Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 231 of 284
Found at i:76876062 original size:114 final size:114
Alignment explanation
Indices: 76875925--76876813 Score: 1003
Period size: 114 Copynumber: 7.9 Consensus size: 114
76875915 ATATACAAAA
*
76875925 GAAAAAAAA-ACAAAAAAAAAA-TTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGT
1 GAAAAAAAATA-AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATACAGT
* *
76875987 ACCAAAAAAAAATTTATTTTTTTT-GTGTCAGAGTCAGATTTAAAAATAC
65 ACCAAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATTAAAAAATAC
*
76876036 GAAAAAAAATAAAATAAAATAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
1 GAAAAAAAAT-AAA-AAAA-AAAA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATA
* *
76876101 CAGTACGAAGAAAAAAAAATTTA-TTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
61 CAGTAC---CAAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATTAAAAAATAC
* * * *
76876157 -AAAAAAAATAAAATAAAATAAAAATTTT-AGTGCTGGCCTATCAATGGTCGGCACCCAGTGTAC
1 GAAAAAAAAT--AA-AAAA-AAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATAC
** *
76876220 AGTACCAAAAAAATTTTTATTTTTTTT-GTATCAGAATCAGA-TAAAAAATAC
62 AGTACCAAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATTAAAAAATAC
76876271 G-------A-AAAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCT-TACAGT
1 GAAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-TATACAGT
* * *
76876326 ACCAAAAAAAAGTTTTTTTGTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
65 ACCAAAAAAAA----ATTT-ATTTTTTTTCGTGTCAGAATCAGATTAAAAAATAC
* *
76876381 GAAAAAAAAT-AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTA
1 GAAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATACAGTA
* * * *
76876445 -C-AAAAAAATTTGTTTTTTTTTTCATGTCAGAATCA-AATAAAAAATAC
66 CCAAAAAAAAATT-TATTTTTTTTCGTGTCAGAATCAGATTAAAAAATAC
* ** *
76876492 GAAAATAAATAAATAAATAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTCTACAG
1 GAAAAAAAATAAA-AAA-AAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATACAG
*
76876557 TACCAAAAAAAAACTTATTTTTTTTTCGTGTCAGAATCAGA-TAAAAAATAC
64 TACCAAAAAAAAATTTA-TTTTTTTTCGTGTCAGAATCAGATTAAAAAATAC
** *
76876608 GAAAAAAAATAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
1 GAAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATACAGTA
*
76876673 CGAAAAAAAAATTGT-TTTTTTTTCGTGTCAGAATCAGA-TAAAAAATAC
66 CCAAAAAAAAATT-TATTTTTTTTCGTGTCAGAATCAGATTAAAAAATAC
* * * *
76876721 G--AAAAAATAAAATAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGAACAAATT
1 GAAAAAAAATAAAA-AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATACAGT
**
76876784 A-TTAAAAAAAA-TTA-TTTTTTTCGTGTCAGA
65 ACCAAAAAAAAATTTATTTTTTTTCGTGTCAGA
76876814 GTCAAATATA
Statistics
Matches: 685, Mismatches: 46, Indels: 96
0.83 0.06 0.12
Matches are distributed among these distances:
102 3 0.00
103 48 0.07
104 5 0.01
105 2 0.00
107 4 0.01
108 9 0.01
109 30 0.04
110 11 0.02
111 47 0.07
112 74 0.11
113 43 0.06
114 118 0.17
115 30 0.04
116 64 0.09
117 16 0.02
118 114 0.17
119 4 0.01
120 16 0.02
121 45 0.07
122 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (114 bp):
GAAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATACAGTA
CCAAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATTAAAAAATAC
Found at i:76876163 original size:11 final size:10
Alignment explanation
Indices: 76876147--76876180 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
76876137 AGAATCAGAT
76876147 AAAAAAATACA
1 AAAAAAATA-A
76876158 AAAAAAATAA
1 AAAAAAATAA
*
76876168 AATAAAATAA
1 AAAAAAATAA
76876178 AAA
1 AAA
76876181 TTTTAGTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:76876298 original size:221 final size:218
Alignment explanation
Indices: 76875927--76876775 Score: 964
Period size: 221 Copynumber: 3.7 Consensus size: 218
76875917 ATACAAAAGA
*
76875927 AAAAAAAACAAAAAAAAAA--TTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
1 AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
* * * *
76875989 CAAAAAAAAATTTATTTTTTTTGTGTCAGAGTCAGATTTAAAAATACGAAAAAAAATAAAATAAA
66 C-AAAAAAATTTTTTTTTTTTTGTGTCAGAATCAGA-TAAAAAATACG-------A-AAAA-AAA
76876054 ATAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAAAAAA
120 A-AAAA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT-CACAGTAC-AA-AAAAAAAA
*
76876119 ATT-TATTTTTTTCGTGTCAGAATCAGATAAAAAAATAC-
179 ATTATTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
* * * *
76876157 AAAAAAAATAAAATAAAATAAAAATTTT-AGTGCTGGCCTATCAATGGTCGGCACCCAGTGTACA
1 AAAAAAAAT--AA-AAAA-AAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACA
*
76876221 GTACCAAAAAAATTTTTATTTTTTTTGTATCAGAATCAGATAAAAAATACG-AAAAAAAAAAAA-
62 GTACCAAAAAAATTTTT-TTTTTTTTGTGTCAGAATCAGATAAAAAATACGAAAAAAAAAAAAAT
* *** *
76876284 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCTTACAGTACCAAAAAAAAGTTTTTTTGTTT
126 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-TCACAGTA-CAAAAAAAA---AAATTATTT
76876349 TTTTTTCGTGTCAGAATCAGATAAAAAAATACG
186 TTTTTTCGTGTCAGAATCAGATAAAAAAATACG
76876382 AAAAAAAAT-AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTA-
1 AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
* *
76876445 CAAAAAAATTTGTTTTTTTTTTCATGTCAGAATCAAATAAAAAATACGAAAATAAATAAATAAAT
66 CAAAAAAATTT-TTTTTTTTTT-GTGTCAGAATCAGATAAAAAATACG---A-AAA-AAA-AAA-
* *
76876510 AAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTCTACAGTACCAAAAAAAAACTTAT
122 AAA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTC-ACAGTACAAAAAAAAAAATTAT
76876575 TTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
184 TTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
* **
76876609 AAAAAAAATAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
1 AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
* * *
76876674 GAAAAAAAAATTGTTTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAATAAAATAAAAA
66 --CAAAAAAATTTTTTTTTTTTTGTGTCAGAATCAGATAAAAAATACG----AA-AAAA-AAAAA
76876739 AATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG
123 AATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG
76876776 AACAAATTAT
Statistics
Matches: 548, Mismatches: 35, Indels: 76
0.83 0.05 0.12
Matches are distributed among these distances:
220 33 0.06
221 106 0.19
222 3 0.01
223 2 0.00
224 38 0.07
225 13 0.02
226 42 0.08
227 22 0.04
228 84 0.15
229 32 0.06
230 24 0.04
231 18 0.03
232 42 0.08
233 4 0.01
234 4 0.01
235 20 0.04
236 61 0.11
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (218 bp):
AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
CAAAAAAATTTTTTTTTTTTTGTGTCAGAATCAGATAAAAAATACGAAAAAAAAAAAAATTTTGG
GTGCTGGCCTGTCAATGGCCGGCACCCAGTCACAGTACAAAAAAAAAAATTATTTTTTTTTCGTG
TCAGAATCAGATAAAAAAATACG
Found at i:76878156 original size:13 final size:13
Alignment explanation
Indices: 76878138--76878166 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
76878128 ACCCAAAAAA
76878138 TTTTTTT-TATTT
1 TTTTTTTGTATTT
76878150 TTTTTTTGTATTT
1 TTTTTTTGTATTT
76878163 TTTT
1 TTTT
76878167 ATCTGATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (13 bp):
TTTTTTTGTATTT
Found at i:76878186 original size:116 final size:110
Alignment explanation
Indices: 76877807--76878367 Score: 662
Period size: 113 Copynumber: 5.0 Consensus size: 110
76877797 CAAATTTTTT
* * ***** *
76877807 TTTATTTTTTTTCGTA-TTTTTTATCTGATTCTGACA-GGAAAAAAAAATAAAATTTTTTTCGTA
1 TTTA-TTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAAAAAAAAAAAAATTGGTA
** * *
76877870 CTGTGTACTGGGTGCCGGCCATTGACAGGCCAACACTCAAAAAAAA
65 CTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAA
76877916 TTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAACAAAAAAAAAAAATTTTGG
1 TTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAA-AAAAAAAAAAAA--TTGG
* *
76877981 TACTGTAGACTGGGTGCCGGCCATTGACAGGCCAACACCCAAAAAAAA
63 TACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAA
* *
76878029 TTTATTTTTTTCGTATTTTTTTATCTGATTTTGACCCGAAAAAAAAAACAAAAAAAAAATTGGTA
1 TTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAAA-AAAAAAAAAATTGGTA
**
76878094 CTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTT
65 CTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA---AA
*
76878143 TTTATTTTTTTTTTGTATTTTTTTATCTGATTCTGACACGAAAAAAAAAACAAAAAAAAAATTGG
1 TTTA--TTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAAA-AAAAAAAAAATTGG
**
76878208 TACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTT
63 TACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA---AA
* * * ******
76878259 TTTAATTTTTTTCGTA-TTTTTTATTTGATTCTGACAC-AAAAAAATAATAAATTTTTTTTGGTA
1 TTT-ATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAAAAAAAAAAAAATTGGTA
* * *
76878322 CTGTACACTTGTTGCCGGCCATTGACAGGCTAGCACCCAAAAAAAA
65 CTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAA
76878368 AATTTTTTTG
Statistics
Matches: 405, Mismatches: 35, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
108 11 0.03
109 24 0.06
110 8 0.02
111 54 0.13
112 52 0.13
113 111 0.27
114 24 0.06
115 10 0.02
116 110 0.27
117 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (110 bp):
TTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAAAAAAAAAAAAATTGGTAC
TGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAA
Found at i:76878368 original size:116 final size:116
Alignment explanation
Indices: 76877777--76878385 Score: 663
Period size: 116 Copynumber: 5.4 Consensus size: 116
76877767 TTCCTTGGTT
* * *
76877777 GCCATCGACAGGCCAGCACCC----AAATTTTTTTTTATTTTTTTTCGTA-TTTTTTATCTGATT
1 GCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTAATTTTTTTCGTATTTTTTTATCTGATT
* * *** * **
76877837 CTGACA-GGAAAAAAAAATAAAATTTTTTTCGTACTGTGTACTGGGTGCCG
66 CTGACACGAAAAAAAAAAAAAAAAAATTTTGGTACTGTACACTGGGTGCCG
* *
76877887 GCCATTGACAGGCCAACACTCAAAAAAAA-----TTT-ATTTTTTTCGTATTTTTTTATCTGATT
1 GCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTAATTTTTTTCGTATTTTTTTATCTGATT
*
76877946 CTGACACGAAAAAAAACAAAAAAAAAAAATTTTGGTACTGTAGACTGGGTGCCG
66 CTGACACG--AAAAAA-AAAAAAAAAAAATTTTGGTACTGTACACTGGGTGCCG
*
76878000 GCCATTGACAGGCCAACACCCAAAAAAAA-----TTT-ATTTTTTTCGTATTTTTTTATCTGATT
1 GCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTAATTTTTTTCGTATTTTTTTATCTGATT
* * **
76878059 TTGACCCGAAAAAAAAAACAAAAAAAAAATTGGTACTGTACACTGGGTGCCG
66 CTGACACGAAAAAAAAAA-AAAAAAAATTTTGGTACTGTACACTGGGTGCCG
* *
76878111 GCCATTGACAGGCCAGCACCC--AAAAAATTTTTTTTATTTTTTTTTTGTATTTTTTTATCTGAT
1 GCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTA-ATTTTTTTCGTATTTTTTTATCTGAT
**
76878174 TCTGACACGAAAAAAAAAACAAAAAAAAAATTGGTACTGTACACTGGGTGCCG
65 TCTGACACGAAAAAAAAAA-AAAAAAAATTTTGGTACTGTACACTGGGTGCCG
*
76878227 GCCATTGACAGGCCAGCACCC--AAAAAATTTTTTTTAATTTTTTTCGTA-TTTTTTATTTGATT
1 GCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTAATTTTTTTCGTATTTTTTTATCTGATT
* * **** * *
76878289 CTGACAC-AAAAAAATAATAAATTTTTTTTGGTACTGTACACTTGTTGCCG
66 CTGACACGAAAAAAAAAAAAAAAAAATTTTGGTACTGTACACTGGGTGCCG
* * **
76878339 GCCATTGACAGGCTAGCACCCAAAAAAAAAATTTTTTTGTTTTTTTT
1 GCCATTGACAGGCCAGCACCC-AAAAAAAATTTTTTTTAATTTTTTT
76878386 TCTTTCATAT
Statistics
Matches: 438, Mismatches: 41, Indels: 35
0.85 0.08 0.07
Matches are distributed among these distances:
108 11 0.03
109 29 0.07
110 23 0.05
111 56 0.13
112 49 0.11
113 103 0.24
114 26 0.06
115 30 0.07
116 111 0.25
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (116 bp):
GCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTAATTTTTTTCGTATTTTTTTATCTGATT
CTGACACGAAAAAAAAAAAAAAAAAATTTTGGTACTGTACACTGGGTGCCG
Found at i:76885909 original size:48 final size:48
Alignment explanation
Indices: 76885849--76886087 Score: 399
Period size: 48 Copynumber: 5.0 Consensus size: 48
76885839 AGCCTGCTTT
76885849 AGCAC-CCTAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAAC
1 AGCACACC-AATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAAC
*
76885897 AGCACACCAATTTTGACCAACTTCTTTTGCATTTTGACCAGGTCCAAC
1 AGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAAC
* *
76885945 AGAACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAAC
1 AGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAAC
* *
76885993 AGCACACCAATTTTGACCAACTTCTTTTGTATTTTGACCAGGTCCAAC
1 AGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAAC
* *
76886041 AGAACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
1 AGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
76886088 AATAATTTTG
Statistics
Matches: 178, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
48 176 0.99
49 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (48 bp):
AGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAAC
Found at i:76886021 original size:96 final size:96
Alignment explanation
Indices: 76885852--76886087 Score: 454
Period size: 96 Copynumber: 2.5 Consensus size: 96
76885842 CTGCTTTAGC
*
76885852 ACCCTAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAACAGCACACCAATTTTGACCAA
1 ACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAACAGCACACCAATTTTGACCAA
76885917 CTTCTTTTGCATTTTGACCAGGTCCAACAGA
66 CTTCTTTTGCATTTTGACCAGGTCCAACAGA
76885948 ACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAACAGCACACCAATTTTGACCAA
1 ACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAACAGCACACCAATTTTGACCAA
*
76886013 CTTCTTTTGTATTTTGACCAGGTCCAACAGA
66 CTTCTTTTGCATTTTGACCAGGTCCAACAGA
76886044 ACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
1 ACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
76886088 AATAATTTTG
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 138 1.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (96 bp):
ACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAACAGCACACCAATTTTGACCAA
CTTCTTTTGCATTTTGACCAGGTCCAACAGA
Found at i:76891883 original size:39 final size:39
Alignment explanation
Indices: 76891840--76891917 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
76891830 TAACGTTTTG
*
76891840 GCTAATTGCACTTAAAGAACAGAATTAAAACAAAACATA
1 GCTAACTGCACTTAAAGAACAGAATTAAAACAAAACATA
76891879 GCTAACTGCACTTAAAGAACAGAATTAAAACAAAACATA
1 GCTAACTGCACTTAAAGAACAGAATTAAAACAAAACATA
76891918 ATTAACGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.19
Consensus pattern (39 bp):
GCTAACTGCACTTAAAGAACAGAATTAAAACAAAACATA
Found at i:76897604 original size:84 final size:84
Alignment explanation
Indices: 76897355--76897588 Score: 324
Period size: 84 Copynumber: 2.8 Consensus size: 84
76897345 GGTTAGAAGG
* * * * *
76897355 CATTTCGAAGCCCTCATGCACATCAACTATATTATGTTGATTGCTTCTTTCATTAGCGACGGTTT
1 CATTTCGATGCCCTCTTCCACAACAACTATATTATGTTGATTGCTTCTTTCATTAGTGACGGTTT
* *
76897420 CATCATAGCTAATAACAGA
66 CATCATAGCTAATGATAGA
* * *
76897439 CATTTCGGTGCCCTCTTCTACAACAACTATATTATGTTGATTGCTTCTTTCATTAGTAACGGTTT
1 CATTTCGATGCCCTCTTCCACAACAACTATATTATGTTGATTGCTTCTTTCATTAGTGACGGTTT
*
76897504 CATCATAGCTAATGATAGG
66 CATCATAGCTAATGATAGA
* * * * *
76897523 CGTTTCGATGCCCTTTTCCGCAACAACTATATTATGTTGATTGCTACTTTCATTAGTGATGGTTT
1 CATTTCGATGCCCTCTTCCACAACAACTATATTATGTTGATTGCTTCTTTCATTAGTGACGGTTT
76897588 C
66 C
76897589 GTCGAAGCTA
Statistics
Matches: 131, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 131 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (84 bp):
CATTTCGATGCCCTCTTCCACAACAACTATATTATGTTGATTGCTTCTTTCATTAGTGACGGTTT
CATCATAGCTAATGATAGA
Found at i:76900129 original size:22 final size:23
Alignment explanation
Indices: 76900091--76900137 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
76900081 AGCCCCTATA
* *
76900091 TTTTTATTTTGTGAAATTTAAAT
1 TTTTTATTTTGTCAAATTAAAAT
76900114 TTTTTATTTT-TCAAATTAAAAT
1 TTTTTATTTTGTCAAATTAAAAT
76900136 TT
1 TT
76900138 AAGTCTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTATTTTGTCAAATTAAAAT
Found at i:76900502 original size:23 final size:23
Alignment explanation
Indices: 76900457--76900502 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
76900447 TATGATAAAA
* * **
76900457 AAATAGTTAAATTGTTATTTTTT
1 AAATAATTAAATCGTTAAATTTT
76900480 AAATAATTAAATCGTTAAATTTT
1 AAATAATTAAATCGTTAAATTTT
76900503 TTTATGGAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
AAATAATTAAATCGTTAAATTTT
Found at i:76906207 original size:15 final size:16
Alignment explanation
Indices: 76906187--76906250 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 16
76906177 TATAATAATG
*
76906187 TATAAACATATG-AAT
1 TATAAACATATGAAAA
*
76906202 TATAAA-ACATGAAAA
1 TATAAACATATGAAAA
**
76906217 TATAAACATAAAAAATA
1 TATAAACATATGAAA-A
*
76906234 TATAAAC-TATAAAAA
1 TATAAACATATGAAAA
76906249 TA
1 TA
76906251 ACATGATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
14 4 0.10
15 17 0.43
16 11 0.28
17 8 0.20
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (16 bp):
TATAAACATATGAAAA
Found at i:76910536 original size:28 final size:28
Alignment explanation
Indices: 76910496--76910563 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
76910486 TAGCTCTTCG
* * *
76910496 GAGCTTCCCGATTTAAAAGTTTTTTTAT
1 GAGCTTCACGATTTAAAAGCTCTTTTAT
* *
76910524 GAGCTTCTCGATTTAAAGGCTCTTTTAT
1 GAGCTTCACGATTTAAAAGCTCTTTTAT
76910552 GAGCTTCACGAT
1 GAGCTTCACGAT
76910564 ATTGGCTCGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (28 bp):
GAGCTTCACGATTTAAAAGCTCTTTTAT
Found at i:76910607 original size:24 final size:24
Alignment explanation
Indices: 76910550--76910607 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
76910540 AGGCTCTTTT
*
76910550 ATGAGCTTCACGATATTGGCTCGC
1 ATGAGCTTCCCGATATTGGCTCGC
* *
76910574 TTGAGCTTCCCGAT-TATGGCTCGG
1 ATGAGCTTCCCGATAT-TGGCTCGC
76910598 ATGAGCTTCC
1 ATGAGCTTCC
76910608 GTTATATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (24 bp):
ATGAGCTTCCCGATATTGGCTCGC
Found at i:76910666 original size:28 final size:28
Alignment explanation
Indices: 76910634--76910690 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
76910624 GAGCTTCTCG
76910634 TTTACATGTTTGCATGAGCATTCATGTA
1 TTTACATGTTTGCATGAGCATTCATGTA
76910662 TTTACATGTTTGCATGAGCATTCATGTA
1 TTTACATGTTTGCATGAGCATTCATGTA
76910690 T
1 T
76910691 ATGAATTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (28 bp):
TTTACATGTTTGCATGAGCATTCATGTA
Found at i:76913334 original size:15 final size:14
Alignment explanation
Indices: 76913296--76913335 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
76913286 TTTTTAAAAA
76913296 TTTTATGAATTTATT
1 TTTTAT-AATTTATT
76913311 TTTTA-AATTTGATT
1 TTTTATAATTT-ATT
76913325 TTTTATAATTT
1 TTTTATAATTT
76913336 TTAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TTTTATAATTTATT
Found at i:76917611 original size:19 final size:20
Alignment explanation
Indices: 76917589--76917646 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 20
76917579 ATAAAAAAGG
76917589 TTAAATTAATTTTTAAAA-T
1 TTAAATTAATTTTTAAAATT
* *
76917608 TTAAAAT-ATTTATAAAATT
1 TTAAATTAATTTTTAAAATT
76917627 TTAAAATTTATATTTTTAAA
1 TT-AAA-TTA-ATTTTTAAA
76917647 GTAATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 9 0.30
19 9 0.30
20 3 0.10
21 1 0.03
23 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAATTAATTTTTAAAATT
Found at i:76917623 original size:18 final size:17
Alignment explanation
Indices: 76917596--76917638 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
76917586 AGGTTAAATT
*
76917596 AATTTTTAAAATTTAAA
1 AATTTATAAAATTTAAA
*
76917613 ATATTTATAAAATTTTAA
1 A-ATTTATAAAATTTAAA
76917631 AATTTATA
1 AATTTATA
76917639 TTTTTAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTATAAAATTTAAA
Found at i:76917652 original size:26 final size:26
Alignment explanation
Indices: 76917589--76917655 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
76917579 ATAAAAAAGG
76917589 TTAAATTAATTTTTAAAATTTAAAATAT
1 TTAAA-TAA-TTTTAAAATTTAAAATAT
* *
76917617 TTATAA-AATTTTAAAATTT-ATATTT
1 TTA-AATAATTTTAAAATTTAAAATAT
76917642 TTAAAGTAATTTTA
1 TTAAA-TAATTTTA
76917656 TAGAGTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 2 0.06
25 7 0.21
26 18 0.53
27 2 0.06
28 3 0.09
29 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
TTAAATAATTTTAAAATTTAAAATAT
Found at i:76918209 original size:4 final size:4
Alignment explanation
Indices: 76918178--76918233 Score: 60
Period size: 4 Copynumber: 14.0 Consensus size: 4
76918168 AAATAATGAG
* * * *
76918178 AGAA AGAA ACGAA ACAG AGAA GGAA AGAA AGAA AGAA A-AA AAAA AGAA
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
76918226 AGAA AGAA
1 AGAA AGAA
76918234 GGACAAAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 3 0.07
4 36 0.84
5 4 0.09
ACGTcount: A:0.73, C:0.04, G:0.23, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:76918807 original size:24 final size:24
Alignment explanation
Indices: 76918780--76918826 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
76918770 ATTGAAATGG
76918780 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
76918804 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
76918827 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:76926978 original size:20 final size:19
Alignment explanation
Indices: 76926953--76926995 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
76926943 ACATTAGTTG
76926953 ATTAATTAAA-AATTATAAAA
1 ATTAA-TAAATAATT-TAAAA
*
76926973 ATTAATAAATTATTTAAAA
1 ATTAATAAATAATTTAAAA
76926992 ATTA
1 ATTA
76926996 GAAACCAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAATAAATAATTTAAAA
Found at i:76927153 original size:28 final size:29
Alignment explanation
Indices: 76927113--76927173 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
76927103 TATCCAATTG
*
76927113 GTTTAATCTTAATAACAATG-TTTTTAAA
1 GTTTAATCTTAATAACAATGATTTTAAAA
* *
76927141 GTTTAA-CTTTAATAATATTGATTTTAAAA
1 GTTTAATC-TTAATAACAATGATTTTAAAA
76927170 GTTT
1 GTTT
76927174 GAAGTTTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 16 0.57
29 11 0.39
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (29 bp):
GTTTAATCTTAATAACAATGATTTTAAAA
Found at i:76928475 original size:17 final size:18
Alignment explanation
Indices: 76928441--76928481 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
76928431 GAATAGCGTG
76928441 TAGAT-TTTTAATATTAA
1 TAGATATTTTAATATTAA
76928458 TAGATATTTTAATA-TAA
1 TAGATATTTTAATATTAA
*
76928475 TATATAT
1 TAGATAT
76928482 AATATTCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TAGATATTTTAATATTAA
Found at i:76929482 original size:23 final size:23
Alignment explanation
Indices: 76929456--76929499 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
76929446 TGGAAAAATT
76929456 AAAATTATTA-TAAAAAATTATCC
1 AAAATT-TTATTAAAAAATTATCC
*
76929479 AAAATTTTATTAAAATATTAT
1 AAAATTTTATTAAAAAATTAT
76929500 AAAAATTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTTTATTAAAAAATTATCC
Found at i:76929655 original size:17 final size:19
Alignment explanation
Indices: 76929633--76929669 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
76929623 TTAAATAGAT
76929633 ATTATA-AAAATT-TATAA
1 ATTATAGAAAATTATATAA
76929650 ATTATAGAAAATTATATAA
1 ATTATAGAAAATTATATAA
76929669 A
1 A
76929670 ATCATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTATAGAAAATTATATAA
Found at i:76929708 original size:19 final size:20
Alignment explanation
Indices: 76929635--76929708 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 20
76929625 AAATAGATAT
76929635 TATAAAAATT-TAT-AAAT-
1 TATAAAAATTATATAAAATC
76929652 TATAGAAAATTATATAAAATC
1 TATA-AAAATTATATAAAATC
** * *
76929673 -ATTTAAATGATACAAAATC
1 TATAAAAATTATATAAAATC
76929692 TATAAAAATTA-ATAAAA
1 TATAAAAATTATATAAAA
76929709 AAAGTTATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
17 4 0.09
18 6 0.14
19 21 0.48
20 13 0.30
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (20 bp):
TATAAAAATTATATAAAATC
Found at i:76929720 original size:10 final size:9
Alignment explanation
Indices: 76929633--76929761 Score: 73
Period size: 10 Copynumber: 13.3 Consensus size: 9
76929623 TTAAATAGAT
76929633 ATTATAAAA
1 ATTATAAAA
*
76929642 ATT-TATAA
1 ATTATAAAA
76929650 ATTATAGAAA
1 ATTATA-AAA
76929660 ATTATATAAA
1 ATTATA-AAA
* **
76929670 ATCATTTAA
1 ATTATAAAA
*
76929679 ATGATACAAA
1 ATTATA-AAA
76929689 ATCTATAAAA
1 AT-TATAAAA
76929699 ATTAATAAAAAA
1 ATT-AT--AAAA
76929711 AGTTATAAAA
1 A-TTATAAAA
76929721 ACTTACT-AAA
1 A-TTA-TAAAA
*
76929731 AGTATAACAA
1 ATTATAA-AA
*
76929741 ATTTTAAAA
1 ATTATAAAA
*
76929750 ATTTTAAAA
1 ATTATAAAA
76929759 ATT
1 ATT
76929762 TATATATAAG
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
8 8 0.08
9 29 0.31
10 45 0.47
11 4 0.04
12 7 0.07
13 2 0.02
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (9 bp):
ATTATAAAA
Found at i:76942827 original size:15 final size:16
Alignment explanation
Indices: 76942807--76942846 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
76942797 AGGTCCATCA
76942807 AAATTATAATAAT-GT
1 AAATTATAATAATAGT
76942822 AAATTAGT-ATAATAGT
1 AAATTA-TAATAATAGT
76942838 AAATT-TAAT
1 AAATTATAAT
76942847 TTTTAGCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.05
15 13 0.59
16 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (16 bp):
AAATTATAATAATAGT
Found at i:76945951 original size:24 final size:24
Alignment explanation
Indices: 76945924--76945971 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
76945914 AATTTTTAAA
76945924 AAAATTATAAATTAATATAAAAAT
1 AAAATTATAAATTAATATAAAAAT
** *
76945948 AAAATTATATTTTAATATCAAAAT
1 AAAATTATAAATTAATATAAAAAT
76945972 TCACCATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATTATAAATTAATATAAAAAT
Found at i:76946425 original size:14 final size:14
Alignment explanation
Indices: 76946406--76946434 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
76946396 AGTAAAATGT
76946406 TTTAAAAATATATA
1 TTTAAAAATATATA
76946420 TTTAAAAATATATA
1 TTTAAAAATATATA
76946434 T
1 T
76946435 GTCAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAAAATATATA
Found at i:76947181 original size:11 final size:11
Alignment explanation
Indices: 76947166--76947225 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
76947156 AAAAAATAAA
76947166 AAAAAGTATTTT
1 AAAAA-TATTTT
76947178 AAAAATATTTT
1 AAAAATATTTT
***
76947189 -AAAAT-TAAA
1 AAAAATATTTT
*
76947198 AAAAAGCATTTT
1 AAAAA-TATTTT
76947210 AAAAATATTTT
1 AAAAATATTTT
76947221 AAAAA
1 AAAAA
76947226 ATAAATATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
9 1 0.03
10 9 0.24
11 16 0.43
12 11 0.30
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:76947203 original size:32 final size:32
Alignment explanation
Indices: 76947131--76947230 Score: 137
Period size: 32 Copynumber: 3.0 Consensus size: 32
76947121 AAAAATTTTT
76947131 AAAAGTATTTTAAAAATATTTTTTAAAAAAATAAAA
1 AAAAGTATTTTAAAAATA--TTTT--AAAAATAAAA
*
76947167 AAAAGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAAGTATTTTAAAAATATTTTAAAAATAAAA
*
76947199 AAAAGCATTTTAAAAATATTTTAAAAAATAAA
1 AAAAGTATTTTAAAAATATTTT-AAAAATAAA
76947231 TATATTTATT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
32 30 0.50
33 8 0.13
34 4 0.07
36 18 0.30
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (32 bp):
AAAAGTATTTTAAAAATATTTTAAAAATAAAA
Found at i:76947920 original size:17 final size:17
Alignment explanation
Indices: 76947884--76947922 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
76947874 CTCGTAAAGA
* *
76947884 TTGTGAATATTTTCTTT
1 TTGTTAATATTTTCTAT
*
76947901 TTGTTAATATTTTGTAT
1 TTGTTAATATTTTCTAT
76947918 TTGTT
1 TTGTT
76947923 GGGGATTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.67
Consensus pattern (17 bp):
TTGTTAATATTTTCTAT
Found at i:76951059 original size:21 final size:21
Alignment explanation
Indices: 76951033--76951073 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
76951023 AGACGAGCAA
* *
76951033 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
76951054 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
76951074 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:76953012 original size:16 final size:16
Alignment explanation
Indices: 76952979--76953012 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
76952969 GGAGATTGTT
* *
76952979 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
76952995 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
76953011 AA
1 AA
76953013 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:76953904 original size:20 final size:20
Alignment explanation
Indices: 76953879--76953918 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
76953869 AGATTTAAAA
* *
76953879 TAATTAATACAAAATCAATT
1 TAATTAATAAAAAATAAATT
*
76953899 TAATTAGTAAAAAATAAATT
1 TAATTAATAAAAAATAAATT
76953919 GGTTGGTGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
TAATTAATAAAAAATAAATT
Found at i:76955676 original size:18 final size:18
Alignment explanation
Indices: 76955641--76955684 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
76955631 GGGGTCACTG
**
76955641 TGTTTTTTTTGTTGTTGT
1 TGTTTTTTTCCTTGTTGT
*
76955659 TGTTTTTTTCCTTTTTGT
1 TGTTTTTTTCCTTGTTGT
*
76955677 GGTTTTTT
1 TGTTTTTT
76955685 ATTAGCTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.05, G:0.18, T:0.77
Consensus pattern (18 bp):
TGTTTTTTTCCTTGTTGT
Found at i:76956092 original size:4 final size:4
Alignment explanation
Indices: 76956083--76956127 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
76956073 CGTGTGTGGG
76956083 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
76956128 ATTTATGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:76964234 original size:19 final size:20
Alignment explanation
Indices: 76964207--76964247 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
76964197 ATAGGAATGC
76964207 TTTTGTCCC-AAAAGTGTTT
1 TTTTGTCCCTAAAAGTGTTT
*
76964226 TTTTTTCCCTAAAAGTGTTT
1 TTTTGTCCCTAAAAGTGTTT
76964246 TT
1 TT
76964248 GAGAAGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.54
Consensus pattern (20 bp):
TTTTGTCCCTAAAAGTGTTT
Found at i:76965632 original size:143 final size:141
Alignment explanation
Indices: 76965315--76965796 Score: 608
Period size: 143 Copynumber: 3.4 Consensus size: 141
76965305 CTACAACTTC
* * ** * *
76965315 CCATAACTTGTGGCTTTAATCTGTTCCACTGCAATACCAGGGAAATAAGATTCGCTGTCCTAAGT
1 CCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCA-GGAAATAAGATTCGCTATCTTAAGT
* * *
76965380 CTGCTCTGCTACAACTTCAGGGAGATAAGGCTGGTGGCAT-AATCTGCTCCACTTCAACTTCAAG
65 CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAAG
76965444 AAGATAAGATCTG
130 AAGATAAGATC-G
* * * *
76965457 CCATAATTTGTAGTTTTAATCTGTTCCACTGCAACGCCAGGAAAATAGGATCCGCTATCTTCAGT
1 CCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGG-AAATAAGATTCGCTATCTTAAGT
* * ** *
76965522 CTGCTCCGCTACAACTTCAGGGAGATAAGGGTAGTGGCTTCAATCTATTTCACTACAACTTCAAG
65 CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAAG
*
76965587 AAGATAGGATACG
130 AAGATAAGAT-CG
*
76965600 CCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTTTCTTTAA-
1 CCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCC-AGGAAATAAGATTCGCTATC-TTAAG
* * * * * *
76965664 TCTACTCCACTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAA
64 TCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAA
76965729 GAAGATAAGATCCG
129 GAAGATAAGAT-CG
* * * *
76965743 TCATAATTTGTAGCTTTAATATGTTCCACTGCAACGCCTGGGAAAAAAGATTCG
1 CCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCC-AGGAAATAAGATTCG
76965797 TTGCCTTCAG
Statistics
Matches: 293, Mismatches: 42, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
141 2 0.01
142 88 0.30
143 196 0.67
144 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (141 bp):
CCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGAAATAAGATTCGCTATCTTAAGTC
TGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAAGA
AGATAAGATCG
Found at i:76965826 original size:51 final size:51
Alignment explanation
Indices: 76965754--76966536 Score: 832
Period size: 51 Copynumber: 15.9 Consensus size: 51
76965744 CATAATTTGT
* ** * *
76965754 AGCTTTAATATGTTCCACTGCAACGCCTGGGAAAAAAGATTCGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * *
76965805 AGCTTTAATCTATTACACTGCAACG-CTAGAGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAG-GAAATAAGATTCGCTGCCTTC
* *
76965856 AGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTTGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
76965907 AGCTTTAATC---T--ACTGCAACGCCAGGGAAACAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * *
76965953 AGCTTTAATTTATTCCACTGCAACGCCAAGGAAAAAAGATCCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
76966004 AGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTCGCTACCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * * * *
76966055 AGCTTTAA--T-AT--ATTGCAATGCC-AGAGAAATAAGATTTGCTACTTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAG-GAAATAAGATTCGCTGCCTTC
* * *
76966101 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAAGAAGATTCGCTACTTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
76966152 AGCTTTAATC---T--ACTGCAACGCCAGGGAAATAAGATTCTCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * * *
76966198 AACTTTAATATGTTCTACTGTAACACCAAGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * *
76966249 ATCTTTAATC---T--ACTGCAATGCC-AGAGAAATAAGATTTGTTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAG-GAAATAAGATTCGCTGCCTTC
* *
76966295 AGCTTTAATCTGTTCCACTGTAACGCCAAGGAAAAAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * *
76966346 AACTTTAATC---T--ACTGCAACGCTAAGGAAATAAGATTCGCCGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * *
76966392 AACTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * ** *
76966443 AACTTTAATATGTTCCACTGCAACGCCAAGGAAATAAAATTCG-TTACTCC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
** *
76966493 AGCTTTAATCTGTTCCACTGCAACGCCCGGGAAAAAAGATTCGC
1 AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGC
76966537 CATAATGACT
Statistics
Matches: 619, Mismatches: 81, Indels: 64
0.81 0.11 0.08
Matches are distributed among these distances:
45 4 0.01
46 190 0.31
48 6 0.01
49 6 0.01
50 44 0.07
51 362 0.58
52 7 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
Found at i:76965950 original size:148 final size:148
Alignment explanation
Indices: 76965770--76966485 Score: 880
Period size: 148 Copynumber: 4.9 Consensus size: 148
76965760 AATATGTTCC
* * * * *
76965770 ACTGCAACGCCTGGGAAAAAAGATTCGTTGCCTTCAGCTTTAATCTATTACACTGCAACG-CTAG
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
*
76965834 AGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTTG
66 -GAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTCG
*
76965899 CTGCCTTCAGCTTTAATCT
130 CTGCCTTCAACTTTAATCT
* *
76965918 ACTGCAACGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTATTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* *
76965983 GAAAAAAGATCCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTCGC
66 GAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTCGC
* * *
76966048 TACCTTCAGCTTTAATAT
131 TGCCTTCAACTTTAATCT
* * * * * * *
76966066 ATTGCAATGCCAGAGAAATAAGATTTGCTACTTTCAGCTTTAATCTGTTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* * * * * *
76966131 GAAAGAAGATTCGCTACTTTCAGCTTTAATC---T--ACTGCAACGCCAGGGAAATAAGATTCTC
66 GAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTCGC
76966191 TGCCTTCAACTTTAATATGTTCT
131 TGCCTTCAACTTT-A-A---TCT
* * * * *
76966214 ACTGTAACACCAAGGAAATAAGATTCGCTGCCTTCATCTTTAATC---T--ACTGCAATGCC-AG
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* * *
76966273 AGAAATAAGATTTGTTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAAAAAGATTCG
66 -GAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTCG
76966338 CTGCCTTCAACTTTAATCT
130 CTGCCTTCAACTTTAATCT
* * * * * *
76966357 ACTGCAACGCTAAGGAAATAAGATTCGCCGCCTTCAACTTTAATCTATTCCACTACAACGCTAAG
1 ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* * * *
76966422 GAAATAAGATTCGCTGCCTTCAACTTTAATATGTTCCACTGCAACGCCAAGGAAATAAAATTCG
66 GAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTCG
76966486 TTACTCCAGC
Statistics
Matches: 485, Mismatches: 65, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
142 2 0.00
143 115 0.24
144 1 0.00
145 3 0.01
146 3 0.01
147 1 0.00
148 355 0.73
149 5 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (148 bp):
ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
GAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAAGGAAATAAGATTCGC
TGCCTTCAACTTTAATCT
Found at i:76965978 original size:97 final size:96
Alignment explanation
Indices: 76965767--76966536 Score: 670
Period size: 97 Copynumber: 7.8 Consensus size: 96
76965757 TTTAATATGT
** * * *
76965767 TCCACTGCAACGCCTGGGAAAAAAGATTCGTTGCCTTCAGCTTTAATCTATTACACTGCAACG-C
1 TCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGCTTTAATC--TT-CACTGCAACGCC
* *
76965831 TAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGT
63 AAG-GAAATAAGATTCGCTGCCTTCAGCTTTAA--T-A
* *
76965869 TCCACTGTAACGCCAAGGAAATAAGATTTGCTGCCTTCAGCTTTAATC-T-ACTGCAACGCCAGG
1 TCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTTCACTGCAACGCCAAG
*
76965932 GAAACAAGATTCGCTGCCTTCAGCTTTAATTTA
66 GAAATAAGATTCGCTGCCTTCAGCTTTAA--TA
* ** *
76965965 TTCCACTGCAACGCCAAGGAAAAAAGATCCGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGC
1 -TCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGCTTTAATC--TT-CACTGCAACGC
*
76966030 CAAGGAAATAAGATTCGCTACCTTCAGCTTTAATA
62 CAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATA
* * * *
76966065 T--ATTGCAATGCC-AGAGAAATAAGATTTGCTACTTTCAGCTTTAATCTGTTCCACTGCAACGC
1 TCCACTGCAACGCCAAG-GAAATAAGATTTGCTGCCTTCAGCTTTAATC--TT-CACTGCAACGC
* * *
76966127 CAAGGAAAGAAGATTCGCTACTTTCAGCTTT-A-A
62 CAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATA
* * * * * *
76966160 TCTACTGCAACGCCAGGGAAATAAGATTCT-CTGCCTTCAACTTTAATATGTTCTACTGTAACAC
1 TCCACTGCAACGCCAAGGAAATAAGATT-TGCTGCCTTCAGCTTT-A-ATCTTC-ACTGCAACGC
*
76966224 CAAGGAAATAAGATTCGCTGCCTTCATCTTT-A-A
62 CAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATA
* * * *
76966257 TCTACTGCAATGCC-AGAGAAATAAGATTTGTTGCCTTCAGCTTTAATCTGTTCCACTGTAACGC
1 TCCACTGCAACGCCAAG-GAAATAAGATTTGCTGCCTTCAGCTTTAATC--TT-CACTGCAACGC
* *
76966321 CAAGGAAAAAAGATTCGCTGCCTTCAACTTT-A-A
62 CAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATA
* * * * * * *
76966354 TCTACTGCAACGCTAAGGAAATAAGATTCGCCGCCTTCAACTTTAATCTATTCCACTACAACGCT
1 TCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGCTTTAATC--TT-CACTGCAACGCC
*
76966419 AAGGAAATAAGATTCGCTGCCTTCAACTTTAATA
63 AAGGAAATAAGATTCGCTGCCTTCAGCTTTAATA
* * ** *
76966453 TGTTCCACTGCAACGCCAAGGAAATAAAATTCG-TTACTCCAGCTTTAATCTGTTCCACTGCAAC
1 ---TCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGCTTTAATC--TT-CACTGCAAC
** *
76966517 GCCCGGGAAAAAAGATTCGC
60 GCCAAGGAAATAAGATTCGC
76966537 CATAATGACT
Statistics
Matches: 567, Mismatches: 75, Indels: 53
0.82 0.11 0.08
Matches are distributed among these distances:
95 4 0.01
96 7 0.01
97 391 0.69
98 9 0.02
99 5 0.01
100 3 0.01
101 40 0.07
102 108 0.19
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (96 bp):
TCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTTCACTGCAACGCCAAG
GAAATAAGATTCGCTGCCTTCAGCTTTAATA
Found at i:76967433 original size:30 final size:31
Alignment explanation
Indices: 76967402--76967459 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
76967392 CTTTTTTACT
*
76967402 TTTCCCTC-AAAACTTTTAC-TCCTTCCCAC
1 TTTCCCCCAAAAACTTTTACTTCCTTCCCAC
76967431 TTTCCCCCAAAAACTTTTACTTCCTTCCC
1 TTTCCCCCAAAAACTTTTACTTCCTTCCC
76967460 CTCCCAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.27
30 11 0.42
31 8 0.31
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTCCCCCAAAAACTTTTACTTCCTTCCCAC
Found at i:76967600 original size:30 final size:31
Alignment explanation
Indices: 76967564--76967623 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
76967554 AAACCTTTTA
*
76967564 TTTTCCCCCAAAATTTTTACTCTC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCTCTTCCCAC
* *
76967594 TTTTCCCCTAAAACTTTTATTCTCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCTCTTCCCA
76967624 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCTCTTCCCAC
Found at i:76975702 original size:17 final size:17
Alignment explanation
Indices: 76975682--76975730 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 17
76975672 TAAATAAGTG
76975682 AAATAATGAAAAC-AATA
1 AAATAAT-AAAACTAATA
*
76975699 AAATAATAATACTAAT-
1 AAATAATAAAACTAATA
*
76975715 AAA-AATAAAAATAATA
1 AAATAATAAAACTAATA
76975731 GTAATAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 10 0.37
16 7 0.26
17 10 0.37
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (17 bp):
AAATAATAAAACTAATA
Found at i:76976912 original size:11 final size:11
Alignment explanation
Indices: 76976896--76976921 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
76976886 TATTTTTTAA
76976896 TTTTAAAATAT
1 TTTTAAAATAT
76976907 TTTTAAAATAT
1 TTTTAAAATAT
76976918 TTTT
1 TTTT
76976922 TTATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:76976941 original size:20 final size:19
Alignment explanation
Indices: 76976904--76976942 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
76976894 AATTTTAAAA
*
76976904 TATTTTTAAAATATTTTTT
1 TATTTTTAAAATAATTTTT
76976923 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
76976943 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTAAAATAATTTTT
Found at i:76977401 original size:48 final size:48
Alignment explanation
Indices: 76977345--76977859 Score: 478
Period size: 48 Copynumber: 10.4 Consensus size: 48
76977335 TTGATAAATT
* * *
76977345 TGGTGCCGGCCATTGA-ATGGCTAGCACCCAATTTTTTTTTTGTATTGG
1 TGGTGCCGGCCATTGACA-GGCCAGCACCCAATTTTTTTTTCGTACTGG
* * * * *
76977393 TGGTGCCGGCCATTGACAAGCCAGTACCCAAATTTTTTTTCGTATTAG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAATTTTTTTTTCGTACTGG
* * * *
76977441 TGGTGCCGGCCATTGATAGGCCAGCACCATAAATTTTTTTTCGTACTGT
1 TGGTGCCGGCCATTGACAGGCCAGCACC-CAATTTTTTTTTCGTACTGG
** * *
76977490 TGGTGATGGCCATTAGA-AGGCCAACACCCAAAAACATTTTTTTTCGTACTGG
1 TGGTGCCGGCCATT-GACAGGCCAGCACCC---AA-TTTTTTTTTCGTACTGG
* * * * *
76977542 TGGTGTCGGCCATTGACAAGCCAGCACTCAAAATTTTTTTTTTGTATTGG
1 TGGTGCCGGCCATTGACAGGCCAGCAC-C-CAATTTTTTTTTCGTACTGG
* * **
76977592 TGGTGACGGCCATTGACAGGCTAGCACCCAAAATTTTTTTCGTACTGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAATTTTTTTTTCGTACTGG
* *
76977640 TGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCGTACTAG
1 TGGTGCCGGCCATTGACAGGCCAGCACCC--AA-TTTTTTTTTCGTACTGG
* * * * * * * *
76977691 TTGT-CCTGACCATTGATAGGCCAGAAGCCAATTTTTTTTTTTGGAACTGC
1 TGGTGCC-GGCCATTGACAGGCCAGCACCCAA--TTTTTTTTTCGTACTGG
*
76977741 TGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTCGTATTGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCC-AATTTTTTTTTCGTACTGG
* *
76977790 TGGTGCCGGTCATTGATAGGCCAGCACCCAAAATTTATTTTTTCGTACTGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCC--AATTT-TTTTTTCGTACTGG
**
76977841 TGGTGCCAACCATTGACAG
1 TGGTGCCGGCCATTGACAG
76977860 TAGGGGTGTT
Statistics
Matches: 384, Mismatches: 64, Indels: 35
0.80 0.13 0.07
Matches are distributed among these distances:
48 106 0.28
49 82 0.21
50 85 0.22
51 74 0.19
52 36 0.09
53 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (48 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCAATTTTTTTTTCGTACTGG
Found at i:76977552 original size:101 final size:99
Alignment explanation
Indices: 76977345--76977859 Score: 503
Period size: 101 Copynumber: 5.2 Consensus size: 99
76977335 TTGATAAATT
* * * *
76977345 TGGTGCCGGCCATTGA-ATGGCTAGCACCC--AATTTTTTTTTTGTATTGGTGGTGCCGGCCATT
1 TGGTGCCGGCCATTGACA-GGCCAGCACCCAAAATTTTTTTTTCGTACTGGTGGTGACGGCCATT
* * ** * *
76977407 GACAAGCCAGTACCC-AAATTTTTTTTCGTATTAG
65 GATAGGCCAACACCCAAAATTTTTTTTCGTACTGG
* * *
76977441 TGGTGCCGGCCATTGATAGGCCAGCA-CCATAAA-TTTTTTTTCGTACTGTTGGTGATGGCCATT
1 TGGTGCCGGCCATTGACAGGCCAGCACCCA-AAATTTTTTTTTCGTACTGGTGGTGACGGCCATT
76977504 AGA-AGGCCAACACCCAAAAACATTTTTTTTCGTACTGG
65 -GATAGGCCAACACCC--AAA-ATTTTTTTTCGTACTGG
* * * * *
76977542 TGGTGTCGGCCATTGACAAGCCAGCACTCAAAATTTTTTTTTTGTATTGGTGGTGACGGCCATTG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTACTGGTGGTGACGGCCATTG
* * *
76977607 ACAGGCTAGCACCCAAAA-TTTTTTTCGTACTGG
66 ATAGGCCAACACCCAAAATTTTTTTTCGTACTGG
* * * * *
76977640 TGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCGTACTAGTTGT-CCTGACCAT
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTTTCGTACTGGTGGTGAC-GGCCAT
* ** * * *
76977704 TGATAGGCCAGA-AGCCAATTTTTTTTTTTGGAACTGC
64 TGATAGGCCA-ACACCCAA-AATTTTTTTTCGTACTGG
* * *
76977741 TGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTTCGTATTGGTGGTGCCGGTCATTG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTACTGGTGGTGACGGCCATTG
*
76977805 ATAGGCCAGCACCCAAAATTTATTTTTTCGTACTGG
66 ATAGGCCAACACCCAAAA-TT-TTTTTTCGTACTGG
**
76977841 TGGTGCCAACCATTGACAG
1 TGGTGCCGGCCATTGACAG
76977860 TAGGGGTGTT
Statistics
Matches: 343, Mismatches: 55, Indels: 38
0.79 0.13 0.09
Matches are distributed among these distances:
95 2 0.01
96 23 0.07
97 35 0.10
98 49 0.14
99 75 0.22
100 38 0.11
101 83 0.24
102 38 0.11
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (99 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTACTGGTGGTGACGGCCATTG
ATAGGCCAACACCCAAAATTTTTTTTCGTACTGG
Found at i:76977668 original size:150 final size:145
Alignment explanation
Indices: 76977345--76977845 Score: 546
Period size: 149 Copynumber: 3.4 Consensus size: 145
76977335 TTGATAAATT
* * * *
76977345 TGGTGCCGGCCATTGAATGGCTAGCACCC--AATTTTTTTTTTGTATTGGTGGTGCCGGCCATTG
1 TGGTGCCGGCCATTGAA-GGCCAGCACCCAAAATTTTTTTTTCGTACTGGTGGTGTCGGCCATTG
* * * *
76977408 ACAAGCCAGTACCCAAA-TTTTTTTTCGTATTAGTGGTGCCGGCCATTGATAGGCCAGCA-CCAT
65 ACAAGCCAG-AACCAAATTTTTTTTTTGTATTGGTGGTGCCGGCCATTGACAGGCCAGCACCCA-
*
76977471 AAATTTTTTTTCGTACTGT
128 AAA-TTTTTTTCGTACTGG
** * *
76977490 TGGTGATGGCCATTAGAAGGCCAACACCCAAAAACATTTTTTTTCGTACTGGTGGTGTCGGCCAT
1 TGGTGCCGGCCATT-GAAGGCCAGCACCC-AAAA-TTTTTTTTTCGTACTGGTGGTGTCGGCCAT
* * *
76977555 TGACAAGCCAGCACTCAAAATTTTTTTTTTGTATTGGTGGTGACGGCCATTGACAGGCTAGCACC
63 TGACAAGCCAGAAC-C-AAATTTTTTTTTTGTATTGGTGGTGCCGGCCATTGACAGGCCAGCACC
76977620 CAAAATTTTTTTCGTACTGG
126 CAAAATTTTTTTCGTACTGG
* * *
76977640 TGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCGTACTAGT--TGTCCTGACCA
1 TGGTGCCGGCCATTGA-AGGCCAGCACCCAAAA-TTTTTTTTTCGTACTGGTGGTGT-C-GGCCA
* * * * * *
76977703 TTGATAGGCCAGAAGCCAATTTTTTTTTTTGGAACTGCTGGTGCCGGCCATTGACAGGCCAGCAC
62 TTGACAAGCCAGAA-CCAAATTTTTTTTTT-GTATTGGTGGTGCCGGCCATTGACAGGCCAGCAC
* *
76977768 CCAAATTTTTTTTTCGTATTGG
125 CCAAA-ATTTTTTTCGTACTGG
*
76977790 TGGTGCCGGTCATTGATAGGCCAGCACCCAAAATTTATTTTTTCGTACTGGTGGTG
1 TGGTGCCGGCCATTGA-AGGCCAGCACCCAAAATTT-TTTTTTCGTACTGGTGGTG
76977846 CCAACCATTG
Statistics
Matches: 299, Mismatches: 39, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
145 21 0.07
146 3 0.01
147 3 0.01
148 16 0.05
149 113 0.38
150 98 0.33
151 40 0.13
152 5 0.02
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (145 bp):
TGGTGCCGGCCATTGAAGGCCAGCACCCAAAATTTTTTTTTCGTACTGGTGGTGTCGGCCATTGA
CAAGCCAGAACCAAATTTTTTTTTTGTATTGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
TTTTTTTCGTACTGG
Found at i:76977731 original size:199 final size:197
Alignment explanation
Indices: 76977345--76977859 Score: 612
Period size: 199 Copynumber: 2.6 Consensus size: 197
76977335 TTGATAAATT
* * *
76977345 TGGTGCCGGCCATTGA-ATGGCTAGCACC-CAATTTTTTTTTTGTATTGGTGGTGCCGGCCATTG
1 TGGTGCCGGCCATTGACA-AGCCAGCACCAAAATTTTTTTTTTGTATTGGTGGTGCCGGCCATTG
* * * * * * *
76977408 ACAAGCCAGTACCCAAATTTTTTTTCGTATTAGTGGTGCCGGCCATTGATAGGCCAGCACCATAA
65 ACAGGCCAGCACCCAAAATTTTTTTCGTACTGGTGGTGCCGACCATTGACAGGCCAGCACCATAA
* * *
76977473 ATTTTTTTTCGTACTGTTGGTGATGGCCATTAGAAGGCCAACACCCAAAAACATTTTTTTTCGTA
130 ATTTTTTTTCGTACTGTTGGTCATGACCATTAGAAGGCCAACACCC-AAAACATTTTTTTTCGAA
*
76977538 CTGG
194 CTGC
* *
76977542 TGGTGTCGGCCATTGACAAGCCAGCACTCAAAATTTTTTTTTTGTATTGGTGGTGACGGCCATTG
1 TGGTGCCGGCCATTGACAAGCCAGCAC-CAAAATTTTTTTTTTGTATTGGTGGTGCCGGCCATTG
*
76977607 ACAGGCTAGCACCCAAAATTTTTTTCGTACTGGTGGTGCCGACCATTGACAGGCCAGCACCCA-A
65 ACAGGCCAGCACCCAAAATTTTTTTCGTACTGGTGGTGCCGACCATTGACAGGCCAGCA-CCATA
* * ***
76977671 AATTTTTTTTTTCGTACTAGTT-GTCCTGACCATT-GATAGGCCAGA-AGCC-AATTTTTTTTTT
129 AA--TTTTTTTTCGTACT-GTTGGTCATGACCATTAGA-AGGCCA-ACACCCAAAACATTTTTTT
*
76977732 TGGAACTGC
189 TCGAACTGC
* * * *
76977741 TGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTCGTATTGGTGGTGCCGGTCATTGA
1 TGGTGCCGGCCATTGACAAGCCAGCACCAAAATTTTTTTTTTGTATTGGTGGTGCCGGCCATTGA
* *
76977806 TAGGCCAGCACCCAAAATTTATTTTTTCGTACTGGTGGTGCCAACCATTGACAG
66 CAGGCCAGCACCCAAAA--T-TTTTTTCGTACTGGTGGTGCCGACCATTGACAG
76977860 TAGGGGTGTT
Statistics
Matches: 274, Mismatches: 32, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
197 22 0.08
198 51 0.19
199 127 0.46
200 6 0.02
201 64 0.23
202 4 0.01
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (197 bp):
TGGTGCCGGCCATTGACAAGCCAGCACCAAAATTTTTTTTTTGTATTGGTGGTGCCGGCCATTGA
CAGGCCAGCACCCAAAATTTTTTTCGTACTGGTGGTGCCGACCATTGACAGGCCAGCACCATAAA
TTTTTTTTCGTACTGTTGGTCATGACCATTAGAAGGCCAACACCCAAAACATTTTTTTTCGAACT
GC
Found at i:76978047 original size:9 final size:9
Alignment explanation
Indices: 76978033--76978081 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
76978023 TTTGGTTAAA
76978033 AATTAACCG
1 AATTAACCG
76978042 AATTAACCG
1 AATTAACCG
76978051 AATTAACCG
1 AATTAACCG
76978060 AATT-ACCTG
1 AATTAACC-G
*
76978069 AATTAACCA
1 AATTAACCG
76978078 AATT
1 AATT
76978082 GAATCACTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 3 0.08
9 31 0.84
10 3 0.08
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:76992038 original size:2 final size:2
Alignment explanation
Indices: 76992031--76992062 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
76992021 AAGGATGCTG
76992031 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
76992063 ATGTACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:77004210 original size:17 final size:17
Alignment explanation
Indices: 77004188--77004224 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
77004178 TTGAGAAAAA
77004188 TTAGATCAATTGAGGGG
1 TTAGATCAATTGAGGGG
77004205 TTAGATCAATTGAGGGG
1 TTAGATCAATTGAGGGG
77004222 TTA
1 TTA
77004225 CTTGAGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.32
Consensus pattern (17 bp):
TTAGATCAATTGAGGGG
Found at i:77004737 original size:46 final size:46
Alignment explanation
Indices: 77004659--77004841 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
77004649 CATGGCAAAA
* * *
77004659 TGTGAAAAGTAGGTATGGTGTTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
77004705 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * * *
77004751 TATGGAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
77004797 GGTGAAAAGTAGGTATGGTATTTCCGTGAAGGAAACCATACTGAG
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
77004842 CTATAGCAAT
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:77012362 original size:87 final size:87
Alignment explanation
Indices: 77012216--77012388 Score: 337
Period size: 87 Copynumber: 2.0 Consensus size: 87
77012206 TACCTTCTTG
77012216 CATCAAAACACAACCTAAACCATTTAATGATGCATCACTATAAATAATAAATTCTTTACCCGATT
1 CATCAAAACACAACCTAAACCATTTAATGATGCATCACTATAAATAATAAATTCTTTACCCGATT
77012281 CAGGTTGTACCAACACAGGTGT
66 CAGGTTGTACCAACACAGGTGT
*
77012303 CATCAAAACACAACCTAAATCATTTAATGATGCATCACTATAAATAATAAATTCTTTACCCGATT
1 CATCAAAACACAACCTAAACCATTTAATGATGCATCACTATAAATAATAAATTCTTTACCCGATT
77012368 CAGGTTGTACCAACACAGGTG
66 CAGGTTGTACCAACACAGGTG
77012389 CTTTCGTCAA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (87 bp):
CATCAAAACACAACCTAAACCATTTAATGATGCATCACTATAAATAATAAATTCTTTACCCGATT
CAGGTTGTACCAACACAGGTGT
Found at i:77030953 original size:4 final size:4
Alignment explanation
Indices: 77030939--77030979 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
77030929 AGGAAACTAC
* *
77030939 ACAT GCAT ACAT ACAT ACAT ACAT TCAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
77030980 TTAACCATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:77041546 original size:2 final size:2
Alignment explanation
Indices: 77041539--77041580 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
77041529 GGGGAAGAAG
77041539 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
77041581 AAATATTTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:77044518 original size:32 final size:30
Alignment explanation
Indices: 77044458--77044526 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 30
77044448 AAAACATCAA
* * *
77044458 ATAAATTTTTTTATATATTTTTTCTTTAC-
1 ATAAATTTTTTTATATAATATTTATTTACG
77044487 ATATAATTTTTTTATATCAAATATTTATTTACG
1 ATA-AATTTTTTTATAT--AATATTTATTTACG
77044520 ATAAATT
1 ATAAATT
77044527 CTAATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 3 0.09
30 13 0.39
32 14 0.42
33 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (30 bp):
ATAAATTTTTTTATATAATATTTATTTACG
Found at i:77044731 original size:45 final size:48
Alignment explanation
Indices: 77044646--77044746 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 48
77044636 TATAATAAAA
* * *
77044646 TCAAATAATTATTTCAAATATCACTATTATTTTTTATATGTAAAATATT
1 TCAAATAATTATTTCAAATAT-ACTATTATCTTTAATATGTAAAAAATT
77044695 TCAAA-AACTTATTTCAAATAT-C-ATTA-CTTTAATATGTAAAAAATT
1 TCAAATAA-TTATTTCAAATATACTATTATCTTTAATATGTAAAAAATT
77044740 TCAAATA
1 TCAAATA
77044747 GTTCATACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
45 21 0.45
46 5 0.11
47 1 0.02
48 2 0.04
49 18 0.38
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.44
Consensus pattern (48 bp):
TCAAATAATTATTTCAAATATACTATTATCTTTAATATGTAAAAAATT
Found at i:77044864 original size:13 final size:13
Alignment explanation
Indices: 77044809--77044869 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
77044799 TAATATTATA
77044809 AAAATAATTATTTT
1 AAAATAATTA-TTT
*
77044823 AAATATCATT-TTT
1 AAA-ATAATTATTT
* *
77044836 ATACATAAAATATTT
1 A-AAAT-AATTATTT
77044851 AAAATAATTATTT
1 AAAATAATTATTT
77044864 AAAATA
1 AAAATA
77044870 CACATACAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
13 19 0.51
14 9 0.24
15 9 0.24
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATAATTATTT
Found at i:77045769 original size:17 final size:16
Alignment explanation
Indices: 77045735--77045789 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
77045725 TTGAAATGCA
77045735 AGTTATTCTTAATGAAG
1 AGTTATTCTTAAT-AAG
77045752 AGTTATTCTTAAATAAG
1 AGTTATTCTT-AATAAG
** *
77045769 AACTATTCCTGAATAAG
1 AGTTATT-CTTAATAAG
77045786 AGTT
1 AGTT
77045790 CATCTAGTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 26 0.84
18 5 0.16
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (16 bp):
AGTTATTCTTAATAAG
Found at i:77046307 original size:30 final size:30
Alignment explanation
Indices: 77046273--77046342 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
77046263 CACCAACAAA
77046273 TTCTAATATTCTTTCTTTCCTTCCTTCAAT
1 TTCTAATATTCTTTCTTTCCTTCCTTCAAT
*
77046303 TTCTAATATTCTTTCTTTCCTTCCTTCATT
1 TTCTAATATTCTTTCTTTCCTTCCTTCAAT
*
77046333 TTATAATATT
1 TTCTAATATT
77046343 ATTAGATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.59
Consensus pattern (30 bp):
TTCTAATATTCTTTCTTTCCTTCCTTCAAT
Found at i:77048232 original size:20 final size:20
Alignment explanation
Indices: 77048204--77048245 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
77048194 TAAAAAATAA
77048204 AATAATTTTAT-ATTAATATT
1 AATAATTTTATAATTAA-ATT
*
77048224 AATATTTTTATAATTAAATT
1 AATAATTTTATAATTAAATT
77048244 AA
1 AA
77048246 ATTAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATAATTTTATAATTAAATT
Found at i:77048245 original size:5 final size:5
Alignment explanation
Indices: 77048235--77048259 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
77048225 ATATTTTTAT
77048235 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
77048260 TTATTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:77051414 original size:16 final size:16
Alignment explanation
Indices: 77051395--77051436 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
77051385 ATTTTGGTAA
77051395 ATAAAATATATAAAAT
1 ATAAAATATATAAAAT
*
77051411 ATAAAA-ATA-AAATT
1 ATAAAATATATAAAAT
77051425 ATATAAATATAT
1 ATA-AAATATAT
77051437 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATATATAAAAT
Found at i:77051420 original size:22 final size:24
Alignment explanation
Indices: 77051393--77051436 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
77051383 AAATTTTGGT
77051393 AAATAAAA-TATATAAA-ATATAA
1 AAATAAAATTATATAAATATATAA
77051415 AAATAAAATTATATAAATATAT
1 AAATAAAATTATATAAATATAT
77051437 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 8 0.40
24 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAAAATTATATAAATATATAA
Found at i:77063131 original size:16 final size:15
Alignment explanation
Indices: 77063096--77063134 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
77063086 ATTTAATCTT
77063096 TTTTTTAATTTGATA
1 TTTTTTAATTTGATA
* *
77063111 ATTTTTAATTTTTATA
1 TTTTTTAA-TTTGATA
77063127 TTTTTTAA
1 TTTTTTAA
77063135 AATTTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTTAATTTGATA
Found at i:77063503 original size:18 final size:18
Alignment explanation
Indices: 77063460--77063508 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 18
77063450 AATTTATTAT
77063460 TTAAAAGTTTA-TATAATA
1 TTAAAA-TTTATTATAATA
77063478 TT---ATTTATTATAATA
1 TTAAAATTTATTATAATA
77063493 TTAAAATTTATT-TAAT
1 TTAAAATTTATTATAAT
77063509 TATAACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
17 4 0.15
18 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTAAAATTTATTATAATA
Found at i:77065704 original size:9 final size:9
Alignment explanation
Indices: 77065690--77065716 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
77065680 CATACTTTGT
77065690 AAATTAAAA
1 AAATTAAAA
77065699 AAATTAAAA
1 AAATTAAAA
77065708 AAATTAAAA
1 AAATTAAAA
77065717 TTTGAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATTAAAA
Found at i:77085247 original size:88 final size:89
Alignment explanation
Indices: 77085072--77085249 Score: 279
Period size: 88 Copynumber: 2.0 Consensus size: 89
77085062 TGAGCCTTTT
*
77085072 GTGAAGATCAAGTGATCTGCATAAGAATTCCAAAAAAAAGAAAAAACAGTAAGTACATTATTAAC
1 GTGAAGATCAAGTGATCTGCATAAGAATTCCAAAAAAAAGAAAAAACAGTAAGTACATTATCAAC
*
77085137 AAGTGAAGGACTATAGAATTGGGA
66 AAGTGAAGGACTATAAAATTGGGA
* **
77085161 GTGAAGATCAAGTGATCTGCATAAGGATTCCAAAAAAAAG-AAAAACAGTAAGTGTATTATCAAT
1 GTGAAGATCAAGTGATCTGCATAAGAATTCCAAAAAAAAGAAAAAACAGTAAGTACATTATCAA-
*
77085225 GAA-TGAAGGACTATAAAATTGGGA
65 CAAGTGAAGGACTATAAAATTGGGA
77085249 G
1 G
77085250 ATTGAACCTA
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
88 41 0.50
89 41 0.50
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (89 bp):
GTGAAGATCAAGTGATCTGCATAAGAATTCCAAAAAAAAGAAAAAACAGTAAGTACATTATCAAC
AAGTGAAGGACTATAAAATTGGGA
Found at i:77092894 original size:22 final size:23
Alignment explanation
Indices: 77092866--77092909 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
77092856 AACACAATAA
*
77092866 ATAAAATTGT-TAAAATTTATTT
1 ATAAAATTATATAAAATTTATTT
*
77092888 ATAAAATTATATATAATTTATT
1 ATAAAATTATATAAAATTTATT
77092910 ATTTTTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATAAAATTATATAAAATTTATTT
Found at i:77093565 original size:14 final size:15
Alignment explanation
Indices: 77093543--77093619 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
77093533 CAATCAAACA
77093543 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
77093557 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
77093572 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
77093592 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
77093606 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
77093620 ACTGACAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:77093584 original size:20 final size:20
Alignment explanation
Indices: 77093559--77093598 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
77093549 AATATTTTCC
*
77093559 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
77093579 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
77093599 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:77093604 original size:34 final size:35
Alignment explanation
Indices: 77093547--77093613 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
77093537 CAAACACCAG
*
77093547 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
77093582 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
77093614 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:77096963 original size:13 final size:13
Alignment explanation
Indices: 77096945--77097005 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
77096935 TTTTTGATTG
77096945 AATTAAATTAATT
1 AATTAAATTAATT
*
77096958 AATT-AATGAATT
1 AATTAAATTAATT
*
77096970 AATCAAATTAAATT
1 AATTAAATT-AATT
* * *
77096984 CATTCAATCAATT
1 AATTAAATTAATT
*
77096997 AATTCAATT
1 AATTAAATT
77097006 TTAATCGAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
12 10 0.27
13 18 0.49
14 9 0.24
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (13 bp):
AATTAAATTAATT
Found at i:77096977 original size:25 final size:25
Alignment explanation
Indices: 77096926--77096999 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 25
77096916 TAAAGAAAAT
** *
77096926 ATTAATTAATTTTTG-ATTGAATTAA
1 ATTAATTAATTAATGAATT-AATCAA
77096951 ATTAATTAATTAATGAATTAATCAA
1 ATTAATTAATTAATGAATTAATCAA
* *
77096976 ATTAAATTCATTCAATCAATTAAT
1 ATT-AATTAATT-AATGAATTAAT
77097000 TCAATTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 21 0.51
26 10 0.24
27 10 0.24
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (25 bp):
ATTAATTAATTAATGAATTAATCAA
Found at i:77100852 original size:39 final size:40
Alignment explanation
Indices: 77100731--77100853 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
77100721 TTTGGACAAA
*
77100731 AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTATGT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTATGG
* * * *
77100771 AAAACGTCGCTAAAGATCGAG-ATTTAGCGGCGC-TTACAGG
1 AAAACGCCGCTAAAAATCGAGCA-TTAGCGGCACTTTA-TGG
* * *
77100811 AAAGCGCCGCTAAAAAT-GAGCATTAGCGGCATTTTTTGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTATGG
77100850 AAAA
1 AAAA
77100854 ACGCAGCAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
39 20 0.30
40 46 0.70
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTATGG
Found at i:77100956 original size:41 final size:41
Alignment explanation
Indices: 77100899--77101134 Score: 323
Period size: 41 Copynumber: 5.8 Consensus size: 41
77100889 TGAACTTTTG
* * *
77100899 GGGCTTTAGCGGCGTTTTTAAAAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* *
77100940 GGGCTTTAGTGGCGTTTTTGAAGAAGCGACGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
77100981 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
77101022 AGGATTTAGCGGCGTTTTTGAAGAAGCGCCGTTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * **
77101063 GGGATTTAGCGGCGTTTTTTGGAGAAGCGCCGCTAA--CTTG
1 GGGCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCA
**
77101103 GGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
77101135 AAAAACATTT
Statistics
Matches: 178, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.10
40 15 0.08
41 127 0.71
42 19 0.11
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:77101287 original size:26 final size:26
Alignment explanation
Indices: 77101230--77101288 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
77101220 AAAAATGGAT
* *
77101230 AAATTTGAAATAATGAAACTTAGAAA
1 AAATTTGAAATAATAAAACATAGAAA
*
77101256 TAATTTGAAATAA-AAAACATAGAAA
1 AAATTTGAAATAATAAAACATAGAAA
77101281 AATATTTG
1 AA-ATTTG
77101289 TTAAAAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATTTGAAATAATAAAACATAGAAA
Found at i:77101468 original size:14 final size:14
Alignment explanation
Indices: 77101449--77101479 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
77101439 TATCATTATA
77101449 GTTTAGGGTATATG
1 GTTTAGGGTATATG
77101463 GTTTAGGGTATATG
1 GTTTAGGGTATATG
77101477 GTT
1 GTT
77101480 AATTTAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTATATG
Found at i:77101609 original size:21 final size:21
Alignment explanation
Indices: 77101585--77101624 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
77101575 GTGATTTAAG
* *
77101585 GGTTAGGGGTTAAGAGTTAGA
1 GGTTAGAGATTAAGAGTTAGA
77101606 GGTTAGAGATTAAGAGTTA
1 GGTTAGAGATTAAGAGTTA
77101625 TAGATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.30
Consensus pattern (21 bp):
GGTTAGAGATTAAGAGTTAGA
Found at i:77101751 original size:74 final size:76
Alignment explanation
Indices: 77101655--77101794 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 76
77101645 TCGGTGTTAG
* * * *
77101655 GTTAGGGTTTAGAGTTTAGATTAATTAGTATGTTTTAA-TT-TGTATTAAATAAGGTTTAAGGGT
1 GTTAAGGTTTAGAGTTTAGATTAATCAATATGTTTTAAGTTATATATTAAATAAGGTTTAAGGGT
77101718 TAGAGATTTGA
66 TAGAGATTTGA
* * *
77101729 GTTAAGGTTTAGGGTTTAGATTAATCAATATTTTTTAAGTTATATATTAAATAAGGTTTAGGGGT
1 GTTAAGGTTTAGAGTTTAGATTAATCAATATGTTTTAAGTTATATATTAAATAAGGTTTAAGGGT
77101794 T
66 T
77101795 TGTAGTTAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 33 0.58
75 2 0.04
76 22 0.39
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (76 bp):
GTTAAGGTTTAGAGTTTAGATTAATCAATATGTTTTAAGTTATATATTAAATAAGGTTTAAGGGT
TAGAGATTTGA
Found at i:77118860 original size:30 final size:30
Alignment explanation
Indices: 77118826--77118886 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
77118816 TCCTTAACTC
77118826 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
77118856 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
77118886 A
1 A
77118887 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:77121109 original size:31 final size:31
Alignment explanation
Indices: 77121066--77121137 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
77121056 AGGCCAAGTT
*
77121066 GGGCGTGTGGGCTCACATGGGCAAGCCACAC
1 GGGCATGTGGGCTCACATGGGCAAGCCACAC
77121097 GGGCATGTGGGCTCACATGGGCAAGCCACAC
1 GGGCATGTGGGCTCACATGGGCAAGCCACAC
*
77121128 AGGCATGTGG
1 GGGCATGTGG
77121138 ACCCAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.39, T:0.14
Consensus pattern (31 bp):
GGGCATGTGGGCTCACATGGGCAAGCCACAC
Found at i:77122324 original size:14 final size:14
Alignment explanation
Indices: 77122288--77122324 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
77122278 TTCTACCATT
*
77122288 TTACTATTATATTG
1 TTACTATTTTATTG
*
77122302 CTACTATTTTATTG
1 TTACTATTTTATTG
77122316 TTACTATTT
1 TTACTATTT
77122325 GGATATTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.59
Consensus pattern (14 bp):
TTACTATTTTATTG
Found at i:77127050 original size:40 final size:40
Alignment explanation
Indices: 77126956--77127180 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
77126946 TATTCGAATG
*
77126956 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
77126997 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
77127037 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
77127077 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
77127117 ATATCCGGGCTATG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
77127157 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
77127181 CTTGTGCAAG
Statistics
Matches: 156, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 125 0.80
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:77127136 original size:80 final size:80
Alignment explanation
Indices: 77126956--77127216 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
77126946 TATTCGAATG
* * * *
77126956 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
77127021 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
77127037 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
77127102 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
77127117 ATATCCGGGCTATGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
77127182 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
77127196 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
77127217 ATTACTTGAG
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
78 13 0.08
79 14 0.09
80 94 0.61
81 32 0.21
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:77127172 original size:120 final size:120
Alignment explanation
Indices: 77126956--77127216 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 120
77126946 TATTCGAATG
* * *
77126956 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
77127021 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * * *
77127077 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTATG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
77127140 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
77127196 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
77127217 ATTACTTGAG
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 56 0.46
121 31 0.26
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:77135910 original size:40 final size:40
Alignment explanation
Indices: 77135845--77135924 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
77135835 TAAATACCTA
* ** *
77135845 AGGGAAATGAAACCTAAGATGGATCTTGTTATTATTATCT
1 AGGGAAATGAAACCTAAAACAGATCTTGTTATAATTATCT
*
77135885 AGGGGAATGAAACCTAAAACAGATCTTGTTATAATTATCT
1 AGGGAAATGAAACCTAAAACAGATCTTGTTATAATTATCT
77135925 GAATTGTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (40 bp):
AGGGAAATGAAACCTAAAACAGATCTTGTTATAATTATCT
Found at i:77143023 original size:9 final size:9
Alignment explanation
Indices: 77143006--77143036 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
77142996 GTTGTGAATT
77143006 GGCCAAATG
1 GGCCAAATG
*
77143015 GGCCGAATG
1 GGCCAAATG
77143024 GGCCAAATG
1 GGCCAAATG
77143033 GGCC
1 GGCC
77143037 CGATGGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.39, T:0.10
Consensus pattern (9 bp):
GGCCAAATG
Found at i:77143043 original size:18 final size:18
Alignment explanation
Indices: 77143001--77143036 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
77142991 CTTGGGTTGT
*
77143001 GAATTGGCCAAATGGGCC
1 GAATGGGCCAAATGGGCC
77143019 GAATGGGCCAAATGGGCC
1 GAATGGGCCAAATGGGCC
77143037 CGATGGGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.22, G:0.36, T:0.14
Consensus pattern (18 bp):
GAATGGGCCAAATGGGCC
Found at i:77143162 original size:28 final size:29
Alignment explanation
Indices: 77143122--77143201 Score: 110
Period size: 28 Copynumber: 2.8 Consensus size: 29
77143112 ACTGTAAATG
*
77143122 TGATTTGGGCCTAGT-GGCCATATGAATC
1 TGATTTGGGCCTAGTGGGCCATATGAAAC
* *
77143150 TGATTTGGGCCTAATGGGCCATATGAAAG
1 TGATTTGGGCCTAGTGGGCCATATGAAAC
*
77143179 AGA-TTGGGCCTAGTGGGCCATAT
1 TGATTTGGGCCTAGTGGGCCATAT
77143202 ATATATAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 33 0.72
29 13 0.28
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
TGATTTGGGCCTAGTGGGCCATATGAAAC
Found at i:77166408 original size:10 final size:10
Alignment explanation
Indices: 77166389--77166422 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
77166379 AGAGAGCACC
*
77166389 AAGAGTCAAA
1 AAGAGCCAAA
77166399 AAGAGCCAAA
1 AAGAGCCAAA
77166409 AATGAGCCAAA
1 AA-GAGCCAAA
77166420 AAG
1 AAG
77166423 GGACAAAGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:77175299 original size:14 final size:15
Alignment explanation
Indices: 77175280--77175309 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77175270 GTTTATAATA
77175280 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
77175294 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
77175309 T
1 T
77175310 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:77177288 original size:43 final size:43
Alignment explanation
Indices: 77177235--77177443 Score: 323
Period size: 43 Copynumber: 4.9 Consensus size: 43
77177225 TGAATAATAT
*
77177235 TATCGAGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
1 TATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
77177278 TATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
1 TATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
*
77177321 TATCGGGCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
1 TATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
* * * *
77177364 TATCGGGCTTTGGGCCTAGCAGGCTATAATGCCAGTGAAATGA
1 TATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
**
77177407 TATCGGGCTTCAAGCCTAGCAGG-TGA-AATGCCGGTGA
1 TATCGGGCTTCGGGCCTAGCAGGCT-ATAATGCCGGTGA
77177444 ATGAGTTCAG
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
42 11 0.07
43 145 0.93
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (43 bp):
TATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
Found at i:77177463 original size:41 final size:41
Alignment explanation
Indices: 77177248--77177524 Score: 163
Period size: 43 Copynumber: 6.6 Consensus size: 41
77177238 CGAGCTTCGG
* * ***
77177248 GCCTAGCAGGCTATAATGCCGGTGAGAT-AATATCGGGCTTCGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGAGATTAAA
* * ***
77177291 GCCTAGCAGGCTATAATGCCGGTGAGAT-AATATCGGGCTTTGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGAGATTAAA
* * ***
77177334 GCCTAGCAGGCTATAATGCCGGTGAGAT-AATATCGGGCTTTGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGAGATTAAA
* * * *
77177377 GCCTAGCAGGCTATAATGCCAGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGAGATTAAA
*
77177420 GCCTAGCAGG-TGAAATGCCGGTGAATGAGTTC-AGACTTAAA
1 GCCTAGCAGGCT-AAATGCCGGTGAATGAATTCGAGA-TTAAA
** *
77177461 GCCTAGCAGGCTACGTGCCGGTG-ATGAATTCGGGATTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGATTAAA
*
77177501 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
77177525 TTTGATAAAA
Statistics
Matches: 209, Mismatches: 17, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
40 33 0.16
41 31 0.15
42 12 0.06
43 132 0.63
44 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGAGATTAAA
Found at i:77185128 original size:30 final size:30
Alignment explanation
Indices: 77185092--77185150 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
77185082 TGACGGGTTT
77185092 CTTCTAGTCATAAACTATAAAAACCTGCCC
1 CTTCTAGTCATAAACTATAAAAACCTGCCC
*
77185122 CTTCTAGTCATAAACTATAAAAACTTGCC
1 CTTCTAGTCATAAACTATAAAAACCTGCC
77185151 AAGAGAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (30 bp):
CTTCTAGTCATAAACTATAAAAACCTGCCC
Found at i:77189348 original size:18 final size:18
Alignment explanation
Indices: 77189296--77189341 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
77189286 ATATATGAAA
*
77189296 TATTAATTTAAATGTAAG
1 TATTAATTTAAATATAAG
77189314 TATTAATTTAAATATAAG
1 TATTAATTTAAATATAAG
77189332 TATTTAATTT
1 TA-TTAATTT
77189342 GATATAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TATTAATTTAAATATAAG
Found at i:77191318 original size:18 final size:17
Alignment explanation
Indices: 77191288--77191321 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
77191278 TCATAGAAAT
77191288 AAATATTTATTTAATTA
1 AAATATTTATTTAATTA
*
77191305 AAATAATTTTTTTAATT
1 AAAT-ATTTATTTAATT
77191322 TTAGCAGCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATTTATTTAATTA
Found at i:77191375 original size:43 final size:43
Alignment explanation
Indices: 77191321--77191505 Score: 235
Period size: 43 Copynumber: 4.3 Consensus size: 43
77191311 TTTTTTTAAT
* * * *
77191321 TTTAGCAGCGTTTATGGAAAAAGCGCCGTTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* *
77191364 TTTAGGGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * *
77191407 TTTAACGGCCTTTGTGGGAAAAGCGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * ** *
77191450 TTTAGCAGCCTTTGTGGGAAAAGCGTTGCTAAAGGCCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
*
77191493 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
77191506 TTTCACATAA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 123 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:77194378 original size:25 final size:21
Alignment explanation
Indices: 77194346--77194394 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 21
77194336 CTCTTTCTGT
77194346 TTTCTTATAAACACATATCATTTA
1 TTTCTTAT-AACA-ATAT-ATTTA
*
77194370 TTTCATTATATCAATATATTTA
1 TTTC-TTATAACAATATATTTA
77194392 TTT
1 TTT
77194395 TTTCTCCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 8 0.35
23 4 0.17
24 7 0.30
25 4 0.17
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTCTTATAACAATATATTTA
Found at i:77196110 original size:39 final size:40
Alignment explanation
Indices: 77196015--77196276 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
77196005 TTGAATGATG
*
77196015 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
77196053 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
77196094 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
77196133 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
77196172 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
77196211 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
77196250 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
77196277 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:77209195 original size:30 final size:30
Alignment explanation
Indices: 77209161--77209221 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
77209151 TCCTTAACTC
77209161 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
77209191 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
77209221 A
1 A
77209222 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:77214038 original size:22 final size:22
Alignment explanation
Indices: 77213990--77214039 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
77213980 ATGATAATAT
77213990 TAAAAAAATACAAAAGAAAAAA
1 TAAAAAAATACAAAAGAAAAAA
* * *
77214012 GAAAAAAATAGAAATAG-CAAAA
1 TAAAAAAATACAAA-AGAAAAAA
77214034 TAAAAA
1 TAAAAA
77214040 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (22 bp):
TAAAAAAATACAAAAGAAAAAA
Found at i:77214077 original size:16 final size:16
Alignment explanation
Indices: 77214056--77214098 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
77214046 TAATAAATGT
77214056 ATATAAAAAATTAAAA
1 ATATAAAAAATTAAAA
77214072 ATATAAAAAAATTAAAA
1 ATAT-AAAAAATTAAAA
*
77214089 TTA-AAAAAAT
1 ATATAAAAAAT
77214099 AAGTATAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 4 0.16
17 14 0.56
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATATAAAAAATTAAAA
Found at i:77214082 original size:17 final size:17
Alignment explanation
Indices: 77214030--77214098 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 17
77214020 TAGAAATAGC
77214030 AAAA-TAAAAATA-AAA
1 AAAATTAAAAATATAAA
* **
77214045 ATAA-TAAATGTATATAA
1 AAAATTAAAAATATA-AA
77214062 AAAATTAAAAATATAAA
1 AAAATTAAAAATATAAA
77214079 AAAATT-AAAAT-TAAA
1 AAAATTAAAAATATAAA
77214094 AAAAT
1 AAAAT
77214099 AAGTATAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
15 18 0.40
16 6 0.13
17 13 0.29
18 8 0.18
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (17 bp):
AAAATTAAAAATATAAA
Found at i:77214142 original size:10 final size:10
Alignment explanation
Indices: 77214127--77214176 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
77214117 TTAATTAGTA
77214127 AAATAAAAAT
1 AAATAAAAAT
77214137 AAATAATATAAT
1 AAATAA-A-AAT
*
77214149 AATTAAAAAT
1 AAATAAAAAT
77214159 AAAT-AAAAT
1 AAATAAAAAT
77214168 AAAATAAAA
1 -AAATAAAA
77214177 TTGGGGTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 5 0.15
10 16 0.47
11 5 0.15
12 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:77214155 original size:22 final size:20
Alignment explanation
Indices: 77214125--77214176 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
77214115 AATTAATTAG
*
77214125 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAAAA
77214145 TAATAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAAAA
77214167 TAAAATAAAA
1 TAAAATAAAA
77214177 TTGGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAAATAAAAATAAATAAAA
Found at i:77214539 original size:30 final size:30
Alignment explanation
Indices: 77214503--77214561 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
77214493 CATGTGAGAT
* * *
77214503 TCCACACGCCCGTGTGGCTAAGCCGTGTGC
1 TCCACACACCCGTGTGGCCAAGCCATGTGC
*
77214533 TCCACACACTCGTGTGGCCAAGCCATGTG
1 TCCACACACCCGTGTGGCCAAGCCATGTG
77214562 GGTCAAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.17, C:0.36, G:0.27, T:0.20
Consensus pattern (30 bp):
TCCACACACCCGTGTGGCCAAGCCATGTGC
Found at i:77219322 original size:32 final size:34
Alignment explanation
Indices: 77219281--77219343 Score: 112
Period size: 32 Copynumber: 1.9 Consensus size: 34
77219271 GGACATAATG
77219281 TTAAAATTTTCATTCATTGTA-A-AAAAAAACAC
1 TTAAAATTTTCATTCATTGTATACAAAAAAACAC
77219313 TTAAAATTTTCATTCATTGTATACAAAAAAA
1 TTAAAATTTTCATTCATTGTATACAAAAAAA
77219344 AAACACTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 21 0.72
33 1 0.03
34 7 0.24
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (34 bp):
TTAAAATTTTCATTCATTGTATACAAAAAAACAC
Found at i:77222687 original size:27 final size:27
Alignment explanation
Indices: 77222628--77222748 Score: 93
Period size: 27 Copynumber: 4.4 Consensus size: 27
77222618 TAAAACTTTC
* * * *
77222628 CCCCCATTTTTTAGAATTTACAATTTG
1 CCCCTATTTTTAAGATTTTACAATTTT
**
77222655 AACCTATTTTCT-AGATTTTACAATTTT
1 CCCCTATTTT-TAAGATTTTACAATTTT
* * *
77222682 CCCCTATTTTTAAGATTATATAGTTTT
1 CCCCTATTTTTAAGATTTTACAATTTT
*
77222709 GCCTCTATTTTTCAA-ATTTTACAAAATTTT
1 -CCCCTATTTTT-AAGATTTTAC--AATTTT
77222739 CCCCTATTTT
1 CCCCTATTTT
77222749 ACAAATTTTA
Statistics
Matches: 73, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.01
27 40 0.55
28 16 0.22
29 11 0.15
30 5 0.07
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (27 bp):
CCCCTATTTTTAAGATTTTACAATTTT
Found at i:77225951 original size:42 final size:42
Alignment explanation
Indices: 77225844--77225958 Score: 108
Period size: 42 Copynumber: 2.7 Consensus size: 42
77225834 GAGATTCCGA
* *
77225844 ATAAGACCATATCTA-CGATATGGCATCGGTATGTGATTTCAT
1 ATAAGACCATATC-AGGGATATGGCATCGATATGTGATTTCAT
** * * *
77225886 ATAAGATTATGTCAGGGACATGGCGTCGATATGAT-ATTTCAT
1 ATAAGACCATATCAGGGATATGGCATCGATATG-TGATTTCAT
* * *
77225928 GTAAGACCATATCCGGGATATGGCATTGATA
1 ATAAGACCATATCAGGGATATGGCATCGATA
77225959 CGGTACTATG
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
41 1 0.02
42 54 0.96
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (42 bp):
ATAAGACCATATCAGGGATATGGCATCGATATGTGATTTCAT
Found at i:77228046 original size:28 final size:29
Alignment explanation
Indices: 77228009--77228132 Score: 162
Period size: 28 Copynumber: 4.3 Consensus size: 29
77227999 AGGTCTGCAT
* *
77228009 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
77228037 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
77228066 ACATTCGTATGACCC-TTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
77228094 ACATTCGTATGGCCCATTATGCCCAAATT
1 ACATTCATATGGCCCATTAGGCCCAAATC
77228123 ACATTCATAT
1 ACATTCATAT
77228133 ACATGCTTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 48 0.57
29 36 0.43
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:77234759 original size:58 final size:58
Alignment explanation
Indices: 77234673--77234807 Score: 243
Period size: 58 Copynumber: 2.3 Consensus size: 58
77234663 AGCTTGTTTA
77234673 AAACATATGATTTATGAAAACCTGTCATTTTAATATTAAGTTGCGGAAACATAGAAAAC
1 AAAC-TATGATTTATGAAAACCTGTCATTTTAATATTAAGTTGCGGAAACATAGAAAAC
*
77234732 AAACTATGATTTATGAAAACCTGTCATTTTAATATTAAGTTGCGGAAACGTAGAAAAC
1 AAACTATGATTTATGAAAACCTGTCATTTTAATATTAAGTTGCGGAAACATAGAAAAC
*
77234790 AAACTATGATTTAGGAAA
1 AAACTATGATTTATGAAA
77234808 CCTATGTTCA
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 70 0.95
59 4 0.05
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (58 bp):
AAACTATGATTTATGAAAACCTGTCATTTTAATATTAAGTTGCGGAAACATAGAAAAC
Found at i:77235882 original size:29 final size:29
Alignment explanation
Indices: 77235763--77235886 Score: 117
Period size: 29 Copynumber: 4.3 Consensus size: 29
77235753 AAGTCTACAT
* *
77235763 ACATGCATATGGCCCACTA-GCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * * *
77235790 TCATTCATATGGCCTATTAGGTCCGAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * ** *
77235819 ACATACGTATGGCCCATTAAACCAAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
77235848 ATATTCATATGGCCCATTAGGCCCAAACC
1 ACATTCATATGGCCCATTAGGCCCAAATC
77235877 ACATTCATAT
1 ACATTCATAT
77235887 ACATGCTTTC
Statistics
Matches: 73, Mismatches: 22, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
27 15 0.21
28 3 0.04
29 55 0.75
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:77239705 original size:37 final size:38
Alignment explanation
Indices: 77239654--77239754 Score: 120
Period size: 37 Copynumber: 2.7 Consensus size: 38
77239644 TTTGAGTACG
* *
77239654 TGTATGACCATAGCTGGGCTATGGCATC-GTAATGACA
1 TGTAAGACCATAGCTGGGCTATGGCATCTGTAATCACA
* *
77239691 TGTAAGACCATAGCTGGGCTATGGCA-CTGTGATCCCA
1 TGTAAGACCATAGCTGGGCTATGGCATCTGTAATCACA
77239728 TGTAAGACCAT-GTCTGGGAC-ATGGCAT
1 TGTAAGACCATAG-CTGGG-CTATGGCAT
77239755 TGGCATCGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
36 2 0.04
37 53 0.95
38 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (38 bp):
TGTAAGACCATAGCTGGGCTATGGCATCTGTAATCACA
Done.