Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_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: 4584045
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 21
Found at i:2114959 original size:121 final size:121
Alignment explanation
Indices: 2114745--2115153 Score: 581
Period size: 121 Copynumber: 3.4 Consensus size: 121
2114735 CTATTTCCCA
* * * * *
2114745 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCATAGCCTTCGGGTCAT--ATGTAAGCCTTACAG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCAT-AAAACC-TACAG
*
2114808 TGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
64 TGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
*
2114866 CATCTGTAATACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTG
2114931 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
* * * *
2114987 CAACTGTAAGATCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTG
* * **
2115052 CAGGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATATTTTCAAAATCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
** * *
2115108 CATCCATAAGACCTAT-AGTGAAGGATGTTTTCAAAAAGCCTTCGGG
1 CATCTGTAAGACCT-TCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
2115154 AGTTTTTTGA
Statistics
Matches: 261, Mismatches: 22, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
121 242 0.93
122 9 0.03
123 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (121 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTG
CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
Found at i:2114973 original size:76 final size:74
Alignment explanation
Indices: 2114888--2115030 Score: 187
Period size: 76 Copynumber: 1.9 Consensus size: 74
2114878 CTTCAGTGCA
* *
2114888 TGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCAACCATAAAACCTACAGTGCAGGATGTTTTC-AAAA-CCTT
2114953 CGGGAGCTTTT
64 CGGGAGCTTTT
* ** * * * *
2114964 TGATATTTTCAAAGCCTTCGGGTCAACTGTAAGATCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCAACCATAAAACCTACAGTGCAGGATGTTTTCAAAACCTTCG
2115029 GG
66 GG
2115031 TCATCCATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 8 0.14
75 4 0.07
76 46 0.79
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (74 bp):
TGATATTTTCAAAACCTTCGGGTCAACCATAAAACCTACAGTGCAGGATGTTTTCAAAACCTTCG
GGAGCTTTT
Found at i:2115033 original size:45 final size:45
Alignment explanation
Indices: 2114964--2115077 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 45
2114954 GGGAGCTTTT
* * ** *
2114964 TGATATTTTCAAAGCCTTCGGGTCAACTGTAAGATCT-TCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCAACCATAAGACCTAT-AGTGCA
*
2115009 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCAACCATAAGACCTATAGTGCA
* *
2115054 GGATGTTTCCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
2115078 AGCTTTTTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 45 0.78
46 5 0.09
47 8 0.14
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCAACCATAAGACCTATAGTGCA
Found at i:2115095 original size:76 final size:76
Alignment explanation
Indices: 2115014--2115210 Score: 277
Period size: 76 Copynumber: 2.6 Consensus size: 76
2115004 GTGCATGATG
2115014 TTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCAGGATGTTTCCAAAAAGCCTTCGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCAGGATGTTTCCAAAAAGCCTTCGGGA
*
2115079 GCTTTTTAATA
66 GCTTTTTAACA
* * *
2115090 TTTTCAAAATCTTCGGGTCATCCATAAGACCTATAGTGAAGGATGTTTTCAAAAAGCCTTCGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCAGGATGTTTCCAAAAAGCCTTCGGGA
* * *
2115155 GTTTTTTGACG
66 GCTTTTTAACA
* ** * * *
2115166 TTTTCAAAGCCTTCGGGTCATCTGTAAGACATACAGTGCAAGATG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCAGGATG
2115211 ATAAGACCTC
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 106 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (76 bp):
TTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCAGGATGTTTCCAAAAAGCCTTCGGGA
GCTTTTTAACA
Found at i:2115114 original size:197 final size:194
Alignment explanation
Indices: 2114893--2115260 Score: 542
Period size: 197 Copynumber: 1.9 Consensus size: 194
2114883 GTGCATGATG
*
2114893 TTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGGGA
* * * *
2114958 GCTTTTTGATATTTTCAAAGCCTTCGGGTCAACTGTAAGATC-TTCAGTGCATGATGTTTTCAAA
66 GCTTTTTGACATTTTCAAAGCCTTCGGGTCAACTGTAAGA-CATACAGTGCAAGATG--AT-AAA
* *
2115022 ACCTTC-GGGTCATCCATAAGACCTATAGTGCAGGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
127 ACC-TCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
2115086 AATA
191 AATA
* * *
2115090 TTTTCAAAATCTTCGGGTCATCCATAAGACCTATAGTGAAGGATGTTTTCAAAAAGCCTTCGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGGGA
* * * *
2115155 GTTTTTTGACGTTTTCAAAGCCTTCGGGTCATCTGTAAGACATACAGTGCAAGATGATAAGACCT
66 GCTTTTTGACATTTTCAAAGCCTTCGGGTCAACTGTAAGACATACAGTGCAAGATGATAAAACCT
*
2115220 CAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAA
131 CAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTCCAAA
2115261 TGAGATTTTA
Statistics
Matches: 154, Mismatches: 15, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
193 2 0.01
194 41 0.27
195 1 0.01
196 1 0.01
197 109 0.71
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (194 bp):
TTTTCAAAACCTTCGGGTCATCCATAAAACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGGGA
GCTTTTTGACATTTTCAAAGCCTTCGGGTCAACTGTAAGACATACAGTGCAAGATGATAAAACCT
CAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATA
Found at i:2115530 original size:3 final size:3
Alignment explanation
Indices: 2115522--2115563 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
2115512 TTTAAAATTG
* * *
2115522 TTA TTA TTA TTA TTA TTA TAA TTA TAA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2115564 ATAAATAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2116900 original size:2 final size:2
Alignment explanation
Indices: 2116893--2116936 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
2116883 TATTTATTCG
2116893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
2116935 TA
1 TA
2116937 AAAATGTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 37 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2117112 original size:2 final size:2
Alignment explanation
Indices: 2117101--2117131 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2117091 AATTTTAGTC
2117101 AT AT -T 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
2117132 GAAAGATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2117247 original size:2 final size:2
Alignment explanation
Indices: 2117240--2117266 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2117230 ATATTCTGCT
2117240 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2117267 TCACTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2118986 original size:3 final size:3
Alignment explanation
Indices: 2118978--2119009 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
2118968 AACATGATAT
2118978 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2119010 ATATATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2119731 original size:2 final size:2
Alignment explanation
Indices: 2119719--2119747 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2119709 TCGGGTTTAA
2119719 AT AT A- 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
2119748 TTGGGTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2121722 original size:17 final size:19
Alignment explanation
Indices: 2121702--2121741 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
2121692 TTAAAAAAAA
2121702 TAAATA-CAAAAA-ATTAC
1 TAAATATCAAAAACATTAC
*
2121719 TAAA-ATCAAAAACATTAT
1 TAAATATCAAAAACATTAC
2121737 TAAAT
1 TAAAT
2121742 GTTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 1 0.05
17 10 0.53
18 8 0.42
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAATATCAAAAACATTAC
Found at i:2129075 original size:30 final size:29
Alignment explanation
Indices: 2129003--2129081 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 29
2128993 AGATTTCATG
* **
2129003 TTAGGGGGTAAACTTGAACTTAAAAGGTT
1 TTAGGGGGCAAACTTGAACTTAAAACCTT
*
2129032 TT-GGGGCCAAACTTGAACTTAAAAACCTT
1 TTAGGGGGCAAACTTGAACTT-AAAACCTT
2129061 TTAGGGGGCAAACTTGAACTT
1 TTAGGGGGCAAACTTGAACTT
2129082 TTAAAATTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 16 0.37
29 10 0.23
30 17 0.40
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (29 bp):
TTAGGGGGCAAACTTGAACTTAAAACCTT
Found at i:2129098 original size:30 final size:29
Alignment explanation
Indices: 2129006--2129098 Score: 91
Period size: 30 Copynumber: 3.2 Consensus size: 29
2128996 TTTCATGTTA
* **
2129006 GGGGGTAAACTTGAAC-TTAAAAGGTTTT
1 GGGGGCAAACTTGAACTTTAAAACTTTTT
* * *
2129034 GGGGCCAAACTTGAACTTAAAAACCTTTTA
1 GGGGGCAAACTTGAACTTTAAAA-CTTTTT
2129064 GGGGGCAAACTTGAACTTTTAAAA-TTCTTT
1 GGGGGCAAACTTGAAC-TTTAAAACTT-TTT
2129094 GGGGG
1 GGGGG
2129099 GGGGGAGAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
28 14 0.27
29 7 0.13
30 25 0.48
31 6 0.12
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (29 bp):
GGGGGCAAACTTGAACTTTAAAACTTTTT
Found at i:2133119 original size:48 final size:50
Alignment explanation
Indices: 2133041--2133147 Score: 173
Period size: 50 Copynumber: 2.2 Consensus size: 50
2133031 TGTTTTGTAT
* *
2133041 TTTGAATTCATTTTCCATACATATTTAGATGA-TAATTGATTCATTTCCC
1 TTTGAATTCATTTTCCATACATATTCAGATGAGTAATTGATTAATTTCCC
2133090 TTTGAATTCA-TTTCCATACATATTCAGATGAGTTAATTGATTAATTTCCC
1 TTTGAATTCATTTTCCATACATATTCAGATGAG-TAATTGATTAATTTCCC
2133140 TTTGAATT
1 TTTGAATT
2133148 TTTTCCTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
48 20 0.37
49 10 0.19
50 24 0.44
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (50 bp):
TTTGAATTCATTTTCCATACATATTCAGATGAGTAATTGATTAATTTCCC
Found at i:2135740 original size:14 final size:14
Alignment explanation
Indices: 2135721--2135748 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2135711 ATTTTTTTAG
2135721 CTAGATTCATTCTC
1 CTAGATTCATTCTC
2135735 CTAGATTCATTCTC
1 CTAGATTCATTCTC
2135749 ATTTTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
CTAGATTCATTCTC
Found at i:2140695 original size:15 final size:15
Alignment explanation
Indices: 2140675--2140708 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2140665 CTAGAAAAGC
2140675 CAAATTATAGTGTCT
1 CAAATTATAGTGTCT
2140690 CAAATTATAGTGTCT
1 CAAATTATAGTGTCT
2140705 CAAA
1 CAAA
2140709 GAGAATCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (15 bp):
CAAATTATAGTGTCT
Found at i:2143758 original size:49 final size:48
Alignment explanation
Indices: 2143673--2143811 Score: 181
Period size: 49 Copynumber: 2.8 Consensus size: 48
2143663 AAATACCATG
2143673 AGTGGCACCTTTTATGTCGATAATGCACCGTTATGCATTTAACAAACATT
1 AGTGGCACCTTTTATGT-GA-AATGCACCGTTATGCATTTAACAAACATT
****
2143723 AGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTAATTTTCATT
1 AGTGGCACCTTTTATG-TGAAATGCACCGTTATGCATTTAACAAACATT
*
2143772 AGTGGCACCTTTTATG-GAAAAATACACCGTTATGCATTTA
1 AGTGGCACCTTTTATGTG--AAATGCACCGTTATGCATTTA
2143812 GTTTGGTAAC
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
47 1 0.01
49 61 0.75
50 18 0.22
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (48 bp):
AGTGGCACCTTTTATGTGAAATGCACCGTTATGCATTTAACAAACATT
Found at i:2152013 original size:29 final size:29
Alignment explanation
Indices: 2151971--2152089 Score: 157
Period size: 29 Copynumber: 4.1 Consensus size: 29
2151961 AGTCCATTAT
* * *
2151971 TCTTTTACTCAATAGTGTTTAACAGTTCA
1 TCTTTTACTCAACAATGTTTAACCGTTCA
* *
2152000 TCTTTTACTCAATAGTGTTTAACCGTTCA
1 TCTTTTACTCAACAATGTTTAACCGTTCA
* *
2152029 TCTTTTACCCAACAATGTTTAACCGTACA
1 TCTTTTACTCAACAATGTTTAACCGTTCA
* *
2152058 TATTTTAATCAACAATGTTTAACCGTTCA
1 TCTTTTACTCAACAATGTTTAACCGTTCA
2152087 TCT
1 TCT
2152090 AACTGGCAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (29 bp):
TCTTTTACTCAACAATGTTTAACCGTTCA
Found at i:2152294 original size:81 final size:81
Alignment explanation
Indices: 2152060--2152295 Score: 310
Period size: 81 Copynumber: 2.9 Consensus size: 81
2152050 ACCGTACATA
* * * * * * *
2152060 TTTTAATCAACAATGTTTAACCGTTCATCTAACTGGCAAAAAAGACATCTTTATGCCAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCAC
* *
2152125 AACCAGGCCATTATTC
66 AGCTAGGCCATTATTC
* * * *
2152141 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCAA
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCAC
2152206 AGCTAGGCCATTATTC
66 AGCTAGGCCATTATTC
* ***
2152222 TTTTACTCAACGATATTTAACCATTCATCTAACTGGCATAAATGACACCTTTCTTTTAAATGCAC
1 TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCAC
*
2152287 AGTTAGGCC
66 AGCTAGGCC
2152296 TCAAAGGCAC
Statistics
Matches: 133, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 133 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (81 bp):
TTTTACTCAACGATATTTAACCGTTCATCTAACTGGCATAAATGACACCTTTCTGCCAAATGCAC
AGCTAGGCCATTATTC
Found at i:2152336 original size:68 final size:68
Alignment explanation
Indices: 2152245--2152839 Score: 824
Period size: 68 Copynumber: 8.8 Consensus size: 68
2152235 TATTTAACCA
*
2152245 TTCATCTAACTGGCATAAATGACACCTTTCTTTTAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2152310 CCT
66 CCT
*
2152313 TTCATCTAACTGGCATAAATGACACCTTT-TTGTCAAATGCACAGTTAGGTCTCAAAGGCACTTA
1 TTCATCTAACTGGCATAAATGACACCTTTCTT-TCAAATGCACAGTTAGGCCTCAAAGGCACTTA
2152377 GCCT
65 GCCT
** * *
2152381 TTCATCTAACTGGCATAAATGACATATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTGG
1 TTCATCTAACTGGCATAAATGACACCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2152446 CCT
66 CCT
* * * *
2152449 TTCATCTAACTGGCATAAATGACACATTTTCTGTCAATTGCACAGTTAGGCCTCAAAGGCACCTA
1 TTCATCTAACTGGCATAAATGACAC-CTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
2152514 GCCT
65 GCCT
* * * * *
2152518 TTCATCTAACTCGCATAAATGATACCTTT-ATTCAAATGCACAGTTAGGCCTGAAAGGAACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
2152582 GCT
66 CCT
2152585 TTCATCTAACTGGCATAAATGACACCTTT-TTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTA
1 TTCATCTAACTGGCATAAATGACACCTTTCTT-TCAAATGCACAGTTAGGCCTCAAAGGCACTTA
*
2152649 GGCT
65 GCCT
* * * **
2152653 TTCATCTAACTGGCATAAATGACACCTTTCTATCTAATGAACAGTTAGGCCTCAAACACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2152718 -CT
66 CCT
* * * *
2152720 TTCATCTAACTGGCAGAAATGACACCTTTATGTCAAATGCAAAGTTAGGCCTCAAAGAG-ACTTA
1 TTCATCTAACTGGCATAAATGACACCTTTCTTTCAAATGCACAGTTAGGCCTCAAAG-GCACTTA
*
2152784 GACT
65 GCCT
* * * *
2152788 TTCATCTAACTGGCATAAATAACACCTTTATGTT-AAATACACAGTTACGCCT
1 TTCATCTAACTGGCATAAATGACACCTTTCT-TTCAAATGCACAGTTAGGCCT
2152840 ATAAATCTTT
Statistics
Matches: 473, Mismatches: 46, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
67 119 0.25
68 289 0.61
69 65 0.14
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:2153079 original size:54 final size:55
Alignment explanation
Indices: 2153012--2153147 Score: 186
Period size: 54 Copynumber: 2.5 Consensus size: 55
2153002 ATATATATTT
* * *
2153012 CCCATACGAAAATTCATACACTTGGTATGAACTGCATA-TTTCGCACGCATAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAACTGCATAGTTTCGCACACAAAGTG
* * *
2153066 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAACTGCATAGTTTCGCACACAAAGTG
*
2153121 CCCATAC-AAAAGTTAATACACTTAGTA
1 CCCATACGAAAA-TTCATACACTTAGTA
2153148 AGAATTTCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
54 38 0.52
55 35 0.48
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (55 bp):
CCCATACGAAAATTCATACACTTAGTATGAACTGCATAGTTTCGCACACAAAGTG
Found at i:2153140 original size:55 final size:55
Alignment explanation
Indices: 2153012--2153163 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 55
2153002 ATATATATTT
* * * * * *
2153012 CCCATACGAAAATTCATACACTTGGTATGAACTGCATA-TTTCGCACGCATAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACAAAGTG
2153066 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACAAAGTG
* *
2153121 CCCATAC-AAAAGTTAATACACTTAGTAAGAATTTCTTAAGTTT
1 CCCATACGAAAA-TTCATACACTTAGTATGAATTTCTT-AGTTT
2153164 TTGCACACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 38 0.44
55 44 0.51
56 5 0.06
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (55 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACAAAGTG
Found at i:2154299 original size:22 final size:23
Alignment explanation
Indices: 2154263--2154306 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
2154253 GAAAAACATT
2154263 TTTGAAAGAAACATTTACCAAAC
1 TTTGAAAGAAACATTTACCAAAC
*
2154286 TTTGAAA-AAACATTTTCCAAA
1 TTTGAAAGAAACATTTACCAAA
2154307 GTTGGTTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.30
Consensus pattern (23 bp):
TTTGAAAGAAACATTTACCAAAC
Found at i:2178558 original size:34 final size:36
Alignment explanation
Indices: 2178510--2178582 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 36
2178500 CAACATCCTG
*
2178510 TTTGAACTTTGCTTTT-TACTTTCTCATATTTC-TT
1 TTTGAACTTTGCTTTTGAACTTTCTCATATTTCATT
*
2178544 TTTGTAAC-TTGCTTTTGAATTTTCTCATATTTCATT
1 TTTG-AACTTTGCTTTTGAACTTTCTCATATTTCATT
2178580 TTT
1 TTT
2178583 TAAGGATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 12 0.35
35 17 0.50
36 5 0.15
ACGTcount: A:0.16, C:0.15, G:0.07, T:0.62
Consensus pattern (36 bp):
TTTGAACTTTGCTTTTGAACTTTCTCATATTTCATT
Found at i:2179134 original size:95 final size:95
Alignment explanation
Indices: 2179023--2179281 Score: 331
Period size: 95 Copynumber: 2.7 Consensus size: 95
2179013 AGATTATAAT
* * *
2179023 ATTATATATATACAATAAAGCTTGAGATGTCCCTTTAAAGCCATTGGTTAAATGCCCCGGCTTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTTTAAAGCAATTGGTTAAATACCCCGGCTTTA
* * *
2179088 TGGATAAGATTTAGCTAGCCTGATATATGTG
65 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * *
2179119 ATTATAATATACAATAAAGCTTGAGTTGTCCTTTTAGAGCAATTGGTTAAACACCCCGGCTTTTT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTTTAAAGCAATTGGTTAAATACCCCGGCTTTAT
*
2179184 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * *
2179214 ATTATAATAT-CTATACAATGATATGGAGTTGTCCCTCTAAAGCAATTTGTTAAATACCCCGGCT
1 ATTATAATATACAATA-AA-GCT-T-GAGTTGTCCCTTTAAAGCAATTGGTTAAATACCCCGGCT
2179278 TTAT
62 TTAT
2179282 AGATCCAGCT
Statistics
Matches: 140, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
94 4 0.03
95 90 0.64
96 8 0.06
97 1 0.01
98 37 0.26
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTTTAAAGCAATTGGTTAAATACCCCGGCTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:2183755 original size:20 final size:20
Alignment explanation
Indices: 2183730--2183779 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
2183720 AAAATTTCAT
2183730 GTTTTAGAAATATATAATCA
1 GTTTTAGAAATATATAATCA
2183750 GTTTTAGAAATATATAATCA
1 GTTTTAGAAATATATAATCA
2183770 GTTTTAGAAA
1 GTTTTAGAAA
2183780 GCTACAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (20 bp):
GTTTTAGAAATATATAATCA
Found at i:2185453 original size:16 final size:17
Alignment explanation
Indices: 2185425--2185457 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2185415 AAAATGACCA
2185425 AAATAACCCTAAAGTAT
1 AAATAACCCTAAAGTAT
2185442 AAATAA-CCTAAAGTAT
1 AAATAACCCTAAAGTAT
2185458 TTCCAAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (17 bp):
AAATAACCCTAAAGTAT
Found at i:2187667 original size:35 final size:37
Alignment explanation
Indices: 2187607--2187689 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 37
2187597 TAGTATTTAC
2187607 TAAAACAAAT-AAAAATAATAAATAT-ATAATACTAAG
1 TAAAA-AAATAAAAAATAATAAATATAATAATACTAAG
* * *
2187643 TAAAAAAATAAAAAATAA-AGATATACATGATATTAAG
1 TAAAAAAATAAAAAATAATAAATATA-ATAATACTAAG
2187680 -AAAAAAATAA
1 TAAAAAAATAA
2187690 TAGAAAAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 9 0.22
36 23 0.56
37 9 0.22
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.23
Consensus pattern (37 bp):
TAAAAAAATAAAAAATAATAAATATAATAATACTAAG
Found at i:2187854 original size:2 final size:2
Alignment explanation
Indices: 2187842--2187912 Score: 117
Period size: 2 Copynumber: 36.0 Consensus size: 2
2187832 TTAATACATC
*
2187842 TA TA CA 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
*
2187884 TA TA TA TA TA TA TA TA -A GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2187913 AAATAATGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2189334 original size:206 final size:210
Alignment explanation
Indices: 2189099--2189580 Score: 580
Period size: 212 Copynumber: 2.3 Consensus size: 210
2189089 ATTGGCTCTA
*
2189099 GAAATTATTTGTTGACAGTCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCT
1 GAAATTATTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCT
* * * *
2189164 AATATCCTTCGTTGTGAAGTTGAAATTTACTCTG-AA-T-GAA-AATTTGTTGACAATCAGC-CT
66 AATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGAAGAATTTGTTGACAACCAACACT
* * * ** *
2189224 CCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGGTCCAATATCCTTTGCTGGGAAGTTGAAA
131 -CCCTTCATCGTGAAGTTGAACTTGTGTTGTCTCGAATCCAATATCCTTCGCTGGGAAGTTGAAA
*
2189289 TTGGC-CTTAAAATTGG
195 TTGGCTC-TAAAACTGG
* * * *
2189305 GAAATTGTTTGTTGACAGTCAGACGCCCCTTTGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCT
1 GAAATTATTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCT
* * **
2189370 AATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTTGTTGACAACCAACA
66 AATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATT-GGAAG-AATTTGTTGACAACCAACA
* * * *
2189435 GTCCCTTTATTGTGAAGTTGAACTTGTGTTGTCTCGAATCCAATATCCTTCGCTGTGAAGTTGAA
129 CTCCCTTCATCGTGAAGTTGAACTTGTGTTGTCTCGAATCCAATATCCTTCGCTGGGAAGTTGAA
* *
2189500 ATTGGTTCTGAAACTGG
194 ATTGGCTCTAAAACTGG
** ** * * *
2189517 GAAATTATTTGTTGACAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTTGTCTCGAGT
1 GAAATTATTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTG-CTGTCTCGAGT
2189581 AGCATGATAT
Statistics
Matches: 230, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
206 90 0.39
207 2 0.01
208 1 0.00
210 3 0.01
212 123 0.53
213 11 0.05
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (210 bp):
GAAATTATTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCT
AATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGAAGAATTTGTTGACAACCAACACT
CCCTTCATCGTGAAGTTGAACTTGTGTTGTCTCGAATCCAATATCCTTCGCTGGGAAGTTGAAAT
TGGCTCTAAAACTGG
Found at i:2189350 original size:106 final size:107
Alignment explanation
Indices: 2189099--2189580 Score: 518
Period size: 106 Copynumber: 4.6 Consensus size: 107
2189089 ATTGGCTCTA
* * * *
2189099 GAAATTATTTGTTGACAGTCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCT
1 GAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
* **
2189164 AATATCCTTCGTTGTGAAGTTGAAATT-TACTCTG-AA-T--
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCCTCTGAAATTGG
* * *
2189201 GAAA--ATTTGTTGACAATCAGCCTCCCCTTCG-TCGTGAAGTTGAGCTTGTGTTGTCTTGGGTC
1 GAAATTATTTGTTGACAATCAGCCGCCCCTTCGCT-GTGAAGTTGAGCTTGTGTTGTCTCGAGTC
* * *
2189263 CAATATCCTTTGCTGGGAAGTTGAAATTGGCCT-TAAAATTGG
65 CAATATCCTTCGCTGTGAAGTTGAAATTGGCCTCTGAAATTGG
* * * * * * *
2189305 GAAATTGTTTGTTGACAGTCAGACGCCCCTTTGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCT
1 GAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
*
2189370 AATATCCTTCGCTGTGAAGTTGAAATTGG-CTTTGAAATTGG
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCCTCTGAAATTGG
* * * * * * *** * *
2189411 GAAGTTGTTTGTTGACAACCAACAGTCCCTTTATTGTGAAGTTGAACTTGTGTTGTCTCGAATCC
1 GAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
* *
2189476 AATATCCTTCGCTGTGAAGTTGAAATTGG-TTCTGAAACTGG
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCCTCTGAAATTGG
* ** * *
2189517 GAAATTATTTGTTGACAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTTGTCTCGAGT
1 GAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTG-TTGTCTCGAGT
2189581 AGCATGATAT
Statistics
Matches: 320, Mismatches: 49, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
99 1 0.00
100 75 0.23
101 4 0.01
102 5 0.02
104 4 0.01
105 2 0.01
106 218 0.68
107 11 0.03
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (107 bp):
GAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
AATATCCTTCGCTGTGAAGTTGAAATTGGCCTCTGAAATTGG
Found at i:2190701 original size:106 final size:106
Alignment explanation
Indices: 2190486--2190690 Score: 275
Period size: 106 Copynumber: 1.9 Consensus size: 106
2190476 GTATTGTTCT
* * *
2190486 GAGTCCAATATCCTCCGCCCTGAAGTTAAAATTGGCTTTGGAACTAAGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTCCGCCCTGAAGTTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAA
*
2190551 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTCTCTC
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTCTCTC
* *** * **
2190592 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTCCGCCCTGAAGTTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAA
* * * *
2190657 CCAGCTGTCCCTTCGTTGTGGAGTTGAACTTGTG
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTG
2190691 TTGCCTCGAG
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
106 84 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTCCGCCCTGAAGTTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAA
CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTCTCTC
Found at i:2191346 original size:32 final size:32
Alignment explanation
Indices: 2191277--2191364 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
2191267 TTTGCATCAG
* * *
2191277 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTC
*
2191309 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTC
* * *
2191341 TATGTTAAATCTAAAAAAATGCCC
1 GATGTTGAATCTCAAAAAATGCCC
2191365 TCATTGTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 47 0.98
33 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTC
Found at i:2192534 original size:26 final size:26
Alignment explanation
Indices: 2192499--2192563 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
2192489 TTTTTTTAAA
*
2192499 ATTTTC-CTTTGTTTTTTTTCTTTTT
1 ATTTTCTCTTTGTTTTTTCTCTTTTT
*
2192524 ATTTTCTCTTTGCTTTTTCTCTTTTT
1 ATTTTCTCTTTGTTTTTTCTCTTTTT
* * *
2192550 TTTTTGTTTTTGTT
1 ATTTTCTCTTTGTT
2192564 CTGATTGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 6 0.18
26 27 0.82
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.78
Consensus pattern (26 bp):
ATTTTCTCTTTGTTTTTTCTCTTTTT
Found at i:2193349 original size:32 final size:32
Alignment explanation
Indices: 2193311--2193380 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
2193301 TTAAAATTTG
*
2193311 TTCAATTGCTCCACCTTAGAAAGTAGCATAAA
1 TTCAATTACTCCACCTTAGAAAGTAGCATAAA
2193343 TTCAATTACTCCACCTTAGAAAGTAGCATAAA
1 TTCAATTACTCCACCTTAGAAAGTAGCATAAA
2193375 TTCAAT
1 TTCAAT
2193381 CCTCTAGGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (32 bp):
TTCAATTACTCCACCTTAGAAAGTAGCATAAA
Found at i:2195658 original size:10 final size:10
Alignment explanation
Indices: 2195643--2195689 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
2195633 AACGAAACAC
2195643 ATAAAAAATA
1 ATAAAAAATA
2195653 ATAAAAAAATA
1 AT-AAAAAATA
2195664 ATAAAAAATA
1 ATAAAAAATA
*
2195674 A-ACAAAATGA
1 ATAAAAAAT-A
2195684 ATAAAA
1 ATAAAA
2195690 TGTTAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 6 0.19
10 13 0.41
11 13 0.41
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:2195661 original size:11 final size:11
Alignment explanation
Indices: 2195645--2195671 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2195635 CGAAACACAT
2195645 AAAAAATAATA
1 AAAAAATAATA
2195656 AAAAAATAATA
1 AAAAAATAATA
2195667 AAAAA
1 AAAAA
2195672 TAAACAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:2195760 original size:18 final size:17
Alignment explanation
Indices: 2195733--2195779 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
2195723 AATTAATGGA
2195733 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
2195750 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATAAAAAAG
2195768 G-AATAAAAATAA
1 GTAA-AAAAATAA
2195780 TGTGTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:2195912 original size:15 final size:13
Alignment explanation
Indices: 2195884--2195908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2195874 CATGATATTA
2195884 AGAAAAAAATAAT
1 AGAAAAAAATAAT
2195897 AGAAAAAAATAA
1 AGAAAAAAATAA
2195909 AATAAAGTAA
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AGAAAAAAATAAT
Found at i:2195912 original size:18 final size:18
Alignment explanation
Indices: 2195889--2195945 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
2195879 TATTAAGAAA
2195889 AAAATAATAGAAAAAAAT
1 AAAATAATAGAAAAAAAT
*
2195907 AAAATAA-AG-TAAAAAT
1 AAAATAATAGAAAAAAAT
* * *
2195923 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAAAAAAT
2195942 AAAA
1 AAAA
2195946 ACAAAAATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 8 0.27
19 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAATAGAAAAAAAT
Found at i:2196052 original size:8 final size:8
Alignment explanation
Indices: 2196039--2196081 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
2196029 AGAAAAATTA
*
2196039 ATACATCT
1 ATACATAT
2196047 ATACATAT
1 ATACATAT
*
2196055 ATATATAT
1 ATACATAT
*
2196063 ATATATAT
1 ATACATAT
*
2196071 ATATATAT
1 ATACATAT
2196079 ATA
1 ATA
2196082 ATGATATAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (8 bp):
ATACATAT
Found at i:2196058 original size:2 final size:2
Alignment explanation
Indices: 2196046--2196100 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
2196036 TTAATACATC
*
2196046 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
*
2196088 TA -A GA TA TA TA TA
1 TA TA TA TA TA TA TA
2196101 ATAAAAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.91
3 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:2196172 original size:13 final size:13
Alignment explanation
Indices: 2196092--2196178 Score: 50
Period size: 13 Copynumber: 6.4 Consensus size: 13
2196082 ATGATATAAG
2196092 ATATATATAATAAAA
1 ATATA-ATAA-AAAA
* * *
2196107 ATAAAATAATATA
1 ATATAATAAAAAA
2196120 ATATAAATAAAAAA
1 ATAT-AATAAAAAA
* * **
2196134 AGAGGAATATAGTAA
1 ATA-TAATA-AAAAA
2196149 ATA-AATAAAAAA
1 ATATAATAAAAAA
*
2196161 ATATAATTAAAAA
1 ATATAATAAAAAA
2196174 ATATA
1 ATATA
2196179 TATATAGGGG
Statistics
Matches: 54, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
12 6 0.11
13 22 0.41
14 17 0.31
15 9 0.17
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (13 bp):
ATATAATAAAAAA
Found at i:2213607 original size:21 final size:22
Alignment explanation
Indices: 2213515--2213619 Score: 65
Period size: 21 Copynumber: 4.7 Consensus size: 22
2213505 CTTCCAAAAC
*
2213515 TATATAT-TA-TTTTCAAATTTA
1 TATATATATACTTTT-AAAATTA
* *
2213536 TATAATATATATTTTTAAAATAAATG
1 TAT-ATATATACTTTTAAAAT---TA
* **
2213562 TATAATATATACGTTTAAAGCTA
1 TAT-ATATATACTTTTAAAATTA
2213585 TATATAT-TACTTTTAAAATTA
1 TATATATATACTTTTAAAATTA
*
2213606 TATA-ATATAATTTT
1 TATATATATACTTTT
2213620 TGAAAAAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
20 2 0.03
21 24 0.36
22 8 0.12
23 10 0.15
24 4 0.06
26 18 0.27
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (22 bp):
TATATATATACTTTTAAAATTA
Found at i:2213625 original size:23 final size:23
Alignment explanation
Indices: 2213595--2213644 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
2213585 TATATATTAC
* *
2213595 TTTT-AAAATTATATAATATAAT
1 TTTTAAAAAATATATAATAGAAT
2213617 TTTTGAAAAAAATATATAATAGAAT
1 TTTT--AAAAAATATATAATAGAAT
2213642 TTT
1 TTT
2213645 AAACTATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
25 19 0.83
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TTTTAAAAAATATATAATAGAAT
Found at i:2213942 original size:44 final size:41
Alignment explanation
Indices: 2213893--2214000 Score: 96
Period size: 41 Copynumber: 2.6 Consensus size: 41
2213883 TCTCTACGTG
*
2213893 ATGGAAACATGC-AAAGTGTTGATATTGATGCAACTCCTTATGCA
1 ATGGAAACAAGCGAAAGTGTTG---TTGAT-CAACTCCTTATGCA
* * *
2213937 ATGGAATCAAGCGAAGGTGTTGTTGATCAACTCCTTATGTGA
1 ATGGAAACAAGCGAAAGTGTTGTTGATCAACTCCTTATG-CA
* *
2213979 AT-GAATCAAGTGAAA-TGTTGTT
1 ATGGAAACAAGCGAAAGTGTTGTT
2214001 ACCGATCTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
40 7 0.12
41 23 0.41
42 8 0.14
44 10 0.18
45 8 0.14
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (41 bp):
ATGGAAACAAGCGAAAGTGTTGTTGATCAACTCCTTATGCA
Found at i:2221145 original size:20 final size:21
Alignment explanation
Indices: 2221120--2221201 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
2221110 TTTTGGTGCA
2221120 GAGGGAATCGA-TCCCCCCCT
1 GAGGGAATCGATTCCCCCCCT
* **
2221140 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCCCT
*
2221161 GAAGGGGAA-CGATTCCCCCCACA
1 G-A-GGGAATCGATTCCCCCC-CT
*
2221184 G-GGGAATCGATACCCCCC
1 GAGGGAATCGATTCCCCCC
2221202 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
20 15 0.30
21 18 0.36
22 11 0.22
23 6 0.12
ACGTcount: A:0.23, C:0.37, G:0.26, T:0.15
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCCT
Found at i:2244877 original size:16 final size:17
Alignment explanation
Indices: 2244837--2244877 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2244827 AAAAAAAAGG
2244837 AAAACAAG-AGGGAGAA
1 AAAACAAGAAGGGAGAA
* *
2244853 AGAAGAAGAAGGG-GAA
1 AAAACAAGAAGGGAGAA
2244869 AAAACAAGA
1 AAAACAAGA
2244878 GTTTATGACA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.63, C:0.05, G:0.32, T:0.00
Consensus pattern (17 bp):
AAAACAAGAAGGGAGAA
Found at i:2246900 original size:16 final size:17
Alignment explanation
Indices: 2246879--2246915 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2246869 CCCAAAGTAG
2246879 TTGAAT-TTTTACATAA
1 TTGAATATTTTACATAA
*
2246895 TTGAATATTTTACATAG
1 TTGAATATTTTACATAA
2246912 TTGA
1 TTGA
2246916 GATGGTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (17 bp):
TTGAATATTTTACATAA
Found at i:2247347 original size:18 final size:20
Alignment explanation
Indices: 2247311--2247347 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
2247301 TTTCTTTAGA
*
2247311 TTAATATAAGTATTTTCATT
1 TTAATATAAGTATTGTCATT
2247331 TTAATAT-A-TATTGTCAT
1 TTAATATAAGTATTGTCAT
2247348 ATTATGGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
TTAATATAAGTATTGTCATT
Found at i:2249622 original size:84 final size:84
Alignment explanation
Indices: 2249523--2249691 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
2249513 ATCAAGTTAT
2249523 TGCTGAAGTTTTTTGGTCATGAGAGATATGGTCGAGTTCACTGTCAGGAATTATTCGTTACCCAT
1 TGCTGAAGTTTTTTGGTCATGAGAGATATGGTCGAGTTCACTGTCAGGAATTATTCGTTACCCAT
2249588 CCAAATTTTTGTGATTCAG
66 CCAAATTTTTGTGATTCAG
2249607 TGCTGAAGTTTTTTGGTCATGAGAGATATGGTCGAGTTCACTGTCAGGAATTATTCGTTACCCAT
1 TGCTGAAGTTTTTTGGTCATGAGAGATATGGTCGAGTTCACTGTCAGGAATTATTCGTTACCCAT
2249672 CCAAATTTTTGTGATTCAG
66 CCAAATTTTTGTGATTCAG
2249691 T
1 T
2249692 TCATCTTAGT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (84 bp):
TGCTGAAGTTTTTTGGTCATGAGAGATATGGTCGAGTTCACTGTCAGGAATTATTCGTTACCCAT
CCAAATTTTTGTGATTCAG
Found at i:2253379 original size:20 final size:21
Alignment explanation
Indices: 2253349--2253391 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
2253339 ATTTAAAGAA
2253349 TAAGCGTTAGAAGTCT-AAATC
1 TAAGCGTTAGAA-TCTAAAATC
2253370 TAAG-GTTAGAATCTAAAATC
1 TAAGCGTTAGAATCTAAAATC
2253390 TA
1 TA
2253392 GGTCCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
TAAGCGTTAGAATCTAAAATC
Found at i:2257005 original size:226 final size:231
Alignment explanation
Indices: 2256678--2257135 Score: 881
Period size: 226 Copynumber: 2.0 Consensus size: 231
2256668 CTGGTAATTA
2256678 TTTCAATTCTTGAATTTTAGTATTGATATTTAAGTGAGTAAAATGATGAAGTACCATTTTACAAA
1 TTTCAATTCTTGAATTTTAGTATTGATATTTAAGTGAGTAAAATGATGAAGTACCATTTTACAAA
2256743 AATCGAAAAAGTTGGTGCCAATACTAAAGAAATTCAT-AATA-TAAAGTA-TTTGATATTGAATA
66 AATCGAAAAAGTTGGTGCCAATACTAAAGAAATTCATAAATATTAAAGTATTTTGATATTGAATA
2256805 AG-TTCGAATATATCTTATGGATTGTTGTTATTGAAATTTAATTATGTTAGTACAATACTAACAT
131 AGTTTCGAATATATCTTATGGATTGTTGTTATTGAAATTTAATTATGTTAGTACAATACTAACAT
2256869 ATGCTTTAATATGAAATTGTGACTTTGTGT-GATCG
196 ATGCTTTAATATGAAATTGTGACTTTGTGTAGATCG
2256904 TTTCAATTCTTGAATTTTAGTATTGATATTTAAGTGAGTAAAATGATGAAGTACCATTTTACAAA
1 TTTCAATTCTTGAATTTTAGTATTGATATTTAAGTGAGTAAAATGATGAAGTACCATTTTACAAA
2256969 AATCGAAAAAGTTGGTGCCAATACTAAAGAAATTCATAAATATTAAAGTATTTTGATATTGAATA
66 AATCGAAAAAGTTGGTGCCAATACTAAAGAAATTCATAAATATTAAAGTATTTTGATATTGAATA
2257034 AGTTTCGAATATATCTTATGGATTGTTGTTATTGAAATTTAATTATGTTAGTACAATACTAACAT
131 AGTTTCGAATATATCTTATGGATTGTTGTTATTGAAATTTAATTATGTTAGTACAATACTAACAT
2257099 ATGCTTTAATATGAAATTGTGACTTTGTGTAGATCG
196 ATGCTTTAATATGAAATTGTGACTTTGTGTAGATCG
2257135 T
1 T
2257136 GATTGACTTC
Statistics
Matches: 227, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
226 102 0.45
227 4 0.02
228 7 0.03
229 16 0.07
230 92 0.41
231 6 0.03
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (231 bp):
TTTCAATTCTTGAATTTTAGTATTGATATTTAAGTGAGTAAAATGATGAAGTACCATTTTACAAA
AATCGAAAAAGTTGGTGCCAATACTAAAGAAATTCATAAATATTAAAGTATTTTGATATTGAATA
AGTTTCGAATATATCTTATGGATTGTTGTTATTGAAATTTAATTATGTTAGTACAATACTAACAT
ATGCTTTAATATGAAATTGTGACTTTGTGTAGATCG
Found at i:2258411 original size:36 final size:36
Alignment explanation
Indices: 2258371--2258443 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 36
2258361 TAACAATGAA
*
2258371 AATAAGAA-AAAATGAAT-TAATAATAATA-ATCAAAAT
1 AATAA-AACAAAATAAATATAAT-ATAATATAT-AAAAT
2258407 AATAAAACAAAATAAATATAATATAATATATAAAAT
1 AATAAAACAAAATAAATATAATATAATATATAAAAT
2258443 A
1 A
2258444 TGATATGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 2 0.06
36 25 0.76
37 6 0.18
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (36 bp):
AATAAAACAAAATAAATATAATATAATATATAAAAT
Found at i:2258419 original size:13 final size:15
Alignment explanation
Indices: 2258389--2258421 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
2258379 AAAATGAATT
2258389 AATAATAATAATCAA
1 AATAATAATAATCAA
2258404 AATAATAA-AA-CAA
1 AATAATAATAATCAA
2258417 AATAA
1 AATAA
2258422 ATATAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 2 0.11
15 8 0.44
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAATAATAATCAA
Found at i:2258442 original size:19 final size:19
Alignment explanation
Indices: 2258420--2258457 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2258410 AAAACAAAAT
2258420 AAATATAATATAATATATA
1 AAATATAATATAATATATA
* *
2258439 AAATATGATATGATATATA
1 AAATATAATATAATATATA
2258458 CTAATACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AAATATAATATAATATATA
Found at i:2258537 original size:24 final size:23
Alignment explanation
Indices: 2258504--2258754 Score: 170
Period size: 25 Copynumber: 11.0 Consensus size: 23
2258494 ATTTTCAAGC
* *
2258504 TATATATTTTCAAACTTATATTA
1 TATATATTTTCAAAATTATATAA
2258527 TATACTATTTTCAAAATTATATAA
1 TATA-TATTTTCAAAATTATATAA
*
2258551 TATAGT-GTTT-AAACATTATATATAA
1 TATA-TATTTTCAAA-A-T-TATATAA
* * * *
2258576 TATAAAATTTAAATAATATATGTAA
1 TATATATTTTCAA-AAT-TATATAA
* *
2258601 TATATACTTTCAAAA--CTAT-A
1 TATATATTTTCAAAATTATATAA
2258621 TAT-TATTTTCAAAATTATATAA
1 TATATATTTTCAAAATTATATAA
*
2258643 TATATATTTTCAAAAATAAATGTATAA
1 TATATATTTTC-AAAAT---TATATAA
* *
2258670 TATATAATTTC-AAAGT-TAT-A
1 TATATATTTTCAAAATTATATAA
2258690 TAT-TATTTTCAAAATTATATAA
1 TATATATTTTCAAAATTATATAA
* *
2258712 TATAT-TTTCTGAAAAATATATAA
1 TATATATTT-TCAAAATTATATAA
2258735 TATA-A-TTTCAAAA-TATATAA
1 TATATATTTTCAAAATTATATAA
2258755 ATTATAATAG
Statistics
Matches: 185, Mismatches: 22, Indels: 45
0.73 0.09 0.18
Matches are distributed among these distances:
19 16 0.09
20 19 0.10
21 16 0.09
22 17 0.09
23 32 0.17
24 30 0.16
25 35 0.19
26 3 0.02
27 17 0.09
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (23 bp):
TATATATTTTCAAAATTATATAA
Found at i:2258623 original size:18 final size:19
Alignment explanation
Indices: 2258600--2258641 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2258590 AATATATGTA
2258600 ATATA-TACTTTCAAAACT
1 ATATATTACTTTCAAAACT
* *
2258618 ATATATTATTTTCAAAATT
1 ATATATTACTTTCAAAACT
2258637 ATATA
1 ATATA
2258642 ATATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATTACTTTCAAAACT
Found at i:2258671 original size:69 final size:66
Alignment explanation
Indices: 2258569--2258753 Score: 211
Period size: 69 Copynumber: 2.8 Consensus size: 66
2258559 TTAAACATTA
* * * *
2258569 TATATAATATAAAATTTAAATAATATATGTAATATATACTTTCAAAACTATATATTATTTTCAAA
1 TATATAATATATATTTTAAA-AATAAATGTAATATATAATTTCAAAACTATATATTATTTTCAAA
2258634 AT
65 AT
**
2258636 TATATAATATATATTTTCAAAAATAAATGTATAATATATAATTTCAAAGTTATATATTATTTTCA
1 TATATAATATATATTTT-AAAAATAAATG--TAATATATAATTTCAAAACTATATATTATTTTCA
2258701 AAAT
63 AAAT
*
2258705 TATATAATATAT-TTTCTGAAAAAT--ATAT-A-ATATAATTTCAAAA-TATATA
1 TATATAATATATATTT-T-AAAAATAAATGTAATATATAATTTCAAAACTATATA
2258754 AATTATAATA
Statistics
Matches: 105, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
62 6 0.06
63 13 0.12
64 1 0.01
65 1 0.01
67 24 0.23
68 6 0.06
69 54 0.51
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (66 bp):
TATATAATATATATTTTAAAAATAAATGTAATATATAATTTCAAAACTATATATTATTTTCAAAA
T
Found at i:2258731 original size:23 final size:21
Alignment explanation
Indices: 2258505--2258754 Score: 136
Period size: 23 Copynumber: 11.0 Consensus size: 21
2258495 TTTTCAAGCT
**
2258505 ATATATTTTCAAACTTATATTA
1 ATATATTTTCAAAAATATA-TA
*
2258527 TATACTATTTTCAAAATTATATA
1 -ATA-TATTTTCAAAAATATATA
2258550 ATATAGTGTTT-AAACATTATATATA
1 ATATA-T-TTTCAAA-A--ATATATA
*
2258575 ATATAAAATTT-AAATAATATATGTA
1 ATAT--ATTTTCAAA-AATATA--TA
*
2258600 ATATATACTTTCAAAACTATAT-
1 ATATAT--TTTCAAAAATATATA
*
2258622 AT-TATTTTCAAAATTATATAA
1 ATATATTTTCAAAAATATAT-A
2258643 TATATATTTTCAAAAATAAATGTATA
1 -ATATATTTTCAAAAAT--A--TATA
**
2258669 ATATATAATTTCAAAGTTATAT-
1 ATATAT--TTTCAAAAATATATA
*
2258691 AT-TATTTTCAAAATTATATA
1 ATATATTTTCAAAAATATATA
2258711 ATATATTTTCTGAAAAATATATA
1 ATATATTTTC--AAAAATATATA
*
2258734 ATATAATTTC-AAAATATATA
1 ATATATTTTCAAAAATATATA
2258754 A
1 A
2258755 ATTATAATAG
Statistics
Matches: 187, Mismatches: 13, Indels: 57
0.73 0.05 0.22
Matches are distributed among these distances:
19 26 0.14
20 13 0.07
21 15 0.08
22 13 0.07
23 50 0.27
24 15 0.08
25 39 0.21
26 4 0.02
27 12 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATATTTTCAAAAATATATA
Found at i:2264154 original size:74 final size:76
Alignment explanation
Indices: 2263999--2264138 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 76
2263989 GGGTGGTATC
* ** *
2263999 GATACCTCTCATAGGGTGTACCGATACCCCTATGCCAATTTTGGCTCTGAGAAAAACAAATTGCC
1 GATACCCCTCATAGGGTGTACCGATACCCCTATGAAAATTTTGGCTCCGAGAAAAACAAATTGCC
2264064 CAAAAGGTACA
66 CAAAAGGTACA
*
2264075 GATACCCCTCATA-GG-GTACCGATACCCCTATGAAAATTTTGGCTCCGATAAAAACAGAA-TGC
1 GATACCCCTCATAGGGTGTACCGATACCCCTATGAAAATTTTGGCTCCGAGAAAAACA-AATTGC
2264137 CC
65 CC
2264139 TATGGGTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 42 0.72
75 4 0.07
76 12 0.21
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (76 bp):
GATACCCCTCATAGGGTGTACCGATACCCCTATGAAAATTTTGGCTCCGAGAAAAACAAATTGCC
CAAAAGGTACA
Found at i:2269861 original size:23 final size:22
Alignment explanation
Indices: 2269812--2269867 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
2269802 TTGTGCACAA
2269812 GTATCGATA-CCCCTTCAACGT
1 GTATCGATACCCCCTTCAACGT
* *
2269833 GTATCGATACCCCCTTTGAATGT
1 GTATCGATACCCCC-TTCAACGT
2269856 GTATCGATACCC
1 GTATCGATACCC
2269868 TCATAAGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 9 0.29
22 4 0.13
23 18 0.58
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (22 bp):
GTATCGATACCCCCTTCAACGT
Found at i:2270374 original size:13 final size:13
Alignment explanation
Indices: 2270348--2270390 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
2270338 GAAACTACAT
2270348 ATTGATTTTCAAAC
1 ATTG-TTTTCAAAC
*
2270362 ATTGTTTTTAAAC
1 ATTGTTTTCAAAC
*
2270375 ATAGTTTTCAAA-
1 ATTGTTTTCAAAC
2270387 ATTG
1 ATTG
2270391 CCCATTAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 3 0.12
13 18 0.72
14 4 0.16
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:2272673 original size:73 final size:72
Alignment explanation
Indices: 2272510--2272693 Score: 187
Period size: 72 Copynumber: 2.5 Consensus size: 72
2272500 TTAAATAGGG
* * * * *
2272510 TGGTACCGATACCCGTCATATGGTGTACCGATACCCCTATGCCAATTTTGGCTCTGAGAAAATAG
1 TGGTACCGATACCCCTCATA-GG-GTACCGATACCCCTATGCAAATTTTGGCTCTAAAAAAACAG
*
2272575 ATTGCCTAAA
64 AATGCCT-AA
2272585 TGGTACCGATACCCCTCATAGGGTACCGATACCCCTATGCAAATTTTGG-T-TAAAAAAAACAGA
1 TGGTACCGATACCCCTCATAGGGTACCGATACCCCTATGCAAATTTTGGCTCT-AAAAAAACAGA
2272648 ATGCCCT-A
65 ATG-CCTAA
* * * *
2272656 TGGGTACCCATACCCC-CTTACAGGTATCGATACCCCTA
1 T-GGTACCGATACCCCTCATA-GGGTACCGATACCCCTA
2272694 GTCATTTAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
71 6 0.06
72 39 0.41
73 29 0.31
74 2 0.02
75 19 0.20
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (72 bp):
TGGTACCGATACCCCTCATAGGGTACCGATACCCCTATGCAAATTTTGGCTCTAAAAAAACAGAA
TGCCTAA
Found at i:2273026 original size:10 final size:9
Alignment explanation
Indices: 2272968--2273032 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
2272958 GTTAAAAAGG
2272968 TATAATAAA
1 TATAATAAA
*
2272977 -ATAAATAAT
1 TAT-AATAAA
2272986 TATAA-AAA
1 TATAATAAA
*
2272994 -A-AAGAAA
1 TATAATAAA
*
2273001 AATAATAAA
1 TATAATAAA
2273010 -ATAATAAA
1 TATAATAAA
2273018 TAGTAATAAA
1 TA-TAATAAA
2273028 TATAA
1 TATAA
2273033 ATATAAATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
6 2 0.04
7 4 0.09
8 13 0.28
9 16 0.35
10 11 0.24
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (9 bp):
TATAATAAA
Found at i:2273041 original size:16 final size:17
Alignment explanation
Indices: 2273003--2273035 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
2272993 AAAAGAAAAA
2273003 TAATAAAATAATAAATAG
1 TAAT-AAATAATAAATAG
2273021 TAATAAAT-ATAAATA
1 TAATAAATAATAAATA
2273036 TAAATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
TAATAAATAATAAATAG
Found at i:2273750 original size:65 final size:65
Alignment explanation
Indices: 2273623--2273750 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 65
2273613 TAAAACATCT
* *
2273623 TAAATCCTAATTGAAACACTTAAAACTATCTAAACAAAAATACCTAAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACACTTAAAACTATCTAAACAAAAATACCTAAAAAAATAATAAAATATTC
* * * *
2273688 TAAATCCTAATTAAAACAC-TAAAACCTATTTCAACTAAAATACCTAAAACAAA-GATAAAATAT
1 TAAATCCTAATTAAAACACTTAAAA-CTATCTAAACAAAAATACCTAAAA-AAATAATAAAATAT
2273751 AATCACTACA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
64 5 0.09
65 47 0.85
66 3 0.05
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (65 bp):
TAAATCCTAATTAAAACACTTAAAACTATCTAAACAAAAATACCTAAAAAAATAATAAAATATTC
Found at i:2278038 original size:61 final size:61
Alignment explanation
Indices: 2277950--2278064 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 61
2277940 TAAGGTGGAT
* * * * *
2277950 ACGACCTAATGTATCATGTCTGGATTAGCACTATAGCGTAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTAATGTATCATATCCGCATTAGCACTATAGCATAAGCTTAGTGCAGGTGGTGGGC
* * *
2278011 ACGACCTTATGTGTCATATCCGCATTAGCACTATGGCATAAGCTTAGTGCAGGT
1 ACGACCTAATGTATCATATCCGCATTAGCACTATAGCATAAGCTTAGTGCAGGT
2278065 TTAGCACTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (61 bp):
ACGACCTAATGTATCATATCCGCATTAGCACTATAGCATAAGCTTAGTGCAGGTGGTGGGC
Found at i:2278262 original size:47 final size:47
Alignment explanation
Indices: 2278174--2278331 Score: 216
Period size: 47 Copynumber: 3.4 Consensus size: 47
2278164 GTAAGTATGC
* *
2278174 AAATAAGCTTACGATCTTAT-GAA--T-AATGGAAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGCAAGTATATTGATA
* * * *
2278217 AATTAAGCTTTCAAGCTTATGGAATTTAAATGGCAAGTATGTTGATA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGCAAGTATATTGATA
* *
2278264 AAATAAGCTTACGAGCTTATGGAATTTAAATGGCAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATTTAAATGGCAAGTATATTGATA
2278311 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
2278332 AAATAAATGG
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 16 0.16
44 3 0.03
46 1 0.01
47 80 0.80
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34
Consensus pattern (47 bp):
AAATAAGCTTACGAGCTTATGGAATTTAAATGGCAAGTATATTGATA
Found at i:2283600 original size:2 final size:2
Alignment explanation
Indices: 2283593--2283618 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2283583 TCAATATACA
2283593 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
2283619 TTACGACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2283794 original size:13 final size:13
Alignment explanation
Indices: 2283773--2283850 Score: 120
Period size: 13 Copynumber: 6.0 Consensus size: 13
2283763 AATGACGCGC
*
2283773 AATGAGCGTCATA
1 AATGCGCGTCATA
2283786 AATGCGCGTCATA
1 AATGCGCGTCATA
*
2283799 AATGCGTGTCATA
1 AATGCGCGTCATA
*
2283812 AATGCGTGTCATA
1 AATGCGCGTCATA
2283825 AATGCGCGTCATA
1 AATGCGCGTCATA
*
2283838 AATGCGTGTCATA
1 AATGCGCGTCATA
2283851 GATTTATGAC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 61 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:2285681 original size:19 final size:19
Alignment explanation
Indices: 2285657--2285704 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
2285647 CATCTGATAA
2285657 AATAAAATAAAAT-AAATGG
1 AATAAAATAAAATAAAAT-G
2285676 AATAAAAT-AAATAAAATG
1 AATAAAATAAAATAAAATG
2285694 AA-AAAATAAAA
1 AATAAAATAAAA
2285705 CGAAATAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 12 0.44
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
AATAAAATAAAATAAAATG
Found at i:2288601 original size:8 final size:8
Alignment explanation
Indices: 2288590--2288631 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
2288580 ATAAAAAGGT
2288590 ATAATAAA
1 ATAATAAA
*
2288598 ATAAATAATT
1 AT-AATAA-A
2288608 ATAATAAA
1 ATAATAAA
2288616 ATAATAAA
1 ATAATAAA
2288624 ATAATAAA
1 ATAATAAA
2288632 TATTAATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 18 0.60
9 10 0.33
10 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
ATAATAAA
Found at i:2288610 original size:18 final size:16
Alignment explanation
Indices: 2288589--2288652 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 16
2288579 GATAAAAAGG
2288589 TATAATAAAATAAATAA
1 TATAATAAAAT-AATAA
2288606 TTATAATAAAATAATAA
1 -TATAATAAAATAATAA
* *
2288623 AATAAT-AAATATTAA
1 TATAATAAAATAATAA
2288638 TAGTAATAAATATAA
1 TA-TAATAAA-ATAA
2288653 AAGGGGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.23
16 9 0.23
17 7 0.18
18 14 0.36
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
TATAATAAAATAATAA
Found at i:2288638 original size:26 final size:26
Alignment explanation
Indices: 2288590--2288639 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2288580 ATAAAAAGGT
*
2288590 ATAATAAAATAAATAATTATAATAAA
1 ATAATAAAATAAATAAATATAATAAA
2288616 ATAATAAAAT-AATAAATATTAATA
1 ATAATAAAATAAATAAATA-TAATA
2288640 GTAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
ATAATAAAATAAATAAATATAATAAA
Found at i:2289336 original size:15 final size:15
Alignment explanation
Indices: 2289307--2289335 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2289297 TTGAAACACT
2289307 TAAAACTATCTAAAA
1 TAAAACTATCTAAAA
2289322 TAAAA-TATCTAAAA
1 TAAAACTATCTAAAA
2289336 AATAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAACTATCTAAAA
Found at i:2291768 original size:44 final size:43
Alignment explanation
Indices: 2291692--2291783 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 43
2291682 AAAAATTTAC
* * *
2291692 TAATTTACTAATAAATAAATAAAAAAGATAAATTATTAATCAA
1 TAATTTTCAAATAAATAAATAAAAAAGATAAATTACTAATCAA
* * *
2291735 TCAATTTTCAAATAAATAACTAAAAATA-TTAAATTACTAATTAA
1 T-AATTTTCAAATAAATAAATAAAAA-AGATAAATTACTAATCAA
2291779 TAATT
1 TAATT
2291784 ATTATTTTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.12
44 35 0.85
45 1 0.02
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.36
Consensus pattern (43 bp):
TAATTTTCAAATAAATAAATAAAAAAGATAAATTACTAATCAA
Found at i:2292176 original size:3 final size:3
Alignment explanation
Indices: 2292168--2292209 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
2292158 GGCTTCTTTT
* *
2292168 TTA TTA TTA TTA TTA TT- TTA TTT TTA TTA TT- TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2292210 TTGCAGACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (3 bp):
TTA
Found at i:2292194 original size:14 final size:14
Alignment explanation
Indices: 2292171--2292209 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
2292161 TTCTTTTTTA
*
2292171 TTATTATTATTATT
1 TTATTTTTATTATT
2292185 TTATTTTTATTATT
1 TTATTTTTATTATT
2292199 TTATTTTTATT
1 TTATTTTTATT
2292210 TTGCAGACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTTTATTATT
Found at i:2292196 original size:20 final size:20
Alignment explanation
Indices: 2292165--2292211 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 20
2292155 TCGGGCTTCT
2292165 TTTTTATTATTATTATTATTTTA
1 TTTTTATTATT-TTA-T-TTTTA
2292188 TTTTTATTATTTTATTTTTA
1 TTTTTATTATTTTATTTTTA
2292208 TTTT
1 TTTT
2292212 GCAGACCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.38
21 1 0.04
22 3 0.12
23 11 0.46
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTATTATTTTATTTTTA
Found at i:2292210 original size:6 final size:6
Alignment explanation
Indices: 2292165--2292211 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
2292155 TCGGGCTTCT
* *
2292165 TTTTTA TTATTA TTATTA -TTTTA TTTTTA TTATTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -T-TTTTA TTTTTA TTTT
2292212 GCAGACCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 4 0.11
6 25 0.69
7 2 0.06
8 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:2299578 original size:5 final size:5
Alignment explanation
Indices: 2299568--2299615 Score: 69
Period size: 5 Copynumber: 9.2 Consensus size: 5
2299558 TTACTTTTTA
*
2299568 TATTT TATTT TATTT TATTT TATTGG TATTT TATTT TATTTT TATTT T
1 TATTT TATTT TATTT TATTT TATT-T TATTT TATTT TA-TTT TATTT T
2299616 TTACAATCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 30 0.77
6 9 0.23
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:2299581 original size:10 final size:10
Alignment explanation
Indices: 2299568--2299615 Score: 69
Period size: 11 Copynumber: 4.6 Consensus size: 10
2299558 TTACTTTTTA
2299568 TATTTTATTT
1 TATTTTATTT
2299578 TATTTTATTT
1 TATTTTATTT
*
2299588 TATTGGTATTT
1 TATT-TTATTT
2299599 TATTTTATTTT
1 TATTTTA-TTT
2299610 TATTTT
1 TATTTT
2299616 TTACAATCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 16 0.47
11 18 0.53
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (10 bp):
TATTTTATTT
Found at i:2300442 original size:22 final size:22
Alignment explanation
Indices: 2300417--2300458 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2300407 GGTTAATTGT
2300417 TTTTATTGGATTATCTTGTCAC
1 TTTTATTGGATTATCTTGTCAC
*
2300439 TTTTATTTGATTATCTTGTC
1 TTTTATTGGATTATCTTGTC
2300459 TAAGTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (22 bp):
TTTTATTGGATTATCTTGTCAC
Found at i:2300912 original size:16 final size:15
Alignment explanation
Indices: 2300891--2300932 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
2300881 TTTAGTTTGA
2300891 TTATTTTATTATTATG
1 TTATTTTATTATTA-G
* *
2300907 TTATTTCATAATTAG
1 TTATTTTATTATTAG
2300922 TTATTTTATTA
1 TTATTTTATTA
2300933 GATCTCTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (15 bp):
TTATTTTATTATTAG
Found at i:2301113 original size:13 final size:13
Alignment explanation
Indices: 2301097--2301130 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2301087 TCATTTCCTT
*
2301097 TTTTCTTTCGTTA
1 TTTTCTTTCATTA
2301110 TTTTCTTTCATTA
1 TTTTCTTTCATTA
2301123 TTTTCTTT
1 TTTTCTTT
2301131 TCACAATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.15, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTTCTTTCATTA
Found at i:2301472 original size:186 final size:186
Alignment explanation
Indices: 2301158--2301534 Score: 727
Period size: 186 Copynumber: 2.0 Consensus size: 186
2301148 TTTCAATCTA
2301158 TGTTTGGCTAAACCTCTACTTAGCCAAAGGTCTTTACGAAACTCAATTTCATTCGTTAGAATTGA
1 TGTTTGGCTAAACCTCTACTTAGCCAAAGGTCTTTACGAAACTCAATTTCATTCGTTAGAATTGA
*
2301223 ATCTTGATCATCATACCTCCATATCATATTCTTGATTCTATGGAAACTAGGAGTGTCAATTGGTC
66 ATATTGATCATCATACCTCCATATCATATTCTTGATTCTATGGAAACTAGGAGTGTCAATTGGTC
2301288 ATTCTATTAAAAGTTATTCCATCTTCAACTCAAAATGTGCACATTGATTTGAAGAT
131 ATTCTATTAAAAGTTATTCCATCTTCAACTCAAAATGTGCACATTGATTTGAAGAT
2301344 TGTTTGGCTAAACCTCTACTTAGCCAAAGGTCTTTACGAAACTCAATTTCATTCGTTAGAATTGA
1 TGTTTGGCTAAACCTCTACTTAGCCAAAGGTCTTTACGAAACTCAATTTCATTCGTTAGAATTGA
*
2301409 ATATTGATCATCATACCTCCATATCATATTCTTGATTCTCTGGAAACTAGGAGTGTCAATTGGTC
66 ATATTGATCATCATACCTCCATATCATATTCTTGATTCTATGGAAACTAGGAGTGTCAATTGGTC
*
2301474 ATTCTATTAAAAGTTATTGCATCTTCAACTCAAAATGTGCACATTGATTTGAAGAT
131 ATTCTATTAAAAGTTATTCCATCTTCAACTCAAAATGTGCACATTGATTTGAAGAT
2301530 TGTTT
1 TGTTT
2301535 TGCTTGAAGT
Statistics
Matches: 188, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 188 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (186 bp):
TGTTTGGCTAAACCTCTACTTAGCCAAAGGTCTTTACGAAACTCAATTTCATTCGTTAGAATTGA
ATATTGATCATCATACCTCCATATCATATTCTTGATTCTATGGAAACTAGGAGTGTCAATTGGTC
ATTCTATTAAAAGTTATTCCATCTTCAACTCAAAATGTGCACATTGATTTGAAGAT
Found at i:2306808 original size:12 final size:12
Alignment explanation
Indices: 2306791--2306824 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2306781 AGTTAGTAAG
2306791 ATAAAAATAATA
1 ATAAAAATAATA
*
2306803 ATAAAAATACTA
1 ATAAAAATAATA
*
2306815 ACAAAAATAA
1 ATAAAAATAA
2306825 AAATTCCTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:2307705 original size:99 final size:99
Alignment explanation
Indices: 2307534--2307732 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
2307524 GGGCCCAGAA
2307534 TTGGGCTTCGACTTAAATAAATGTGTTAAAGTCGCCACCGATCATTTAAAATTAGGTTGACCAAA
1 TTGGGCTTCGACTTAAATAAATGTGTTAAAGTCGCCACCGATCATTTAAAATTAGGTTGACCAAA
2307599 TACATTAATTGACCATTTTACCTGATCTGCGTTT
66 TACATTAATTGACCATTTTACCTGATCTGCGTTT
2307633 TTGGGCTTCGACTTAAATAAATGTGTTAAAGTCGCCACCGATCATTTAAAATTAGGTTGACCAAA
1 TTGGGCTTCGACTTAAATAAATGTGTTAAAGTCGCCACCGATCATTTAAAATTAGGTTGACCAAA
2307698 TACATTAATTGACCATTTTACCTGATCTGCGTTT
66 TACATTAATTGACCATTTTACCTGATCTGCGTTT
2307732 T
1 T
2307733 ACCAAAAATT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (99 bp):
TTGGGCTTCGACTTAAATAAATGTGTTAAAGTCGCCACCGATCATTTAAAATTAGGTTGACCAAA
TACATTAATTGACCATTTTACCTGATCTGCGTTT
Found at i:2308126 original size:11 final size:11
Alignment explanation
Indices: 2308104--2308134 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2308094 ATGTTAAATT
2308104 TAAAAGTAATAA
1 TAAAA-TAATAA
2308116 TAAAATAATAA
1 TAAAATAATAA
2308127 TAAAATAA
1 TAAAATAA
2308135 AACAATGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:2308225 original size:31 final size:33
Alignment explanation
Indices: 2308166--2308227 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
2308156 AAAAATATAT
2308166 AAAACAATGTTTAAAAATAATAATAATAAATGA
1 AAAACAATGTTTAAAAATAATAATAATAAATGA
*
2308199 AAAAC-ATG-TTAAAATTAA-AATAAATAAAT
1 AAAACAATGTTTAAAAATAATAAT-AATAAAT
2308228 AAATAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 16 0.59
32 3 0.11
33 5 0.19
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (33 bp):
AAAACAATGTTTAAAAATAATAATAATAAATGA
Found at i:2309648 original size:5 final size:5
Alignment explanation
Indices: 2309638--2309705 Score: 67
Period size: 5 Copynumber: 14.4 Consensus size: 5
2309628 AGATAAAAAT
2309638 TAATA TAATA T-A-A TAATA TAAATA TAATA -AA-A TAA-A TAA-A TAATA
1 TAATA TAATA TAATA TAATA T-AATA TAATA TAATA TAATA TAATA TAATA
*
2309683 TTAATG TAATA TAATA TAATA TA
1 -TAATA TAATA TAATA TAATA TA
2309706 TAATAAAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
3 3 0.05
4 14 0.25
5 29 0.53
6 9 0.16
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:2309661 original size:19 final size:19
Alignment explanation
Indices: 2309639--2309740 Score: 76
Period size: 19 Copynumber: 5.5 Consensus size: 19
2309629 GATAAAAATT
2309639 AATATAATATAATAATATA
1 AATATAATATAATAATATA
*
2309658 AATATAATAAAATAA-AT-
1 AATATAATATAATAATATA
2309675 AA-ATAATATTAATGTAATAT-
1 AATATAATA-TAA--TAATATA
2309695 AATATAATAT-ATAATA-A
1 AATATAATATAATAATATA
*
2309712 AA-ACT-ATATAATATTATGA
1 AATA-TAATATAATAATAT-A
*
2309731 AAAATAATAT
1 AATATAATAT
2309741 GTTTTCAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 23
0.72 0.03 0.24
Matches are distributed among these distances:
16 11 0.16
17 17 0.25
18 2 0.03
19 22 0.32
20 10 0.15
21 6 0.09
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (19 bp):
AATATAATATAATAATATA
Found at i:2309693 original size:46 final size:45
Alignment explanation
Indices: 2309621--2309713 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 45
2309611 GACCTAAAGT
*
2309621 AATAAATAGATAAAAATTAATATAATATAATAATATAAATATAATAA
1 AATAAATAAATAAAAATTAATATAATATAAT-ATA-AAATATAATAA
* * *
2309668 AATAAATAAAT-AATATTAATGTAATATAATATAATATATAATAA
1 AATAAATAAATAAAAATTAATATAATATAATATAAAATATAATAA
2309712 AA
1 AA
2309714 ACTATATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
44 12 0.29
45 3 0.07
46 17 0.40
47 10 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (45 bp):
AATAAATAAATAAAAATTAATATAATATAATATAAAATATAATAA
Found at i:2309826 original size:23 final size:21
Alignment explanation
Indices: 2309777--2309833 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 21
2309767 GTTTCCAAAA
2309777 ATCGTTTTAAAAACTATATAT
1 ATCGTTTTAAAAACTATATAT
2309798 AT-GTTTTAAAAACTATATTAT
1 ATCGTTTTAAAAACTATA-TAT
2309819 ATACGTTTTCAAAAA
1 AT-CGTTTT-AAAAA
2309834 TCATTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 15 0.47
21 7 0.22
23 5 0.16
24 5 0.16
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (21 bp):
ATCGTTTTAAAAACTATATAT
Found at i:2309832 original size:56 final size:58
Alignment explanation
Indices: 2309737--2309855 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 58
2309727 ATGAAAAATA
* *
2309737 ATATGTTTTCAAAAATTATATATTATATATGTTTCCAAAAATCGTTTTAAAAACTATAT
1 ATATGTTTTCAAAAA-TATATATTATATACGTTTCCAAAAATCATTTTAAAAACTATAT
* * *
2309796 ATATGTTTT-AAAAA-CTATATTATATACGTTTTCAAAAATCATTTTTAAAACTATAT
1 ATATGTTTTCAAAAATATATATTATATACGTTTCCAAAAATCATTTTAAAAACTATAT
2309852 ATAT
1 ATAT
2309856 TATATGGTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
56 41 0.75
58 5 0.09
59 9 0.16
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (58 bp):
ATATGTTTTCAAAAATATATATTATATACGTTTCCAAAAATCATTTTAAAAACTATAT
Found at i:2309919 original size:37 final size:36
Alignment explanation
Indices: 2309801--2310034 Score: 170
Period size: 38 Copynumber: 6.2 Consensus size: 36
2309791 TATATATATG
* * * *
2309801 TTTTAAAAACTATATTATATACGTTTTCAAAAATCA
1 TTTTCAAAACTATATAATATATGTTTTCAAAAAGCA
* * **
2309837 TTTTTAAAACTATATATATTATATGGTTTCAAAAATGTTTT
1 TTTTCAAAACTATATA-A-TATATGTTTTCAAAAA-G--CA
2309878 TTTTCAAAACTATATAATATATGTTTTCAAAAACGCA
1 TTTTCAAAACTATATAATATATGTTTTCAAAAA-GCA
* * *
2309915 TTTTCAAAACCACACT-ATATA--TTTTCAAAAAACCAA
1 TTTTCAAAACTATA-TAATATATGTTTTC-AAAAAGC-A
* * * *
2309951 TTTTTAAAAACTATATATTATATGCTTTCAAAAAGCT
1 -TTTTCAAAACTATATAATATATGTTTTCAAAAAGCA
* *
2309988 TTTTCTAAAAACTATATATTATATGTTTTCAAGAAA-TA
1 TTTTC--AAAACTATATAATATATGTTTTCAA-AAAGCA
2310026 TTTTCAAAA
1 TTTTCAAAA
2310035 ACTACATTAT
Statistics
Matches: 157, Mismatches: 26, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
35 6 0.04
36 29 0.18
37 33 0.21
38 50 0.32
39 23 0.15
40 1 0.01
41 15 0.10
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (36 bp):
TTTTCAAAACTATATAATATATGTTTTCAAAAAGCA
Found at i:2312449 original size:79 final size:79
Alignment explanation
Indices: 2312360--2312517 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
2312350 TCAGTTCCTT
2312360 TTTATTTTTTAATTTAGTTTTTAGTTTCATTCATTTCAGTCATGGTTTAATTATAAATCTCTTCT
1 TTTATTTTTTAATTTAGTTTTTAGTTTCATTCATTTCAGTCATGGTTTAATTATAAATCTCTTCT
2312425 TAAATTTTCAATTC
66 TAAATTTTCAATTC
2312439 TTTATTTTTTAATTTAGTTTTTAGTTTCATTCATTTCAGTCATGGTTTAATTATAAATCTCTTCT
1 TTTATTTTTTAATTTAGTTTTTAGTTTCATTCATTTCAGTCATGGTTTAATTATAAATCTCTTCT
2312504 TAAATTTTCAATTC
66 TAAATTTTCAATTC
2312518 AATGCAGGTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.57
Consensus pattern (79 bp):
TTTATTTTTTAATTTAGTTTTTAGTTTCATTCATTTCAGTCATGGTTTAATTATAAATCTCTTCT
TAAATTTTCAATTC
Found at i:2312850 original size:19 final size:19
Alignment explanation
Indices: 2312828--2312868 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
2312818 TTCATGCATG
*
2312828 ATACATATGTACATACATC
1 ATACACATGTACATACATC
2312847 ATACACATGTACATACATC
1 ATACACATGTACATACATC
2312866 ATA
1 ATA
2312869 TTTAAGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (19 bp):
ATACACATGTACATACATC
Found at i:2312951 original size:16 final size:15
Alignment explanation
Indices: 2312914--2312965 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
2312904 ATATAAGGAC
*
2312914 ATATAGTTTATATACT
1 ATATACTTTATATA-T
*
2312930 -TATACTTTATAATTT
1 ATATACTTTAT-ATAT
2312945 ATATACTTTATATAT
1 ATATACTTTATATAT
2312960 ATATAC
1 ATATAC
2312966 ACACATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 19 0.61
16 12 0.39
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATACTTTATATAT
Found at i:2312962 original size:22 final size:22
Alignment explanation
Indices: 2312914--2312962 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2312904 ATATAAGGAC
*
2312914 ATATAGTTTATATACTTATACT
1 ATATAATTTATATACTTATACT
*
2312936 TTATAATTTATATACTTTATA-T
1 ATATAATTTATATAC-TTATACT
2312958 ATATA
1 ATATA
2312963 TACACACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATAATTTATATACTTATACT
Found at i:2314721 original size:17 final size:17
Alignment explanation
Indices: 2314680--2314751 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
2314670 ATTCATGCAT
2314680 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
2314697 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
2314715 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
* *
2314732 CTGGTTCATTTATTAAA
1 CTAGTTCATTAATTAAA
2314749 CTA
1 CTA
2314752 ACTCTTAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
17 32 0.71
18 13 0.29
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:2317214 original size:3 final size:3
Alignment explanation
Indices: 2317206--2317266 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
2317196 CACTTTCATA
*
2317206 TAT TAT TAT TA- TAT TAT TAT TAT TA- TAT TAT TAT TAT TAA TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
2317253 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
2317267 AATAAATAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2317225 original size:14 final size:14
Alignment explanation
Indices: 2317206--2317266 Score: 95
Period size: 14 Copynumber: 4.1 Consensus size: 14
2317196 CACTTTCATA
2317206 TATTATTATTATAT
1 TATTATTATTATAT
2317220 TATTATTATTATAT
1 TATTATTATTATAT
2317234 TATTATTATTAATAT
1 TATTATTATT-ATAT
2317249 ATATTATTATTATTAT
1 -TATTATTATTA-TAT
2317265 TA
1 TA
2317267 AATAAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
14 24 0.55
15 7 0.16
16 13 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATTATTATAT
Found at i:2317237 original size:22 final size:21
Alignment explanation
Indices: 2317203--2317280 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 21
2317193 TTTCACTTTC
2317203 ATATATTATTATTATATTATTA
1 ATATA-TATTATTATATTATTA
*
2317225 TTAT-TA-TATTATTATTATTA
1 ATATATATTATTA-TATTATTA
2317245 ATATATATTATTATTATTATTA
1 ATATATATTATTA-TATTATTA
* *
2317267 A-ATAAATAATTATA
1 ATATATATTATTATA
2317281 AATCTAAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.10
20 15 0.31
21 11 0.22
22 18 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATATTATTATATTATTA
Found at i:2317238 original size:25 final size:27
Alignment explanation
Indices: 2317205--2317266 Score: 51
Period size: 25 Copynumber: 2.3 Consensus size: 27
2317195 TCACTTTCAT
2317205 ATATTATTAT-TATATTATTATT-AT-T
1 ATATTATTATAT-TATTATTATTAATAT
* *
2317230 ATATTATTATTATTAATATATATTATTAT
1 ATATTATTA-TATTATTAT-TATTAATAT
2317259 -TATTATTA
1 ATATTATTA
2317267 AATAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 9 0.30
26 6 0.20
27 5 0.17
28 9 0.30
29 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
ATATTATTATATTATTATTATTAATAT
Found at i:2318641 original size:15 final size:15
Alignment explanation
Indices: 2318621--2318650 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2318611 GGAGCTTTTA
2318621 ATTTTAATAATTGAT
1 ATTTTAATAATTGAT
*
2318636 ATTTTAATCATTGAT
1 ATTTTAATAATTGAT
2318651 TAATAATTAA
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:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTTAATAATTGAT
Found at i:2319744 original size:16 final size:16
Alignment explanation
Indices: 2319716--2319755 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
2319706 AAAATTCATA
*
2319716 TATTTAA-TTTTTAAT
1 TATTTAATTTTTTTAT
2319731 T-TTTAATTTTTTTAT
1 TATTTAATTTTTTTAT
2319746 TATTTAATTT
1 TATTTAATTT
2319756 CATTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 9 0.41
16 8 0.36
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTAATTTTTTTAT
Found at i:2325119 original size:6 final size:7
Alignment explanation
Indices: 2325088--2325195 Score: 65
Period size: 7 Copynumber: 13.7 Consensus size: 7
2325078 AAGAAAGAAG
*
2325088 AAAGAAA
1 AAAGGAA
*
2325095 AAAGAAA
1 AAAGGAA
2325102 AAAGATGAA
1 AAAG--GAA
2325111 AAAGGAA
1 AAAGGAA
2325118 AAAGGAA
1 AAAGGAA
2325125 AAATGAGAAAA
1 AAA-G-G--AA
*
2325136 AAAGAAA
1 AAAGGAA
2325143 AAAGATGAA
1 AAAG--GAA
2325152 AAAGGAA
1 AAAGGAA
2325159 AAATGAGAAA
1 AAA-G-G-AA
2325169 AAAGGAAAA
1 AAAGG--AA
2325178 AAAGGAA
1 AAAGGAA
2325185 AAA-GAA
1 AAAGGAA
2325191 AAAGG
1 AAAGG
2325196 GGAGAAATTG
Statistics
Matches: 85, Mismatches: 3, Indels: 26
0.75 0.03 0.23
Matches are distributed among these distances:
6 6 0.07
7 42 0.49
8 3 0.04
9 23 0.27
10 6 0.07
11 5 0.06
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (7 bp):
AAAGGAA
Found at i:2325140 original size:34 final size:32
Alignment explanation
Indices: 2325099--2325193 Score: 129
Period size: 34 Copynumber: 2.8 Consensus size: 32
2325089 AAGAAAAAAG
2325099 AAAAAAGATGAAAAAGGAAAAAGGAAAAATGAGA
1 AAAAAAGA--AAAAAGGAAAAAGGAAAAATGAGA
2325133 AAAAAAGAAAAAAGATGAAAAAGGAAAAATGAGA
1 AAAAAAGAAAAAAG--GAAAAAGGAAAAATGAGA
*
2325167 AAAAAGGAAAAAAAGGAAAAA-GAAAAA
1 AAAAAAG-AAAAAAGGAAAAAGGAAAAA
2325194 GGGGAGAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
32 12 0.21
33 6 0.11
34 32 0.56
35 7 0.12
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (32 bp):
AAAAAAGAAAAAAGGAAAAAGGAAAAATGAGA
Found at i:2325146 original size:41 final size:42
Alignment explanation
Indices: 2325092--2325189 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 42
2325082 AAGAAGAAAG
*
2325092 AAAAAAGAAAAAAGATGAAAAAGGAAAAA-G-GAAAAATGAGA
1 AAAAAAGAAAAAAGATGAAAAAGGAAAAATGAGAAAAAAG-GA
2325133 AAAAAAGAAAAAAGATGAAAAAGGAAAAATGAGAAAAAAGGA
1 AAAAAAGAAAAAAGATGAAAAAGGAAAAATGAGAAAAAAGGA
*
2325175 AAAAAAGGAAAAAGA
1 AAAAAAGAAAAAAGA
2325190 AAAAGGGGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
41 29 0.55
42 17 0.32
43 7 0.13
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.04
Consensus pattern (42 bp):
AAAAAAGAAAAAAGATGAAAAAGGAAAAATGAGAAAAAAGGA
Found at i:2329900 original size:22 final size:22
Alignment explanation
Indices: 2329874--2329950 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
2329864 ATCTACACTC
2329874 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
2329896 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* * *
2329918 TTTAAATATGATAGATTCTATT
1 TTCAAAGATGATAGATTCTCTT
*
2329940 TTCAATGATGA
1 TTCAAAGATGA
2329951 AAGCTTTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:2331072 original size:229 final size:228
Alignment explanation
Indices: 2330628--2331801 Score: 1936
Period size: 229 Copynumber: 5.1 Consensus size: 228
2330618 ATATTTCCCA
* ** *
2330628 CATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGACATTTTAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2330693 AACCTTAGGGTCATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAAAGCCTTCGGGAGCTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC--AAAAAGCCTTCGGGAGCTTT
2330758 TTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
129 TTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
*
2330823 TCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGAGT
194 TCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
** * *
2330858 CATAAGTAAGTCCTACAGTACATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2330923 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTT
*
2330988 TGATGTTTTCAAAGCCTTAGAGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
* *
2331053 CAGGAGCTTTTTGATGTTTTCAAAGCATTAGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* * *
2331087 CATCTGTAATTCCTATAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
* * *
2331152 AAGCCTTAGGGTCATCTGTAAGTCCTACATTGTATGATGTTTCCAAAAAGCCTTCGGGAGTTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* *
2331217 TGATGTTTTCAAAGCCTTATGGTCATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
2331282 CGGGAGCTTTTTTGATGTTTTCAAAGCCTTAGGGT
195 CGGGAGC-TTTTTGATGTTTTCAAAGCCTTAGGGT
* *
2331317 TATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2331382 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
2331447 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT-CTACAGTGAATGATGTTTCCAAAAACCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
2331511 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
2331544 CATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2331609 AGCCTTAGAGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * * * *
2331674 GATATTTTCAAAACCTTAGGGTCATCTGTAAGTCATACAATGCATGATGTTTTCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
* * * *
2331739 AGGAGATTTTTGATATTTTCAAAACCTTAGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
2331772 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
2331802 TTAACATTTC
Statistics
Matches: 882, Mismatches: 58, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
227 183 0.21
228 133 0.15
229 323 0.37
230 243 0.28
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:2331087 original size:153 final size:152
Alignment explanation
Indices: 2330628--2331801 Score: 1936
Period size: 153 Copynumber: 7.7 Consensus size: 152
2330618 ATATTTCCCA
* ** *
2330628 CATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGACATTTTAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2330693 AACCTTAGGGTCATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAAAGCCTTCGGGAGCTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC--AAAAAGCCTTCGGGAGCTTT
2330758 TTGATGTTTTCAAAGCCTTAGGGT
129 TTGATGTTTTCAAAGCCTTAGGGT
2330782 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* ** * *
2330847 AGCCTTAGAGTCATAAGTAAGTCCTACAGTACATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
2330912 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
2330934 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
* *
2330999 AAGCCTTAGAGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
2331064 TGATGTTTTCAAAGCATTAGGGT
130 TGATGTTTTCAAAGCCTTAGGGT
* * *
2331087 CATCTGTAATTCCTATAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
* * *
2331152 AAGCCTTAGGGTCATCTGTAAGTCCTACATTGTATGATGTTTCCAAAAAGCCTTCGGGAGTTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
2331217 TGATGTTTTCAAAGCCTTATGGT
130 TGATGTTTTCAAAGCCTTAGGGT
*
2331240 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
* *
2331305 AAGCCTTAGGGTTATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
2331370 TGATGTTTTCAAAGCCTTAGGGT
130 TGATGTTTTCAAAGCCTTAGGGT
2331393 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2331458 AGCCTTAGGGTCATCTGTAAGT-CTACAGTGAATGATGTTTCCAAAAACCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
2331522 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
*
2331544 CATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2331609 AGCCTTAGAGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
2331674 GATATTTTCAAAACCTTAGGGT
131 GATGTTTTCAAAGCCTTAGGGT
* * * * * *
2331696 CATCTGTAAGTCATACAATGCATGATGTTTTCAAAAAGCCTTCAGGAGATTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
2331761 AACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTT
2331802 TTAACATTTC
Statistics
Matches: 958, Mismatches: 60, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
151 146 0.15
152 284 0.30
153 431 0.45
154 97 0.10
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (152 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGT
Found at i:2331802 original size:76 final size:76
Alignment explanation
Indices: 2330628--2331801 Score: 1936
Period size: 76 Copynumber: 15.4 Consensus size: 76
2330618 ATATTTCCCA
* ** *
2330628 CATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGACATTTTAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2330693 AACCTTAGGGT
66 AGCCTTAGGGT
*
2330704 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC--AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
2330769 AAAGCCTTAGGGT
64 AAAGCCTTAGGGT
2330782 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2330847 AGCCTTAGAGT
66 AGCCTTAGGGT
** * *
2330858 CATAAGTAAGTCCTACAGTACATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2330923 AGCCTTAGGGT
66 AGCCTTAGGGT
2330934 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
*
2330999 AAGCCTTAGAGT
65 AAGCCTTAGGGT
*
2331011 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2331076 AGCATTAGGGT
66 AGCCTTAGGGT
* * *
2331087 CATCTGTAATTCCTATAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
2331152 AAGCCTTAGGGT
65 AAGCCTTAGGGT
* * *
2331164 CATCTGTAAGTCCTACATTGTATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2331229 AGCCTTATGGT
66 AGCCTTAGGGT
*
2331240 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
2331305 AAGCCTTAGGGT
65 AAGCCTTAGGGT
* *
2331317 TATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2331382 AGCCTTAGGGT
66 AGCCTTAGGGT
2331393 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2331458 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2331469 CATCTGTAAGT-CTACAGTGAATGATGTTTCCAAAAACCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2331533 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2331544 CATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2331609 AGCCTTAGAGT
66 AGCCTTAGGGT
* *
2331620 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2331685 AACCTTAGGGT
66 AGCCTTAGGGT
* * * * * *
2331696 CATCTGTAAGTCATACAATGCATGATGTTTTCAAAAAGCCTTCAGGAGATTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2331761 AACCTTAGGGT
66 AGCCTTAGGGT
* *
2331772 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
2331802 TTAACATTTC
Statistics
Matches: 1031, Mismatches: 61, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
75 72 0.07
76 671 0.65
77 217 0.21
78 71 0.07
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2332386 original size:25 final size:25
Alignment explanation
Indices: 2332343--2332415 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 25
2332333 CTTTCATATA
2332343 TTATTATTACTATTATTATTATTATT
1 TTATTATTA-TATTATTATTATTATT
2332369 TTATTATTATATTATTATTATTA--
1 TTATTATTATATTATTATTATTATT
2332392 TTATTA-TATATTATTATTATTATT
1 TTATTATTATATTATTATTATTATT
2332416 AAATAAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
22 16 0.36
23 6 0.13
25 14 0.31
26 9 0.20
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (25 bp):
TTATTATTATATTATTATTATTATT
Found at i:2332416 original size:25 final size:24
Alignment explanation
Indices: 2332341--2332416 Score: 120
Period size: 23 Copynumber: 3.2 Consensus size: 24
2332331 CACTTTCATA
*
2332341 TATTATTATTACTATTATTATTAT
1 TATTATTATTATTATTATTATTAT
2332365 TATT-TTATTATTA-TATTATTAT
1 TATTATTATTATTATTATTATTAT
2332387 TATTATTATTATATATTATTATTAT
1 TATTATTATTAT-TATTATTATTAT
2332412 TATTA
1 TATTA
2332417 AATAAATTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
22 13 0.27
23 15 0.31
24 6 0.12
25 14 0.29
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTATTATTATTATTATTATTAT
Found at i:2332429 original size:3 final size:3
Alignment explanation
Indices: 2332341--2332416 Score: 120
Period size: 3 Copynumber: 25.7 Consensus size: 3
2332331 CACTTTCATA
*
2332341 TAT TAT TAT TAC TAT TAT TAT TAT TAT T-T TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2332387 TAT TAT TAT TAT ATAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA
2332417 AATAAATTAT
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 4 0.06
3 61 0.90
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2332678 original size:16 final size:16
Alignment explanation
Indices: 2332657--2332692 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2332647 CAGCCGCCTC
* *
2332657 TCCAGCTTCCAGATGT
1 TCCAGCTGCCAGATGG
2332673 TCCAGCTGCCAGATGG
1 TCCAGCTGCCAGATGG
2332689 TCCA
1 TCCA
2332693 ACCAGCCGCT
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:0.19, C:0.33, G:0.22, T:0.25
Consensus pattern (16 bp):
TCCAGCTGCCAGATGG
Done.