA-GATTGAAGATA
* * * * **
26026192 GCAAATCTTATCTCTTTGAAGTTGCAGTAAAGTATATTAAAGCTATAAGTCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
* * *
26026257 TTCCAGTAGAGCAGATTGAATATA
66 TTGCAGTGGAGCAGATTGAAGATA
* * * **
26026281 GCGAACCTTATTTC-CTTGAAGTTGCAGT-GTAACAGATTAAAGCTACAAGTTACAAATCTTATC
1 GCAAATCTTATCTCTC-TGAAGTTGCAGTAG-AGTAGATTAAAGCTACAA---AC----CTTATC
* * *
26026344 TCCCTGAAGTTGTAGTGGAGCAGCTTGAAGTTA
57 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
26026377 -CAAATCTTATCTC-CTCGAAGTTG
1 GCAAATCTTATCTCTCT-GAAGTTG
26026400 TAGTGGAGCA
Statistics
Matches: 245, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
89 118 0.48
90 75 0.31
94 1 0.00
95 18 0.07
96 33 0.13
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (89 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTGAAGATA
Found at i:26026323 original size:179 final size:180
Alignment explanation
Indices: 26026013--26026399 Score: 442
Period size: 179 Copynumber: 2.1 Consensus size: 180
26026003 AATCATCGTG
* * *
26026013 GCAAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTTTGAAGTTGCAGTAAAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
* * * * * ** *
26026078 TTGCAATGGAGCAGATTGAAGATAGCAAATCTTCTCTCTCTGAAGTTTCAGTAGAGTAGGTTAAA
66 TTCCAATAGAGCAGATTGAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAA
26026143 GCTACAA-AC-CTTATCTCCCTGAAGATGTAGTGGAGCAGGATTGAAGACA
131 GCTACAATACACTTATCTCCCTGAAGATGTAGTGGAGCA-GATTGAAGACA
* * **
26026192 GCAAATCTTATCTCTTTGAAGTTGCAGTAAAGTATATTAAAGCTATAAGTCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTTTGAAGTTGCAGTAAAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
* * * *
26026257 TTCCAGTAGAGCAGATTGAATATAGCGAACCTTATTTC-CTTGAAGTTGCAGT-GTAACAGATTA
66 TTCCAATAGAGCAGATTGAAGATAGCAAACCTTATCTCTC-TGAAGTTGCAGTAG-AACAGATTA
* * **
26026320 AAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGCTTGAAGTTA
129 AAGCTACAA--TAC--A-CTTATCTCCCTGAAGATGTAGTGGAGCAGATTGAAGACA
* *
26026377 -CAAATCTTATCTCCTCGAAGTTG
1 GCAAATCTTATCTCTTTGAAGTTG
26026400 TAGTGGAGCA
Statistics
Matches: 174, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
178 2 0.01
179 114 0.66
182 2 0.01
184 21 0.12
185 8 0.05
186 27 0.16
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (180 bp):
GCAAATCTTATCTCTTTGAAGTTGCAGTAAAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
TTCCAATAGAGCAGATTGAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAA
GCTACAATACACTTATCTCCCTGAAGATGTAGTGGAGCAGATTGAAGACA
Found at i:26026441 original size:44 final size:43
Alignment explanation
Indices: 26026345--26026442 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 43
26026335 AATCTTATCT
** **
26026345 CCCTGAAGTTGTAGTGGAGCAGCTTGAAGTTACAAATCTTATC
1 CCCTGAAGTTGTAGTGGAGCAGCTTGAAGCGACAAATCCCATC
* *
26026388 TCCTCGAAGTTGTAGTGGAGCAGGTTGAAGCGA-AAATTCCCATAC
1 CCCT-GAAGTTGTAGTGGAGCAGCTTGAAGCGACAAA-TCCCAT-C
26026433 CCCTGAAGTT
1 CCCTGAAGTT
26026443 ACAGTGGGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
43 6 0.13
44 35 0.78
45 4 0.09
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
CCCTGAAGTTGTAGTGGAGCAGCTTGAAGCGACAAATCCCATC
Found at i:26035264 original size:47 final size:47
Alignment explanation
Indices: 26035212--26035378 Score: 244
Period size: 47 Copynumber: 3.6 Consensus size: 47
26035202 GATAATTGTG
* *
26035212 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
26035259 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
26035306 ATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
26035353 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
26035379 TCCCGAAGGG
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:26037381 original size:91 final size:91
Alignment explanation
Indices: 26037221--26037491 Score: 488
Period size: 91 Copynumber: 3.0 Consensus size: 91
26037211 GAAAACTATT
* * * *
26037221 TTCCTACCCATTATCATAACTTTTATAGACAATCTTTTCTACCAAACAAAACTACTACCACTAAT
1 TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
26037286 CAATTGACTAAGTTGTAAAGCATTTC
66 CAATTGACTAAGTTGTAAAGCATTTC
26037312 TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
1 TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
26037377 CAATTGACTAAGTTGTAAAGCATTTC
66 CAATTGACTAAGTTGTAAAGCATTTC
* *
26037403 TTCCGACCTATTACGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
1 TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
26037468 CAATTGACTAAGTTGTAAAGCATT
66 CAATTGACTAAGTTGTAAAGCATT
26037492 GCTTGTACTC
Statistics
Matches: 174, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 174 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (91 bp):
TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
CAATTGACTAAGTTGTAAAGCATTTC
Found at i:26037536 original size:91 final size:90
Alignment explanation
Indices: 26037244--26037544 Score: 286
Period size: 91 Copynumber: 3.3 Consensus size: 90
26037234 TCATAACTTT
** *
26037244 TATAGACAATCTTTTCTACCAAACAAAACTACTACCACTAATCAATTGACTAAGTTGTAAAGCAT
1 TATAGACAATCTTAGCTACCAAACACAACTACTACCACTAATCAATTGACTAAGTTGTAAAGCAT
* * ** * * ***
26037309 TTCTTCCGACCCATTATGATGACTTT
66 TGCTT-CGACCTAAAACGAAGACAAC
**
26037335 TATAGACAATCTTTTCTACCAAACACAACTACTACCACTAATCAATTGACTAAGTTGTAAAGCAT
1 TATAGACAATCTTAGCTACCAAACACAACTACTACCACTAATCAATTGACTAAGTTGTAAAGCAT
* ** * ***
26037400 TTCTTCCGACCTATTACGATGACTTT
66 TGCTT-CGACCTAAAACGAAGACAAC
**
26037426 TATAGACAATCTTTTCTACCAAACACAACTACTACCACTAATCAATTGACTAAGTTGTAAAGCAT
1 TATAGACAATCTTAGCTACCAAACACAACTACTACCACTAATCAATTGACTAAGTTGTAAAGCAT
*
26037491 TGCTT-GTACTCTAAAAC-AAGCCAAC
66 TGCTTCG-AC-CTAAAACGAAGACAAC
26037516 TA-A-ACAAGTCATTCAGCTACCTAAACACA
1 TATAGACAA-TC-TT-AGCTACC-AAACACA
26037545 TCAAGCTATC
Statistics
Matches: 191, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
88 4 0.02
89 4 0.02
90 9 0.05
91 167 0.87
92 7 0.04
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (90 bp):
TATAGACAATCTTAGCTACCAAACACAACTACTACCACTAATCAATTGACTAAGTTGTAAAGCAT
TGCTTCGACCTAAAACGAAGACAAC
Found at i:26039641 original size:23 final size:20
Alignment explanation
Indices: 26039595--26039642 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
26039585 CGAATCTGTC
*
26039595 AAAAATAATTAAATTTCACT
1 AAAAATAATTAAAATTCACT
*
26039615 AAAAATAATTGTAAAATTGACT
1 AAAAATAA-T-TAAAATTCACT
26039637 AAAAAT
1 AAAAAT
26039643 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAATAATTAAAATTCACT
Found at i:26048898 original size:18 final size:16
Alignment explanation
Indices: 26048875--26048910 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
26048865 AGGAAACTAA
26048875 TGATTTTTTTGTAATATT
1 TGATTTTTTT-TAAT-TT
26048893 TGATTTTTTTTAATTT
1 TGATTTTTTTTAATTT
26048909 TG
1 TG
26048911 TAAAATGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (16 bp):
TGATTTTTTTTAATTT
Found at i:26053832 original size:41 final size:41
Alignment explanation
Indices: 26053775--26053858 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
26053765 ATGGAGACAC
26053775 TTTCAAAAAGACTCGATCTCCTATACTATATTCAATTTCCT
1 TTTCAAAAAGACTCGATCTCCTATACTATATTCAATTTCCT
26053816 TTTCAAAAAGACTCGATCTCCTATACTATATTCAATTTCCT
1 TTTCAAAAAGACTCGATCTCCTATACTATATTCAATTTCCT
26053857 TT
1 TT
26053859 CTCTTTAGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (41 bp):
TTTCAAAAAGACTCGATCTCCTATACTATATTCAATTTCCT
Found at i:26058882 original size:21 final size:22
Alignment explanation
Indices: 26058853--26058902 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
26058843 AATGGTATAA
*
26058853 AAATGAATTTA-TAGAAA-TTAT
1 AAATAAATTTATTA-AAATTTAT
26058874 AAATAAA-TTATTAAAATTTAT
1 AAATAAATTTATTAAAATTTAT
26058895 AAATAAAT
1 AAATAAAT
26058903 AAATAACTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATAAATTTATTAAAATTTAT
Found at i:26059053 original size:18 final size:18
Alignment explanation
Indices: 26059025--26059082 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
26059015 ATTTTCTAAT
26059025 TTATAATTATTTTAAAAAA
1 TTATAA-TATTTTAAAAAA
* *
26059044 TTATAATATTTTAATAAT
1 TTATAATATTTTAAAAAA
* *
26059062 TTCTAATAATTTTTAAAAA
1 TTATAAT-ATTTTAAAAAA
26059081 TT
1 TT
26059083 GTTTTATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATAATATTTTAAAAAA
Found at i:26059091 original size:21 final size:21
Alignment explanation
Indices: 26059044--26059091 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
26059034 TTTTAAAAAA
*
26059044 TTATAATATTTTAATAATTTC
1 TTATAATATTTTAAAAATTTC
* *
26059065 TAATAAT-TTTTAAAAATTGTT
1 TTATAATATTTTAAAAATT-TC
26059086 TTATAA
1 TTATAA
26059092 AAATTTACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTATAATATTTTAAAAATTTC
Found at i:26063421 original size:22 final size:22
Alignment explanation
Indices: 26063374--26063510 Score: 84
Period size: 22 Copynumber: 6.2 Consensus size: 22
26063364 TTATCATATT
* * **
26063374 TACTATTCTACATTTTGGTGGT
1 TACTGTTCTACATTTCGGTGCC
*
26063396 TACTGTTCTACATTTCGATGCC
1 TACTGTTCTACATTTCGGTGCC
* * *
26063418 TACTGTTTTGCACTAT-GGTGCC
1 TACTGTTCTACA-TTTCGGTGCC
* *
26063440 TACTGTTCTACAGTACGGTGCC
1 TACTGTTCTACATTTCGGTGCC
* * *
26063462 TACTAATT-TACACTACGGTGCC
1 TACT-GTTCTACATTTCGGTGCC
*
26063484 TACTGATTC-GCACTTT-GGTGCC
1 TACTG-TTCTACA-TTTCGGTGCC
26063506 TACTG
1 TACTG
26063511 ATGTGGTGTA
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
22 84 0.94
23 5 0.06
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (22 bp):
TACTGTTCTACATTTCGGTGCC
Found at i:26063462 original size:44 final size:44
Alignment explanation
Indices: 26063396--26063488 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
26063386 TTTTGGTGGT
* * ** * *
26063396 TACTGTTCTACATTTCGATGCCTACTGTTTTGCACTATGGTGCC
1 TACTGTTCTACAGTACGATGCCTACTAATTTACACTACGGTGCC
*
26063440 TACTGTTCTACAGTACGGTGCCTACTAATTTACACTACGGTGCC
1 TACTGTTCTACAGTACGATGCCTACTAATTTACACTACGGTGCC
26063484 TACTG
1 TACTG
26063489 ATTCGCACTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (44 bp):
TACTGTTCTACAGTACGATGCCTACTAATTTACACTACGGTGCC
Found at i:26063511 original size:22 final size:22
Alignment explanation
Indices: 26063414--26063512 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 22
26063404 TACATTTCGA
* ** *
26063414 TGCCTACTGTTTTGCACTATGG
1 TGCCTACTGATTCACACTACGG
*
26063436 TGCCTACTG-TTCTACAGTACGG
1 TGCCTACTGATTC-ACACTACGG
* *
26063458 TGCCTACTAATTTACACTACGG
1 TGCCTACTGATTCACACTACGG
* **
26063480 TGCCTACTGATTCGCACTTTGG
1 TGCCTACTGATTCACACTACGG
26063502 TGCCTACTGAT
1 TGCCTACTGAT
26063513 GTGGTGTAGC
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
21 2 0.03
22 59 0.94
23 2 0.03
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.35
Consensus pattern (22 bp):
TGCCTACTGATTCACACTACGG
Found at i:26067876 original size:24 final size:24
Alignment explanation
Indices: 26067814--26067865 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
26067804 TTCTTAGAAG
* * *
26067814 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26067838 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26067862 ATTT
1 ATTT
26067866 GACTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:26072061 original size:24 final size:24
Alignment explanation
Indices: 26072029--26072080 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
26072019 TTCTTAGAAG
*
26072029 ATTTAGCATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
26072053 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
26072077 ATTT
1 ATTT
26072081 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:26073134 original size:29 final size:29
Alignment explanation
Indices: 26073090--26073156 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
26073080 AAGATTTTAT
26073090 ATTATTATTTTGAAATTAAAAATATAT-AAA
1 ATTATT-TTTTGAAA-TAAAAATATATAAAA
* *
26073120 ATCTATTTTTT-AAATATAAATTTATAAAA
1 AT-TATTTTTTGAAATAAAAATATATAAAA
26073149 ATTATTTT
1 ATTATTTT
26073157 ACGTTTAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 15 0.45
29 8 0.24
30 6 0.18
31 4 0.12
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
ATTATTTTTTGAAATAAAAATATATAAAA
Found at i:26075236 original size:11 final size:11
Alignment explanation
Indices: 26075222--26075290 Score: 79
Period size: 11 Copynumber: 6.3 Consensus size: 11
26075212 TTTCAATTTA
*
26075222 CTCTCAACTCT
1 CTCTCAATTCT
26075233 CTCTCAATTCAT
1 CTCTCAATTC-T
26075245 -TCTCAA-TCTT
1 CTCTCAATTC-T
26075255 CTCTCAATTCT
1 CTCTCAATTCT
*
26075266 CTCTTAATTCT
1 CTCTCAATTCT
*
26075277 CACTCAATTCT
1 CTCTCAATTCT
26075288 CTC
1 CTC
26075291 AGTTCACTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
10 3 0.06
11 43 0.88
12 3 0.06
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAATTCT
Found at i:26075248 original size:22 final size:21
Alignment explanation
Indices: 26075214--26075286 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
26075204 TCTTACCTTT
* *
26075214 TCAATTTACTCTCAACTCTCTC
1 TCAATTCATTCTCAA-TCTCTC
26075236 TCAATTCATTCTCAATCTTCTC
1 TCAATTCATTCTCAATC-TCTC
* *
26075258 TCAATTC-TCTCTTAATTCTCAC
1 TCAATTCAT-TCTCAA-TCTCTC
26075280 TCAATTC
1 TCAATTC
26075287 TCTCAGTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 3 0.07
22 39 0.89
23 2 0.05
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTCATTCTCAATCTCTC
Found at i:26075283 original size:33 final size:32
Alignment explanation
Indices: 26075214--26075302 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 32
26075204 TCTTACCTTT
* *
26075214 TCAATTTACTCTCAACTCTCTCTCAATTCATTC
1 TCAATTT-CTCTCAATTCTCTCTCAATTCATAC
*
26075247 TCAATCTTCTCTCAATTCTCTCTTAATTC-TCAC
1 TCAAT-TTCTCTCAATTCTCTCTCAATTCAT-AC
* *
26075280 TCAA-TTCTCTCAGTTCACTCTCA
1 TCAATTTCTCTCAATTCTCTCTCA
26075303 TTTTTTTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 16 0.33
32 1 0.02
33 29 0.60
34 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.01, T:0.43
Consensus pattern (32 bp):
TCAATTTCTCTCAATTCTCTCTCAATTCATAC
Found at i:26076086 original size:38 final size:38
Alignment explanation
Indices: 26076035--26076111 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
26076025 TTTAAGGTGA
26076035 CTGCTAAAACTCGTGAACTTTAGAGAATCAAGTCGACT
1 CTGCTAAAACTCGTGAACTTTAGAGAATCAAGTCGACT
26076073 CTGCTAAAACTCGTGAACTTTAGAGAATCAAGTCGACT
1 CTGCTAAAACTCGTGAACTTTAGAGAATCAAGTCGACT
26076111 C
1 C
26076112 AGTTGAACGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (38 bp):
CTGCTAAAACTCGTGAACTTTAGAGAATCAAGTCGACT
Found at i:26083556 original size:3 final size:3
Alignment explanation
Indices: 26083550--26083581 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
26083540 CCTCCTCCTC
26083550 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
26083582 CCTAGTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:26091020 original size:123 final size:130
Alignment explanation
Indices: 26090772--26091070 Score: 452
Period size: 123 Copynumber: 2.3 Consensus size: 130
26090762 TTATTTCGAG
* *
26090772 TTGACATTTCTG-GTCAAATAGTATAAAATCGCGCCATCGAGGATGCTAATTGAGAAGAAATTGT
1 TTGACATTTCTGAGT-AAATAGTATAAAATCGCGCCCTCGTGGATGCTAATT-AGAAGAAA-TG-
*
26090836 TAAATTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT-AA-T
62 TAAATTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATT
26090899 TTTT
127 TTTT
*
26090903 TTGACGTTTCTGAGTAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATT-G-AG-AA-G-AAA
1 TTGACATTTCTGAGTAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTAGAAGAAATGTAAA
26090963 TTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATTTTTT
66 TTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATTTTTT
* *
26091028 TTGACATTTCTGAGCAAATAGTATAAAATCACGCCCTCGTGGA
1 TTGACATTTCTGAGTAAATAGTATAAAATCGCGCCCTCGTGGA
26091071 CGTGATTTTG
Statistics
Matches: 158, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
123 58 0.37
124 2 0.01
125 46 0.29
127 2 0.01
128 2 0.01
129 1 0.01
131 45 0.28
132 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (130 bp):
TTGACATTTCTGAGTAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTAGAAGAAATGTAAA
TTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATTTTTT
Found at i:26094301 original size:56 final size:56
Alignment explanation
Indices: 26094213--26094336 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 56
26094203 ATGTAAAACT
* ** * *
26094213 ATGTAAAATTATTAAGCCCAATAACTTTTGTTAATGGTTAGTGAA-TTTATCAAATA
1 ATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGT-AAGATTATCAAATA
*
26094269 ATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAATT
1 ATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAATA
*
26094325 AGGTAAAATTAT
1 ATGTAAAATTAT
26094337 GTTATGGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 2 0.03
56 58 0.97
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (56 bp):
ATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAATA
Found at i:26094382 original size:18 final size:19
Alignment explanation
Indices: 26094361--26094408 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 19
26094351 ATAAATTAGG
26094361 TTAGGGTTTTTAATTAAAT
1 TTAGGGTTTTTAATTAAAT
26094380 TAGGGTAGGGTTTTTAATTAAA-
1 T----TAGGGTTTTTAATTAAAT
26094402 TTAGGGT
1 TTAGGGT
26094409 AGGGTTAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
18 6 0.24
19 1 0.04
22 1 0.04
23 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (19 bp):
TTAGGGTTTTTAATTAAAT
Found at i:26094418 original size:29 final size:29
Alignment explanation
Indices: 26094359--26095059 Score: 1000
Period size: 29 Copynumber: 25.3 Consensus size: 29
26094349 AAATAAATTA
26094359 GGTTAGGGTTTTTAATT-AA--A--TTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094383 GG-TAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094411 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26094440 GGTTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094463 GGTTAGGGTTTTTAAATAAATTAGGTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26094491 -G--A--GTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094509 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094538 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26094567 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26094595 GGTTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094618 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26094647 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
26094676 GGTTAGGGGTTTTAAATAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
26094705 GGTTAGTGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094734 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094763 GGTTAGGG-TTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094791 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094820 GGTTAGGG-TTTTAATTAAGTTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26094848 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094877 GGTTAGGGTTTTTAATTAAGTTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26094906 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26094935 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26094964 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
26094993 GGTTAGAGTTTTTAATCAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26095022 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26095051 GGTTAGGGT
1 GGTTAGGGT
26095060 ATGAAATAAA
Statistics
Matches: 613, Mismatches: 33, Indels: 57
0.87 0.05 0.08
Matches are distributed among these distances:
18 3 0.00
19 1 0.00
20 1 0.00
21 1 0.00
22 2 0.00
23 66 0.11
24 16 0.03
25 1 0.00
26 6 0.01
27 1 0.00
28 97 0.16
29 418 0.68
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:26094509 original size:18 final size:20
Alignment explanation
Indices: 26094446--26094532 Score: 84
Period size: 23 Copynumber: 3.9 Consensus size: 20
26094436 TTAAGGTTAG
26094446 GGTTTTTAATTAAATTAGGTTA
1 GGTTTTTAATTAAATTA-G-TA
*
26094468 GGGTTTTTAAATAAATTAGGTTA
1 -GGTTTTTAATTAAATTA-G-TA
26094491 GAGTTTTTAATTAAATTAGGTTA
1 G-GTTTTTAATTAAATTA-G-TA
26094514 GGGTTTTTAATTAAATTAG
1 -GGTTTTTAATTAAATTAG
26094533 GGTAGGGTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
22 2 0.03
23 57 0.95
24 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (20 bp):
GGTTTTTAATTAAATTAGTA
Found at i:26094644 original size:18 final size:21
Alignment explanation
Indices: 26094596--26094638 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
26094586 TTAGGTTAGG
26094596 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
26094618 GGTTAGGGTTTTTAATTAAAT
1 -GTTAGGGTTTTTAATTAAAT
26094639 TAGGGTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:26094847 original size:22 final size:23
Alignment explanation
Indices: 26094723--26094851 Score: 71
Period size: 28 Copynumber: 4.9 Consensus size: 23
26094713 TTTTTAAATA
*
26094723 AATTAGGTTAAGGTTAGGGTTTTT
1 AATTAAGTTAAGGTTAGGG-TTTT
*
26094747 AATTAAATTAGGGTAGGGTTAGGGTTTT
1 AATTAAGTTA----A-GGTTAGGGTTTT
*
26094775 AATTAAATTAGGGTAGGGTTAGGGTTTTT
1 AATTAAGTTA----A-GGTTAGGG-TTTT
26094804 AATTAAATTAGGTTAAGGTTAGGGTTTT
1 AATT--A--A-GTTAAGGTTAGGGTTTT
26094832 AATTAAGTT-AGGTTAGGGTT
1 AATTAAGTTAAGGTTAGGGTT
26094852 AGGGTTTTTA
Statistics
Matches: 91, Mismatches: 3, Indels: 24
0.77 0.03 0.20
Matches are distributed among these distances:
22 11 0.12
23 3 0.03
24 9 0.10
26 1 0.01
28 37 0.41
29 24 0.26
30 1 0.01
31 1 0.01
33 1 0.01
34 3 0.03
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (23 bp):
AATTAAGTTAAGGTTAGGGTTTT
Found at i:26096290 original size:7 final size:7
Alignment explanation
Indices: 26096280--26096312 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
26096270 TTATATACAT
26096280 AATACTA
1 AATACTA
26096287 AATACTA
1 AATACTA
26096294 AATACTA
1 AATACTA
26096301 AATACTA
1 AATACTA
*
26096308 TATAC
1 AATAC
26096313 CGGTCCCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:26097445 original size:28 final size:30
Alignment explanation
Indices: 26097390--26097452 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
26097380 GCCATTGATG
26097390 AAAATATAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAATTTAAAATTATTTTAAA
*
26097420 AAAATAT-AAAAATTTGAAATTA-TTTAAA
1 AAAATATAAAAAATTTAAAATTATTTTAAA
26097448 AAAAT
1 AAAAT
26097453 GAAATTGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 11 0.34
29 14 0.44
30 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAATATAAAAAATTTAAAATTATTTTAAA
Found at i:26097511 original size:22 final size:22
Alignment explanation
Indices: 26097486--26097557 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
26097476 TAATATGGAT
*
26097486 TTGAGA-GATTTTTGGAATGAAA
1 TTGAGAGGA-TTTTGGAAGGAAA
26097508 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
26097530 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
26097552 TTGAGA
1 TTGAGA
26097558 TAAGATTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 46 0.96
23 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (22 bp):
TTGAGAGGATTTTGGAAGGAAA
Found at i:26117296 original size:68 final size:68
Alignment explanation
Indices: 26117175--26117303 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
26117165 TTGGTGGACC
* * * *
26117175 ATATTGGTTGCCATAACCGAGCTATAGTCTTACAGTTTGCAATCCTGTGTTTAATGTCCTGACAG
1 ATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTGCAATCCTATGTTTAATATCCTGACAG
26117240 ACT
66 ACT
* * * * * * *
26117243 ATATTGGTTGTCATAGCCCATCTATGGTCTTACACTTTGCTATCTTATTTTTAATATCCTG
1 ATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTGCAATCCTATGTTTAATATCCTG
26117304 GTGAAATCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (68 bp):
ATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTGCAATCCTATGTTTAATATCCTGACAG
ACT
Found at i:26122936 original size:16 final size:16
Alignment explanation
Indices: 26122912--26122952 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
26122902 AATTATAATT
26122912 ACATGCATAACCCAAA
1 ACATGCATAACCCAAA
*
26122928 ACATACATAACCCAAA
1 ACATGCATAACCCAAA
26122944 ACATGCATA
1 ACATGCATA
26122953 TAATTACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.29, G:0.05, T:0.15
Consensus pattern (16 bp):
ACATGCATAACCCAAA
Found at i:26128112 original size:18 final size:17
Alignment explanation
Indices: 26128087--26128131 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
26128077 CAAAAAAAAT
26128087 AAAAAAAAATCAAAAGC
1 AAAAAAAAATCAAAAGC
* *
26128104 AAAAGAAAAATCAAGATC
1 AAAA-AAAAATCAAAAGC
26128122 AAAACAAAAA
1 AAAA-AAAAA
26128132 AAGAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.76, C:0.11, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAAAAAATCAAAAGC
Found at i:26128201 original size:20 final size:20
Alignment explanation
Indices: 26128155--26128204 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
26128145 AATCAAGGTC
* **
26128155 AAAATGAAAATGAAAAAGGAG
1 AAAA-GAAAAAGAAAAAAAAG
*
26128176 AGAAGAAAAAGAAAAAAAAG
1 AAAAGAAAAAGAAAAAAAAG
26128196 AAAAGAAAA
1 AAAAGAAAA
26128205 GGAGAGGTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAAAAAG
Found at i:26131578 original size:3 final size:3
Alignment explanation
Indices: 26131534--26131592 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
26131524 TCTGATTGTT
* * * * * *
26131534 TTA TTA CTA TTA TTG TTA TCA TTA TAA TTA -AA TT- TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26131580 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
26131593 ATTTGATTAT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:26131585 original size:28 final size:28
Alignment explanation
Indices: 26131542--26131602 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
26131532 TTTTATTACT
*
26131542 ATTATTGTTATCATTATAATTAAATTTC
1 ATTATTATTATCATTATAATTAAATTTC
* * * *
26131570 ATTATTATTATTATTATTATTATATTTG
1 ATTATTATTATCATTATAATTAAATTTC
26131598 ATTAT
1 ATTAT
26131603 ATTTCTACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (28 bp):
ATTATTATTATCATTATAATTAAATTTC
Found at i:26132961 original size:14 final size:15
Alignment explanation
Indices: 26132932--26132961 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26132922 CAAATTTATT
26132932 AATGAATTATTTAAA
1 AATGAATTATTTAAA
26132947 AATGAATTA-TTAAA
1 AATGAATTATTTAAA
26132961 A
1 A
26132962 TATAACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AATGAATTATTTAAA
Found at i:26134718 original size:22 final size:22
Alignment explanation
Indices: 26134700--26134753 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
26134690 CATCACTTTT
*
26134700 GTGCTCTCTGTTTAGCACTTCA
1 GTGCTCTCTGCTTAGCACTTCA
*
26134722 GTACTCTCTGCTTAGCACTTCA
1 GTGCTCTCTGCTTAGCACTTCA
26134744 GTGCTCTCTG
1 GTGCTCTCTG
26134754 GTGTGGTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.39
Consensus pattern (22 bp):
GTGCTCTCTGCTTAGCACTTCA
Found at i:26140000 original size:20 final size:22
Alignment explanation
Indices: 26139950--26140001 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
26139940 TTTCTATTCT
26139950 ATATATGTATATATTGTTTTTA
1 ATATATGTATATATTGTTTTTA
*
26139972 ATTACTATGT-TTTATT-TTTTTA
1 A-TA-TATGTATATATTGTTTTTA
26139994 ATATATGT
1 ATATATGT
26140002 CAAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 2 0.07
22 8 0.30
23 7 0.26
24 5 0.19
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.62
Consensus pattern (22 bp):
ATATATGTATATATTGTTTTTA
Done.