Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3674400
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 15
Found at i:2697093 original size:94 final size:93
Alignment explanation
Indices: 2696832--2697584 Score: 332
Period size: 93 Copynumber: 8.1 Consensus size: 93
2696822 TGCGAAATAA
* * * *
2696832 TAATGGATTGAAGTTTGAATAAAATTGAAATGTCTTAACAAAATACTTTGATGTTTACGAACTAA
1 TAATGGATTGAAGTTTGAAT-AAATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTAA
* * *
2696897 AAAGGTTAACTT-TTCCAAGTTGTTACAT
65 AAATGTTAACTTATTCCAAGTTGTGAAAT
* * * * * **
2696925 AAATGGATTGATGATTGAATAATATTGAAATATCTTAACTAGACACTTTGATATTTACGGACTTC
1 TAATGGATTGAAGTTTGAATAA-ATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTAA
** *
2696990 TTATATTAACTTATTCCAAGTTGTGAAAT
65 AAATGTTAACTTATTCCAAGTTGTGAAAT
* * * * * * *
2697019 TAATAGATGGAAGTTTGAGTAGAATTAAAATGTCTTAACTATACACCTTGACATTTACGGACTAA
1 TAATGGATTGAAGTTTGAATA-AATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTAA
* * *
2697084 AGATGTTAACTTA-TCCAAATTGTTGCAA-
65 AAATGTTAACTTATTCCAAGTTG-TGAAAT
** * * * * * * * * * *
2697112 TCCTGGATGGAAGTTTGGATAACGA-TAAAATATCTTAACTAAAAACTTTGATGTTAATGGGCTT
1 TAATGGATTGAAGTTTGAATAA--ATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTA
** * * * * *
2697176 AGGAGGGTAACTT-CTCTAAGTTGCT-ACAT
64 AAAATGTTAACTTATTCCAAGTTG-TGAAAT
* * * ** * * ** * *
2697205 TAATGG-TGGCAGTTTCAATAGGGTTGAAATGACCTAACT-TTCACTTTGATGTTTATGGACTAA
1 TAATGGATTGAAGTTTGAATA-AATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTAA
* * * * * *
2697268 AGAGGTTAACATATT-CAAGTTGTTACAG
65 AAATGTTAACTTATTCCAAGTTGTGAAAT
** ** * * * * * * * *
2697296 TAATGGATAAAAGTACGAGTAACATTGAAATGTCTTAGCTAAATACTTTAACATTTATGTATTAA
1 TAATGGATTGAAGTTTGAATAA-ATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTAA
** * * *
2697361 CGAGGTTAACTTA-TCCAAGTTGTTACAT
65 AAATGTTAACTTATTCCAAGTTGTGAAAT
* * * * *
2697389 TAGTGGA-TGAAGGTTTGAATACTATTGAAATGCCTTAACTAAACACTTTGATGTTTACAGACTA
1 TAATGGATTGAA-GTTTGAATA-AATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTA
* * * * **
2697453 AAGACGTTAACTTA-TCCAAGTTCTTATTT
64 AAAATGTTAACTTATTCCAAGTTGTGAAAT
* ** * * * * *
2697482 TAATGGATAGAAG--TGAATAGCGTTAAAATGTCTTAACTAGACACTTAGATATTTATGGATTAA
1 TAATGGATTGAAGTTTGAATA-AATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTAA
* * * * * *
2697545 ACATGCTAAATTA-TCAAAGTTGT-TACT
65 AAATGTTAACTTATTCCAAGTTGTGAAAT
2697572 ATAATGGATTGAA
1 -TAATGGATTGAA
2697585 CTTTTATTAA
Statistics
Matches: 491, Mismatches: 149, Indels: 42
0.72 0.22 0.06
Matches are distributed among these distances:
90 2 0.00
91 109 0.22
92 50 0.10
93 247 0.50
94 82 0.17
95 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (93 bp):
TAATGGATTGAAGTTTGAATAAATTGAAATGTCTTAACTAAACACTTTGATATTTACGGACTAAA
AATGTTAACTTATTCCAAGTTGTGAAAT
Found at i:2714944 original size:60 final size:59
Alignment explanation
Indices: 2714850--2715316 Score: 610
Period size: 60 Copynumber: 7.8 Consensus size: 59
2714840 GTGCTCTACA
* * * *
2714850 ATGAAAATTAAATGCCTAACGATTCATTTTGGCAGAAAGGTGCGACTAATGCAAGTTAG
1 ATGAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
* * *
2714909 ATTGAAAGTTAAATTCCTAATGGCGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
1 A-TGAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
** * * *
2714969 ATGAAAAGTTAAATGTGTAACGGTGCATTTTGGCAAAAAGGTGCCACTAATACAATTTAG
1 ATG-AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
* *
2715029 ATGAAAGGTTAAATGCCTAACGGGGCATTTTGGCAGAAAGGTGCCGCTAATGCAAGTTAG
1 ATGAAA-GTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
* * *
2715089 ATGAAAATTAAATGCCTAACGATGCATTTTGGCATAAAGGTGCCACTAATGCAAGTTAG
1 ATGAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
* * *
2715148 ATGAAAGGGTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCAACTAATGCAAGTTAC
1 ATGAAA-GTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
* * * *
2715208 ATGAAAAGTTAAATACCTAACGGTGCATTTTGGAAGAAATGTGCCACTAATGCAAGTAAG
1 ATG-AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
* * *
2715268 ATGAAAAGTTAAATGCATAACAGTGCATTATTAGCATGAAAGGATGCCA
1 ATG-AAAGTTAAATGCCTAACGGTGCATT-TTGGCA-GAAAGG-TGCCA
2715317 AATGAAAATG
Statistics
Matches: 354, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
59 60 0.17
60 277 0.78
61 7 0.02
62 5 0.01
63 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (59 bp):
ATGAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAG
Found at i:2715272 original size:239 final size:242
Alignment explanation
Indices: 2714850--2715315 Score: 690
Period size: 239 Copynumber: 1.9 Consensus size: 242
2714840 GTGCTCTACA
* *
2714850 ATGAAAATTAAATGCCTAACGATTCATTTTGGCAGAAAGGTGCGACTAATGCAAGTTAGATTGAA
1 ATGAAAATTAAATGCCTAACGATGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATTGAA
* * * * *
2714915 AGTTAAATTCCTAATGGCGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAAGTTA
66 AGGTAAATGCCTAACGGCGCATTTTGGCAGAAAGGTGCAACTAATGCAAGTTACATGAAAAGTTA
*** * * *
2714980 AATGTGTAACGGTGCATTTTGGCAAAAAGGTGCCACTAATACAATTTAGATGAAAGGTTAAATGC
131 AATACCTAACGGTGCATTTTGGCAAAAAGGTGCCACTAATACAAGTAAGATGAAAAGTTAAATGC
* * *
2715045 CTAACGGGGCATT-TTGGCA-GAAAGG-TGCCGCTAATGCAAGTTAG
196 ATAACAGGGCATTATTAGCATGAAAGGATGCCGCTAATGCAAGTTAG
*
2715089 ATGAAAATTAAATGCCTAACGATGCATTTTGGCATAAAGGTGCCACTAATGCAAGTTAGA-TGAA
1 ATGAAAATTAAATGCCTAACGATGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATTGAA
*
2715153 AGGGTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCAACTAATGCAAGTTACATGAAAAGTT
66 A-GGTAAATGCCTAACGGCGCATTTTGGCAGAAAGGTGCAACTAATGCAAGTTACATGAAAAGTT
* *
2715218 AAATACCTAACGGTGCATTTTGG-AAGAAATGTGCCACTAATGCAAGTAAGATGAAAAGTTAAAT
130 AAATACCTAACGGTGCATTTTGGCAA-AAAGGTGCCACTAATACAAGTAAGATGAAAAGTTAAAT
*
2715282 GCATAACAGTGCATTATTAGCATGAAAGGATGCC
194 GCATAACAGGGCATTATTAGCATGAAAGGATGCC
2715316 AAATGAAAAT
Statistics
Matches: 201, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
238 7 0.03
239 179 0.89
240 5 0.02
241 6 0.03
242 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (242 bp):
ATGAAAATTAAATGCCTAACGATGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATTGAA
AGGTAAATGCCTAACGGCGCATTTTGGCAGAAAGGTGCAACTAATGCAAGTTACATGAAAAGTTA
AATACCTAACGGTGCATTTTGGCAAAAAGGTGCCACTAATACAAGTAAGATGAAAAGTTAAATGC
ATAACAGGGCATTATTAGCATGAAAGGATGCCGCTAATGCAAGTTAG
Found at i:2715349 original size:44 final size:46
Alignment explanation
Indices: 2715278--2715371 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
2715268 ATGAAAAGTT
* *
2715278 AAATGCATAACAGTGCATTATTAGCATGAAAGGATG-C-CAAATGA
1 AAATGCATAACAGTGCATAATCAGCATGAAAGGATGCCTCAAATGA
** *
2715322 AAATGCATAATGGTGCATAATCGGCATGAAAGGATGCCTCAAATGA
1 AAATGCATAACAGTGCATAATCAGCATGAAAGGATGCCTCAAATGA
2715368 AAAT
1 AAAT
2715372 ATATAACGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 31 0.72
45 1 0.02
46 11 0.26
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (46 bp):
AAATGCATAACAGTGCATAATCAGCATGAAAGGATGCCTCAAATGA
Found at i:2715400 original size:46 final size:44
Alignment explanation
Indices: 2715306--2715400 Score: 102
Period size: 46 Copynumber: 2.1 Consensus size: 44
2715296 TATTAGCATG
* * * *
2715306 AAAGGATGCCAAATGAAAATGCATAATGGTGCATAATCGGCATG
1 AAAGGATGCCAAATGAAAATACATAACGGTGCATAATCGACATA
* *
2715350 AAAGGATGCCTCAAATGAAAATATATAACGGTGTATTAA-CGACATA
1 AAAGGATG-C-CAAATGAAAATACATAACGGTGCA-TAATCGACATA
2715396 AAAGG
1 AAAGG
2715401 TTCCACTCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 8 0.19
45 1 0.02
46 30 0.71
47 3 0.07
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (44 bp):
AAAGGATGCCAAATGAAAATACATAACGGTGCATAATCGACATA
Found at i:2720801 original size:60 final size:60
Alignment explanation
Indices: 2720734--2720998 Score: 343
Period size: 60 Copynumber: 4.4 Consensus size: 60
2720724 CTCTAAAATG
* * * * *
2720734 AAAGTTAAATTCCTAACGGTGTATTTTGGCATAGAGGTGCGACTAATGCAAAG-TAGATGA
1 AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGC-AAGTTAGATGA
* * *
2720794 AAAGTTAAATGCCTAACGATGCAGTTTGGCAGAAATGTGCCACTAATGCAAGTTAGATGA
1 AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
* * *
2720854 AAAGTTAAATGTCAAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATTA
1 AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
* * * * *
2720914 AAGGTTGAATGCCTAACGGTGCATTTTGACAGAAAAGTTCCACTAATGCAAGTTAGATGA
1 AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
* * *
2720974 AAAATTAAATGCATAATGGTGCATT
1 AAAGTTAAATGCCTAACGGTGCATT
2720999 ATCAACATGA
Statistics
Matches: 177, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
59 3 0.02
60 174 0.98
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (60 bp):
AAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGA
Found at i:2724948 original size:93 final size:91
Alignment explanation
Indices: 2724748--2725274 Score: 415
Period size: 93 Copynumber: 5.7 Consensus size: 91
2724738 AATAGTATAG
* * * * *
2724748 TTAATACATTTCAACGTTATTCAAACTTTCATCCACTAATATAACAACTTGGATAAGTTAACCTC
1 TTAAGACATTTCAATGCTATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCTC
* ** * *
2724813 TTTAGTTCATAAATGTCGATGTGTTTA
66 TTTAG-TCTTAAACATCAAAGTGTTTA
* * * *
2724840 TTTAAGGCATCTCAATGCTATTCAAACTTTTATCCAATAATGTAACAACTTGGATAAGTTAACCT
1 -TTAAGACATTTCAATGCTATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCT
* *
2724905 CTTTAGTCCTTAAACATCAAAATGTTGA
65 CTTTAGT-CTTAAACATCAAAGTGTTTA
* * ** * *
2724933 TCCAAGACATTTCAATGTTA-TC---C---CATATACTATTGTAACAACTTGGATAAGTTAACCT
1 T-TAAGACATTTCAATGCTATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCT
* * * *
2724991 CTTTAGTATGAAATTATCAAAGTGTTTTTG
65 CTTTAGTCTTAAA-CATCAAAGTG--TTTA
* * * **
2725021 TTAAGACATTTTAATGTTATTCAAACTTTCATCCATTGATGTAACAACTTGGATAAGTTAAGGT-
1 TTAAGACATTTCAATGCTATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCTC
* * *
2725085 TTTCAATTTGTAAACATCAAACTGTTTA
66 TTT-AGTCT-TAAACATCAAAGTGTTTA
* * * ** ** * * * **
2725113 GTTAAGATATTTCAATGCTATTGAAACTTCCATATATTAATAAAACAAATTAGATAAGTAAATTT
1 -TTAAGACATTTCAATGCTATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCT
* * *
2725178 CTTCAATCTTTAAACTTCAAAGTGTTTA
65 CTTTAGTC-TTAAACATCAAAGTGTTTA
* *
2725206 GTTAAGACATTTCAATGCTATTCAAAC-TTCTATCCATTAATGGAACAACTTGGATAAGTTAGCC
1 -TTAAGACATTTCAATGCTATTCAAACTTTC-ATCCATTAATGTAACAACTTGGATAAGTTAACC
2725270 TCTTT
64 TCTTT
2725275 TGAATATGTC
Statistics
Matches: 338, Mismatches: 78, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
85 4 0.01
86 45 0.13
87 16 0.05
88 5 0.01
89 1 0.00
91 1 0.00
92 9 0.03
93 212 0.63
94 42 0.12
95 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (91 bp):
TTAAGACATTTCAATGCTATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCTC
TTTAGTCTTAAACATCAAAGTGTTTA
Found at i:2725127 original size:180 final size:179
Alignment explanation
Indices: 2724789--2725274 Score: 439
Period size: 180 Copynumber: 2.7 Consensus size: 179
2724779 TCCACTAATA
* * * *
2724789 TAACAACTTGGATAAGTTAACCTCTTTAGTTCATAAATGTCGATGTGTTTATTTAAGGCATCTCA
1 TAACAACTTGGATAAGTTAACCTCTTTAGTTCATAAATATCAAAGTGTTTATTTAAGACATCTCA
* *
2724854 ATGCTATTCAAACTTTTATCCAATAATGTAACAACTTGGATAAGTTAACCTCTTTAGTCCTTAAA
66 ATGCTATTCAAACTTTCATCCAATAATGTAACAACTTGGATAAGTTAACCTCTTTAATCCTTAAA
2724919 CATCAAAATGTTGATCCAAGACATTTCAATGTTATCCCATATACTATTG
131 CATCAAAATGTTGATCCAAGACATTTCAATGTTATCCCATATACTATTG
* *
2724968 TAACAACTTGGATAAGTTAACCTCTTTAG-T-ATGAAATTATCAAAGTGTTTTTGTTAAGACATT
1 TAACAACTTGGATAAGTTAACCTCTTTAGTTCAT-AAA-TATCAAAGTGTTTAT-TTAAGACATC
* * * * ** *
2725031 TTAATGTTATTCAAACTTTCATCCATTGATGTAACAACTTGGATAAGTTAAGGT-TTTCAAT-TT
63 TCAATGCTATTCAAACTTTCATCCAATAATGTAACAACTTGGATAAGTTAACCTCTTT-AATCCT
* * * * * * * *
2725094 GTAAACATCAAACTGTTTAGT-TAAGATATTTCAATGCTATTGAAACTTCCATATATTAATA
127 -TAAACATCAAAATGTTGA-TCCAAGACATTTCAATG---TT---A-TCCCATATACTATTG
* * * * ** * * * * *
2725155 AAACAAATTAGATAAGTAAATTTCTTCA-ATCTTTAAACT-TCAAAGTGTTTAGTTAAGACATTT
1 TAACAACTTGGATAAGTTAACCTCTTTAGTTC-ATAAA-TATCAAAGTGTTTATTTAAGACATCT
* * *
2725218 CAATGCTATTCAAAC-TTCTATCCATTAATGGAACAACTTGGATAAGTTAGCCTCTTT
64 CAATGCTATTCAAACTTTC-ATCCAATAATGTAACAACTTGGATAAGTTAACCTCTTT
2725275 TGAATATGTC
Statistics
Matches: 248, Mismatches: 41, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
177 2 0.01
178 4 0.02
179 44 0.18
180 86 0.35
181 1 0.00
183 2 0.01
185 3 0.01
186 54 0.22
187 47 0.19
188 4 0.02
189 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (179 bp):
TAACAACTTGGATAAGTTAACCTCTTTAGTTCATAAATATCAAAGTGTTTATTTAAGACATCTCA
ATGCTATTCAAACTTTCATCCAATAATGTAACAACTTGGATAAGTTAACCTCTTTAATCCTTAAA
CATCAAAATGTTGATCCAAGACATTTCAATGTTATCCCATATACTATTG
Found at i:2725395 original size:2 final size:2
Alignment explanation
Indices: 2725388--2725415 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2725378 AGATGCAAGA
2725388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2725416 CACTTGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2736911 original size:52 final size:52
Alignment explanation
Indices: 2736805--2737030 Score: 254
Period size: 52 Copynumber: 4.2 Consensus size: 52
2736795 AGATGATCAA
* * * *
2736805 TTAGATGAAAGGCCTAAATGTGCATATTGGCAAAAATGTGTCAATAATGTAAG
1 TTAGATGAAAGGCCTAACTGTGCA-ATTGGCAAAAAGGTGCCAATAATGCAAG
*
2736858 TTAGATTAAAGGCCTAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
1 TTAGATGAAAGGCCTAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
* * * *
2736910 TTAGATGAAAGGCCTAACTATGCATTTGGAAAAAAAGTGCCAATAATGCAAG
1 TTAGATGAAAGGCCTAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
* * * * *
2736962 TTAGACGAAATGTTAAATGCCCAACTGTGGAATTGGCAGAAAGGTGCCACTAATGCAAG
1 TT--A-G--ATG--AAAGGCCTAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
2737021 TTAGATGAAA
1 TTAGATGAAA
2737031 AACAATGTAT
Statistics
Matches: 147, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
52 77 0.52
53 22 0.15
54 4 0.03
55 1 0.01
56 1 0.01
57 4 0.03
59 38 0.26
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (52 bp):
TTAGATGAAAGGCCTAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
Found at i:2736921 original size:27 final size:26
Alignment explanation
Indices: 2736894--2736971 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
2736884 TGGCAAAAAG
*
2736894 GTGCCAATAATGCAAGTTAGATGAAA
1 GTGCCAATAATGCAAGTTAGAAGAAA
* * *
2736920 G-GCCTAACT-ATGC-ATTTGGAAAAAAA
1 GTGCC-AA-TAATGCAAGTTAG-AAGAAA
*
2736946 GTGCCAATAATGCAAGTTAGACGAAA
1 GTGCCAATAATGCAAGTTAGAAGAAA
2736972 TGTTAAATGC
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
25 8 0.21
26 22 0.58
27 8 0.21
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (26 bp):
GTGCCAATAATGCAAGTTAGAAGAAA
Found at i:2737007 original size:111 final size:105
Alignment explanation
Indices: 2736805--2737030 Score: 283
Period size: 111 Copynumber: 2.1 Consensus size: 105
2736795 AGATGATCAA
* * * * *
2736805 TTAGATGAAAGGCCTAAATGTGCATATTGGCAAAAATGTGTCAATAATGTAAGTTAGATTAAAGG
1 TTAGATGAAAGGCCTAAATATGCATATTGGAAAAAAAGTGCCAATAATGCAAGTTAGATTAAAGG
*
2736870 CCTAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
66 CCCAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
*
2736910 TTAGATGAAAGGCCTAACTATGCAT-TTGGAAAAAAAGTGCCAATAATGCAAGTTAGACGAAATG
1 TTAGATGAAAGGCCTAAATATGCATATTGGAAAAAAAGTGCCAATAATGCAAGTT--A-G--A--
* * * *
2736974 TTAAATGCCCAACTGTGGAATTGGCAGAAAGGTGCCACTAATGCAAG
59 TTAAAGGCCCAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
2737021 TTAGATGAAA
1 TTAGATGAAA
2737031 AACAATGTAT
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
104 25 0.24
105 23 0.22
106 1 0.01
107 1 0.01
109 1 0.01
111 52 0.50
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (105 bp):
TTAGATGAAAGGCCTAAATATGCATATTGGAAAAAAAGTGCCAATAATGCAAGTTAGATTAAAGG
CCCAACTGTGCAATTGGCAAAAAGGTGCCAATAATGCAAG
Found at i:2738980 original size:93 final size:93
Alignment explanation
Indices: 2738821--2739445 Score: 602
Period size: 93 Copynumber: 6.9 Consensus size: 93
2738811 CTTCAATATG
* * ** *
2738821 TAAACATCAAAATGTTTAGTTAAGACATTTCAACGTTATTCAAACTTTCATATACTAATGTAACA
1 TAAACATCAAAGTGTTTAGTTAAGACATTTCAATGTTATTCAAACTTTCATCCACTAATATAACA
*
2738886 ACTTGGATAAATTAACCTCTTTAGTCCT
66 ACTTGGATAAGTTAACCTCTTTAGTCCT
* * * *
2738914 TAAACATCGATGTGTTTAGTTAAGATATTTCAATGCTATTCAAACTTTCATCCACTAATATAACA
1 TAAACATCAAAGTGTTTAGTTAAGACATTTCAATGTTATTCAAACTTTCATCCACTAATATAACA
* *
2738979 ACTTGGATATGTTAACCTCTTTAATCCT
66 ACTTGGATAAGTTAACCTCTTTAGTCCT
* * * * * * * * *
2739007 TAAACATGAAAGTGCTTA-TCTATGACATTTCAATGCTATTAAAACTTCCATCTATTAATAAAAC
1 TAAACATCAAAGTGTTTAGT-TAAGACATTTCAATGTTATTCAAACTTTCATCCACTAATATAAC
* * **
2739071 AACTTGGATAAGTT-ACCATTTTTATTCAG
65 AACTTGGATAAGTTAACC-TCTTTAGTCCT
* * * * *
2739100 TAAACTTCAAAGTGTTTAGTTAAAACATTTCAATGTTGTT----C---CATCCACTATTGTAACA
1 TAAACATCAAAGTGTTTAGTTAAGACATTTCAATGTTATTCAAACTTTCATCCACTAATATAACA
2739158 ACTTGGATAAGTTAACCTCTTTAGT--T
66 ACTTGGATAAGTTAACCTCTTTAGTCCT
* * * * * *
2739184 TGAAAGCATCAAAGTGTTTTGTTAAGGCATTTCAATGTTGTTCAAACTTTCATCCATTGATTTAA
1 T-AAA-CATCAAAGTGTTTAGTTAAGACATTTCAATGTTATTCAAACTTTCATCCACTAATATAA
** *
2739249 CAACTTGGATAAGTTAAGTTCTTTAGT-TT
64 CAACTTGGATAAGTTAACCTCTTTAGTCCT
* ** *
2739278 ATAAACATCAAAGTGTTTAGTTAAGACATTTTAATGTTATTC-AACTTTC-T-TTCT--CA-AAC
1 -TAAACATCAAAGTGTTTAGTTAAGACATTTCAATGTTATTCAAACTTTCATCCACTAATATAAC
* * * *
2739337 AACTTGAATATGTTAACTTCTTTAGTCCA
65 AACTTGGATAAGTTAACCTCTTTAGTCCT
* * * * *
2739366 TAAACGTCAAAGTGTTTAGTTAAGACATTTCAATGATATTCAAACTTCCATCCATTAATGTAACA
1 TAAACATCAAAGTGTTTAGTTAAGACATTTCAATGTTATTCAAACTTTCATCCACTAATATAACA
*
2739431 ATTTGGATAAGTTAA
66 ACTTGGATAAGTTAA
2739446 ATCAAGCACT
Statistics
Matches: 431, Mismatches: 79, Indels: 44
0.78 0.14 0.08
Matches are distributed among these distances:
84 1 0.00
85 3 0.01
86 63 0.15
87 67 0.16
88 6 0.01
89 2 0.00
90 3 0.01
91 1 0.00
92 11 0.03
93 268 0.62
94 5 0.01
95 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (93 bp):
TAAACATCAAAGTGTTTAGTTAAGACATTTCAATGTTATTCAAACTTTCATCCACTAATATAACA
ACTTGGATAAGTTAACCTCTTTAGTCCT
Found at i:2739219 original size:179 final size:177
Alignment explanation
Indices: 2738960--2739445 Score: 516
Period size: 179 Copynumber: 2.7 Consensus size: 177
2738950 TATTCAAACT
* * * *
2738960 TTCATCCACTAATATAACAACTTGGATATGTTAACCTCTTTAATCCTTAAACATGAAAGTGCTTA
1 TTCATCCACTATTATAACAACTTGGATATGTTAACCTCTTTAGT-CTTAAACATCAAAGTG-TTT
* * * * * *
2739025 T-CTATGACATTTCAATGCTATTAAAACTTCCATCTATTAATAAAACAACTTGGATAAGTTACCA
64 TGTTAAGACATTTCAATGATATTCAAACTTCCATCCATTAATATAACAACTTGGATAAGTTA--A
* *
2739089 -TT-TTTA-TTCAGTAAACTTCAAAGTGTTTAGTTAAAACATTTCAATGTTG
127 GTTCTTTAGTTCA-TAAACATCAAAGTGTTTAGTTAAAACATTTCAATGTTA
* *
2739138 TTCCATCCACTATTGTAACAACTTGGATAAGTTAACCTCTTTAGT-TTGAAAGCATCAAAGTGTT
1 TT-CATCCACTATTATAACAACTTGGATATGTTAACCTCTTTAGTCTT-AAA-CATCAAAGTGTT
* * * * * *
2739202 TTGTTAAGGCATTTCAATGTTGTTCAAACTTTCATCCATTGATTTAACAACTTGGATAAGTTAAG
63 TTGTTAAGACATTTCAATGATATTCAAACTTCCATCCATTAATATAACAACTTGGATAAGTTAAG
* * *
2739267 TTCTTTAGTTTATAAACATCAAAGTGTTTAGTTAAGACATTTTAATGTTA
128 TTCTTTAGTTCATAAACATCAAAGTGTTTAGTTAAAACATTTCAATGTTA
* ** * * * * *
2739317 TTCAACTTTCT-TTCTCAAACAACTTGAATATGTTAACTTCTTTAGTCCATAAACGTCAAAGTGT
1 TTCATC-CACTATTAT--AACAACTTGGATATGTTAACCTCTTTAGT-CTTAAACATCAAAGTGT
* * *
2739381 TTAGTTAAGACATTTCAATGATATTCAAACTTCCATCCATTAATGTAACAATTTGGATAAGTTAA
62 TTTGTTAAGACATTTCAATGATATTCAAACTTCCATCCATTAATATAACAACTTGGATAAGTTAA
2739446 ATCAAGCACT
Statistics
Matches: 257, Mismatches: 39, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
177 3 0.01
178 16 0.06
179 138 0.54
180 96 0.37
181 3 0.01
182 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (177 bp):
TTCATCCACTATTATAACAACTTGGATATGTTAACCTCTTTAGTCTTAAACATCAAAGTGTTTTG
TTAAGACATTTCAATGATATTCAAACTTCCATCCATTAATATAACAACTTGGATAAGTTAAGTTC
TTTAGTTCATAAACATCAAAGTGTTTAGTTAAAACATTTCAATGTTA
Found at i:2740017 original size:184 final size:185
Alignment explanation
Indices: 2739713--2740056 Score: 433
Period size: 185 Copynumber: 1.9 Consensus size: 185
2739703 AATATATTGC
* ** * * * *
2739713 CTAACCACTTTGATGTTTATGGGCTAAAGAGGTTAACTTATCCAAGTTGGTAAATTAATGGATGG
1 CTAAACACTTTGATGTTTACAGACTAAAGAGGTTAACTTAACCAACTTGGTAAATTAACGGATGG
* * * *
2739778 AAGTTTAAATAGTATTTAGATGTCTTAACTAAACACGTGGATGTTTAAGGACTAAAGAGGTTAAG
66 AAGTTTAAATAGCATTAAAATGTCTTAACTAAACACGTGGATGTTTAAGGACTAAAGAGGTTAAC
* *
2739843 TTATCCAAGTTGTTACATTAATTGATGGAAAAATGAATAGCGTTAAAAGTTTTAA
131 TTATCAAAGTTGTTACATTAATGGATGGAAAAATGAATAGCGTTAAAAGTTTTAA
* * * *
2739898 CTAAACACTTTGATTTTTACAGACTAAATAGGTTAATTTAACCAACTTGTTACAA-TAACGGATG
1 CTAAACACTTTGATGTTTACAGACTAAAGAGGTTAACTTAACCAACTTGGTA-AATTAACGGATG
* * * * * *
2739962 GAAGTTTGAATAGCATTAAAAAT-T-TTAACTAAACACTTTGATGTTTACGGACTAAAGATGTTT
65 GAAGTTTAAATAGCATT-AAAATGTCTTAACTAAACACGTGGATGTTTAAGGACTAAAGAGGTTA
*
2740025 ACTTATCAAAGTTGTTACTTTAATGGATGGAA
129 ACTTATCAAAGTTGTTACATTAATGGATGGAA
2740057 GTTTGAATAA
Statistics
Matches: 133, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
184 62 0.47
185 66 0.50
186 5 0.04
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (185 bp):
CTAAACACTTTGATGTTTACAGACTAAAGAGGTTAACTTAACCAACTTGGTAAATTAACGGATGG
AAGTTTAAATAGCATTAAAATGTCTTAACTAAACACGTGGATGTTTAAGGACTAAAGAGGTTAAC
TTATCAAAGTTGTTACATTAATGGATGGAAAAATGAATAGCGTTAAAAGTTTTAA
Found at i:2740040 original size:92 final size:92
Alignment explanation
Indices: 2739616--2740139 Score: 448
Period size: 92 Copynumber: 5.7 Consensus size: 92
2739606 GATCAACGTA
* * * ** * ** *
2739616 TTTAACTAATCACTTTGATGTTTATGCACTAAATATATTAACTTAT-CAAGTTGTTACATTGGTA
1 TTTAACTAAACACTTTGATGTTTATGGACTAAAGAGGTTAACTTATCCAAGTTGTTACAATAATG
* * * *
2739680 TATGGTAGTTTGAATAACATTGAAATAT
66 GATGGAAGTTTGAATAGCATT-AAAAAT
* ** * * *
2739708 ATTGCCTAACCACTTTGATGTTTATGGGCTAAAGAGGTTAACTTATCCAAGTTGGTA-AATTAAT
1 TTTAACTAAACACTTTGATGTTTATGGACTAAAGAGGTTAACTTATCCAAGTTGTTACAA-TAAT
* * * *
2739772 GGATGGAAGTTTAAATAGTATT-TAGAT
65 GGATGGAAGTTTGAATAGCATTAAAAAT
* * * * *
2739799 GTCTTAACTAAACACGTGGATGTTTAAGGACTAAAGAGGTTAAGTTATCCAAGTTGTTACATTAA
1 -T-TTAACTAAACACTTTGATGTTTATGGACTAAAGAGGTTAACTTATCCAAGTTGTTACAATAA
* *** * *
2739864 TTGATGGAAAAATGAATAGCGTTAAAAGT
64 TGGATGGAAGTTTGAATAGCATTAAAAAT
* ** * * * * *
2739893 TTTAACTAAACACTTTGATTTTTACAGACTAAATAGGTTAATTTAACCAACTTGTTACAATAACG
1 TTTAACTAAACACTTTGATGTTTATGGACTAAAGAGGTTAACTTATCCAAGTTGTTACAATAATG
2739958 GATGGAAGTTTGAATAGCATTAAAAAT
66 GATGGAAGTTTGAATAGCATTAAAAAT
* * * * **
2739985 TTTAACTAAACACTTTGATGTTTACGGACTAAAGATGTTTACTTATCAAAGTTGTTACTTTAATG
1 TTTAACTAAACACTTTGATGTTTATGGACTAAAGAGGTTAACTTATCCAAGTTGTTACAATAATG
* *
2740050 GATGGAAGTTTGAATAAG-GTT--CAAT
66 GATGGAAGTTTGAAT-AGCATTAAAAAT
* * * *
2740075 TGACTTAACAAAACGCGTTGATGTTTATGGACTAAAGAGGTTAACTTATCAAAGTTGTTACAATA
1 T---TTAACTAAACACTTTGATGTTTATGGACTAAAGAGGTTAACTTATCCAAGTTGTTACAATA
2740140 GCATTGAAAT
Statistics
Matches: 341, Mismatches: 81, Indels: 19
0.77 0.18 0.04
Matches are distributed among these distances:
90 4 0.01
91 3 0.01
92 182 0.53
93 149 0.44
94 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (92 bp):
TTTAACTAAACACTTTGATGTTTATGGACTAAAGAGGTTAACTTATCCAAGTTGTTACAATAATG
GATGGAAGTTTGAATAGCATTAAAAAT
Found at i:2740721 original size:94 final size:95
Alignment explanation
Indices: 2740604--2740801 Score: 241
Period size: 94 Copynumber: 2.1 Consensus size: 95
2740594 AATAGGTCTA
* * *
2740604 AAATGTC-T-TAACTAAACACTTTGATGTTTATC-GACTAAAGATGTTAA-TATATCTAA-TTG-
1 AAATGTCTTATAACTAAACACTTTGATGCTTA-CAGACTAAAGAGGTTAACT-TATCCAAGTTGC
*
2740663 TTACATTT-ATGGAT-AGAAGTTTAAATAACATTG
64 TT-C-TTTAATAGATGA-AAGTTTAAATAACATTG
2740696 AAATGTCTTATAACTAAACACTTTGATGCTTACAGACTAAAGAGGTTAACTTATCCAAGTTGCTT
1 AAATGTCTTATAACTAAACACTTTGATGCTTACAGACTAAAGAGGTTAACTTATCCAAGTTGCTT
* *
2740761 CTTTAATAGATGAAAGTTTGAATAACGTTG
66 CTTTAATAGATGAAAGTTTAAATAACATTG
2740791 AAATGTCTTAT
1 AAATGTCTTAT
2740802 GTAAGCGTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
92 7 0.08
93 2 0.02
94 44 0.48
95 36 0.39
96 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (95 bp):
AAATGTCTTATAACTAAACACTTTGATGCTTACAGACTAAAGAGGTTAACTTATCCAAGTTGCTT
CTTTAATAGATGAAAGTTTAAATAACATTG
Found at i:2741021 original size:92 final size:92
Alignment explanation
Indices: 2740881--2741061 Score: 238
Period size: 92 Copynumber: 2.0 Consensus size: 92
2740871 TTTACAGACT
* * * * *
2740881 AAAGAGGTTAACTTATCCAAGTTGTTACATTAATAAATGGAAGTTTGAATAGCGTTGAAATGTCT
1 AAAGAGGTTAACTTATCCAAGTTGGTACACTAATAAATGGAAGTTTGAATAACATTAAAATGTCT
*
2740946 TAGCTAAACACTTTAATGTTTACAAAA
66 TAACTAAACACTTTAATGTTTACAAAA
* * * *
2740973 AAAGAGGTTAACTTATTCAAGTTGGTACGCTAATCAATTG-AGTGTTGAATAACATTAAAATGTC
1 AAAGAGGTTAACTTATCCAAGTTGGTACACTAATAAATGGAAGT-TTGAATAACATTAAAATGTC
* *
2741037 TTAACTAACCACTTTGATGTTTACA
65 TTAACTAAACACTTTAATGTTTACA
2741062 GAGTGAAGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
91 3 0.04
92 73 0.96
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (92 bp):
AAAGAGGTTAACTTATCCAAGTTGGTACACTAATAAATGGAAGTTTGAATAACATTAAAATGTCT
TAACTAAACACTTTAATGTTTACAAAA
Found at i:2743979 original size:20 final size:21
Alignment explanation
Indices: 2743954--2744016 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 21
2743944 TTTTGGTGCA
*
2743954 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
**
2743974 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCAT
2743995 GAAGGGGAACCGATTCCCCCCA
1 G-A-GGGAACCGATTCCCCCCA
2744017 CAGGGGAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.29
21 8 0.23
22 1 0.03
23 16 0.46
ACGTcount: A:0.24, C:0.35, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:2748674 original size:19 final size:20
Alignment explanation
Indices: 2748629--2748680 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2748619 CACAATGAAT
*
2748629 AATATCGATACTGATGCAAGA
1 AATATCGATACTGAAG-AAGA
*
2748650 AGTATCGATACTGAAG-AGA
1 AATATCGATACTGAAGAAGA
2748669 AATATCGATACT
1 AATATCGATACT
2748681 ATTATTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 14 0.50
21 14 0.50
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (20 bp):
AATATCGATACTGAAGAAGA
Found at i:2748757 original size:22 final size:22
Alignment explanation
Indices: 2748732--2748787 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
2748722 TTCTAAAAGG
2748732 AGTATCGATATC-ATAGTAGGGA
1 AGTATCGATA-CAATAGTAGGGA
2748754 AGTATCGATACAATAGTAGGG-
1 AGTATCGATACAATAGTAGGGA
*
2748775 -GTACCGATACAAT
1 AGTATCGATACAAT
2748788 TCAGTCAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 12 0.38
21 1 0.03
22 19 0.59
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (22 bp):
AGTATCGATACAATAGTAGGGA
Found at i:2749162 original size:54 final size:54
Alignment explanation
Indices: 2749094--2749252 Score: 187
Period size: 54 Copynumber: 2.9 Consensus size: 54
2749084 TATTTTTATG
* * *
2749094 TATCGCCATTAAGTGTGCAACCCACTTAATTCATTATAAGTTTATGAACGACCC
1 TATCGGCACTAAGTGTGCAACCCACTAAATTCATTATAAGTTTATGAACGACCC
* * **
2749148 TATCGGCACTAAGTGTACAACCCA-TGGAATTCA-TATTAAGTTTATGAACGACTG
1 TATCGGCACTAAGTGTGCAACCCACT-AAATTCATTA-TAAGTTTATGAACGACCC
* * * *
2749202 TGTCGGCACTAAGTGTGTAACCCACAAAATTCATAATAAGTTTATGAACGA
1 TATCGGCACTAAGTGTGCAACCCACTAAATTCATTATAAGTTTATGAACGA
2749253 GCGTATCGAC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
53 3 0.03
54 85 0.96
55 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACTAAATTCATTATAAGTTTATGAACGACCC
Found at i:2765965 original size:27 final size:27
Alignment explanation
Indices: 2765935--2765990 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
2765925 CAGGAATGTT
2765935 ACACCAATTCCCTTTGCATAGGAGTCG
1 ACACCAATTCCCTTTGCATAGGAGTCG
2765962 ACACCAATTCCCTTTGCATAGGAGTCG
1 ACACCAATTCCCTTTGCATAGGAGTCG
2765989 AC
1 AC
2765991 GCCATTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (27 bp):
ACACCAATTCCCTTTGCATAGGAGTCG
Found at i:2766940 original size:17 final size:20
Alignment explanation
Indices: 2766892--2766946 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
2766882 TAATAAAGGG
2766892 GAAAAT-AAT-ATAAGAAAT
1 GAAAATAAATAATAAGAAAT
2766910 GAAAATAAATAATAAG-AAT
1 GAAAATAAATAATAAGAAAT
2766929 G-AAATAAA-AATAAAGAAA
1 GAAAATAAATAAT-AAGAAA
2766947 GGATAGAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
17 3 0.09
18 16 0.48
19 9 0.27
20 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (20 bp):
GAAAATAAATAATAAGAAAT
Found at i:2772119 original size:13 final size:13
Alignment explanation
Indices: 2772097--2772131 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2772087 TTTGAACTTC
2772097 TCTTTATCTTTTCT
1 TCTTT-TCTTTTCT
*
2772111 TTTTTTCTTTTCT
1 TCTTTTCTTTTCT
2772124 TCTTTTCT
1 TCTTTTCT
2772132 GATTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (13 bp):
TCTTTTCTTTTCT
Found at i:2772140 original size:22 final size:21
Alignment explanation
Indices: 2772094--2772146 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2772084 CATTTTGAAC
*
2772094 TTCTCTT-TATCTTTTCTTTTT
1 TTCTCTTCT-TCTTTTCTATTT
*
2772115 TTCTTTTCTTCTTTTCTGATTT
1 TTCTCTTCTTCTTTTCT-ATTT
2772137 TTCTCTTCTT
1 TTCTCTTCTT
2772147 TTTGCACTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.74
Consensus pattern (21 bp):
TTCTCTTCTTCTTTTCTATTT
Found at i:2774218 original size:13 final size:13
Alignment explanation
Indices: 2774200--2774226 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2774190 ATGCAACATC
2774200 ACAAAAAGAAATA
1 ACAAAAAGAAATA
2774213 ACAAAAAGAAATA
1 ACAAAAAGAAATA
2774226 A
1 A
2774227 AGGCTCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (13 bp):
ACAAAAAGAAATA
Found at i:2787262 original size:26 final size:26
Alignment explanation
Indices: 2787226--2787383 Score: 153
Period size: 26 Copynumber: 6.5 Consensus size: 26
2787216 ATGCCTTAAT
2787226 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
*
2787252 GCATCCTTTCATGTATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
*
2787278 GCATCCTTTCATGC----C-TTAAT-
1 GCATCCTTTCATGCATTTCATTTATG
*
2787298 ACATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
* *
2787324 G-AACCTTTTCATGC----C-TTAAT-
1 GCATCC-TTTCATGCATTTCATTTATG
2787344 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
**
2787370 GCATTATTTCATGC
1 GCATCCTTTCATGC
2787384 CTTAATGCAT
Statistics
Matches: 106, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
20 22 0.21
21 11 0.10
22 2 0.02
24 2 0.02
25 11 0.10
26 58 0.55
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTCATTTATG
Found at i:2787305 original size:46 final size:46
Alignment explanation
Indices: 2787252--2787407 Score: 242
Period size: 46 Copynumber: 3.4 Consensus size: 46
2787242 TTCATTTATG
*
2787252 GCATCCTTTCATGTATTTCATTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
* *
2787298 ACATCCTTTCATGCATTTCATTTATGG-AACCTTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTCATTTATGGCATCC-TTTCATGCCTTAAT
**
2787344 GCATCCTTTCATGCATTTCATTTATGGCATTATTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
*
2787390 GCATCCTTTCATACATTT
1 GCATCCTTTCATGCATTT
2787408 AAGTTATTAA
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
45 3 0.03
46 96 0.96
47 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.45
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
Found at i:2787334 original size:72 final size:72
Alignment explanation
Indices: 2787194--2787336 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
2787184 TTATTCATTA
* *
2787194 ATTTCATTTATGGCATACTTTAATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATACTTTAATGCCTTAATACATCCTTTCATGCATTTCATTTATGGCAACCT
2787259 TTCATGT
66 TTCATGT
* *
2787266 ATTTCATTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTCATTTATGG-AACCT
1 ATTTCATTTATGGCATACTTTAATGCCTTAATACATCCTTTCATGCATTTCATTTATGGCAACC-
2787330 TTTCATG
65 TTTCATG
2787337 CCTTAATGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
71 3 0.05
72 63 0.95
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.45
Consensus pattern (72 bp):
ATTTCATTTATGGCATACTTTAATGCCTTAATACATCCTTTCATGCATTTCATTTATGGCAACCT
TTCATGT
Found at i:2787355 original size:20 final size:20
Alignment explanation
Indices: 2787278--2787401 Score: 77
Period size: 20 Copynumber: 5.6 Consensus size: 20
2787268 TTCATTTATG
2787278 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
2787298 ACATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
* *
2787323 GGAACCTTTTCATGCCTTAAT
1 GCATCC-TTTCATGCCTTAAT
*
2787344 GCATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
**
2787369 GGCATTATTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
2787390 GCATCCTTTCAT
1 GCATCCTTTCAT
2787402 ACATTTAAGT
Statistics
Matches: 78, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
20 31 0.40
21 12 0.15
22 2 0.03
24 2 0.03
25 11 0.14
26 20 0.26
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:2790640 original size:76 final size:75
Alignment explanation
Indices: 2790511--2790719 Score: 242
Period size: 76 Copynumber: 2.8 Consensus size: 75
2790501 CCGTTGTACA
* * * *
2790511 AGGGGGAATCGGTACCCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 AGGGGGAATCGGT-TCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAA
** *
2790575 CAAAACTGTTT
65 CAAAACCATTC
* *
2790586 AGGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGTA
1 A--GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGA
* *
2790650 GCCAAACCATTC
64 ACAAAACCATTC
* * *
2790662 AGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTGTAATT
1 AGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
2790720 TTTTGCTTTG
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
74 21 0.18
75 1 0.01
76 79 0.69
77 13 0.11
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (75 bp):
AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAAC
AAAACCATTC
Found at i:2793342 original size:20 final size:21
Alignment explanation
Indices: 2793289--2793350 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
2793279 ATTCTCCTGT
2793289 GGGGGGAATCGGTTCCCATTCAA
1 GGGGGGAATCGGTTCCC--TCAA
*
2793312 AGGGGGAATCGGTTCCCTC-A
1 GGGGGGAATCGGTTCCCTCAA
* *
2793332 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
2793351 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
23 16 0.46
ACGTcount: A:0.18, C:0.24, G:0.37, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:2797158 original size:22 final size:21
Alignment explanation
Indices: 2797116--2797155 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2797106 GAGTTTGTTT
*
2797116 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2797137 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2797156 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2799178 original size:75 final size:76
Alignment explanation
Indices: 2799078--2799274 Score: 254
Period size: 75 Copynumber: 2.6 Consensus size: 76
2799068 CGTTGTATAA
* * * *
2799078 GGGGGAATCGATACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
1 GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACA
** *
2799142 AAACTGTTTAG
66 AAACCATTCAG
* * * *
2799153 GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACA
2799217 AAACCATTCAG
66 AAACCATTCAG
* *
2799228 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTACCTCTGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGG-ATCGGTTCCCTCCGAGCA
2799275 ATCTGTAATT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
75 83 0.79
76 6 0.06
77 16 0.15
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAACA
AAACCATTCAG
Found at i:2803890 original size:20 final size:20
Alignment explanation
Indices: 2803865--2803942 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
2803855 CATTTATGGT
2803865 ATCCTTTTATGCCTTAATGC
1 ATCCTTTTATGCCTTAATGC
* *
2803885 ATCCTTTCATGCATCTCATTTATGGC
1 ATCCTTTTATG---C-C-TTAAT-GC
2803911 ATCCTTTCT-TGCCTTAATGC
1 ATCCTTT-TATGCCTTAATGC
2803931 ATCCTTTTATGC
1 ATCCTTTTATGC
2803943 ATTTCAGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
19 1 0.02
20 22 0.48
21 4 0.09
22 1 0.02
23 2 0.04
24 1 0.02
25 4 0.09
26 11 0.24
ACGTcount: A:0.18, C:0.27, G:0.10, T:0.45
Consensus pattern (20 bp):
ATCCTTTTATGCCTTAATGC
Found at i:2803904 original size:46 final size:46
Alignment explanation
Indices: 2803854--2803953 Score: 148
Period size: 46 Copynumber: 2.2 Consensus size: 46
2803844 TTCATTAATT
*
2803854 TCATTTATGGTATCCTTT-TATGCCTTAATGCATCCTTTCATGCATC
1 TCATTTATGGCATCCTTTCT-TGCCTTAATGCATCCTTTCATGCATC
* *
2803900 TCATTTATGGCATCCTTTCTTGCCTTAATGCATCCTTTTATGCATT
1 TCATTTATGGCATCCTTTCTTGCCTTAATGCATCCTTTCATGCATC
*
2803946 TCAGTTAT
1 TCATTTAT
2803954 TAATTCATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 48 0.98
47 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (46 bp):
TCATTTATGGCATCCTTTCTTGCCTTAATGCATCCTTTCATGCATC
Found at i:2805674 original size:29 final size:30
Alignment explanation
Indices: 2805629--2805689 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
2805619 TATTTTGAAT
*
2805629 AACAAAATGAAACGTTAGGCACCAAATTGG
1 AACAAAATGAAACGTTAGGCACCAAACTGG
* *
2805659 AACAAAAT-AAACGTTAGTCACTAAACTGG
1 AACAAAATGAAACGTTAGGCACCAAACTGG
2805688 AA
1 AA
2805690 AAACAGGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (30 bp):
AACAAAATGAAACGTTAGGCACCAAACTGG
Found at i:2805890 original size:93 final size:93
Alignment explanation
Indices: 2805729--2805899 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 93
2805719 TACTTAAGCC
* ** * *
2805729 TTCAAACTTCCACCCGTTAACGTAATAGTTTGGATAAGTTAACCTCTTTAGTTCATAAATATTAA
1 TTCAAACTTCCACCCGTTAACGTAAAAAATTGGACAAATTAACCTCTTTAGTTCATAAATATTAA
2805794 AGTGTTTAGTTAAAATATTTCAACGATA
66 AGTGTTTAGTTAAAATATTTCAACGATA
* ** **
2805822 TTCAAACTTTCACCCGTTATTGTAAAAAATTGGACAAATTAACCTCTTTAGTTTGT-AATCA-TA
1 TTCAAACTTCCACCCGTTAACGTAAAAAATTGGACAAATTAACCTCTTTAGTTCATAAAT-ATTA
2805885 TAAGTGTTTAGTTAA
65 -AAGTGTTTAGTTAA
2805900 GACAGTTCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
92 5 0.08
93 61 0.92
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (93 bp):
TTCAAACTTCCACCCGTTAACGTAAAAAATTGGACAAATTAACCTCTTTAGTTCATAAATATTAA
AGTGTTTAGTTAAAATATTTCAACGATA
Found at i:2805990 original size:97 final size:93
Alignment explanation
Indices: 2805874--2806056 Score: 206
Period size: 97 Copynumber: 1.9 Consensus size: 93
2805864 CCTCTTTAGT
* * * ** *
2805874 TTGTAATCATATAAGTGTTTAGTTAAGACAGTTCAAAACTATTCATTCTTACATCCATTAATTTA
1 TTGTAAACATATAAGTGTTTAATTAAGACACTTCAAAACTATTCAAACTTACATACATTAATTTA
2805939 ACAAATAACTTGGATAAGTTAACCTTTTTTTG
66 AC----AACTTGGATAAGTTAACCTTTTTTTG
* ** * * *
2805971 TTGTAAACATCAT-AGTGTTTAATTATGACACTTCAACGCTATTTAAACTTCCATATATTAATTT
1 TTGTAAACAT-ATAAGTGTTTAATTAAGACACTTCAAAACTATTCAAACTTACATACATTAATTT
2806035 AACAACTTGGATAAGTTAACCT
65 AACAACTTGGATAAGTTAACCT
2806057 CTTTAGCCTG
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
93 19 0.26
97 52 0.71
98 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (93 bp):
TTGTAAACATATAAGTGTTTAATTAAGACACTTCAAAACTATTCAAACTTACATACATTAATTTA
ACAACTTGGATAAGTTAACCTTTTTTTG
Found at i:2807229 original size:9 final size:9
Alignment explanation
Indices: 2807215--2807248 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2807205 TATGTTTGTG
2807215 ATTTTTTTT
1 ATTTTTTTT
2807224 ATTTTTTTT
1 ATTTTTTTT
* *
2807233 AATTTTTTC
1 ATTTTTTTT
2807242 ATTTTTT
1 ATTTTTT
2807249 GCATTTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:2807447 original size:93 final size:93
Alignment explanation
Indices: 2807340--2807745 Score: 422
Period size: 93 Copynumber: 4.4 Consensus size: 93
2807330 CATTAAACAT
* * * *
2807340 TTTAGTTAAAACATTT-AAGCATTGTTCAAACTTTTATCAATTAATGTAACAACTTGGATAAGTT
1 TTTAGTTAAAACATTTCAA-CACTATTCAAACTTTCAACAATTAATGTAACAACTTGGATAAGTT
2807404 AAACTCTTTAGTCC-TCAAACATCAAAGTG
65 AAACTCTTTAGTCCAT-AAACATCAAAGTG
* * * * *
2807433 TTCAGTTAAAACATTTCAACACTATTCAAACTTTCAACCATTAATGTTACAACTTGCATATGTTA
1 TTTAGTTAAAACATTTCAACACTATTCAAACTTTCAACAATTAATGTAACAACTTGGATAAGTTA
2807498 AACTCTTTAGTCCATAAACATCAAAGTG
66 AACTCTTTAGTCCATAAACATCAAAGTG
* * * *
2807526 TTTAGTTAATACATTTCAACACTATTCAAACTTCCAACTATTAATGCAACAACTTGGATAAGTTA
1 TTTAGTTAAAACATTTCAACACTATTCAAACTTTCAACAATTAATGTAACAACTTGGATAAGTTA
* * * *
2807591 AATTCTTTAGTCCGTAAATATTAAAGTG
66 AACTCTTTAGTCCATAAACATCAAAGTG
* ** * *** * * *
2807619 TTTAGTTAAGACATTTCAACGTTATTCAAACTTCCATTTATCAATGTAATAA-TCTGGATAATTT
1 TTTAGTTAAAACATTTCAACACTATTCAAACTTTCAACAATTAATGTAACAACT-TGGATAAGTT
* * * * * *
2807683 AATCTATTTTGTTCATAACCATCAAAATG
65 AAACTCTTTAGTCCATAAACATCAAAGTG
* * * *
2807712 TATATTTAAGACATTTCAACACTAATTAAAACTT
1 TTTAGTTAAAACATTTCAACACT-ATTCAAACTT
2807746 GGATAACTTA
Statistics
Matches: 264, Mismatches: 45, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
92 1 0.00
93 251 0.95
94 12 0.05
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (93 bp):
TTTAGTTAAAACATTTCAACACTATTCAAACTTTCAACAATTAATGTAACAACTTGGATAAGTTA
AACTCTTTAGTCCATAAACATCAAAGTG
Found at i:2807869 original size:165 final size:165
Alignment explanation
Indices: 2807576--2807892 Score: 395
Period size: 165 Copynumber: 1.9 Consensus size: 165
2807566 TTAATGCAAC
* * * * * *
2807576 AACTTGGATAAGTTAAATTCTTTAGTCCGTAAATATTAAAGTGTTTAGTTAAGACATTTCAACGT
1 AACTTGGATAACTTAAACTCTTTAGTCCGTAAACATCAAAGTATTTAGTTAAAACATTTCAACGT
** * * * * *
2807641 TATTCAAACTTCCATTTATCAATGTAATAATCTGGATAATTTAATCTATTTTGTTCATAACCATC
66 TATTCAAACTTCCATCCATCAATGTAACAATCTGGACAAGTTAATCTATTTAGTCCATAACCATC
2807706 AAAATGTATATTTAAGACATTTCAACACTAATTAA
131 AAAATGTATATTTAAGACATTTCAACACTAATTAA
* *
2807741 AACTTGGATAACTTAACCTCTTTAGTTCGTAAACATCAAAGTATTTAGTTAAAACATTTCAACGT
1 AACTTGGATAACTTAAACTCTTTAGTCCGTAAACATCAAAGTATTTAGTTAAAACATTTCAACGT
* * * * *
2807806 TTTTCAAACTTCCATCCATTAATGTAACAAGT-TTGACAAGTTACA-CTCTTTAGTCCGTAACCA
66 TATTCAAACTTCCATCCATCAATGTAACAA-TCTGGACAAGTTA-ATCTATTTAGTCCATAACCA
* * *
2807869 TTAAAATGTTTATTTAATACATTT
129 TCAAAATGTATATTTAAGACATTT
2807893 TAATGCAATT
Statistics
Matches: 127, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
165 125 0.98
166 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (165 bp):
AACTTGGATAACTTAAACTCTTTAGTCCGTAAACATCAAAGTATTTAGTTAAAACATTTCAACGT
TATTCAAACTTCCATCCATCAATGTAACAATCTGGACAAGTTAATCTATTTAGTCCATAACCATC
AAAATGTATATTTAAGACATTTCAACACTAATTAA
Found at i:2808837 original size:93 final size:93
Alignment explanation
Indices: 2808621--2808800 Score: 234
Period size: 93 Copynumber: 1.9 Consensus size: 93
2808611 GGATAACGAA
* * * * * * **
2808621 AGTTATAACATTTCAAAGCTTTTCAAACTTCCATCTACTAATATAACAACATCGATAACTTAACC
1 AGTTAAAACATTTCAATGCTATTCAAACTTCCATCAACTAATAAAACAACATCGATAAATTAAAA
*
2808686 TCTTTAGTACGTAAACATCAAATTATTT
66 TCTTTAGTACATAAACATCAAATTATTT
* ** *
2808714 AGTTAAAACATTTCAATGCTATTCAAACTTCCATCAATTAATAAAACAAGTTTGATAAATTAAAA
1 AGTTAAAACATTTCAATGCTATTCAAACTTCCATCAACTAATAAAACAACATCGATAAATTAAAA
*
2808779 TCTTTAGTCCATAAACATCAAA
66 TCTTTAGTACATAAACATCAAA
2808801 ATTTTTGGTT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (93 bp):
AGTTAAAACATTTCAATGCTATTCAAACTTCCATCAACTAATAAAACAACATCGATAAATTAAAA
TCTTTAGTACATAAACATCAAATTATTT
Found at i:2832374 original size:16 final size:16
Alignment explanation
Indices: 2832353--2832392 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2832343 GAGATATTCC
2832353 CAGGAAATTCTCTAAT
1 CAGGAAATTCTCTAAT
*
2832369 CAGGAAATTCTTTAAT
1 CAGGAAATTCTCTAAT
*
2832385 CATGAAAT
1 CAGGAAAT
2832393 CCTTTAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (16 bp):
CAGGAAATTCTCTAAT
Found at i:2832397 original size:16 final size:16
Alignment explanation
Indices: 2832353--2832399 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
2832343 GAGATATTCC
* *
2832353 CAGGAAATTCTCTAAT
1 CAGGAAATCCTTTAAT
*
2832369 CAGGAAATTCTTTAAT
1 CAGGAAATCCTTTAAT
*
2832385 CATGAAATCCTTTAA
1 CAGGAAATCCTTTAA
2832400 AGGTGAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (16 bp):
CAGGAAATCCTTTAAT
Found at i:2850533 original size:21 final size:21
Alignment explanation
Indices: 2850508--2850547 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2850498 TAATTCAACC
2850508 ATCATCTGTAAGGATAGCTAT
1 ATCATCTGTAAGGATAGCTAT
2850529 ATCATCTGTAAGGATAGCT
1 ATCATCTGTAAGGATAGCT
2850548 CAATCCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (21 bp):
ATCATCTGTAAGGATAGCTAT
Found at i:2879026 original size:2 final size:2
Alignment explanation
Indices: 2879019--2879070 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2879009 TAATAACAAT
2879019 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2879061 TA TA TA TA TA
1 TA TA TA TA TA
2879071 GACTAAATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2882739 original size:19 final size:20
Alignment explanation
Indices: 2882715--2882761 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2882705 AATGATTTTC
* * *
2882715 TTTTGAAACACAAATTG-GA
1 TTTTGAAAAACAAAATGAAA
2882734 TTTTGAAAAACAAAATGAAA
1 TTTTGAAAAACAAAATGAAA
2882754 TTTTGAAA
1 TTTTGAAA
2882762 GATAATTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (20 bp):
TTTTGAAAAACAAAATGAAA
Found at i:2887029 original size:16 final size:16
Alignment explanation
Indices: 2887008--2887038 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2886998 AAGCCAAAGC
2887008 TGATTTAGGAAATTGA
1 TGATTTAGGAAATTGA
2887024 TGATTTAGGAAATTG
1 TGATTTAGGAAATTG
2887039 GTATCGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (16 bp):
TGATTTAGGAAATTGA
Found at i:2893080 original size:60 final size:59
Alignment explanation
Indices: 2892982--2893113 Score: 192
Period size: 60 Copynumber: 2.2 Consensus size: 59
2892972 TGGGGTAAAG
*
2892982 TATACAAATGGTCCTCCAACTATAGAGTGATGTTTTGTTGAGTCCCTCGACTATTAAAAAT
1 TATA-AAATGGTCCTCCAACTATAGAGTGATGCTTTGTTGAGTCCCT-GACTATTAAAAAT
* ** *
2893043 TATAAAATGGTCCTTCAACTATAGAGTTTTGCTTTGTTGAGTCCCTGACTATTAAAAGT
1 TATAAAATGGTCCTCCAACTATAGAGTGATGCTTTGTTGAGTCCCTGACTATTAAAAAT
*
2893102 TACAAAATGGTC
1 TATAAAATGGTC
2893114 ACTCGGCTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 23 0.35
60 38 0.58
61 4 0.06
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (59 bp):
TATAAAATGGTCCTCCAACTATAGAGTGATGCTTTGTTGAGTCCCTGACTATTAAAAAT
Found at i:2893427 original size:60 final size:60
Alignment explanation
Indices: 2893336--2893448 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
2893326 GTCAGGTGAC
* * *
2893336 CATTTTGTAACTTTTAATAGTAGGGAGACTCAACAAAGT-AACACCCTATAGTCAAAGAAT
1 CATTTTATAACTTTTAATAATAGAGAGACTCAACAAA-TCAACACCCTATAGTCAAAGAAT
* * * *
2893396 CATTTTATAACTTTTAATAATCGAGATACTCAATAAATCATCACCCTATAGTC
1 CATTTTATAACTTTTAATAATAGAGAGACTCAACAAATCAACACCCTATAGTC
2893449 GAGAGATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 44 0.98
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.32
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAATAGAGAGACTCAACAAATCAACACCCTATAGTCAAAGAAT
Found at i:2893758 original size:30 final size:30
Alignment explanation
Indices: 2893724--2893801 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
2893714 ATTTTTAATA
* *
2893724 TTGTGTTCGTTTATTTACTTTTGAAGGTGT
1 TTGTGTTCGTTTATTTACTTTTAAAAGTGT
2893754 TTGTGTTCGTTTATTTACTTTTAAAAGTGT
1 TTGTGTTCGTTTATTTACTTTTAAAAGTGT
** *
2893784 TCATGTTTGTTTATTTAC
1 TTGTGTTCGTTTATTTAC
2893802 AGTACGCGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.17, C:0.08, G:0.18, T:0.58
Consensus pattern (30 bp):
TTGTGTTCGTTTATTTACTTTTAAAAGTGT
Found at i:2893859 original size:24 final size:23
Alignment explanation
Indices: 2893791--2893870 Score: 90
Period size: 23 Copynumber: 3.4 Consensus size: 23
2893781 TGTTCATGTT
* *
2893791 TGTTTATTTACA-GTACGCGAACA
1 TGTTTATTTA-ATGTTCGCGAACG
*
2893814 TGTTTATTTAATGTTCGTGAACG
1 TGTTTATTTAATGTTCGCGAACG
*
2893837 TGTTTATTTATATGTTCACGAACG
1 TGTTTATTTA-ATGTTCGCGAACG
*
2893861 TGTTCATTTA
1 TGTTTATTTA
2893871 GCATTCAGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
22 1 0.02
23 28 0.57
24 20 0.41
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (23 bp):
TGTTTATTTAATGTTCGCGAACG
Found at i:2893899 original size:11 final size:11
Alignment explanation
Indices: 2893883--2893937 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
2893873 ATTCAGGAAC
*
2893883 ATGTTCGTTTA
1 ATGTTCATTTA
*
2893894 ATGTTCGTTTA
1 ATGTTCATTTA
*
2893905 ACGTTCATTTA
1 ATGTTCATTTA
**
2893916 GCGTTCATTTA
1 ATGTTCATTTA
*
2893927 TTGTTCATTTA
1 ATGTTCATTTA
2893938 TCGTTCGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.53
Consensus pattern (11 bp):
ATGTTCATTTA
Found at i:2893915 original size:22 final size:22
Alignment explanation
Indices: 2893885--2893948 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
2893875 TCAGGAACAT
*
2893885 GTTCGTTTAATGTTCGTTTAAC
1 GTTCATTTAATGTTCGTTTAAC
** * **
2893907 GTTCATTTAGCGTTCATTTATT
1 GTTCATTTAATGTTCGTTTAAC
2893929 GTTCATTT-ATCGTTCGTTTA
1 GTTCATTTAAT-GTTCGTTTA
2893949 TATATTCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.17, C:0.14, G:0.16, T:0.53
Consensus pattern (22 bp):
GTTCATTTAATGTTCGTTTAAC
Found at i:2893932 original size:33 final size:33
Alignment explanation
Indices: 2893885--2893948 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
2893875 TCAGGAACAT
* *
2893885 GTTCGTTTAATGTTCGTTTAACGTTCATTTAGC
1 GTTCATTTAATGTTCATTTAACGTTCATTTAGC
* * *
2893918 GTTCATTTATTGTTCATTTATCGTTCGTTTA
1 GTTCATTTAATGTTCATTTAACGTTCATTTA
2893949 TATATTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.17, C:0.14, G:0.16, T:0.53
Consensus pattern (33 bp):
GTTCATTTAATGTTCATTTAACGTTCATTTAGC
Found at i:2893938 original size:11 final size:11
Alignment explanation
Indices: 2893896--2893949 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
2893886 TTCGTTTAAT
* *
2893896 GTTCGTTTAAC
1 GTTCATTTATC
*
2893907 GTTCATTTAGC
1 GTTCATTTATC
*
2893918 GTTCATTTATT
1 GTTCATTTATC
2893929 GTTCATTTATC
1 GTTCATTTATC
*
2893940 GTTCGTTTAT
1 GTTCATTTAT
2893950 ATATTCAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.54
Consensus pattern (11 bp):
GTTCATTTATC
Found at i:2893949 original size:22 final size:22
Alignment explanation
Indices: 2893896--2893949 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
2893886 TTCGTTTAAT
*
2893896 GTTCGTTTAACGTTCATTTAGC
1 GTTCGTTTATCGTTCATTTAGC
* * *
2893918 GTTCATTTATTGTTCATTTATC
1 GTTCGTTTATCGTTCATTTAGC
2893940 GTTCGTTTAT
1 GTTCGTTTAT
2893950 ATATTCAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.54
Consensus pattern (22 bp):
GTTCGTTTATCGTTCATTTAGC
Found at i:2895919 original size:59 final size:59
Alignment explanation
Indices: 2895788--2895919 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 59
2895778 AATCGGTGAT
* * * *
2895788 CATTTTGTAACTTTTAATAGTCGGGAGACTCAATAAAGCAACACCCTATAATTGAGGAT
1 CATTTTGTAACTTTTAATAGTAGGGAGACTCAACAAAGCAACACCCTATAATCGAGGAC
* * * * * *
2895847 CATTTTGTAACTTTTAATAGTAGTGAGACTCAACAAAGTATCGCCCTATAGTCGGGAGAC
1 CATTTTGTAACTTTTAATAGTAGGGAGACTCAACAAAGCAACACCCTATAATCGAG-GAC
*
2895907 CATTGTGT-ACTTT
1 CATTTTGTAACTTT
2895920 ACCCAAATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 52 0.85
60 9 0.15
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (59 bp):
CATTTTGTAACTTTTAATAGTAGGGAGACTCAACAAAGCAACACCCTATAATCGAGGAC
Found at i:2895994 original size:25 final size:24
Alignment explanation
Indices: 2895924--2895998 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
2895914 TACTTTACCC
*
2895924 AAATTTTATAAATTCACCCTCCTAA
1 AAATTTTATAAATTCACCCT-TTAA
*
2895949 AAATTTTATAAATTCGTCCCTTTAA
1 AAATTTTATAAATTC-ACCCTTTAA
* *
2895974 GAATTTTATAAATTTACCCCTTTAA
1 AAATTTTATAAATTCA-CCCTTTAA
2895999 TATAAAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
25 39 0.91
26 4 0.09
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (24 bp):
AAATTTTATAAATTCACCCTTTAA
Found at i:2899346 original size:47 final size:47
Alignment explanation
Indices: 2899289--2899378 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 47
2899279 TTCGATTTGA
* *
2899289 ATTCTATTCTGACATCTGATCTGAAATCTGTTCTGTTTCCTGACTTG
1 ATTCTATTCTGACATATGATCTGAAATATGTTCTGTTTCCTGACTTG
* * * * *
2899336 ATTCTGTTCTGATATATGATCTGAATTATGTTTTGTTTTCTGA
1 ATTCTATTCTGACATATGATCTGAAATATGTTCTGTTTCCTGA
2899379 TATCTCCATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 36 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (47 bp):
ATTCTATTCTGACATATGATCTGAAATATGTTCTGTTTCCTGACTTG
Found at i:2900585 original size:44 final size:44
Alignment explanation
Indices: 2900535--2900618 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
2900525 GCTTATATGG
2900535 TATTTTTAAATTATTTTTCACTTTCCACTTAATTATTCATTTAT
1 TATTTTTAAATTATTTTTCACTTTCCACTTAATTATTCATTTAT
* *
2900579 TATTTTTAAATTATTTTTCACTTTTCACTTATTTATTCAT
1 TATTTTTAAATTATTTTTCACTTTCCACTTAATTATTCAT
2900619 ACTTAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (44 bp):
TATTTTTAAATTATTTTTCACTTTCCACTTAATTATTCATTTAT
Found at i:2902093 original size:35 final size:35
Alignment explanation
Indices: 2902053--2902140 Score: 176
Period size: 35 Copynumber: 2.5 Consensus size: 35
2902043 ATTTAATCTG
2902053 GAATTAAATCAAATTAATAATCATCTTCAATTTAT
1 GAATTAAATCAAATTAATAATCATCTTCAATTTAT
2902088 GAATTAAATCAAATTAATAATCATCTTCAATTTAT
1 GAATTAAATCAAATTAATAATCATCTTCAATTTAT
2902123 GAATTAAATCAAATTAAT
1 GAATTAAATCAAATTAAT
2902141 TAAAAACTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (35 bp):
GAATTAAATCAAATTAATAATCATCTTCAATTTAT
Found at i:2902099 original size:17 final size:17
Alignment explanation
Indices: 2902079--2902134 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
2902069 ATAATCATCT
2902079 TCAATTTATGAATTAAA
1 TCAATTTATGAATTAAA
* * **
2902096 TCAAATTAAT-AATCATCT
1 TC-AATTTATGAATTA-AA
2902114 TCAATTTATGAATTAAA
1 TCAATTTATGAATTAAA
2902131 TCAA
1 TCAA
2902135 ATTAATTAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (17 bp):
TCAATTTATGAATTAAA
Found at i:2902117 original size:18 final size:18
Alignment explanation
Indices: 2902061--2902117 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
2902051 TGGAATTAAA
2902061 TCAAATTAATAATCATCT
1 TCAAATTAATAATCATCT
* * **
2902079 TC-AATTTATGAATTA-AA
1 TCAAATTAAT-AATCATCT
2902096 TCAAATTAATAATCATCT
1 TCAAATTAATAATCATCT
2902114 TCAA
1 TCAA
2902118 TTTATGAATT
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.39
Consensus pattern (18 bp):
TCAAATTAATAATCATCT
Found at i:2902267 original size:17 final size:17
Alignment explanation
Indices: 2902235--2902268 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2902225 AATCAATTAC
*
2902235 AAATTAATGAACAAATT
1 AAATTAATCAACAAATT
*
2902252 AAATTAATCAATAAATT
1 AAATTAATCAACAAATT
2902269 TAGGTCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATTAATCAACAAATT
Found at i:2902641 original size:16 final size:18
Alignment explanation
Indices: 2902620--2902652 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2902610 TGTCACATTG
2902620 ACTTTT-CAAAA-CGTTT
1 ACTTTTACAAAATCGTTT
2902636 ACTTTTACAAAATCGTT
1 ACTTTTACAAAATCGTT
2902653 GAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (18 bp):
ACTTTTACAAAATCGTTT
Found at i:2903243 original size:21 final size:21
Alignment explanation
Indices: 2903195--2903364 Score: 92
Period size: 21 Copynumber: 7.9 Consensus size: 21
2903185 CATATAAAAT
* *
2903195 TGTCCCGAAGGACCACGTAGAAA
1 TGTCCCGAAGGACCAC--ATATA
*
2903218 TGTCCCGAAGGACCTCATATA
1 TGTCCCGAAGGACCACATATA
* *
2903239 TGTCCTGAAGGACCACATAGAA
1 TGTCCCGAAGGACCACATA-TA
*
2903261 T-TCTCCTTAAGGACCACATATA
1 TGTC-CC-GAAGGACCACATATA
* * * * *
2903283 TATTCCAATAGG-CCAAATATG
1 TGTCCCGA-AGGACCACATATA
* *
2903304 TGTCCCGAAGTACCGCATATA
1 TGTCCCGAAGGACCACATATA
* ** ** *
2903325 TGTTCTAAAGGATTACATACA
1 TGTCCCGAAGGACCACATATA
*
2903346 TGTCCCAAAGGACCACATA
1 TGTCCCGAAGGACCACATA
2903365 GAACCCTCGA
Statistics
Matches: 109, Mismatches: 32, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
20 2 0.02
21 69 0.63
22 10 0.09
23 28 0.26
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:2903252 original size:44 final size:44
Alignment explanation
Indices: 2903195--2903283 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
2903185 CATATAAAAT
* * *
2903195 TGTCCCGAAGGACCACGTAGAAATGTCCCGAAGGACCTCATATA
1 TGTCCCGAAGGACCACATAGAAATCTCCCGAAGGACCACATATA
* * **
2903239 TGTCCTGAAGGACCACATAGAATTCTCCTTAAGGACCACATATA
1 TGTCCCGAAGGACCACATAGAAATCTCCCGAAGGACCACATATA
2903283 T
1 T
2903284 ATTCCAATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (44 bp):
TGTCCCGAAGGACCACATAGAAATCTCCCGAAGGACCACATATA
Found at i:2918996 original size:21 final size:23
Alignment explanation
Indices: 2918967--2919014 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
2918957 TTGAAGAAAG
*
2918967 ATTTAGAAA-TCTC-AAAAATGAA
1 ATTTAGAAAGTATCGAAAAA-GAA
2918989 ATTT-GAAAGTATCGAAAAAGAA
1 ATTTAGAAAGTATCGAAAAAGAA
2919011 ATTT
1 ATTT
2919015 TCAATTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 14 0.61
23 5 0.22
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (23 bp):
ATTTAGAAAGTATCGAAAAAGAA
Found at i:2922889 original size:23 final size:23
Alignment explanation
Indices: 2922851--2922900 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
2922841 GGAATCGATA
2922851 CCCC-TTGAAGGGGAACCGATTC
1 CCCCTTTGAAGGGGAACCGATTC
* *
2922873 CCCCTTTGCAGGGGAACCGATTT
1 CCCCTTTGAAGGGGAACCGATTC
2922896 CCCCT
1 CCCCT
2922901 AGGGGAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.18, C:0.36, G:0.24, T:0.22
Consensus pattern (23 bp):
CCCCTTTGAAGGGGAACCGATTC
Found at i:2924089 original size:272 final size:272
Alignment explanation
Indices: 2923600--2924121 Score: 990
Period size: 272 Copynumber: 1.9 Consensus size: 272
2923590 AAATATGACC
2923600 ATTATGAACTCTTGTTTCAACGTACTTGGTTGTGGACAAGATCTATACCATATGTACCATACTTG
1 ATTATGAACTCTTGTTTCAACGTACTTGGTTGTGGACAAGATCTATACCATATGTACCATACTTG
* *
2923665 TTTTGAGTCATAAAAAATCTGGGAAGAGCGTATTCCTTCGATCCAAGCTATAGAAGATATGGACT
66 TTTTGAGTCATAAAAAATCTGGGAAGAGAGTATTCCTTCGATCCAAGCTATAGAACATATGGACT
*
2923730 TCCAATATCTTCATACTCTTAAATCCTAGAAGTTTGATAAATTCTTTAAACTCAAACCTTTGGTT
131 TCCAATATCTTCATACTCTTAAATCCTAGAAGTTTGATAAACTCTTTAAACTCAAACCTTTGGTT
2923795 TATCATCAATTAGTCCGCATTCTTCTATTCCAATGTGGTATGTGTCCAAGCTATAGAAGATATGC
196 TATCATCAATTAGTCCGCATTCTTCTATTCCAATGTGGTATGTGTCCAAGCTATAGAAGATATGC
2923860 GTATTAGTCCAT
261 GTATTAGTCCAT
2923872 ATTATGAACTCTTGTTTCAACGTACTTGGTTGTGGACAAGATCTATACCATATGTACCATACTTG
1 ATTATGAACTCTTGTTTCAACGTACTTGGTTGTGGACAAGATCTATACCATATGTACCATACTTG
* *
2923937 TTTTGAGTCATATAAAATCTGGGAAGAGAGTATTCCTTCGATCCAATCTATAGAACATATGGACT
66 TTTTGAGTCATAAAAAATCTGGGAAGAGAGTATTCCTTCGATCCAAGCTATAGAACATATGGACT
2924002 TCCAATATCTTCATACTCTTAAATCCTAGAAGTTTGATAAACTCTTTAAACTCAAACCTTTGGTT
131 TCCAATATCTTCATACTCTTAAATCCTAGAAGTTTGATAAACTCTTTAAACTCAAACCTTTGGTT
*
2924067 TATCATCAATTAGTCTGCATTCTTCTATTCCAATGTGGTATGTGTCCAAGCTATA
196 TATCATCAATTAGTCCGCATTCTTCTATTCCAATGTGGTATGTGTCCAAGCTATA
2924122 CAAAATCTGG
Statistics
Matches: 244, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
272 244 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (272 bp):
ATTATGAACTCTTGTTTCAACGTACTTGGTTGTGGACAAGATCTATACCATATGTACCATACTTG
TTTTGAGTCATAAAAAATCTGGGAAGAGAGTATTCCTTCGATCCAAGCTATAGAACATATGGACT
TCCAATATCTTCATACTCTTAAATCCTAGAAGTTTGATAAACTCTTTAAACTCAAACCTTTGGTT
TATCATCAATTAGTCCGCATTCTTCTATTCCAATGTGGTATGTGTCCAAGCTATAGAAGATATGC
GTATTAGTCCAT
Found at i:2924239 original size:173 final size:173
Alignment explanation
Indices: 2923950--2924288 Score: 615
Period size: 173 Copynumber: 2.0 Consensus size: 173
2923940 TGAGTCATAT
* *
2923950 AAAATCTGGGAAGAGAGTATTCCTTCGATCCAATCTATAGAACATATGGACTTCCAATATCTTCA
1 AAAATCTGGGAAGAGAGTATTCCTTCGATCCAAGCTATAGAACATATGGAATTCCAATATCTTCA
*
2924015 TACTCTTAAATCCTAGAAGTTTGATAAACTCTTTAAACTCAAACCTTTGGTTTATCATCAATTAG
66 TACTCTTAAATCCTAGAAATTTGATAAACTCTTTAAACTCAAACCTTTGGTTTATCATCAATTAG
2924080 TCTGCATTCTTCTATTCCAATGTGGTATGTGTCCAAGCTATAC
131 TCTGCATTCTTCTATTCCAATGTGGTATGTGTCCAAGCTATAC
* * *
2924123 AAAATCTGGGAAGAGCGTATTTCTTCGATCCAAGCTATAGAAGATATGGAATTCCAATATCTTCA
1 AAAATCTGGGAAGAGAGTATTCCTTCGATCCAAGCTATAGAACATATGGAATTCCAATATCTTCA
*
2924188 TACTCTTAAATCCTAGAAATTTGATAAACTCTTTAAACTCTAACCTTTGGTTTATCATCAATTAG
66 TACTCTTAAATCCTAGAAATTTGATAAACTCTTTAAACTCAAACCTTTGGTTTATCATCAATTAG
2924253 TCTGCATTCTTCTATTCCAATGTGGTATGTGTCCAA
131 TCTGCATTCTTCTATTCCAATGTGGTATGTGTCCAA
2924289 AACGAGCGTC
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 159 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (173 bp):
AAAATCTGGGAAGAGAGTATTCCTTCGATCCAAGCTATAGAACATATGGAATTCCAATATCTTCA
TACTCTTAAATCCTAGAAATTTGATAAACTCTTTAAACTCAAACCTTTGGTTTATCATCAATTAG
TCTGCATTCTTCTATTCCAATGTGGTATGTGTCCAAGCTATAC
Found at i:2927684 original size:13 final size:14
Alignment explanation
Indices: 2927668--2927697 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2927658 TTTTATTCTT
2927668 TTCTTTTT-TTTTC
1 TTCTTTTTGTTTTC
2927681 TTCTTTTTGTTTTC
1 TTCTTTTTGTTTTC
2927695 TTC
1 TTC
2927698 ATTTGAGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TTCTTTTTGTTTTC
Found at i:2931645 original size:18 final size:18
Alignment explanation
Indices: 2931622--2931668 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
2931612 TGTTCTCTCA
2931622 CTGTTGTTCATCTTGAAT
1 CTGTTGTTCATCTTGAAT
2931640 CTGTTGTTCATCTTGAAT
1 CTGTTGTTCATCTTGAAT
2931658 C-GCTTGTTCAT
1 CTG-TTGTTCAT
2931669 TCGAACTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 1 0.04
18 27 0.96
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.49
Consensus pattern (18 bp):
CTGTTGTTCATCTTGAAT
Found at i:2933220 original size:46 final size:47
Alignment explanation
Indices: 2933124--2933230 Score: 128
Period size: 46 Copynumber: 2.3 Consensus size: 47
2933114 AAATTAAGAT
* * * * *
2933124 CGAACCAACTCTAGTGTTCTTTTGTTATAGAGGAGTAGAGCAAATTA
1 CGAACCAACTCTAGCGTTCCTTTATTATAAAGGAGTAGAGCAAATAA
* *
2933171 CGAACCAACTCTA-CGTTCCTTTATTATAAAGGATTAGATCAAATAA
1 CGAACCAACTCTAGCGTTCCTTTATTATAAAGGAGTAGAGCAAATAA
2933217 CGAA-CAAGCTCTAG
1 CGAACCAA-CTCTAG
2933231 AATTCATTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
45 3 0.06
46 35 0.69
47 13 0.25
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (47 bp):
CGAACCAACTCTAGCGTTCCTTTATTATAAAGGAGTAGAGCAAATAA
Found at i:2933851 original size:41 final size:42
Alignment explanation
Indices: 2933786--2933871 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 42
2933776 GGAAAAAGTG
*
2933786 AAATGCAATCAAATAATCAATTATTGAA-CTAATTATACAAA
1 AAATGCAATCAAACAATCAATTATTGAACCTAATTATACAAA
* *
2933827 AAATGCAATCAAACAAT-AGGTTATTGAACCTAGTTATACAAA
1 AAATGCAATCAAACAATCA-ATTATTGAACCTAATTATACAAA
2933869 AAA
1 AAA
2933872 ATGAATTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
40 1 0.03
41 24 0.60
42 15 0.38
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (42 bp):
AAATGCAATCAAACAATCAATTATTGAACCTAATTATACAAA
Found at i:2935080 original size:29 final size:24
Alignment explanation
Indices: 2935021--2935078 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
2935011 ATTTTAGGTT
*
2935021 AAAAAACAAATTAAATCTAAACTA
1 AAAAAACAAATTAAATATAAACTA
2935045 AAAAAACAAATTAAATATAAACTA
1 AAAAAACAAATTAAATATAAACTA
2935069 AAAAAACAAA
1 AAAAAACAAA
2935079 ACTCTCTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAAAACAAATTAAATATAAACTA
Found at i:2935098 original size:6 final size:6
Alignment explanation
Indices: 2935089--2935113 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2935079 ACTCTCTCAA
2935089 CTCTCC CTCTCC CTCTCC CTCTCC C
1 CTCTCC CTCTCC CTCTCC CTCTCC C
2935114 CACTAAAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CTCTCC
Found at i:2935618 original size:14 final size:15
Alignment explanation
Indices: 2935599--2935627 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2935589 TAAACATTTC
2935599 ACTCTTTTTT-TTTT
1 ACTCTTTTTTGTTTT
2935613 ACTCTTTTTTGTTTT
1 ACTCTTTTTTGTTTT
2935628 GAAAATGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.07, C:0.14, G:0.03, T:0.76
Consensus pattern (15 bp):
ACTCTTTTTTGTTTT
Found at i:2935874 original size:4 final size:4
Alignment explanation
Indices: 2935865--2935891 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2935855 CCGTGTTACA
2935865 AAAC AAAC AAAC AAAC AAAC AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAA
2935892 AAAGGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:2936642 original size:63 final size:63
Alignment explanation
Indices: 2936548--2936675 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
2936538 AGGAGTAGAG
* *
2936548 CAAATCATGACCGAACTAGCTCTAGTGTTCTTTTGTTATGGAGGAATAGAGCAAATTACAAAT
1 CAAATCACGACCAAACTAGCTCTAGTGTTCTTTTGTTATGGAGGAATAGAGCAAATTACAAAT
*
2936611 CAAATCACGACCAAACTAGTTCTAGTGTTCTTTTGTTATGGAGGAATAGAGCAAATTACAAAT
1 CAAATCACGACCAAACTAGCTCTAGTGTTCTTTTGTTATGGAGGAATAGAGCAAATTACAAAT
2936674 CA
1 CA
2936676 TTTCTAACAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (63 bp):
CAAATCACGACCAAACTAGCTCTAGTGTTCTTTTGTTATGGAGGAATAGAGCAAATTACAAAT
Found at i:2937092 original size:47 final size:46
Alignment explanation
Indices: 2937031--2937157 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
2937021 ATCTCTAGCG
*
2937031 TTCCTTTATTATGGACGAGTAGAGCAAATTACAAATAAGCTCTAGA-A
1 TTCCTTTGTTATGGACGAGTAGAGCAAATTACAAAT-AGCTCTA-ATA
* * *
2937078 TTCCTTTGTTATGGATGAGTATAGCAAATTACGAACTAGCTCTAATA
1 TTCCTTTGTTATGGACGAGTAGAGCAAATTAC-AAATAGCTCTAATA
* *
2937125 TTCTTTTGTT-TCGGAGGAGTAGAGCAAATTACA
1 TTCCTTTGTTAT-GGACGAGTAGAGCAAATTACA
2937158 TTTGAGCCCC
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
46 3 0.04
47 64 0.91
48 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (46 bp):
TTCCTTTGTTATGGACGAGTAGAGCAAATTACAAATAGCTCTAATA
Found at i:2937252 original size:44 final size:44
Alignment explanation
Indices: 2937200--2937292 Score: 186
Period size: 44 Copynumber: 2.1 Consensus size: 44
2937190 TGGACCAAAT
2937200 TATTCTTTCATCTGGACAAAATTTGTCATTTTTGGTCTTTGCCC
1 TATTCTTTCATCTGGACAAAATTTGTCATTTTTGGTCTTTGCCC
2937244 TATTCTTTCATCTGGACAAAATTTGTCATTTTTGGTCTTTGCCC
1 TATTCTTTCATCTGGACAAAATTTGTCATTTTTGGTCTTTGCCC
2937288 TATTC
1 TATTC
2937293 CTGCTTTTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.48
Consensus pattern (44 bp):
TATTCTTTCATCTGGACAAAATTTGTCATTTTTGGTCTTTGCCC
Found at i:2938443 original size:51 final size:46
Alignment explanation
Indices: 2938330--2938464 Score: 126
Period size: 51 Copynumber: 2.8 Consensus size: 46
2938320 TTTGTTCCTG
* *
2938330 ATTTTCTCTATTCCTCCATAAAAGAAGGAATGCTAGAGCTAGTCTGTA
1 ATTTTCTCTACTCCTCCA-AAAA-AAGGAACGCTAGAGCTAGTCTGTA
* * * *
2938378 ATTTGCTATACTCCTCCAAAATATAGGAACGCTAGAGCTGGTTCGGTCGTA
1 ATTTTCTCTACTCCTCCAAAA-AAAGGAACGCTAGAGCTAG-TC--T-GTA
* *
2938429 ATTTTCTCTACTCCTCCATAACAAAGGAAGGCTAGA
1 ATTTTCTCTACTCCTCCA-AAAAAAGGAACGCTAGA
2938465 ATTGGTTAGT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
47 18 0.26
48 18 0.26
50 1 0.01
51 31 0.44
52 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (46 bp):
ATTTTCTCTACTCCTCCAAAAAAAGGAACGCTAGAGCTAGTCTGTA
Found at i:2938513 original size:98 final size:94
Alignment explanation
Indices: 2938330--2938556 Score: 215
Period size: 98 Copynumber: 2.4 Consensus size: 94
2938320 TTTGTTCCTG
* * * *
2938330 ATTTTCTCTATTCCTCCATAAAAGAAGGAATGCTAGAGCTAGTCTGTAATTTGCTATACTCCTCC
1 ATTTTCTCTACTCCTCCATAACA-AAGGAATGCTAGAACTAGTCTGTAATTTGATATACTCCTCC
* * *
2938395 AAAATATAGGAACGCTAGAGCTGGTTCGGTCGTA
65 AAAATAAAGGAACGCTAGAGCTAG-T---TCATA
* * * * *
2938429 ATTTTCTCTACTCCTCCATAACAAAGGAAGGCTAGAATTGGT-TAGTAATTTTATATATTCCTCC
1 ATTTTCTCTACTCCTCCATAACAAAGGAATGCTAGAACTAGTCT-GTAATTTGATATACTCCTCC
* **
2938493 ATAATAAAGGAA-TTTCAGAGCTAGTTCATA
65 AAAATAAAGGAACGCT-AGAGCTAGTTCATA
* * *
2938523 ATTTGCTCTACTCGTTCATAACAAAGGAATGCTA
1 ATTTTCTCTACTCCTCCATAACAAAGGAATGCTA
2938557 AAGTTGGCTT
Statistics
Matches: 107, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
94 34 0.32
97 3 0.03
98 49 0.46
99 21 0.20
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (94 bp):
ATTTTCTCTACTCCTCCATAACAAAGGAATGCTAGAACTAGTCTGTAATTTGATATACTCCTCCA
AAATAAAGGAACGCTAGAGCTAGTTCATA
Found at i:2938761 original size:104 final size:101
Alignment explanation
Indices: 2938599--2938886 Score: 287
Period size: 102 Copynumber: 2.8 Consensus size: 101
2938589 ATTTGAAGTG
* * *
2938599 ATGAAGATGTCTTGCCCTTTTAACCTGAGGCA-ATGAGATAGGTCTTGACCCTTCAAGTTAAGAA
1 ATGAAGATGTCTTGCCCTTTCAACCTGAGGCATAGGAGAT--GTCTTGCCCCTTCAAGTTAAGAA
* * ** * * *
2938663 AATTAAA-CTTTGATTGGACCTCTCTTTCGATTTAAAGCA
64 AA-TAAATCTTTGACTAGACCGATC-CTCCAATTAAAGCA
* *
2938702 ATGAAAGATGTCTTGCCCTTTCAACCTGAGGCACTAGGAGATGTCATGCCCCTTCAAGTTAAGAT
1 ATG-AAGATGTCTTGCCCTTTCAACCTGAGGCA-TAGGAGATGTCTTGCCCCTTCAAGTTAAGAA
* * **
2938767 AATAAATCTTTGACTAGATCGATCCTCCAATTGAAGTG
64 AATAAATCTTTGACTAGACCGATCCTCCAATTAAAGCA
* * **
2938805 ATGAAGATGTCTTGCCCTTTCAACCTCAGGCAGT-GAGAGATGTTTTGCCCCTTCAAGTTAAGGT
1 ATGAAGATGTCTTGCCCTTTCAACCTGAGGCA-TAG-GAGATGTCTTGCCCCTTCAAGTTAAGAA
2938869 AATAGAA-CTTTGACTAGA
64 AATA-AATCTTTGACTAGA
2938887 TCACTCATCT
Statistics
Matches: 158, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
101 1 0.01
102 69 0.44
103 20 0.13
104 62 0.39
106 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (101 bp):
ATGAAGATGTCTTGCCCTTTCAACCTGAGGCATAGGAGATGTCTTGCCCCTTCAAGTTAAGAAAA
TAAATCTTTGACTAGACCGATCCTCCAATTAAAGCA
Found at i:2938845 original size:102 final size:102
Alignment explanation
Indices: 2938588--2939031 Score: 398
Period size: 104 Copynumber: 4.3 Consensus size: 102
2938578 TTAGTCTTTT
* * * * *
2938588 GATTTGAAGTGATGAAGATGTCTTGCCCTTTTAACCTGAGGCAATGAGATAGGTCTTGACCCTTC
1 GATTTGAAGTGATGAAGATGTCTTGCCCTTTCAACCTCAGGCAATGAGAGATGTCTTGCCCCTTC
* * * * ** *
2938653 AAGTTAAGAAAATTA-AACTTTGATTGGACCTCTCTTTC
66 AAGTTAAGATAA-TAGAACTTTGACTAGATCGATC-ATC
* ** * * *
2938691 GATTTAAAGCAATGAAAGATGTCTTGCCCTTTCAACCTGAGGCACT-AGGAGATGTCATGCCCCT
1 GATTTGAAGTGATG-AAGATGTCTTGCCCTTTCAACCTCAGGCAATGA-GAGATGTCTTGCCCCT
*
2938755 TCAAGTTAAGATAATA-AATCTTTGACTAGATCGATCCTC
64 TCAAGTTAAGATAATAGAA-CTTTGACTAGATCGATCATC
* * * *
2938794 CAATTGAAGTGATGAAGATGTCTTGCCCTTTCAACCTCAGGCAGTGAGAGATGTTTTGCCCCTTC
1 GATTTGAAGTGATGAAGATGTCTTGCCCTTTCAACCTCAGGCAATGAGAGATGTCTTGCCCCTTC
*
2938859 AAGTTAAGGTAATAGAACTTTGACTAGATC-ACTCATC
66 AAGTTAAGATAATAGAACTTTGACTAGATCGA-TCATC
* * * *
2938896 TGATTTGAAGTGATAAAAGATGTCTTGCACTTTCAACC-CATGGCAATGATAGATGTCTTGCCCA
1 -GATTTGAAGTGAT-GAAGATGTCTTGCCCTTTCAACCTCA-GGCAATGAGAGATGTCTTGCCCC
* * * * *
2938960 TTCAACTTAAGGTAATATAAAC-TTGAATAGATCGCTCATTC
63 TTCAAGTTAAGATAATA-GAACTTTGACTAGATCGATCA-TC
* * *
2939001 -TTCTTGAAGTGATGAGATATATCTTGCCCTT
1 GAT-TTGAAGTGATGA-AGATGTCTTGCCCTT
2939032 CCAATATGAG
Statistics
Matches: 283, Mismatches: 44, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
101 1 0.00
102 75 0.27
103 45 0.16
104 157 0.55
105 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (102 bp):
GATTTGAAGTGATGAAGATGTCTTGCCCTTTCAACCTCAGGCAATGAGAGATGTCTTGCCCCTTC
AAGTTAAGATAATAGAACTTTGACTAGATCGATCATC
Found at i:2938952 original size:206 final size:206
Alignment explanation
Indices: 2938591--2938993 Score: 474
Period size: 206 Copynumber: 2.0 Consensus size: 206
2938581 GTCTTTTGAT
* * *
2938591 TTGAAGTGATGAAGATGTCTTGCCCTTTTAACCTGAGGCAATGAGATAGGTCTTGACCCTTCAAG
1 TTGAAGTGATGAAGATGTCTTGCCCTTTCAACCTCAGGCAATGAGAGAGGTCTTGACCCTTCAAG
* * * * * *
2938656 TTAAGAAAATTAAACTTTGATTGGACCTCTCTTTCGATTTAAAGCAATGAAAGATGTCTTGCCCT
66 TTAAGAAAATTAAACTTTGACTAGACCACTCTCTCGATTTAAAGCAATAAAAGATGTCTTGCACT
* * * * * *
2938721 TTCAACCTGAGGCACTAGGAGATGTCATGCCCCTTCAAGTTAAGATAATA-AATCTTTGACTAGA
131 TTCAACCTCAGGCAATAGGAGATGTCATGCCCATTCAACTTAAGATAATATAAAC-TTGAATAGA
2938785 TCGATCCTCCAA
195 TCGATCCTCCAA
* * * *
2938797 TTGAAGTGATGAAGATGTCTTGCCCTTTCAACCTCAGGCAGTGAGAGATGTTTTGCCCCTTCAAG
1 TTGAAGTGATGAAGATGTCTTGCCCTTTCAACCTCAGGCAATGAGAGAGGTCTTGACCCTTCAAG
** * * **
2938862 TTAAGGTAA-TAGAACTTTGACTAGATCACTCATCT-GATTTGAAGTGATAAAAGATGTCTTGCA
66 TTAAGAAAATTA-AACTTTGACTAGACCACTC-TCTCGATTTAAAGCAATAAAAGATGTCTTGCA
* * *
2938925 CTTTCAACC-CATGGCAAT-GATAGATGTCTTGCCCATTCAACTTAAGGTAATATAAACTTGAAT
129 CTTTCAACCTCA-GGCAATAG-GAGATGTCATGCCCATTCAACTTAAGATAATATAAACTTGAAT
2938988 AGATCG
192 AGATCG
2938994 CTCATTCTTC
Statistics
Matches: 164, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
205 4 0.02
206 155 0.95
207 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (206 bp):
TTGAAGTGATGAAGATGTCTTGCCCTTTCAACCTCAGGCAATGAGAGAGGTCTTGACCCTTCAAG
TTAAGAAAATTAAACTTTGACTAGACCACTCTCTCGATTTAAAGCAATAAAAGATGTCTTGCACT
TTCAACCTCAGGCAATAGGAGATGTCATGCCCATTCAACTTAAGATAATATAAACTTGAATAGAT
CGATCCTCCAA
Found at i:2943564 original size:99 final size:96
Alignment explanation
Indices: 2943386--2943664 Score: 251
Period size: 98 Copynumber: 2.8 Consensus size: 96
2943376 CCCGAAGGTC
* * * * *
2943386 TTAACAATTATTTCTTAACATCATGCCCTCAAGGTCTTACTGATGGCT-TGAAGGTCCTTTCATG
1 TTAACAATCATTTCTTAACATCATGCCCT-AAGGTCTTACTGATGTCTCAG-AGGT-CTTTTATT
* *
2943450 ATGCTTGAAAA-ACTTATTGATGG-TCTAAAAAACTT
63 ATGC-TCAAAAGACTTATTAATGGCTC-AAAAAAC-T
* * *
2943485 TTAACAATCATTTCTTAACATCATGCCCTATTGGTCTTATTGATGTCTCAGAGGTCTTTTGTTCA
1 TTAACAATCATTTCTTAACATCATGCCCTA-AGGTCTTACTGATGTCTCAGAGGTCTTTTATT-A
* **
2943550 TGCTCAAAAGACTTATTAATGGCTCGAAGGACT
64 TGCTCAAAAGACTTATTAATGGCTCAAAAAACT
* * * * *
2943583 TTAATAACCATTTCTTAAAATCATGCCCTAGAGATCTTACTGATGGT-TCAGAAGTCTTTTCATT
1 TTAACAATCATTTCTTAACATCATGCCCTA-AGGTCTTACTGAT-GTCTCAGAGGTCTTTT-ATT
* *
2943647 ACGCTCTAAAGACTTATT
63 ATGCTCAAAAGACTTATT
2943665 CGACCCAAAA
Statistics
Matches: 149, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
98 77 0.52
99 69 0.46
100 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (96 bp):
TTAACAATCATTTCTTAACATCATGCCCTAAGGTCTTACTGATGTCTCAGAGGTCTTTTATTATG
CTCAAAAGACTTATTAATGGCTCAAAAAACT
Found at i:2944497 original size:39 final size:39
Alignment explanation
Indices: 2944438--2944968 Score: 522
Period size: 39 Copynumber: 13.8 Consensus size: 39
2944428 GACAAATTCT
* * *
2944438 TGTTTCTAGGGAAACAAGTCTCAAGGGAGAAAAAATATG
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* *
2944477 TGTTTCAAGGAAAACGAGTCTCAAGGGAGA-AAAATTTG
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* ** *
2944515 TGTCTCAATTG--A--A-TCTCAAAGGAGACAAAATATG
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* * * * *
2944549 TCTTTCAAGGGAAACAAGTCTCAAGGGAAACAAAATCTA
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* * *
2944588 TGTCTCATGAGAAACGAGTCTCAAGGGAGACAAAATAT-
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* **
2944626 TTTTTTGAGGGAAACGAGTCTCAAGGGAGACAAAATATG
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
*
2944665 TGTTTCAAGGAAAAC-AGGTCTCAAGGGAGACAAAATATG
1 TGTTTCAAGGGAAACGA-GTCTCAAGGGAGACAAAATATG
* * * * * *
2944704 TGTTTAAAGGGAAATGAGTCTTAAGGGAGATAAAATCTT
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
** ** * * *
2944743 TGTTTCAAGATAAAAAAATCTCAAGAGATACAAAATATG
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* *
2944782 TGTCTCAAGGGAAATGAGTCTCAAGGGAGACAAAATATG
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* * *
2944821 TGTTTCAAGGGAAACGCGTCTCAATGGAAACAAAATATG
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* * * * *
2944860 TGTTTCAAGGGAAACAAGTCTCAAAGAAGACAAAATCTT
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* * ** *
2944899 TGTTT-AAAGGAAATGAGTCTCAAAAGAGACAAAATATA
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
* * *
2944937 TGTTTTAAGGGAAACAAATCTCAAGGGAGACA
1 TGTTTCAAGGGAAACGAGTCTCAAGGGAGACA
2944969 TGTTTTCAAG
Statistics
Matches: 395, Mismatches: 87, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
33 11 0.03
34 15 0.04
36 2 0.01
38 79 0.20
39 287 0.73
40 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.24
Consensus pattern (39 bp):
TGTTTCAAGGGAAACGAGTCTCAAGGGAGACAAAATATG
Found at i:2947176 original size:65 final size:64
Alignment explanation
Indices: 2947048--2947281 Score: 208
Period size: 64 Copynumber: 3.6 Consensus size: 64
2947038 TTTTAGAGTG
* * * * ** * *
2947048 ATGCACCGATGCACCA-ATCCATGCATCGATGCACCATGGAATAAATTG-AACATCTAATACATT
1 ATGCATCGATGCA-CATAT-CATGCATCGATGCACTAAGG-GTATTTTGAAACATCGAATGCATT
2947111 TC
63 TC
* *
2947113 ATGCATCGATACACATATCATGCATCGATGCACTTAGGGT-TTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACATATCATGCATCGATGCACTAAGGGTATTT-TG-AAACATCGAATGCATTT
*
2947177 G
64 C
** * * *
2947178 ATGCATCGATGCACCA-GCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCA-CATATCATGCATCGATGCACTAAGGGTATTTTGAAACATCGAATGCATTTC
* *
2947242 ATGCATCGATGCAC-TCTTAGTGCATCGATGCACTAAGGGT
1 ATGCATCGATGCACATATCA-TGCATCGATGCACTAAGGGT
2947282 CCAACAGTTA
Statistics
Matches: 139, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 67 0.48
65 61 0.44
66 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACATATCATGCATCGATGCACTAAGGGTATTTTGAAACATCGAATGCATTTC
Found at i:2947252 original size:64 final size:64
Alignment explanation
Indices: 2947048--2947255 Score: 217
Period size: 65 Copynumber: 3.2 Consensus size: 64
2947038 TTTTAGAGTG
* ** * *
2947048 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCTAATACATT
1 ATGCATCGATGCACCAA-CCATGCATCGATGCACTCA-GG-ATATTTTGAAACATCGAATGCATT
2947111 TC
63 TC
* * * *
2947113 ATGCATCGATACA-CATATCATGCATCGATGCACTTAGGGT-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACCA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCATT
*
2947176 TG
63 TC
* * *
2947178 ATGCATCGATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTT
1 ATGCATCGATGCACCAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTC
2947242 ATGCATCGATGCAC
1 ATGCATCGATGCAC
2947256 TCTTAGTGCA
Statistics
Matches: 120, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 50 0.42
65 61 0.51
66 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACCAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTC
Found at i:2947266 original size:64 final size:64
Alignment explanation
Indices: 2947096--2947275 Score: 190
Period size: 65 Copynumber: 2.8 Consensus size: 64
2947086 GAATAAATTG
* * * * * *
2947096 AACATCTAATACATTTCATGCATCGATACACATATCA-TGCATCGATGCACTTAGGGTTTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCAC-TCT-AGTGCATCGATGCACTCAGGCTTTTATGA
2947160 A
64 A
*
2947161 AACATCGAATGCATTTGATGCATCGATGCAC-C-AGCCATGCATCGATGCACTCAGGCTATTT-T
1 AACATCGAATGCATTTCATGCATCGATGCACTCTAG---TGCATCGATGCACTCAGGCT-TTTAT
2947223 G-A
62 GAA
*
2947225 AACATCGAATGCATTTTATGCATCGATGCACTCTTAGTGCATCGATGCACT
1 AACATCGAATGCATTTCATGCATCGATGCACTC-TAGTGCATCGATGCACT
2947276 AAGGGTCCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
61 1 0.01
64 45 0.45
65 48 0.48
66 3 0.03
67 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACTCTAGTGCATCGATGCACTCAGGCTTTTATGAA
Found at i:2947927 original size:73 final size:74
Alignment explanation
Indices: 2947827--2947981 Score: 231
Period size: 74 Copynumber: 2.1 Consensus size: 74
2947817 TTTTCCTCTT
* * * *
2947827 AAATAAAATGTTGGGGGGCCAAAATGCTAC-AAAAAGAGAATAAGAGTCAAACGTTGGGAGCTTT
1 AAATAAAATATTGGGGGACCAAAATGCTACAAAAAAGAGAATAAGAGTCAAACGTTAGGAACTTT
*
2947891 TTTACCTTA
66 TTTACCCTA
* * *
2947900 AAATGAAATATTGGGGGACCAAAATGCTCCAAAAAATAGAATAAGAGTCAAACGTTAGGAACTTT
1 AAATAAAATATTGGGGGACCAAAATGCTACAAAAAAGAGAATAAGAGTCAAACGTTAGGAACTTT
2947965 TTTACCCTA
66 TTTACCCTA
2947974 AAATAAAA
1 AAATAAAA
2947982 CGTTCAGAGT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 26 0.36
74 46 0.64
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (74 bp):
AAATAAAATATTGGGGGACCAAAATGCTACAAAAAAGAGAATAAGAGTCAAACGTTAGGAACTTT
TTTACCCTA
Found at i:2948088 original size:9 final size:9
Alignment explanation
Indices: 2948074--2948111 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
2948064 GGGGAAAACC
2948074 CACCAAAAA
1 CACCAAAAA
2948083 CACCAAAAA
1 CACCAAAAA
2948092 CACCAAAAA
1 CACCAAAAA
2948101 CACCAAAAA
1 CACCAAAAA
2948110 CA
1 CA
2948112 AAGTGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (9 bp):
CACCAAAAA
Found at i:2948644 original size:28 final size:28
Alignment explanation
Indices: 2948604--2948660 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
2948594 AAAATTACCA
*
2948604 AGTTTTGCATGCAACATTCACCCTTGTC
1 AGTTTTGCATGCAACACTCACCCTTGTC
2948632 AGTTTTGCATGCAACACTCACCCTTGTC
1 AGTTTTGCATGCAACACTCACCCTTGTC
2948660 A
1 A
2948661 ACATATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (28 bp):
AGTTTTGCATGCAACACTCACCCTTGTC
Found at i:2953579 original size:15 final size:15
Alignment explanation
Indices: 2953554--2953596 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
2953544 ATAAACGAAC
*
2953554 ACAATATCACAAGCT
1 ACAACATCACAAGCT
* *
2953569 ACATCATCACAAACT
1 ACAACATCACAAGCT
2953584 ACAACATCACAAG
1 ACAACATCACAAG
2953597 TTAATCCATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.30, G:0.05, T:0.16
Consensus pattern (15 bp):
ACAACATCACAAGCT
Found at i:2958614 original size:28 final size:28
Alignment explanation
Indices: 2958572--2958626 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2958562 TAATATGTTA
*
2958572 ACAAGGCTGAGTGTTGCATGCAAAACTG
1 ACAAGGCTGAATGTTGCATGCAAAACTG
*
2958600 ACAAGGGTGAATGTTGCATGCAAAACT
1 ACAAGGCTGAATGTTGCATGCAAAACT
2958627 TGGTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (28 bp):
ACAAGGCTGAATGTTGCATGCAAAACTG
Found at i:2959133 original size:9 final size:9
Alignment explanation
Indices: 2959119--2959147 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
2959109 TTTTACACTT
2959119 TGTTTTTGG
1 TGTTTTTGG
2959128 TGTTTTTGG
1 TGTTTTTGG
2959137 TGTTTTTGG
1 TGTTTTTGG
2959146 TG
1 TG
2959148 GGTTTTCCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (9 bp):
TGTTTTTGG
Found at i:2959323 original size:75 final size:74
Alignment explanation
Indices: 2959244--2959396 Score: 245
Period size: 75 Copynumber: 2.1 Consensus size: 74
2959234 TGAACGTTTT
* *
2959244 ATTTTAGGGTAAAAAAGCTCCTAACGTTTGACTCTTATTCTCTTTTTTAG-AGCATTTTGGTCCC
1 ATTTTAAGGTAAAAAAGCTCCTAACATTTGACTCTTATTCTCTTTTTT-GTAGCATTTTGG-CCC
2959308 CCCAACATTTC
64 CCCAACATTTC
*
2959319 ATTTTAAGGTAAAAAATCTCCTAACATTTGACTCTTATTCTCTTTTTTGTAGCATTTTGGCCCCC
1 ATTTTAAGGTAAAAAAGCTCCTAACATTTGACTCTTATTCTCTTTTTTGTAGCATTTTGGCCCCC
*
2959384 CAACATTTT
66 CAACATTTC
2959393 ATTT
1 ATTT
2959397 AAGAGGAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
74 18 0.25
75 55 0.75
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (74 bp):
ATTTTAAGGTAAAAAAGCTCCTAACATTTGACTCTTATTCTCTTTTTTGTAGCATTTTGGCCCCC
CAACATTTC
Found at i:2960480 original size:7 final size:7
Alignment explanation
Indices: 2960470--2960494 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2960460 CGAGTAAAAT
2960470 TTAAAGA
1 TTAAAGA
2960477 TTAAAGA
1 TTAAAGA
2960484 TTAAAGA
1 TTAAAGA
2960491 TTAA
1 TTAA
2960495 CAAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
TTAAAGA
Found at i:2960503 original size:15 final size:14
Alignment explanation
Indices: 2960464--2960503 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2960454 AATATTCGAG
*
2960464 TAAAATTTAAAGAT
1 TAAAAATTAAAGAT
*
2960478 TAAAGATTAAAGAT
1 TAAAAATTAAAGAT
2960492 TAACAAATTAAA
1 TAA-AAATTAAA
2960504 AGGCTTGTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (14 bp):
TAAAAATTAAAGAT
Found at i:2963089 original size:20 final size:20
Alignment explanation
Indices: 2963066--2963129 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
2963056 TAGTATTTAG
2963066 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
2963086 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
2963106 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
2963125 TTAAA
1 ATAAA
2963130 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:2963099 original size:19 final size:20
Alignment explanation
Indices: 2963075--2963124 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2963065 GATAAATTTA
*
2963075 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
2963094 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
2963115 TT-ATAATTTT
1 TTAATAATTTT
2963125 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:2963127 original size:31 final size:30
Alignment explanation
Indices: 2963038--2963128 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 30
2963028 AAAGTTCGAT
* *
2963038 AATTTAATAATTATTTTAT-AGTATTTAGATA
1 AATTTAATAA-TATTTTATAATTTTTTA-ATA
* *
2963069 AATTTATTAATAATTTTATAATCTTTTAATA
1 AATTTAATAAT-ATTTTATAATTTTTTAATA
2963100 AATTTAATAAGTATTTTATAATTTTTTAA
1 AATTTAATAA-TATTTTATAATTTTTTAA
2963129 ACTTTATTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.86
32 6 0.12
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
AATTTAATAATATTTTATAATTTTTTAATA
Found at i:2963997 original size:15 final size:15
Alignment explanation
Indices: 2963977--2964011 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
2963967 CCGTAGGACC
2963977 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2963992 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
2964007 ACTAC
1 ACTAC
2964012 AATACCCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:2964662 original size:35 final size:35
Alignment explanation
Indices: 2964616--2964685 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
2964606 TTTCATTTAG
2964616 GGGGAATCGATACCCCCCA-GGGGGAATCTGTTCCC
1 GGGGAATCGATA-CCCCCAGGGGGGAATCTGTTCCC
*
2964651 GGGGAATCGATACCCCCAGGGGGGCATCTGTTCCC
1 GGGGAATCGATACCCCCAGGGGGGAATCTGTTCCC
2964686 CCTGCACATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 6 0.18
35 27 0.82
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (35 bp):
GGGGAATCGATACCCCCAGGGGGGAATCTGTTCCC
Found at i:2972640 original size:31 final size:30
Alignment explanation
Indices: 2972605--2972691 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 30
2972595 TTAATAAAGT
*
2972605 TTAAAAAATTATAAAATACTTATTAAATTTC
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
2972636 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* * *
2972667 TTTAAATACTATAAAATAATTATTA
1 TTAAAAAATTATAAAAT-ATTATTA
2972692 TATTATCGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.02
31 44 0.94
32 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:2973149 original size:33 final size:33
Alignment explanation
Indices: 2973112--2973178 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
2973102 TCTTCTTCTT
*
2973112 TTTGAGTTAATTGCATCACATGTTCTTAAAGTA
1 TTTGAGTTAATTGCATCACATGTTCTCAAAGTA
2973145 TTTGAGTTAATTGCATCACATGTTCTCAAAGTA
1 TTTGAGTTAATTGCATCACATGTTCTCAAAGTA
2973178 T
1 T
2973179 GACTCTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (33 bp):
TTTGAGTTAATTGCATCACATGTTCTCAAAGTA
Found at i:2973277 original size:60 final size:60
Alignment explanation
Indices: 2973184--2973357 Score: 180
Period size: 60 Copynumber: 2.9 Consensus size: 60
2973174 AGTATGACTC
* * * *
2973184 TCATTTTAAATTAGTCACT-AAACTTTTAAATATTTCATTTTTA-TCCCTAAACTATG-TCT
1 TCATTTTAAATTAGTC-CTCAAACTTTTAAATATTTCAATTTCATTCCC-AAACTAAGATAT
*
2973243 ATCATTTTAAATTAGTCCTCAAACTTTTGAATATTTCAATTTCATTCCCAAACTAAGATAT
1 -TCATTTTAAATTAGTCCTCAAACTTTTAAATATTTCAATTTCATTCCCAAACTAAGATAT
* * *
2973304 TCATTCTAAATT-GATCCTCAAACTTTTTGTAA-ATTCCAATTTCA-TCCCAAACTA
1 TCATTTTAAATTAG-TCCTCAAAC-TTTT-AAATATTTCAATTTCATTCCCAAACTA
2973358 TACATATATA
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
59 3 0.03
60 74 0.74
61 21 0.21
62 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.43
Consensus pattern (60 bp):
TCATTTTAAATTAGTCCTCAAACTTTTAAATATTTCAATTTCATTCCCAAACTAAGATAT
Found at i:2973641 original size:60 final size:60
Alignment explanation
Indices: 2973481--2973645 Score: 190
Period size: 60 Copynumber: 2.8 Consensus size: 60
2973471 TGAACTTGGA
* * * * *
2973481 GATGAAATTGGAATATTCAAAAGTTTGGGGATTGATTTAGAAA-GAGGGTCATTGTTTAGG
1 GATGAAATTGGAATATTAAAAAGTTTAGAGATTGATTTA-AAATGAGAGTCATAGTTTAGG
* * * *
2973541 GATGAAATTAGAATATTTAAAAGTTTA-AGGATTAATTTAAAATGAGATTCATAGTTTAGG
1 GATGAAATTGGAATATTAAAAAGTTTAGA-GATTGATTTAAAATGAGAGTCATAGTTTAGG
* * *
2973601 GGTGAAATTGGAATATTAAAAAGTTTAGAGACTGAGTTAAAATGA
1 GATGAAATTGGAATATTAAAAAGTTTAGAGATTGATTTAAAATGA
2973646 AAGTTATAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
59 3 0.03
60 84 0.95
61 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.33
Consensus pattern (60 bp):
GATGAAATTGGAATATTAAAAAGTTTAGAGATTGATTTAAAATGAGAGTCATAGTTTAGG
Found at i:2973790 original size:41 final size:41
Alignment explanation
Indices: 2973733--2973815 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
2973723 TATGCAGCTC
2973733 ATCCTTTACTGCATCTATCGCAACAACAGCGAGGGCTACGG
1 ATCCTTTACTGCATCTATCGCAACAACAGCGAGGGCTACGG
2973774 ATCCTTTACTGCATCTATCGCAACAACAGCGAGGGCTACGG
1 ATCCTTTACTGCATCTATCGCAACAACAGCGAGGGCTACGG
2973815 A
1 A
2973816 GAAACAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
ATCCTTTACTGCATCTATCGCAACAACAGCGAGGGCTACGG
Found at i:2977179 original size:223 final size:217
Alignment explanation
Indices: 2976789--2977229 Score: 742
Period size: 223 Copynumber: 2.0 Consensus size: 217
2976779 CTCGTACAAA
* * *
2976789 ATTAGGGTATTACAATAAATATAATTTTAAGAATTTTAACAGGGCAATCTATGGAGTATGTAGGT
1 ATTAGGGTATTACAATAAATATAATTTTAAGAATTTTAACAGGACAATCTATAGAGCATGTAGGT
* *
2976854 AAAAGCTCTCAGCTAACACTTCGCATCTCTCTTAGTTTATGGGTTTCAATATCCATTGAAGGCAA
66 AAAAGCTCTCAGCTAACACCTCGCATCTCTCTTAGGTTATGGGTTTCAATATCCATTGAAGGCAA
2976919 AATTCCTCCCTTCTTTACGTAGAAATTTTTC-AAAAAAAAAAACAAAGAGTTTTAACAATGCGAC
131 AATTCCTCCCTTCTTTACGTAGAAATTTTTCAAAAAAAAAAAACAAAGAGTTTTAACAATGCGAC
2976983 CCAAGTAAAGAATGGCAACCTT
196 CCAAGTAAAGAATGGCAACCTT
*
2977005 ATTAGGGTATTACAGTAAATATAATTTTAAGAATTTTAACAGTGCAATCAACAATCTATAGAGCA
1 ATTAGGGTATTACAATAAATATAATTTTAAGAATTTTAACAG-G------ACAATCTATAGAGCA
2977070 TGTAGGTAAAAGCTCTCAGCTAACACCTCGCATCTCTCTTAGGTTATGGGTTTCAATATCCATTG
59 TGTAGGTAAAAGCTCTCAGCTAACACCTCGCATCTCTCTTAGGTTATGGGTTTCAATATCCATTG
2977135 AAGGCAAAATTCC-CCCTTCTTTACGTAGAAATTTTTCAAAAAAAAAAAAACAAAGAGTTTTAAC
124 AAGGCAAAATTCCTCCCTTCTTTACGTAGAAATTTTTC-AAAAAAAAAAAACAAAGAGTTTTAAC
2977199 AATGCGACCCAAGTAAAGAATGGCAACCTT
188 AATGCGACCCAAGTAAAGAATGGCAACCTT
2977229 A
1 A
2977230 AACGATATCA
Statistics
Matches: 210, Mismatches: 6, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
216 41 0.20
217 1 0.00
222 24 0.11
223 88 0.42
224 56 0.27
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (217 bp):
ATTAGGGTATTACAATAAATATAATTTTAAGAATTTTAACAGGACAATCTATAGAGCATGTAGGT
AAAAGCTCTCAGCTAACACCTCGCATCTCTCTTAGGTTATGGGTTTCAATATCCATTGAAGGCAA
AATTCCTCCCTTCTTTACGTAGAAATTTTTCAAAAAAAAAAAACAAAGAGTTTTAACAATGCGAC
CCAAGTAAAGAATGGCAACCTT
Found at i:2980099 original size:37 final size:37
Alignment explanation
Indices: 2980046--2980150 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
2980036 ACTTTTCGTC
2980046 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
* * *
2980083 TTGCTAGGATTCAAACTCCTAAAAATAGGATATAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
** * *
2980120 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2980151 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
Found at i:2980781 original size:25 final size:26
Alignment explanation
Indices: 2980753--2980814 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
2980743 TTTTAGTTAA
2980753 TATTATATGTATAT-TTATTT-TCATT
1 TATTATAT-TATATGTTATTTATCATT
* *
2980778 TATTATTTTAT-TGTTATTTATTATT
1 TATTATATTATATGTTATTTATCATT
2980803 TATTATATTATA
1 TATTATATTATA
2980815 CATACATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 1 0.03
24 9 0.29
25 21 0.68
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (26 bp):
TATTATATTATATGTTATTTATCATT
Found at i:2980784 original size:28 final size:30
Alignment explanation
Indices: 2980753--2980813 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
2980743 TTTTAGTTAA
2980753 TATTATA-TGTATATTTATT-TTCATT-TAT
1 TATTATATTGT-TATTTATTATTCATTATAT
* *
2980781 TATTTTATTGTTATTTATTATTTATTATAT
1 TATTATATTGTTATTTATTATTCATTATAT
2980811 TAT
1 TAT
2980814 ACATACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.50
29 8 0.29
30 6 0.21
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (30 bp):
TATTATATTGTTATTTATTATTCATTATAT
Found at i:2980789 original size:18 final size:18
Alignment explanation
Indices: 2980766--2980803 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2980756 TATATGTATA
2980766 TTTATT-TTCATTTATTAT
1 TTTATTGTT-ATTTATTAT
2980784 TTTATTGTTATTTATTAT
1 TTTATTGTTATTTATTAT
2980802 TT
1 TT
2980804 ATTATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTGTTATTTATTAT
Found at i:2980854 original size:30 final size:28
Alignment explanation
Indices: 2980820--2980887 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
2980810 TTATACATAC
2980820 ATTTTTA-TATTTTATATATATA-TATATATT
1 ATTTTTATTATTTT-T-TAT-TACTAT-TATT
2980850 A-TTTTATTATTTTTTATTACTATTATT
1 ATTTTTATTATTTTTTATTACTATTATT
*
2980877 ATTTTCATTAT
1 ATTTTTATTAT
2980888 GTTTAGTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 7 0.21
28 14 0.41
29 6 0.18
30 7 0.21
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (28 bp):
ATTTTTATTATTTTTTATTACTATTATT
Done.