Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 384 of 444
Found at i:111249351 original size:37 final size:37
Alignment explanation
Indices: 111249277--111249479 Score: 167
Period size: 37 Copynumber: 5.5 Consensus size: 37
111249267 ACCCTTCAAC
* * *
111249277 CCTTCAACCCTTCAAACTCCTTACTTTC-TTCTAAATT
1 CCTTCAACCCTTCAAGCTCCCTACTTTCTTTC-CAATT
111249314 CCTTCAACCCTTCAAGCTCCCTACTTTCTTTCCAATT
1 CCTTCAACCCTTCAAGCTCCCTACTTTCTTTCCAATT
* * * * **
111249351 CATTCAACTCTTTAAGATCCCTA-TGTTCTTTCCTCTT
1 CCTTCAACCCTTCAAGCTCCCTACT-TTCTTTCCAATT
* * * * **
111249388 GCTTCAACCCTTCAAACTCTCTACTTTCTTCCCTCTT
1 CCTTCAACCCTTCAAGCTCCCTACTTTCTTTCCAATT
* ** * *
111249425 CCTTCAACCCTTTAAGCTTTCTACTTTCTTCCCAACT
1 CCTTCAACCCTTCAAGCTCCCTACTTTCTTTCCAATT
* * *
111249462 CCATCAACCATTCGAGCT
1 CCTTCAACCCTTCAAGCT
111249480 TCTTAGTTTA
Statistics
Matches: 135, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
36 1 0.01
37 130 0.96
38 4 0.03
ACGTcount: A:0.20, C:0.37, G:0.03, T:0.39
Consensus pattern (37 bp):
CCTTCAACCCTTCAAGCTCCCTACTTTCTTTCCAATT
Found at i:111250617 original size:37 final size:38
Alignment explanation
Indices: 111250567--111250913 Score: 282
Period size: 37 Copynumber: 9.4 Consensus size: 38
111250557 AATCGCACGC
* *
111250567 CTTCCTTCAACCCTTCAAGCTCCCCACGTTT-TTCCCT
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
* * *
111250604 CTTCCTTCAACCCTTCAAGCTCCCTA-TTTTCTTCTCA
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
* * * * * *
111250641 GTTCCTTTAACACTTCAAGCTCCCTATA-ATCTTTCCT
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
* * * * *
111250678 TTTCCTTCAACCCTTCAAGCTCCTTACA-ATCTTTCAT
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
* * * * *
111250715 TTTCCTTCAATCCTTGAAGCTCTCTAC-TTTCTTCCCA
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
* * * *
111250752 ATTCATTCAACCCTTGAAGATCCCTACA-TTCTTCCCT
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
* *
111250789 CTTGCTTCAACCCTTCAAACTCCCTAC-TTTCTTCCC-
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
* * * * * *
111250825 ATTCCTTCAACCCTTCGATCTTCCTA-ATTTATTCCCG
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
* * * * *
111250862 GTTCCTTCAACCTTTCAAGGTCCTTAC-TTTCTTACCT
1 CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
111250899 CTTCCTTCAACCCTT
1 CTTCCTTCAACCCTT
111250914 ATCATCCCAT
Statistics
Matches: 246, Mismatches: 56, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
36 32 0.13
37 214 0.87
ACGTcount: A:0.18, C:0.38, G:0.05, T:0.39
Consensus pattern (38 bp):
CTTCCTTCAACCCTTCAAGCTCCCTACATTTCTTCCCT
Found at i:111252155 original size:37 final size:37
Alignment explanation
Indices: 111252054--111252190 Score: 106
Period size: 37 Copynumber: 3.7 Consensus size: 37
111252044 AGCTCCCTGT
* * *
111252054 TTTCTTCCCAT-TTCATTCAACCATT-AAAGATCCCTA-
1 TTTCTTCCC-TCTTCCTTCAACCTTTCAAA-TTCCCTAC
*
111252090 TGTTCTTCCCTCTTGCTTCAA-CTCTTCAAATTCCCTAC
1 T-TTCTTCCCTCTTCCTTCAACCT-TTCAAATTCCCTAC
*
111252128 TTTCTTCCCTCTTCCTTCAACCTTTCAAGCTT--CTGAC
1 TTTCTTCCCTCTTCCTTCAACCTTTCAA-ATTCCCT-AC
** *
111252165 TTTCTTCCCGATTCCTTCAACTTTTC
1 TTTCTTCCCTCTTCCTTCAACCTTTC
111252191 GAGCTTCTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
36 5 0.06
37 71 0.85
38 8 0.10
ACGTcount: A:0.18, C:0.35, G:0.04, T:0.43
Consensus pattern (37 bp):
TTTCTTCCCTCTTCCTTCAACCTTTCAAATTCCCTAC
Found at i:111252258 original size:37 final size:36
Alignment explanation
Indices: 111252092--111252259 Score: 131
Period size: 37 Copynumber: 4.6 Consensus size: 36
111252082 GATCCCTATG
* * **
111252092 TTCTTCCCTCTTGCTTCAACTCTTCAAATTCCCTACT
1 TTCTTCCCTCTTCCTTCAACTTTTCAAGCT-CCTACT
* *
111252129 TTCTTCCCTCTTCCTTCAACCTTTCAAGCTTCTGACT
1 TTCTTCCCTCTTCCTTCAACTTTTCAAGCTCCT-ACT
** * * *
111252166 TTCTTCCCGATTCCTTCAACTTTTCGAGCTTCTTAGT
1 TTCTTCCCTCTTCCTTCAACTTTTCAAGC-TCCTACT
* * * *
111252203 TTATT-CCTGATTCTTTCAACTTTTTAAGCTCCATACT
1 TTCTTCCCT-CTTCCTTCAACTTTTCAAGCTCC-TACT
* *
111252240 TTCTTCCTTCTTGCTTCAAC
1 TTCTTCCCTCTTCCTTCAAC
111252260 CCTCATCATA
Statistics
Matches: 101, Mismatches: 25, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
36 6 0.06
37 91 0.90
38 4 0.04
ACGTcount: A:0.15, C:0.33, G:0.06, T:0.46
Consensus pattern (36 bp):
TTCTTCCCTCTTCCTTCAACTTTTCAAGCTCCTACT
Found at i:111264228 original size:37 final size:37
Alignment explanation
Indices: 111264168--111264246 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
111264158 ATTCATTCAA
* * *
111264168 CCTACAATCTTCTGTTTTCCTTCAACCCTTGAAGCTC
1 CCTACAATCTTCTATTTTCCTTCAACCATTGAACCTC
* * *
111264205 CCTACAGTCTTCTATTTTTCTTCAACTATTGAACCTC
1 CCTACAATCTTCTATTTTCCTTCAACCATTGAACCTC
111264242 CCTAC
1 CCTAC
111264247 TTTCTTACCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.20, C:0.34, G:0.06, T:0.39
Consensus pattern (37 bp):
CCTACAATCTTCTATTTTCCTTCAACCATTGAACCTC
Found at i:111264386 original size:37 final size:36
Alignment explanation
Indices: 111264313--111264399 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 36
111264303 CCTTTTCTTC
*
111264313 AACCCTTCAAGCTTACTACTTTCTTTCTGATCCCTTT
1 AACCCTTCAAGCTTACTAC-GTCTTTCTGATCCCTTT
111264350 AACCCTTCAAGCTTACTA-GTCTATTCTTGAAT-CCTTT
1 AACCCTTCAAGCTTACTACGTCT-TTC-TG-ATCCCTTT
* *
111264387 AACTCTTTAAGCT
1 AACCCTTCAAGCT
111264400 CCGTACTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 36 0.82
38 2 0.05
ACGTcount: A:0.23, C:0.29, G:0.07, T:0.41
Consensus pattern (36 bp):
AACCCTTCAAGCTTACTACGTCTTTCTGATCCCTTT
Found at i:111269733 original size:4 final size:5
Alignment explanation
Indices: 111269704--111269814 Score: 73
Period size: 5 Copynumber: 20.6 Consensus size: 5
111269694 TACCCTTTTC
* *
111269704 TTTAT TTTGT TTTAT TTTAT TTTA- TTTAT TATCAT TATTATT TGTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT T-TTA-T T-TTAT
* * *
111269752 ATT-G TTTATT TTTAT TGTACTAA TTTAT TTTATT TTTAT TTTAT TTTAT
1 TTTAT TTTA-T TTTAT T-T--TAT TTTAT TTTA-T TTTAT TTTAT TTTAT
111269801 TTTAT TATTAT TTT
1 TTTAT T-TTAT TTT
111269815 TTATTACTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 20
0.73 0.09 0.17
Matches are distributed among these distances:
4 6 0.07
5 47 0.55
6 23 0.27
7 6 0.07
8 3 0.04
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:111269955 original size:5 final size:6
Alignment explanation
Indices: 111269941--111269988 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
111269931 AGTTTATTTC
* *
111269941 TTTTAT TTTTAT TTTTAT TTTTGT TTGTAGT TGCTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T T--TTTAT TTTTAT TTT
111269989 ATTAGACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 28 0.80
7 2 0.06
8 2 0.06
9 3 0.09
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:111270039 original size:6 final size:6
Alignment explanation
Indices: 111270028--111270057 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
111270018 AACTATGTTA
*
111270028 TTATTT TTATTT TTATTT TTATGT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
111270058 CTAATTGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:111272411 original size:50 final size:49
Alignment explanation
Indices: 111272290--111272465 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
111272280 TGAGGTCGCA
*** * *
111272290 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC--AGACTGTAGGTCACG
* **
111272341 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGGTCACG
* * *
111272391 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
*
111272440 TGTGTAGTACTAAGTGCAGGTTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
111272466 TGCTACCAGA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 30 0.28
50 42 0.39
51 31 0.29
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
Found at i:111274266 original size:15 final size:15
Alignment explanation
Indices: 111274246--111274275 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
111274236 CACCCTTAAC
111274246 CTAAGCCACATTACA
1 CTAAGCCACATTACA
111274261 CTAAGCCACATTACA
1 CTAAGCCACATTACA
111274276 ACCTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
CTAAGCCACATTACA
Found at i:111275659 original size:26 final size:26
Alignment explanation
Indices: 111275595--111275701 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
111275585 TGGTACAAAT
111275595 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
111275620 TAATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111275646 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
111275672 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111275698 TGAT
1 TGAT
111275702 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 20 0.27
26 54 0.73
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:111281762 original size:37 final size:36
Alignment explanation
Indices: 111281720--111281849 Score: 111
Period size: 37 Copynumber: 3.5 Consensus size: 36
111281710 CGTTCTTTCA
* *
111281720 TCTTCCATCTTCCTTCAACCCTTCAAGCTTCCTACTT
1 TCTTCCATATTCCTTCAACCCTTTAAGC-TCCTACTT
* *
111281757 TCTTCCCA-ATTCCTTCAACCCTTTGAGCCTCCTAGTT
1 TCTT-CCATATTCCTTCAACCCTTTAAG-CTCCTACTT
* * * *
111281794 TATTCC-TGATTCTTTTAACTCTTTAAGCTCCATACTT
1 TCTTCCAT-ATTCCTTCAACCCTTTAAGCTCC-TACTT
* *
111281831 TCTTCCCTCTTCCTTCAAC
1 TCTTCCATATTCCTTCAAC
111281850 TCTCCTCATC
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
36 6 0.08
37 62 0.85
38 5 0.07
ACGTcount: A:0.17, C:0.36, G:0.05, T:0.42
Consensus pattern (36 bp):
TCTTCCATATTCCTTCAACCCTTTAAGCTCCTACTT
Found at i:111282955 original size:37 final size:37
Alignment explanation
Indices: 111282914--111283023 Score: 127
Period size: 37 Copynumber: 3.0 Consensus size: 37
111282904 ACTCCATATT
111282914 TTCTTCT-CGCTTCCTTCAACCCTTCAAGCTCTCTACG
1 TTCTTCTGC-CTTCCTTCAACCCTTCAAGCTCTCTACG
* * * *
111282951 TTCTTCAGTCTTCCTTCAACCGTCCAAGCTC-CGTACG
1 TTCTTCTGCCTTCCTTCAACCCTTCAAGCTCTC-TACG
*
111282988 TTCTTCTGCCTTCCTTCAACACTTCAAAG-TCTCTAC
1 TTCTTCTGCCTTCCTTCAACCCTTC-AAGCTCTCTAC
111283024 TTTATTCCCG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
36 1 0.02
37 55 0.92
38 4 0.07
ACGTcount: A:0.16, C:0.38, G:0.09, T:0.36
Consensus pattern (37 bp):
TTCTTCTGCCTTCCTTCAACCCTTCAAGCTCTCTACG
Found at i:111287294 original size:16 final size:17
Alignment explanation
Indices: 111287275--111287306 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
111287265 CTTTTATCTT
111287275 TATTCATGA-TGAATTA
1 TATTCATGATTGAATTA
111287291 TATTCATGATTGAATT
1 TATTCATGATTGAATT
111287307 CAATTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TATTCATGATTGAATTA
Found at i:111304019 original size:20 final size:20
Alignment explanation
Indices: 111303996--111304043 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
111303986 GAAAAAAATC
111303996 AAATTCA-AATTAAAATATTG
1 AAATTCAGAA-TAAAATATTG
* *
111304016 AAATTCAGGATAAAATCTTG
1 AAATTCAGAATAAAATATTG
111304036 AAATTCAG
1 AAATTCAG
111304044 GGTAAGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATTCAGAATAAAATATTG
Found at i:111304044 original size:20 final size:20
Alignment explanation
Indices: 111304006--111304058 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
111303996 AAATTCAAAT
111304006 TAAAATATTGAAATTCAGGA
1 TAAAATATTGAAATTCAGGA
* *
111304026 TAAAATCTTGAAATTCAGGG
1 TAAAATATTGAAATTCAGGA
*
111304046 TAAGAATACTGAA
1 TAA-AATATTGAA
111304059 GTGGCATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (20 bp):
TAAAATATTGAAATTCAGGA
Found at i:111305022 original size:32 final size:32
Alignment explanation
Indices: 111304986--111305050 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
111304976 CTATATCTAA
*
111304986 TTAGACTA-TTATCTAAATATTTTCATAAAAGT
1 TTAGAC-AGTTATCTAAATACTTTCATAAAAGT
*
111305018 TTAGACAGTTATCTAAATACTTTCATTAAAGT
1 TTAGACAGTTATCTAAATACTTTCATAAAAGT
111305050 T
1 T
111305051 GATCTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (32 bp):
TTAGACAGTTATCTAAATACTTTCATAAAAGT
Found at i:111308859 original size:31 final size:30
Alignment explanation
Indices: 111308824--111308910 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 30
111308814 TGTATGATTA
111308824 AATCAAAATTAAAGTTTCAAGTATACATTTG
1 AATCAAAATTAAAGTTTCAAGTATACA-TTG
* *
111308855 AATCACAATTAGAGTTTCACATGTATA-ATTG
1 AATCAAAATTAAAGTTTCA-A-GTATACATTG
* * *
111308886 CA-CCAAATTAAAGTTT-ATGTATACA
1 AATCAAAATTAAAGTTTCAAGTATACA
111308911 GTTGCACATT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
27 5 0.11
28 1 0.02
29 1 0.02
30 11 0.24
31 21 0.46
32 2 0.04
33 5 0.11
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (30 bp):
AATCAAAATTAAAGTTTCAAGTATACATTG
Found at i:111310137 original size:28 final size:28
Alignment explanation
Indices: 111310105--111310158 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
111310095 GTTTTTAGTA
*
111310105 AATTTTATATTTTTAAGTTCGTTTTAAC
1 AATTTTATATTGTTAAGTTCGTTTTAAC
*
111310133 AATTTTATATTGTTGAGTTCGTTTTA
1 AATTTTATATTGTTAAGTTCGTTTTA
111310159 GTTTAATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (28 bp):
AATTTTATATTGTTAAGTTCGTTTTAAC
Found at i:111312193 original size:41 final size:41
Alignment explanation
Indices: 111312148--111312253 Score: 153
Period size: 40 Copynumber: 2.6 Consensus size: 41
111312138 GACTAATCAG
111312148 CTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGA
* *
111312189 CTATATATGGCACTTAGTGTGCGA-TTTGAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGA
* *
111312229 CTATGA-ACGGCACTTTGTGTGCGAG
1 CTAT-ATATGGCACTTAGTGTGCGAG
111312254 GTATCAAGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 34 0.58
41 25 0.42
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (41 bp):
CTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGA
Found at i:111321907 original size:9 final size:9
Alignment explanation
Indices: 111321893--111321917 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
111321883 TTATTATGAG
111321893 TTTAAAAGA
1 TTTAAAAGA
111321902 TTTAAAAGA
1 TTTAAAAGA
111321911 TTTAAAA
1 TTTAAAA
111321918 TCTTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (9 bp):
TTTAAAAGA
Found at i:111323784 original size:20 final size:20
Alignment explanation
Indices: 111323742--111323785 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
111323732 ACCTTTTCAA
* *
111323742 ATTTTCTTATTTTCATTTTC
1 ATTTTATTATTTTCATTTGC
111323762 ATTTTATTATTTTC-TATTGC
1 ATTTTATTATTTTCAT-TTGC
111323782 ATTT
1 ATTT
111323786 ACTCTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTTTATTATTTTCATTTGC
Found at i:111327231 original size:49 final size:49
Alignment explanation
Indices: 111327150--111327309 Score: 252
Period size: 49 Copynumber: 3.3 Consensus size: 49
111327140 GCCCTTCGGA
* * * * *
111327150 CTTATCACAT-T-TATACACTTCCACATCCATCACGTCGGCCACTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
111327197 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
111327246 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
111327295 CTTATCACATATATA
1 CTTATCACATATATA
111327310 TATCTCATAC
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 10 0.10
48 1 0.01
49 94 0.90
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:111330049 original size:40 final size:41
Alignment explanation
Indices: 111330000--111330105 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
111329990 GACTCGCTCG
* * *
111330000 ATTGTCTTCGGGACATAGCCCGG-TTATAGTGA-TTCGCACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTCACTTAGCACA
*
111330040 ATTGCCTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACA
1 ATTGCCTTCGGGACATAG-CCCGGATTTAGTCACTTAGCACA
** *
111330081 AAAGCCTTCGGGACTTAGCCCGGAT
1 ATTGCCTTCGGGACATAGCCCGGAT
111330106 ACCATTTGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.06
40 22 0.41
41 27 0.50
42 2 0.04
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (41 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTCACTTAGCACA
Found at i:111330897 original size:40 final size:40
Alignment explanation
Indices: 111330848--111331117 Score: 481
Period size: 40 Copynumber: 6.8 Consensus size: 40
111330838 CCAGCATGAT
* * *
111330848 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
111330888 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
111330928 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
111330968 TGCTCTTC-GAACTTAGT-CGGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
111331006 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
111331046 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
111331086 TGCTCTTCGGAACTTAGTCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
111331118 CTCAATTCTC
Statistics
Matches: 221, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 28 0.13
39 18 0.08
40 175 0.79
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:111331002 original size:118 final size:120
Alignment explanation
Indices: 111330848--111331117 Score: 481
Period size: 118 Copynumber: 2.3 Consensus size: 120
111330838 CCAGCATGAT
* * *
111330848 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
111330913 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
111330968 TGCTCTTC-GAACTTAGT-CGGATACGTCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
*
111331031 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
111331086 TGCTCTTCGGAACTTAGTCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
111331118 CTCAATTCTC
Statistics
Matches: 142, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
118 107 0.75
119 15 0.11
120 20 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:111333297 original size:49 final size:49
Alignment explanation
Indices: 111333216--111333424 Score: 350
Period size: 49 Copynumber: 4.3 Consensus size: 49
111333206 CCCTTCGGGA
* * * * * *
111333216 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
111333263 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
111333312 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
111333361 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
111333410 CTTATCACATATATA
1 CTTATCACATATATA
111333425 TATCTCATAC
Statistics
Matches: 154, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 10 0.06
48 1 0.01
49 143 0.93
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:111345230 original size:49 final size:48
Alignment explanation
Indices: 111345088--111345232 Score: 130
Period size: 49 Copynumber: 2.9 Consensus size: 48
111345078 GTACATGTAT
* * * * **
111345088 GCTCATGTGAGCTATGAATTGGTATGCTCTCACGAGTAGTAAATCGATAA
1 GCTCATATAAGCTAAGAATTGGTAAGCTCTCACGAGTA--AAATCGGCAA
* * * *
111345138 GCTCATATAAGCTAAGAATCGGTAAACTCTCACAAGATGAAATCGGCAA
1 GCTCATATAAGCTAAGAATTGGTAAGCTCTCACGAG-TAAAATCGGCAA
* *
111345187 GCTCAT-TCGAGCTGAGAATTGGTAAGCTCTCACGAGTTAAAATCGG
1 GCTCATAT-AAGCTAAGAATTGGTAAGCTCTCACGAG-TAAAATCGG
111345233 TAATCCCTAA
Statistics
Matches: 76, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 45 0.59
50 29 0.38
51 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (48 bp):
GCTCATATAAGCTAAGAATTGGTAAGCTCTCACGAGTAAAATCGGCAA
Found at i:111349170 original size:23 final size:22
Alignment explanation
Indices: 111349142--111349202 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
111349132 GGTACTTATG
111349142 TTTTTTCCATTACTTTTTTTCTT
1 TTTTTTCCATTACTTTTTTT-TT
*** *
111349165 TTTTTTGGTTTTCTTTTTTTTT
1 TTTTTTCCATTACTTTTTTTTT
111349187 TTTCTTTCCATTACTT
1 TTT-TTTCCATTACTT
111349203 GAGTTCTTCA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.07, C:0.15, G:0.03, T:0.75
Consensus pattern (22 bp):
TTTTTTCCATTACTTTTTTTTT
Found at i:111349176 original size:15 final size:13
Alignment explanation
Indices: 111349155--111349193 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 13
111349145 TTTCCATTAC
111349155 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
111349168 TTTGGTTTTCTTTTT
1 TTT--TTTTCTTTTT
111349183 TTTTTTTCTTT
1 TTTTTTTCTTT
111349194 CCATTACTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:111353821 original size:103 final size:103
Alignment explanation
Indices: 111353688--111353901 Score: 401
Period size: 103 Copynumber: 2.1 Consensus size: 103
111353678 ATACAATATT
*
111353688 TCGAAACCTCAACACAGGATCATCTCAAGATTTCCAAAACACATGCACTTAAAACTTTTAAAAAG
1 TCGAAACCTCAACACAAGATCATCTCAAGATTTCCAAAACACATGCACTTAAAACTTTTAAAAAG
*
111353753 GATATTTGGCTATTCGGCCCTTCGGCCCAAATGGTAAA
66 GATATTTGGCTATTCGGCCCTTCGGCCCAAACGGTAAA
*
111353791 TCGAAACCTCGACACAAGATCATCTCAAGATTTCCAAAACACATGCACTTAAAACTTTTAAAAAG
1 TCGAAACCTCAACACAAGATCATCTCAAGATTTCCAAAACACATGCACTTAAAACTTTTAAAAAG
111353856 GATATTTGGCTATTCGGCCCTTCGGCCCAAACGGTAAA
66 GATATTTGGCTATTCGGCCCTTCGGCCCAAACGGTAAA
111353894 TCGAAACC
1 TCGAAACC
111353902 CAGCACGATT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (103 bp):
TCGAAACCTCAACACAAGATCATCTCAAGATTTCCAAAACACATGCACTTAAAACTTTTAAAAAG
GATATTTGGCTATTCGGCCCTTCGGCCCAAACGGTAAA
Found at i:111354210 original size:127 final size:125
Alignment explanation
Indices: 111353891--111354451 Score: 595
Period size: 127 Copynumber: 4.4 Consensus size: 125
111353881 CCCAAACGGT
* ** * * * *
111353891 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATT
* * * ** * * * *
111353956 TTAATTTGAGAAAACATGGATGAAATGTCGGAAGGATATTCCGTATCTTAGCCGAATAAA
66 TTATTTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAA
* * * * *
111354016 AAAACGAAACCCAGCACAATTGGGCACGA-TCTCTCAAACTTCCAAACACGGAATATTGCATCAT
1 AAATCGAAACCCAGCACGATTGGGCACGACT-TCCCAAACTTCCAAACACGAAATATTGCCTCAT
* * *
111354080 TTTAGTTTAAGAAAACATGGATGAAATTTCAAAAAAGATATTCCATATTTTAGTCGAATGGA
65 TTTATTTTAAGAAAACATGGATGAAATTTC-AAAAGGATATTCCATATTTTAGTCGAATGAA
* * * * *
111354142 AAATTGAAGCCCAGCGCGATTGGGCAGGACTTCCCAAAACTTCCAAACACGAAATATTGCCTCGT
1 AAATCGAAACCCAGCACGATTGGGCACGACTTCCC-AAACTTCCAAACACGAAATATTGCCTCAT
** * * *
111354207 TTTATTTTAAGAAAATGTGGATAAAATTTCAAAAAGGATATTTCATATTTTTAGTCGAATGGA
65 TTTATTTTAAGAAAACATGGATGAAATTTC-AAAAGGATATTCCATA-TTTTAGTCGAATGAA
* ** * * *
111354270 AAATTGAAACCCAATACGATTGGGTACGACTTCCCAAACTCCCCAAATACGAAATATTGCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGACTTCCCAAACT-TCCAAACACGAAATATTGCCTCAT
* * * *
111354335 TTTAATTTTAACAAAACATGGATGAAATTTCGAAAGGATATTCCGTATTTTAG-CTGAACGAA
65 TTT-ATTTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTC-GAATGAA
* *** *
111354397 AAATCGAAACCCAGCACGATTGGGCACGATTTCTTGAACCTCCAAACACGAAATA
1 AAATCGAAACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATA
111354452 ATTCCTTAAG
Statistics
Matches: 363, Mismatches: 65, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
124 1 0.00
125 80 0.22
126 63 0.17
127 115 0.32
128 81 0.22
129 23 0.06
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATT
TTATTTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAA
Found at i:111357814 original size:43 final size:43
Alignment explanation
Indices: 111357719--111357852 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 43
111357709 AAAAGCCACT
* * *
111357719 AAAGAACATGACCTTTAGCGGCGCATTTCCTACAAACGGCGCT-
1 AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAAC-GCGCTA
111357762 AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTA
1 AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGC-GCTA
** * * * *
111357806 AAAG-TCATGTTCTTTAGTGACGCTTTTACCAAAAACGCCGCTA
1 AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACG-CGCTA
111357849 AAAG
1 AAAG
111357853 CCATAAAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 72 0.91
44 5 0.06
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCGCTA
Found at i:111359200 original size:15 final size:15
Alignment explanation
Indices: 111359180--111359213 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
111359170 CTCAGATGAA
*
111359180 CAAAAATGGTACATC
1 CAAAAATGGAACATC
111359195 CAAAAATGGAACATC
1 CAAAAATGGAACATC
111359210 CAAA
1 CAAA
111359214 TATCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.15
Consensus pattern (15 bp):
CAAAAATGGAACATC
Found at i:111360375 original size:16 final size:16
Alignment explanation
Indices: 111360354--111360388 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
111360344 CAAAAGATAG
*
111360354 ATATAGGCATTCATAC
1 ATATAGGCATTCACAC
111360370 ATATAGGCATTCACAC
1 ATATAGGCATTCACAC
111360386 ATA
1 ATA
111360389 AAATGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (16 bp):
ATATAGGCATTCACAC
Found at i:111360559 original size:11 final size:11
Alignment explanation
Indices: 111360543--111360574 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
111360533 ATTACAATTT
*
111360543 AAAAAAACGAA
1 AAAAAAAAGAA
111360554 AAAAAAAAGAA
1 AAAAAAAAGAA
111360565 AAAAAAAAGA
1 AAAAAAAAGA
111360575 TTAACTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:111362751 original size:43 final size:43
Alignment explanation
Indices: 111362704--111362787 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
111362694 TAGAGAATTG
*
111362704 GGGAAATCTATTTTGGGGTTTTGCTGG-G-AATGGCTAAGTGTTT
1 GGGAAATCTATTTTGGGATTTTG--GGAGAAATGGCTAAGTGTTT
*
111362747 GGGAAATCTGTTTTGGGATTTTGGGAGAAATGGCTAAGTGT
1 GGGAAATCTATTTTGGGATTTTGGGAGAAATGGCTAAGTGT
111362788 CGGGCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 2 0.05
42 1 0.03
43 34 0.92
ACGTcount: A:0.21, C:0.06, G:0.36, T:0.37
Consensus pattern (43 bp):
GGGAAATCTATTTTGGGATTTTGGGAGAAATGGCTAAGTGTTT
Found at i:111363158 original size:7 final size:7
Alignment explanation
Indices: 111363146--111363260 Score: 56
Period size: 7 Copynumber: 16.1 Consensus size: 7
111363136 ACTAATTAAT
111363146 CTAAACC
1 CTAAACC
*
111363153 CTAAACTT
1 CTAAAC-C
111363161 CT-AACC
1 CTAAACC
* *
111363167 CTTATCC
1 CTAAACC
* *
111363174 TTAAATC
1 CTAAACC
*
111363181 TTAAA-C
1 CTAAACC
111363187 CTAAACC
1 CTAAACC
*
111363194 CTGAACC
1 CTAAACC
*
111363201 C-ATATCC
1 CTA-AACC
*
111363208 CATTAACC
1 C-TAAACC
111363216 CTTAAACC
1 C-TAAACC
111363224 CTAAACC
1 CTAAACC
*
111363231 CTTAACAC
1 CTAAAC-C
*
111363239 CTAACCC
1 CTAAACC
111363246 CTAAACC
1 CTAAACC
*
111363253 TTAAACC
1 CTAAACC
111363260 C
1 C
111363261 CAACACATAA
Statistics
Matches: 80, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
6 7 0.09
7 56 0.70
8 17 0.21
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.24
Consensus pattern (7 bp):
CTAAACC
Found at i:111363230 original size:15 final size:15
Alignment explanation
Indices: 111363212--111363260 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
111363202 ATATCCCATT
111363212 AACCCTTAAACCCTA
1 AACCCTTAAACCCTA
111363227 AACCCTT-AACACCT-
1 AACCCTTAAAC-CCTA
* *
111363241 AACCCCTAAACCTTA
1 AACCCTTAAACCCTA
111363256 AACCC
1 AACCC
111363261 CAACACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.18
Consensus pattern (15 bp):
AACCCTTAAACCCTA
Found at i:111363275 original size:28 final size:29
Alignment explanation
Indices: 111363211--111363280 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
111363201 CATATCCCAT
* * *
111363211 TAACCCTTAAACCCTAAACCCTTAACACC
1 TAACCCCTAAACCCTAAACCCTCAACACA
*
111363240 TAACCCCTAAACCTTAAACCC-CAACACA
1 TAACCCCTAAACCCTAAACCCTCAACACA
*
111363268 TAATCCCTAAACC
1 TAACCCCTAAACC
111363281 ATAATCCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (29 bp):
TAACCCCTAAACCCTAAACCCTCAACACA
Found at i:111363285 original size:14 final size:14
Alignment explanation
Indices: 111363244--111363294 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
111363234 AACACCTAAC
* *
111363244 CCCTAAACCTTAAA
1 CCCTAAACCATAAT
*
111363258 CCC-CAACACATAAT
1 CCCTAAAC-CATAAT
111363272 CCCTAAACCATAAT
1 CCCTAAACCATAAT
*
111363286 CCATAAACC
1 CCCTAAACC
111363295 TTAAAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 3 0.10
14 24 0.80
15 3 0.10
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (14 bp):
CCCTAAACCATAAT
Found at i:111363299 original size:21 final size:19
Alignment explanation
Indices: 111363220--111363299 Score: 52
Period size: 21 Copynumber: 3.8 Consensus size: 19
111363210 TTAACCCTTA
*
111363220 AACCCTAAACCCTTAACACCT
1 AACCATAAA-CCTTAA-ACCT
* *
111363241 AACCCCTAAACCTTAAACCCC
1 AA-CCATAAACCTTAAA-CCT
* *
111363262 AACACATAATCCCTAAACCAT
1 AAC-CATAAACCTTAAACC-T
111363283 AATCCATAAACCTTAAA
1 AA-CCATAAACCTTAAA
111363300 ATATTAACTC
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 35 0.74
22 8 0.17
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (19 bp):
AACCATAAACCTTAAACCT
Found at i:111363435 original size:22 final size:22
Alignment explanation
Indices: 111363410--111363452 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
111363400 CCCATAAACC
* *
111363410 ACCCTTAAACCATAATCCTTAG
1 ACCCATAAACCATAAACCTTAG
*
111363432 ACCCATAATCCATAAACCTTA
1 ACCCATAAACCATAAACCTTA
111363453 AAATAGTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.26
Consensus pattern (22 bp):
ACCCATAAACCATAAACCTTAG
Found at i:111374226 original size:28 final size:28
Alignment explanation
Indices: 111374186--111374264 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
111374176 GCAATCAAAT
* * *
111374186 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
111374214 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
111374242 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
111374265 CAAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:111374441 original size:44 final size:43
Alignment explanation
Indices: 111374376--111374504 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
111374366 TTTATAATTG
* * * *
111374376 TGATATTCGGGATTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAAGCTATAATGCCGGTG-A-AA
* *
111374421 T-ATTATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAAGCTATAATGCCGGTGAAA
* * *
111374464 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAAGCTATAATGCCGGTGAA
111374505 TGAGTTCAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 12 0.17
43 26 0.36
44 25 0.35
45 9 0.12
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAAGCTATAATGCCGGTGAAA
Found at i:111374527 original size:41 final size:43
Alignment explanation
Indices: 111374436--111374531 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 43
111374426 TTGGGCTTCG
* * * *
111374436 AGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCA
1 AGCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAA
111374479 AGCCTAGCAGGCGA-AATGCCGGTG-AATGAGT-TCAGACTTAA
1 AGCCTAGCAGGCGATAATGCCGGTGAAATGA-TATCAGACTTAA
*
111374520 AGTCTAGCAGGC
1 AGCCTAGCAGGC
111374532 TTCGTGCCGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 23 0.49
42 11 0.23
43 13 0.28
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (43 bp):
AGCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAA
Found at i:111374585 original size:40 final size:41
Alignment explanation
Indices: 111374436--111374584 Score: 149
Period size: 40 Copynumber: 3.6 Consensus size: 41
111374426 TTGGGCTTCG
*
111374436 AGCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCA
1 AGCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAA
* * * *
111374479 AGCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAA
1 AGCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAA
* *** *
111374520 AGTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAA
1 AGCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAA
* *
111374560 AACCTAGCAGGCTAAATGCTGGTGA
1 AGCCTAGCAGGCTAAATGCCGGTGA
111374585 TTTGATAAAA
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
40 30 0.36
41 30 0.36
42 11 0.13
43 13 0.15
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (41 bp):
AGCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAA
Found at i:111380137 original size:2 final size:2
Alignment explanation
Indices: 111380130--111380163 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
111380120 TGAAAGTCGA
111380130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
111380164 AAGTGATGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111381415 original size:38 final size:38
Alignment explanation
Indices: 111381354--111381464 Score: 143
Period size: 38 Copynumber: 2.9 Consensus size: 38
111381344 ATTTGATGTG
*
111381354 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATGCTGGAATTA
* *
111381394 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* *
111381432 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGG
111381465 TGTTATGTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
37 1 0.02
38 52 0.79
39 5 0.08
40 8 0.12
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:111381465 original size:38 final size:38
Alignment explanation
Indices: 111381370--111381470 Score: 150
Period size: 38 Copynumber: 2.7 Consensus size: 38
111381360 GGCTTAAAGA
* * *
111381370 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTATTATATCCAGGTTAAAT
111381408 CCCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAAT
*
111381446 CCCGCAGGCTTCGTGCTGGTGTTAT
1 CCCGCAGGCTTCGTGCTGGTATTAT
111381471 GTTTGGGTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
37 1 0.02
38 57 0.98
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAAT
Found at i:111396370 original size:3 final size:3
Alignment explanation
Indices: 111396362--111396460 Score: 198
Period size: 3 Copynumber: 33.0 Consensus size: 3
111396352 TATAAATATG
111396362 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
111396410 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
111396458 AGA
1 AGA
111396461 TACTAAAAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:111399705 original size:6 final size:6
Alignment explanation
Indices: 111399696--111399761 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
111399686 TAAGTTTAAG
* * *
111399696 AAAATA AAAATA AAACA-A CAAA-A AAAATA AACATA AAAAGA AAAATA
1 AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
111399743 AAACTA AAAA-G AAAATA AA
1 AAAATA AAAATA AAAATA AA
111399762 TAAACTCAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
5 9 0.19
6 37 0.79
7 1 0.02
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (6 bp):
AAAATA
Found at i:111399706 original size:25 final size:26
Alignment explanation
Indices: 111399657--111399706 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
111399647 ATCAAAATAA
*
111399657 AAATATAGTTTAAAAGATAATAAATG
1 AAATATAGTTTAAAAAATAATAAATG
111399683 AAATA-AGTTTAAGAAAATAA-AAAT
1 AAATATAGTTTAA-AAAATAATAAAT
111399707 AAAACAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (26 bp):
AAATATAGTTTAAAAAATAATAAATG
Found at i:111399723 original size:17 final size:16
Alignment explanation
Indices: 111399696--111399761 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
111399686 TAAGTTTAAG
*
111399696 AAAATAAAAATAAAAC
1 AAAAAAAAAATAAAAC
*
111399712 AACAAAAAAAATAAACAT
1 AA-AAAAAAAATAAA-AC
111399730 AAAAAGAAAAATAAAAC
1 AAAAA-AAAAATAAAAC
*
111399747 TAAAAAGAAAATAAA
1 -AAAAAAAAAATAAA
111399762 TAAACTCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
16 2 0.05
17 23 0.55
18 17 0.40
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAAAAAATAAAAC
Found at i:111401473 original size:9 final size:8
Alignment explanation
Indices: 111401461--111401580 Score: 59
Period size: 9 Copynumber: 13.6 Consensus size: 8
111401451 AAAAAATAAA
111401461 AATAAAAGT
1 AATAAAA-T
111401470 AATAAACAT
1 AATAAA-AT
111401479 AATAATAAT
1 AATAA-AAT
111401488 AATAACAAAT
1 AAT-A-AAAT
111401498 AGA-AAGAAT
1 A-ATAA-AAT
111401507 AATAAGAA-
1 AATAA-AAT
*
111401515 AACAAAGCAT
1 AATAAA--AT
111401525 AATAAATAT
1 AATAAA-AT
111401534 AATAAAAAT
1 AAT-AAAAT
111401543 CAATAAGAAT
1 -AATAA-AAT
*
111401553 AATAATA-
1 AATAAAAT
111401560 AATAAATAT
1 AATAAA-AT
111401569 AA-AAAAT
1 AATAAAAT
111401576 AATAA
1 AATAA
111401581 TAAGGAAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 33
0.70 0.04 0.26
Matches are distributed among these distances:
7 10 0.11
8 13 0.14
9 44 0.49
10 21 0.23
11 2 0.02
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (8 bp):
AATAAAAT
Found at i:111401563 original size:10 final size:10
Alignment explanation
Indices: 111401523--111401580 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
111401513 AAAACAAAGC
111401523 ATAATAAAT-
1 ATAATAAATA
111401532 ATAATAAA-A
1 ATAATAAATA
111401541 ATCAATAAGAATA
1 AT-AAT-A-AATA
111401554 ATAATAAATA
1 ATAATAAATA
*
111401564 A-ATATAAAAA
1 ATA-ATAAATA
111401574 ATAATAA
1 ATAATAA
111401581 TAAGGAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
9 11 0.27
10 19 0.46
11 3 0.07
12 5 0.12
13 3 0.07
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
ATAATAAATA
Found at i:111409636 original size:16 final size:16
Alignment explanation
Indices: 111409615--111409645 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
111409605 TTACCCAAGT
111409615 ACAATGAGCAATGAGA
1 ACAATGAGCAATGAGA
111409631 ACAATGAGCAATGAG
1 ACAATGAGCAATGAG
111409646 CAAAAACTTT
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:0.48, C:0.13, G:0.26, T:0.13
Consensus pattern (16 bp):
ACAATGAGCAATGAGA
Found at i:111411242 original size:10 final size:10
Alignment explanation
Indices: 111411212--111411300 Score: 55
Period size: 10 Copynumber: 9.4 Consensus size: 10
111411202 TAAAACTAGA
*
111411212 AAAAAAATAT
1 AAAAAATTAT
111411222 AAAAAA--AT
1 AAAAAATTAT
*
111411230 AAAAAATTGT
1 AAAAAATTAT
**
111411240 AAAATGTTAT
1 AAAAAATTAT
* *
111411250 -AAAGATTGT
1 AAAAAATTAT
111411259 AAAAAATTAT
1 AAAAAATTAT
*
111411269 AAAATA-TAT
1 AAAAAATTAT
*
111411278 -AGAAA-TAT
1 AAAAAATTAT
111411286 AAAAAAATTAT
1 -AAAAAATTAT
111411297 AAAA
1 AAAA
111411301 TTTTATAAAG
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
8 14 0.23
9 9 0.15
10 34 0.57
11 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:111411250 original size:28 final size:27
Alignment explanation
Indices: 111411219--111411309 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
111411209 AGAAAAAAAA
* *
111411219 TATAAAAAAATAAAAAATTGTAAAATGT
1 TATAAAAATATAAAAAATTATAAAAT-T
* * *
111411247 TATAAAGATTGTAAAAAATTATAAAATA
1 TATAAA-AATATAAAAAATTATAAAATT
*
111411275 TATAGAAATATAAAAAAATTATAAAATTT
1 TATAAAAATAT-AAAAAATTATAAAA-TT
111411304 TATAAA
1 TATAAA
111411310 GTCGTAAGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 3 0.06
28 25 0.50
29 22 0.44
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (27 bp):
TATAAAAATATAAAAAATTATAAAATT
Found at i:111411261 original size:29 final size:28
Alignment explanation
Indices: 111411229--111411324 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
111411219 TATAAAAAAA
*
111411229 TAAAAAATTGTAAAATGTTATAAAGATTG
1 TAAAAAATTATAAAAT-TTATAAAGATTG
*
111411258 TAAAAAATTATAAAATATATAGAA-ATAT-
1 TAAAAAATTATAAAATTTATA-AAGAT-TG
* *
111411286 AAAAAAATTATAAAATTTTATAAAG-TCG
1 TAAAAAATTATAAAA-TTTATAAAGATTG
111411314 TAAGAAAATTA
1 TAA-AAAATTA
111411325 AACAAAATGC
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
28 25 0.45
29 30 0.55
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.32
Consensus pattern (28 bp):
TAAAAAATTATAAAATTTATAAAGATTG
Found at i:111411268 original size:19 final size:19
Alignment explanation
Indices: 111411221--111411272 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
111411211 AAAAAAAATA
*
111411221 TAAAAAAATA-AAAAATTG
1 TAAAAAATTATAAAAATTG
** *
111411239 TAAAATGTTATAAAGATTG
1 TAAAAAATTATAAAAATTG
111411258 TAAAAAATTATAAAA
1 TAAAAAATTATAAAA
111411273 TATATAGAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTG
Found at i:111411307 original size:57 final size:56
Alignment explanation
Indices: 111411213--111411332 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 56
111411203 AAAACTAGAA
* *
111411213 AAAAAATATAAAAAAATAAAAAATTGTAAAATGTTATAAAGATTGTAA-AAAATTAT
1 AAAAAATATAAAAAAATAAAAAATTATAAAATGTTATAAAG-TCGTAAGAAAATTAT
* * * *
111411269 AAAATATATAGAAATATAAAAAAATTATAAAATTTTATAAAGTCGTAAGAAAATTA-
1 AAAAAATATAAAAAAAT-AAAAAATTATAAAATGTTATAAAGTCGTAAGAAAATTAT
111411325 AACAAAAT
1 AA-AAAAT
111411333 GCAGAAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
56 21 0.39
57 33 0.61
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (56 bp):
AAAAAATATAAAAAAATAAAAAATTATAAAATGTTATAAAGTCGTAAGAAAATTAT
Found at i:111411513 original size:16 final size:16
Alignment explanation
Indices: 111411492--111411522 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111411482 TTTTATAAAA
111411492 TTTTACAATTTTTATT
1 TTTTACAATTTTTATT
*
111411508 TTTTACGATTTTTAT
1 TTTTACAATTTTTAT
111411523 AAAAAAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTACAATTTTTATT
Found at i:111411574 original size:21 final size:20
Alignment explanation
Indices: 111411548--111411606 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
111411538 TTAAATAATT
111411548 TTAAAATTTTATATTTTGTTA
1 TTAAAATTTTATATTTT-TTA
* *
111411569 TTAAAATTTAATAATTTTT-
1 TTAAAATTTTATATTTTTTA
*
111411588 CTAAAA-TTTATTATTTTTT
1 TTAAAATTTTA-TATTTTTT
111411607 TATTTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.09
19 12 0.38
20 2 0.06
21 15 0.47
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTAAAATTTTATATTTTTTA
Found at i:111411621 original size:17 final size:18
Alignment explanation
Indices: 111411596--111411629 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
111411586 TTCTAAAATT
*
111411596 TATTATTTTTTTATTTTA
1 TATTATTTTCTTATTTTA
111411614 TATT-TTTTCTTATTTT
1 TATTATTTTCTTATTTT
111411630 TAATAAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TATTATTTTCTTATTTTA
Found at i:111412350 original size:18 final size:18
Alignment explanation
Indices: 111412327--111412365 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
111412317 TTGACTTCTC
111412327 ATTTATATTTT-AATTTAT
1 ATTTATATTTTCAATTT-T
*
111412345 ATTTATCTTTTCAATTTT
1 ATTTATATTTTCAATTTT
111412363 ATT
1 ATT
111412366 CATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATATTTTCAATTTT
Found at i:111416965 original size:23 final size:23
Alignment explanation
Indices: 111416895--111416966 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
111416885 AAAATAATAT
*
111416895 TATTTTAATAATTTAATATTAAATT
1 TATTTTAATAA-TTAATATTAAA-G
* *
111416920 TAGTTTAATAATT-ATCTTAAAAG
1 TATTTTAATAATTAATATT-AAAG
* *
111416943 TATTTTATTAATTAATGTTAAAG
1 TATTTTAATAATTAATATTAAAG
111416966 T
1 T
111416967 GATTATCTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 20 0.51
24 9 0.23
25 10 0.26
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (23 bp):
TATTTTAATAATTAATATTAAAG
Found at i:111417701 original size:2 final size:2
Alignment explanation
Indices: 111417690--111417734 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
111417680 AATGGATGTG
111417690 AT AT -T AT AT AT AT 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 AT AT AT AT AT AT AT
111417731 AT AT
1 AT AT
111417735 TGCCAAGGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:111429208 original size:51 final size:51
Alignment explanation
Indices: 111429138--111429241 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
111429128 ACAAAGAAAA
*
111429138 TTTATGAAAATGTCCTTTTAGATAACATTCTATCAACCAAACACCAAAATC
1 TTTAAGAAAATGTCCTTTTAGATAACATTCTATCAACCAAACACCAAAATC
*
111429189 TTTAAGAAAATGTCTTTTTAGATAACATTCTATCAACCAAACACCAAAATC
1 TTTAAGAAAATGTCCTTTTAGATAACATTCTATCAACCAAACACCAAAATC
111429240 TT
1 TT
111429242 ACCTTCTAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (51 bp):
TTTAAGAAAATGTCCTTTTAGATAACATTCTATCAACCAAACACCAAAATC
Found at i:111431585 original size:52 final size:48
Alignment explanation
Indices: 111431523--111431697 Score: 194
Period size: 47 Copynumber: 3.6 Consensus size: 48
111431513 GAAATGTGAT
* *
111431523 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
111431575 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
111431622 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
111431668 ATCCGTGTAAGACCATGGCTGGGCTATGGC
1 TTCCGTATAAGACCATAGCTGGGATATGGC
111431698 CTCGGTATGT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 23 0.21
47 54 0.50
50 1 0.01
51 1 0.01
52 29 0.27
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:111439346 original size:15 final size:15
Alignment explanation
Indices: 111439322--111439351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
111439312 ATGAGAAAAC
111439322 ACCTTACTCTCTTTT
1 ACCTTACTCTCTTTT
*
111439337 ACCTTTCTCTCTTTT
1 ACCTTACTCTCTTTT
111439352 CTTTTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (15 bp):
ACCTTACTCTCTTTT
Found at i:111442157 original size:18 final size:18
Alignment explanation
Indices: 111442134--111442168 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111442124 TAATAAATTA
* *
111442134 TTTAATATTCAATTTTAT
1 TTTAATAATAAATTTTAT
111442152 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
111442169 AAAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:111442166 original size:13 final size:14
Alignment explanation
Indices: 111442150--111442191 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
111442140 ATTCAATTTT
111442150 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
111442163 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
111442178 ATTTTAAATAATAT
1 ATTTT-AATAATAT
111442192 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:111442176 original size:16 final size:16
Alignment explanation
Indices: 111442154--111442190 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
111442144 AATTTTATTT
111442154 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
111442171 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
111442186 TAATA
1 TAATA
111442191 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:111442741 original size:17 final size:19
Alignment explanation
Indices: 111442721--111442755 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
111442711 TAGAAACTAT
111442721 TAAATT-TTTT-TAAAAAG
1 TAAATTATTTTCTAAAAAG
111442738 TAAATTATTTTCTAAAAA
1 TAAATTATTTTCTAAAAA
111442756 TAATTTTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TAAATTATTTTCTAAAAAG
Found at i:111447759 original size:16 final size:16
Alignment explanation
Indices: 111447738--111447773 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
111447728 AACATTGAAT
111447738 TTTTAAAAAAATTATA
1 TTTTAAAAAAATTATA
*
111447754 TTTTAAAATAATTATA
1 TTTTAAAAAAATTATA
111447770 TTTT
1 TTTT
111447774 TGAATTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAAAAAAATTATA
Found at i:111448333 original size:44 final size:42
Alignment explanation
Indices: 111448283--111448379 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 42
111448273 TATTTTGCTA
111448283 TATTTTTTA-AATCTTTTTATAGTTTTTG-AAATTTAAAATGTTTT
1 TATTTTTTATAAT-TTTTTAT--TTTTTGAAAATTTAAAAT-TTTT
* *
111448327 TATTTTTCATAATTTTTTATTTTTTGAAAAATTTATAATTTTT
1 TATTTTTTATAATTTTTTATTTTTTG-AAAATTTAAAATTTTT
*
111448370 TAGTTTTTAT
1 TATTTTTTAT
111448380 TTTTTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 6 0.13
43 12 0.26
44 25 0.54
45 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (42 bp):
TATTTTTTATAATTTTTTATTTTTTGAAAATTTAAAATTTTT
Found at i:111448813 original size:37 final size:37
Alignment explanation
Indices: 111448772--111448850 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
111448762 AAACTCGACT
111448772 AAATTAAAACTTAATATAGAGATAATAATATAGGTTG
1 AAATTAAAACTTAATATAGAGATAATAATATAGGTTG
*
111448809 AAATTAAAACTTAATATAGAGATAATAATGTAGGTTG
1 AAATTAAAACTTAATATAGAGATAATAATATAGGTTG
111448846 AAATT
1 AAATT
111448851 TGAATGTTGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.33
Consensus pattern (37 bp):
AAATTAAAACTTAATATAGAGATAATAATATAGGTTG
Found at i:111448911 original size:6 final size:7
Alignment explanation
Indices: 111448893--111448920 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
111448883 GATAGCTTAG
111448893 GTTTTTT
1 GTTTTTT
111448900 GTTTTTT
1 GTTTTTT
111448907 GTTTTTT
1 GTTTTTT
111448914 GTTTTTT
1 GTTTTTT
111448921 TAATTGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (7 bp):
GTTTTTT
Found at i:111449087 original size:16 final size:16
Alignment explanation
Indices: 111449066--111449101 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
111449056 GATCATTTTA
111449066 TTAAAAGAAATATGGT
1 TTAAAAGAAATATGGT
* *
111449082 TTAAAATAAATATTGT
1 TTAAAAGAAATATGGT
111449098 TTAA
1 TTAA
111449102 TCATTTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (16 bp):
TTAAAAGAAATATGGT
Found at i:111449208 original size:25 final size:26
Alignment explanation
Indices: 111449180--111449232 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
111449170 ATATTATCAT
111449180 TAAAT-TTAGATTTTATAGATTT-TAA
1 TAAATATTA-ATTTTATAGATTTATAA
* *
111449205 TAAATATTATTTTTATATATTTATAA
1 TAAATATTAATTTTATAGATTTATAA
111449231 TA
1 TA
111449233 TATAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
TAAATATTAATTTTATAGATTTATAA
Found at i:111452548 original size:46 final size:46
Alignment explanation
Indices: 111452488--111452807 Score: 516
Period size: 46 Copynumber: 7.0 Consensus size: 46
111452478 TTTGACATGA
* * * * * *
111452488 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
111452534 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
111452580 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
111452626 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
111452672 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
111452718 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
111452764 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
111452808 AGAGCACACT
Statistics
Matches: 258, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 254 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:111463748 original size:41 final size:41
Alignment explanation
Indices: 111463703--111463786 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
111463693 ATATTAATTA
*
111463703 TTAATGTTTAATATGATTCTTCAGTTTTAAATTTAAGTTTG
1 TTAATGTTTAATATGATTCTTCAGTTTTAAATTGAAGTTTG
111463744 TTAATGTTTAATATGATTCTTCAGTTTTAAATTGAAGTTTG
1 TTAATGTTTAATATGATTCTTCAGTTTTAAATTGAAGTTTG
111463785 TT
1 TT
111463787 TGAACTTTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.54
Consensus pattern (41 bp):
TTAATGTTTAATATGATTCTTCAGTTTTAAATTGAAGTTTG
Found at i:111474340 original size:68 final size:68
Alignment explanation
Indices: 111474231--111474363 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
111474221 GATACATACC
* * * *
111474231 ATTTCAATCTTAAACTAGTACAAAGTAGTTTATATCCCTCTTCAATCAAATTATATTTTGATTGT
1 ATTTCAATCTTAAACTAGTACAAAGTAGTTTACACCCCTCTTCAATCAAAATATATTTTAATTGT
111474296 AGA
66 AGA
111474299 ATTTCAATCTTAAACTAGTACAAAGTAGTTTACACCCCTCTTCAATCAAAATATATTTTAATTGT
1 ATTTCAATCTTAAACTAGTACAAAGTAGTTTACACCCCTCTTCAATCAAAATATATTTTAATTGT
111474364 TTGTTTCGAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (68 bp):
ATTTCAATCTTAAACTAGTACAAAGTAGTTTACACCCCTCTTCAATCAAAATATATTTTAATTGT
AGA
Found at i:111474583 original size:13 final size:13
Alignment explanation
Indices: 111474565--111474589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111474555 ATTTACATAT
111474565 AAATATATTTACG
1 AAATATATTTACG
111474578 AAATATATTTAC
1 AAATATATTTAC
111474590 ATGTATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATATATTTACG
Found at i:111476908 original size:18 final size:18
Alignment explanation
Indices: 111476887--111476923 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
111476877 CGCAGATGCA
111476887 AATGTCGATGCAATACTT
1 AATGTCGATGCAATACTT
111476905 AATGTCGATGCAATACTT
1 AATGTCGATGCAATACTT
111476923 A
1 A
111476924 CCGTCAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
AATGTCGATGCAATACTT
Found at i:111476933 original size:18 final size:18
Alignment explanation
Indices: 111476894--111476934 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
111476884 GCAAATGTCG
* *
111476894 ATGCAATACTTAATGTCG
1 ATGCAATACTTAACGTCA
*
111476912 ATGCAATACTTACCGTCA
1 ATGCAATACTTAACGTCA
111476930 ATGCA
1 ATGCA
111476935 GAAGCCAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (18 bp):
ATGCAATACTTAACGTCA
Found at i:111481978 original size:20 final size:20
Alignment explanation
Indices: 111481933--111481980 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
111481923 TAATTTTAGC
*
111481933 ATTTATATTTAATTTAATTT
1 ATTTATCTTTAATTTAATTT
* *
111481953 AATTATCTTTAA-TTATTTGT
1 ATTTATCTTTAATTTAATT-T
111481973 ATTTATCT
1 ATTTATCT
111481981 CTTAGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTATCTTTAATTTAATTT
Found at i:111485799 original size:7 final size:7
Alignment explanation
Indices: 111485789--111485829 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
111485779 TATGTTTATG
111485789 TTTATTA
1 TTTATTA
111485796 TTTATTA
1 TTTATTA
111485803 -TT-TTA
1 TTTATTA
111485808 TTTTATTA
1 -TTTATTA
111485816 TTTATTA
1 TTTATTA
111485823 CTTTATT
1 -TTTATT
111485830 TTGTTTGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
5 3 0.10
6 2 0.07
7 16 0.53
8 9 0.30
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:111485814 original size:20 final size:20
Alignment explanation
Indices: 111485778--111485831 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
111485768 TTCTTTAGTT
111485778 TTATGTTTATGTTTATTATTTA
1 TTAT-TTTAT-TTTATTATTTA
111485800 TTATTTTATTTTATTATTTA
1 TTATTTTATTTTATTATTTA
*
111485820 TTACTTTATTTT
1 TTATTTTATTTT
111485832 GTTTGGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 22 0.71
21 5 0.16
22 4 0.13
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
TTATTTTATTTTATTATTTA
Found at i:111486010 original size:43 final size:43
Alignment explanation
Indices: 111485949--111486035 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
111485939 AAGTAAGAAT
*
111485949 AGTGCATCCCTGCTTTATACTTACCGAAAACCCGCATCCAAAC
1 AGTGCATCCCTGCTTTATACTTACCCAAAACCCGCATCCAAAC
111485992 AGTGCATCCCTGCTTTATACTTACCCAAAACCCGCATCCAAAC
1 AGTGCATCCCTGCTTTATACTTACCCAAAACCCGCATCCAAAC
111486035 A
1 A
111486036 CCCACTCTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.36, G:0.10, T:0.23
Consensus pattern (43 bp):
AGTGCATCCCTGCTTTATACTTACCCAAAACCCGCATCCAAAC
Found at i:111487179 original size:98 final size:97
Alignment explanation
Indices: 111486997--111487191 Score: 225
Period size: 98 Copynumber: 2.0 Consensus size: 97
111486987 AAATATTTTT
** *
111486997 TTAGGAATATGTTGGGCTGAATAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGTGTCAAA
1 TTAGGAATATGTTGGGCTGAATAACCGGGGTGGGGCACTTGGCTGTCATCTCTCTTCGCGTCAAA
111487062 AGGTTCGATAAGTTTTTAAGAAAAATATAATAAA
66 AGGTTC-ATAAGTTTTTAAG-AAAATATAATAAA
* * * * * * *
111487096 TTAGGAGTATGTTGGGCTGAGTAACTGGGGT-GGGCACTTGGTTGTCATCTCTGTTGGCGTTAAA
1 TTAGGAATATGTTGGGCTGAATAACCGGGGTGGGGCACTTGGCTGTCATCTCTCTTCGCGTCAAA
*
111487160 AGGTT-A-AATGTATTCTTAAGAAATTATAATAA
66 AGGTTCATAA-GT-TT-TTAAGAAAATATAATAA
111487192 TGATAAAAAG
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
95 2 0.02
96 3 0.04
97 13 0.16
98 36 0.44
99 28 0.34
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (97 bp):
TTAGGAATATGTTGGGCTGAATAACCGGGGTGGGGCACTTGGCTGTCATCTCTCTTCGCGTCAAA
AGGTTCATAAGTTTTTAAGAAAATATAATAAA
Found at i:111487228 original size:19 final size:20
Alignment explanation
Indices: 111487194--111487231 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
111487184 TATAATAATG
111487194 ATAAAAAGAAAGAAAAAAGT
1 ATAAAAAGAAAGAAAAAAGT
111487214 ATAAAAAGAAA-AAAAAAG
1 ATAAAAAGAAAGAAAAAAG
111487232 GTGATGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (20 bp):
ATAAAAAGAAAGAAAAAAGT
Found at i:111487893 original size:10 final size:10
Alignment explanation
Indices: 111487857--111487905 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
111487847 TTAATTTTAG
111487857 TATTTATCTT
1 TATTTATCTT
111487867 TAATTT-TCTT
1 T-ATTTATCTT
*
111487877 TAATTATCTT
1 TATTTATCTT
111487887 TATTTAT-TT
1 TATTTATCTT
111487896 GTATTTATCT
1 -TATTTATCT
111487906 CTTAGAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 5 0.15
10 23 0.70
11 5 0.15
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TATTTATCTT
Found at i:111488619 original size:5 final size:5
Alignment explanation
Indices: 111488609--111488639 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
111488599 TATGTACTCA
111488609 TGAAT TGAAT TGAAT ATGAAT TGAAT TGAAT
1 TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT
111488640 ATGGAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:111488629 original size:16 final size:16
Alignment explanation
Indices: 111488608--111488642 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
111488598 TTATGTACTC
111488608 ATGAATTGAATTGAAT
1 ATGAATTGAATTGAAT
111488624 ATGAATTGAATTGAAT
1 ATGAATTGAATTGAAT
111488640 ATG
1 ATG
111488643 GAATGGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
ATGAATTGAATTGAAT
Found at i:111495742 original size:43 final size:43
Alignment explanation
Indices: 111495689--111495776 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
111495679 CACTTAAGAA
* *
111495689 ATAGAACTTGCAATTGTGGGATATTTGGTGCACTTTATTTTCT
1 ATAGAACTTGCAATTGTGGGATATTTGATACACTTTATTTTCT
* *
111495732 ATAGGACTTGCGATTGTGGGATATTTGATACACTTTATTTTCT
1 ATAGAACTTGCAATTGTGGGATATTTGATACACTTTATTTTCT
111495775 AT
1 AT
111495777 GCGCTCATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (43 bp):
ATAGAACTTGCAATTGTGGGATATTTGATACACTTTATTTTCT
Found at i:111499470 original size:9 final size:9
Alignment explanation
Indices: 111499453--111499489 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
111499443 TGAGTTTTCG
111499453 AATTCGAAT
1 AATTCGAAT
*
111499462 AACTCGAAT
1 AATTCGAAT
*
111499471 AATTTGAAT
1 AATTCGAAT
111499480 AATTCGAAT
1 AATTCGAAT
111499489 A
1 A
111499490 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:111506024 original size:26 final size:26
Alignment explanation
Indices: 111505994--111506047 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
111505984 ACATACATGT
*
111505994 ATTTATCACTTCAAGTGTCCATGAAC
1 ATTTATCACTTCAAGTGTACATGAAC
111506020 ATTTATCACTTCAAGTGTACATGAAC
1 ATTTATCACTTCAAGTGTACATGAAC
111506046 AT
1 AT
111506048 GTACATATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (26 bp):
ATTTATCACTTCAAGTGTACATGAAC
Found at i:111506300 original size:25 final size:25
Alignment explanation
Indices: 111506272--111506388 Score: 85
Period size: 25 Copynumber: 4.8 Consensus size: 25
111506262 TTCTCTCTCA
*
111506272 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATATAACGGGAAGCTCATGCG
* * * * *
111506297 AGCCGTGTAACGGAAAGCTTATCCG
1 AGCCATATAACGGGAAGCTCATGCG
* ** * **
111506322 GGCTGTATAACGGAAAGCTCATAAG
1 AGCCATATAACGGGAAGCTCATGCG
* *
111506347 AGCCATA-ATCAGGAAGCTCATGCG
1 AGCCATATAACGGGAAGCTCATGCG
*
111506371 AGCCA-ATAACGGGTAGCT
1 AGCCATATAACGGGAAGCT
111506389 TCAAAGAGCC
Statistics
Matches: 68, Mismatches: 23, Indels: 3
0.72 0.24 0.03
Matches are distributed among these distances:
23 1 0.01
24 25 0.37
25 42 0.62
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATGCG
Found at i:111506365 original size:24 final size:24
Alignment explanation
Indices: 111506336--111506413 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
111506326 GTATAACGGA
111506336 AAGCTCATAAGAGCCATAATCAGG
1 AAGCTCATAAGAGCCATAATCAGG
** *
111506360 AAGCTCATGCGAGCCAATAA-CGGG
1 AAGCTCATAAGAGCC-ATAATCAGG
* *
111506384 TAGCTTCA-AAGAGCCATTAATCAGA
1 AAGC-TCATAAGAGCCA-TAATCAGG
111506409 AAGCT
1 AAGCT
111506414 TCGGATAGCC
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
23 1 0.02
24 28 0.68
25 12 0.29
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (24 bp):
AAGCTCATAAGAGCCATAATCAGG
Found at i:111506497 original size:26 final size:27
Alignment explanation
Indices: 111506467--111506535 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
111506457 GAAGCTCCGG
111506467 AGAGCCATTAATC-GGAAACTCATGAA
1 AGAGCCATTAATCGGGAAACTCATGAA
* **
111506493 AGAGCCTTTAATCGGGAAGTTCATGAA
1 AGAGCCATTAATCGGGAAACTCATGAA
111506520 A-AGCCA-TATATCGGGA
1 AGAGCCATTA-ATCGGGA
111506536 CGCTCATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 23 0.62
27 12 0.32
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (27 bp):
AGAGCCATTAATCGGGAAACTCATGAA
Found at i:111509323 original size:18 final size:17
Alignment explanation
Indices: 111509300--111509343 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
111509290 TAATAAAAAA
111509300 ATAAAAAGAATAATTTAG
1 ATAAAAA-AATAATTTAG
*
111509318 ATAAAAATATAATTTAG
1 ATAAAAAAATAATTTAG
*
111509335 -GAAAAAAAT
1 ATAAAAAAAT
111509344 TTAAGAGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 7 0.30
17 9 0.39
18 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (17 bp):
ATAAAAAAATAATTTAG
Found at i:111509804 original size:23 final size:22
Alignment explanation
Indices: 111509759--111509807 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
111509749 ATCGAATTCT
*
111509759 ATTTTTATTTAATATATAATTA
1 ATTTTTATTTAATAAATAATTA
* *
111509781 ATTTTTATTTTATAAAATATTTA
1 ATTTTTATTTAAT-AAATAATTA
111509804 ATTT
1 ATTT
111509808 AAAATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTTTATTTAATAAATAATTA
Found at i:111510225 original size:36 final size:36
Alignment explanation
Indices: 111510178--111510249 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
111510168 ATTGCTTCAT
111510178 AAACCCCCTTATTTATTATTTTCTTTTATTCCCCTC
1 AAACCCCCTTATTTATTATTTTCTTTTATTCCCCTC
111510214 AAACCCCCTTATTTATTATTTTCTTTTATTCCCCTC
1 AAACCCCCTTATTTATTATTTTCTTTTATTCCCCTC
111510250 TAACACCGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (36 bp):
AAACCCCCTTATTTATTATTTTCTTTTATTCCCCTC
Found at i:111515220 original size:21 final size:21
Alignment explanation
Indices: 111515196--111515237 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
111515186 AAAACTTTGA
111515196 TTTAAAAAAAATAGTGATTTT
1 TTTAAAAAAAATAGTGATTTT
* **
111515217 TTTAAAGAAAATTTTGATTTT
1 TTTAAAAAAAATAGTGATTTT
111515238 GAAAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (21 bp):
TTTAAAAAAAATAGTGATTTT
Found at i:111522064 original size:32 final size:32
Alignment explanation
Indices: 111522015--111522075 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
111522005 ATCCTAATTC
* *
111522015 TAAAATTTTTAAGAAATAT-ATAAAAAATACA
1 TAAAATTTTCAAAAAATATAATAAAAAATACA
*
111522046 TAAACATTTTCAAAAAATATAATAATAAAT
1 TAAA-ATTTTCAAAAAATATAATAAAAAAT
111522076 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.16
32 13 0.52
33 8 0.32
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (32 bp):
TAAAATTTTCAAAAAATATAATAAAAAATACA
Found at i:111523211 original size:20 final size:20
Alignment explanation
Indices: 111523186--111523229 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
111523176 AAAAAATAGT
111523186 AGAAGAAAAAGAA-GAGGAAG
1 AGAAGAAAAAGAAGGA-GAAG
*
111523206 AGAAGAAGAAGAAGGAGAAG
1 AGAAGAAAAAGAAGGAGAAG
111523226 AGAA
1 AGAA
111523230 AATATGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
AGAAGAAAAAGAAGGAGAAG
Found at i:111524590 original size:21 final size:21
Alignment explanation
Indices: 111524530--111524597 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
111524520 GCCTATTGAG
* *
111524530 TTGGGGTACCCTCTTGCTAAT
1 TTGGGGTAGCCTCTTGCTGAT
111524551 TTGGGGTAGCCTCTTGCTGAT
1 TTGGGGTAGCCTCTTGCTGAT
* *
111524572 TTGGGGTAGCCTGTTGCTGAG
1 TTGGGGTAGCCTCTTGCTGAT
111524593 TTGGG
1 TTGGG
111524598 ACACCAACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.10, C:0.18, G:0.35, T:0.37
Consensus pattern (21 bp):
TTGGGGTAGCCTCTTGCTGAT
Found at i:111525276 original size:38 final size:37
Alignment explanation
Indices: 111525224--111525345 Score: 167
Period size: 38 Copynumber: 3.3 Consensus size: 37
111525214 CATTGTGAAT
*
111525224 AGCCCCACCAACAATGATACACACGCCCCTAAAAAAA
1 AGCCCCACCAACAATGATACACACACCCCTAAAAAAA
*
111525261 CAGCCCCACCGACAATGATACACACACCCCTAAAAAAA
1 -AGCCCCACCAACAATGATACACACACCCCTAAAAAAA
* * *
111525299 TA-ACCCACCAAAAATGATACACACACCCTTAAAAAAA
1 -AGCCCCACCAACAATGATACACACACCCCTAAAAAAA
111525336 AG-CCCACCAA
1 AGCCCCACCAA
111525346 TATACATATT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
36 9 0.12
37 31 0.41
38 36 0.47
ACGTcount: A:0.48, C:0.37, G:0.07, T:0.09
Consensus pattern (37 bp):
AGCCCCACCAACAATGATACACACACCCCTAAAAAAA
Found at i:111525427 original size:40 final size:40
Alignment explanation
Indices: 111525364--111525470 Score: 142
Period size: 40 Copynumber: 2.7 Consensus size: 40
111525354 TTATAAAAAA
* * * *
111525364 AATACTCACTGTATGCATTTTAAAAAATAGGCAACACACC
1 AATAATCACTGCATGCATATTAAAAAATAGGAAACACACC
*
111525404 AATAATCACTGCATGCATATTAAAAAATAGTAAACACACC
1 AATAATCACTGCATGCATATTAAAAAATAGGAAACACACC
* * *
111525444 AACAATCAGTGCGTGCATATTAAAAAA
1 AATAATCACTGCATGCATATTAAAAAA
111525471 CATTCACTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (40 bp):
AATAATCACTGCATGCATATTAAAAAATAGGAAACACACC
Found at i:111527097 original size:21 final size:21
Alignment explanation
Indices: 111527073--111527117 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
111527063 TAACTCTTTC
111527073 AGATGCATCACTATCACTACT
1 AGATGCATCACTATCACTACT
111527094 AGATGCATCACTATCACTACT
1 AGATGCATCACTATCACTACT
111527115 AGA
1 AGA
111527118 CATGTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (21 bp):
AGATGCATCACTATCACTACT
Found at i:111527505 original size:64 final size:64
Alignment explanation
Indices: 111527427--111527566 Score: 217
Period size: 64 Copynumber: 2.2 Consensus size: 64
111527417 TAGAAGCTTG
* * **
111527427 GATACAAACAATGGCAGATATACACAACAAACATCAGTTTGGTAATGTTATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAACAAACATCAGTCTGATAATGGCATTCATACAATGGCA
* * *
111527491 GATACAAACAATGGCAGATATACACAATAAACATCTGTCTGATAATGGCATTCGTACAATGGCA
1 GATACAAACAATGGCAGATATACACAACAAACATCAGTCTGATAATGGCATTCATACAATGGCA
111527555 GATACAAACAAT
1 GATACAAACAAT
111527567 AAACATCATG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (64 bp):
GATACAAACAATGGCAGATATACACAACAAACATCAGTCTGATAATGGCATTCATACAATGGCA
Found at i:111527768 original size:12 final size:12
Alignment explanation
Indices: 111527679--111527767 Score: 63
Period size: 12 Copynumber: 7.4 Consensus size: 12
111527669 AAATAACCCT
*
111527679 AAATTGAAATCA
1 AAATCGAAATCA
111527691 AAATCGAAATCA
1 AAATCGAAATCA
*
111527703 AAATC-AAATTCT
1 AAATCGAAA-TCA
* * *
111527715 AATTCTAAATCG
1 AAATCGAAATCA
* * *
111527727 ATATCGAGATCG
1 AAATCGAAATCA
*
111527739 AAATTGAAATCA
1 AAATCGAAATCA
* *
111527751 AAATCAAAATCT
1 AAATCGAAATCA
111527763 AAATC
1 AAATC
111527768 AGAATCAGCG
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
11 3 0.05
12 54 0.90
13 3 0.05
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.26
Consensus pattern (12 bp):
AAATCGAAATCA
Found at i:111527775 original size:6 final size:6
Alignment explanation
Indices: 111527685--111527774 Score: 54
Period size: 6 Copynumber: 15.0 Consensus size: 6
111527675 CCCTAAATTG
* * * * * * * *
111527685 AAATCA AAATCG AAATCA AAATCA AATTCT AATTCT AAATCG ATATCG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * ** * *
111527733 AGATCG AAATTG AAATCA AAATCA AAATCT AAATCA GAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
111527775 GCGAGTGTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (6 bp):
AAATCA
Found at i:111527809 original size:12 final size:12
Alignment explanation
Indices: 111527794--111527832 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
111527784 TCAAAATTGT
*
111527794 AATAAAAATCGA
1 AATAAAAATCAA
*
111527806 AATAGAAATCAA
1 AATAAAAATCAA
*
111527818 AATCAAAATCAA
1 AATAAAAATCAA
111527830 AAT
1 AAT
111527833 CGAAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (12 bp):
AATAAAAATCAA
Found at i:111527832 original size:18 final size:18
Alignment explanation
Indices: 111527784--111527856 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
111527774 AGCGAGTGTT
* * *
111527784 TCAAAATTGTAATAAAAA
1 TCAAAATAGAAATCAAAA
*
111527802 TCGAAATAGAAATCAAAA
1 TCAAAATAGAAATCAAAA
*
111527820 TCAAAATCA-AAATCGAAA
1 TCAAAAT-AGAAATCAAAA
* * *
111527838 TTAAAATTGAAACCAAAA
1 TCAAAATAGAAATCAAAA
111527856 T
1 T
111527857 AACCCTAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 42 0.98
19 1 0.02
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.22
Consensus pattern (18 bp):
TCAAAATAGAAATCAAAA
Found at i:111527845 original size:6 final size:6
Alignment explanation
Indices: 111527798--111527844 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
111527788 AATTGTAATA
* * *
111527798 AAAATC GAAAT- AGAAATC AAAATC AAAATC AAAATC GAAATT AAAAT
1 AAAATC AAAATC A-AAATC AAAATC AAAATC AAAATC AAAATC AAAAT
111527845 TGAAACCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 33 0.97
7 1 0.03
ACGTcount: A:0.64, C:0.11, G:0.06, T:0.19
Consensus pattern (6 bp):
AAAATC
Found at i:111527849 original size:12 final size:12
Alignment explanation
Indices: 111527799--111527856 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
111527789 ATTGTAATAA
* *
111527799 AAATCGAAATAG
1 AAATCAAAATCG
*
111527811 AAATCAAAATCA
1 AAATCAAAATCG
111527823 AAATCAAAATCG
1 AAATCAAAATCG
* *
111527835 AAATTAAAATTG
1 AAATCAAAATCG
*
111527847 AAACCAAAAT
1 AAATCAAAAT
111527857 AACCCTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.19
Consensus pattern (12 bp):
AAATCAAAATCG
Done.