Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 228 of 235
Found at i:76737965 original size:29 final size:29
Alignment explanation
Indices: 76737925--76738235 Score: 298
Period size: 29 Copynumber: 11.9 Consensus size: 29
76737915 AACCTAATTT
76737925 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
76737955 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
76737984 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
76738006 AACCCT-A-----ACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
76738029 AACCCT-A-----ACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
76738052 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
76738081 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
76738110 AACCTTAACCCTAACCTAATTTAAATAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
76738139 AACCCT-A----AA-C---TTTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAA-TTAAA
*
76738160 AACCCTAAACCT----TAA-TT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
76738182 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
76738211 AACCCTAACCCTAACCTAATTTAAT
1 AACCCTAACCCTAACCTAATTTAAT
76738236 GCTATGTTGT
Statistics
Matches: 243, Mismatches: 8, Indels: 61
0.78 0.03 0.20
Matches are distributed among these distances:
20 8 0.03
21 12 0.05
22 30 0.12
23 29 0.12
24 6 0.02
25 5 0.02
26 3 0.01
27 2 0.01
28 1 0.00
29 141 0.58
30 6 0.02
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:76738071 original size:97 final size:97
Alignment explanation
Indices: 76737905--76738088 Score: 341
Period size: 97 Copynumber: 1.9 Consensus size: 97
76737895 TTTGATGTAA
* *
76737905 TAAAAACCCTAACCTAATTTAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 TAAAAACCCTAACCTAATTTAACACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
76737970 CTAATTTAATTAAAAACCCTAAACCTTAACTT
66 CTAATTTAATTAAAAACCCTAAACCTTAACTT
*
76738002 TAAAAACCCTAACCTAATTTAATACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
1 TAAAAACCCTAACCTAATTTAACACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
76738067 CTAATTTAATTAAAAACCCTAA
66 CTAATTTAATTAAAAACCCTAA
76738089 CCCTAACCTA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (97 bp):
TAAAAACCCTAACCTAATTTAACACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC
CTAATTTAATTAAAAACCCTAAACCTTAACTT
Found at i:76738191 original size:21 final size:22
Alignment explanation
Indices: 76738135--76738189 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
76738125 CTAATTTAAA
* *
76738135 TAAAAACCCTAAACTTTAA-CT
1 TAAAAACCCTAAACCTTAATTT
76738156 TAAAAACCCTAAACCTTAATTT
1 TAAAAACCCTAAACCTTAATTT
76738178 TAAAAACCCTAA
1 TAAAAACCCTAA
76738190 CCCTAACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAAACCCTAAACCTTAATTT
Found at i:76738196 original size:101 final size:105
Alignment explanation
Indices: 76738006--76738234 Score: 326
Period size: 101 Copynumber: 2.2 Consensus size: 105
76737996 TAACTTTAAA
*
76738006 AACCCTAACCTAATTT-AATACAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
1 AACCCTAACCTAATTTAAATACAAAACCCTAA-C-AATTTAATTAAAAACCCTAAACCT-A--TA
*
76738070 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCTT
61 ATTT-ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
76738116 AACCCTAACCTAATTTAAATA-AAAACCCTAA-ACTTTAACTTAAAAACCCTAAACCT-TAA-TT
1 AACCCTAACCTAATTTAAATACAAAACCCTAACAATTTAA-TTAAAAACCCTAAACCTATAATTT
76738177 -TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
65 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
76738217 AACCCTAACCTAATTTAA
1 AACCCTAACCTAATTTAA
76738235 TGCTATGTTG
Statistics
Matches: 114, Mismatches: 3, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
101 57 0.50
103 2 0.02
104 3 0.03
107 6 0.05
108 16 0.14
110 26 0.23
111 4 0.04
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (105 bp):
AACCCTAACCTAATTTAAATACAAAACCCTAACAATTTAATTAAAAACCCTAAACCTATAATTTA
TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:76739753 original size:132 final size:131
Alignment explanation
Indices: 76739547--76739808 Score: 463
Period size: 132 Copynumber: 2.0 Consensus size: 131
76739537 GTCCTTTTCC
*
76739547 TTAACGAGGCGACGATTTTCCATGAACATGTGCCGTCTTGCACCGCACACTTCGCCTCAAACTTA
1 TTAACGAGGCGACGATTTTCCATGAACATGTGCCGTCTTACACCGCACACTTCGCCTCAAACTTA
*
76739612 TCAGATTTTGATTTAACGACGTGGTAATTAACGCCGTTTTTGATGCTATGCTGTTTCAAAGCACN
66 TCAGATTTTGATTTAACGACGTGGTAATTAACACCGTTTTTGATGCTATGCTGTTTCAAAGCAC-
76739677 CT
130 CT
76739679 TTAACGAGGCGTA-GATTTTCCATGAACATGTGCCGTCTTACACCGCACACTTCGCCTCAAACTT
1 TTAACGAGGCG-ACGATTTTCCATGAACATGTGCCGTCTTACACCGCACACTTCGCCTCAAACTT
* *
76739743 ATCAGATTTTGATTTAACGACGTGGTAGTTAACACCGTTTTTGATGCTATGTTGTTTCAAAGCAC
65 ATCAGATTTTGATTTAACGACGTGGTAATTAACACCGTTTTTGATGCTATGCTGTTTCAAAGCAC
76739808 C
130 C
76739809 AATAAAACTA
Statistics
Matches: 125, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
131 1 0.01
132 123 0.98
133 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (131 bp):
TTAACGAGGCGACGATTTTCCATGAACATGTGCCGTCTTACACCGCACACTTCGCCTCAAACTTA
TCAGATTTTGATTTAACGACGTGGTAATTAACACCGTTTTTGATGCTATGCTGTTTCAAAGCACC
T
Found at i:76741201 original size:126 final size:126
Alignment explanation
Indices: 76740881--76741352 Score: 810
Period size: 125 Copynumber: 3.8 Consensus size: 126
76740871 AACATGCTAT
76740881 TGTAGC-AAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
* * *
76740945 AGCGATTTTATACTTTTTGCTCAGAAACGTCAAAAAAA-AA-TATTTCTTACTTGACCTAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGACCTAC
76741004 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
*
76741069 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTATTCCGTGACCTAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGACCTAC
* * *
76741130 TGTAGCAAAAGCGCGTCTATGA-GGCTGCGATTTCACAAATTCTTCTCAAATAGCATCTTGCTAG
1 TGTAGCAAAAGCGCGTCCACGAGGGC-GCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
76741194 AAGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAATAATTATTTCTTCCGTGACCTAC
65 AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGACCTAC
* *
76741255 TGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGTTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
*
76741320 AGCGATTTTATACTATTTGATCAGAAACGTCAA
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAA
76741353 CTCGAAATTA
Statistics
Matches: 329, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
123 6 0.02
124 95 0.29
125 119 0.36
126 109 0.33
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (126 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGA
AGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGACCTAC
Found at i:76741329 original size:251 final size:249
Alignment explanation
Indices: 76740881--76741352 Score: 820
Period size: 251 Copynumber: 1.9 Consensus size: 249
76740871 AACATGCTAT
76740881 TGTAGCAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAA
1 TGTAGCAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAA
* *
76740946 GCGATTTTATACTTTTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACTTGACCTACTGTAGCA
66 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACGTGACCTACTGTAGCA
76741011 AAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATT
131 AAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATT
*
76741076 TTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTATTCCGTGACCTAC
196 TTATACTATTTGATCAGAAACGTCAAAAAAATAATTATTTATTCCGTGACCTAC
* * *
76741130 TGTAGCAAAAGCGCGTCTATGA-GGCTGCGATTTCACAAATTCTTCTCAAATAGCATCTTGCTAG
1 TGTAGC-AAAGCGCGTCCACGAGGGC-GCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
* *
76741194 AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCTTCCGTGACCTACTGTA
64 AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAA-AAATATTTCTTACGTGACCTACTGTA
* *
76741259 GCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGTTAGAAGCG
128 GCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCG
76741324 ATTTTATACTATTTGATCAGAAACGTCAA
193 ATTTTATACTATTTGATCAGAAACGTCAA
76741353 CTCGAAATTA
Statistics
Matches: 210, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
249 9 0.04
250 87 0.41
251 114 0.54
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (249 bp):
TGTAGCAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAA
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACGTGACCTACTGTAGCA
AAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATT
TTATACTATTTGATCAGAAACGTCAAAAAAATAATTATTTATTCCGTGACCTAC
Found at i:76749660 original size:25 final size:25
Alignment explanation
Indices: 76749632--76749870 Score: 221
Period size: 25 Copynumber: 9.6 Consensus size: 25
76749622 CTCTACGCAT
*
76749632 TTTCCAGAGAATTCGCCACAAAAGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* * *
76749657 TTTCCAAAGAATTCACCACAAAAGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* *
76749682 TTTCCAAAGAATTCACCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* * * *
76749707 TTTCTAAAGAATTCGCCATAAAGGA
1 TTTCCAGAGAATTCGCCACAAAGGC
* *
76749732 TTTCCAGAGGATTTGCCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
*
76749757 TTTCCAGAGAATTCGTCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
* ** *
76749782 TTTTCAGAGAATTC-TTATAAAGG-
1 TTTCCAGAGAATTCGCCACAAAGGC
* * * *** *
76749805 TTCTTCAAAAAATTTATCACAAAGGT
1 TT-TCCAGAGAATTCGCCACAAAGGC
*
76749831 TTTCCATAGAATTCGCCACAAAGGC
1 TTTCCAGAGAATTCGCCACAAAGGC
*
76749856 TTTCTAGAGAATTCG
1 TTTCCAGAGAATTCG
76749871 TATTTACTAT
Statistics
Matches: 178, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
23 2 0.01
24 16 0.09
25 158 0.89
26 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (25 bp):
TTTCCAGAGAATTCGCCACAAAGGC
Found at i:76752348 original size:41 final size:41
Alignment explanation
Indices: 76752246--76752351 Score: 185
Period size: 41 Copynumber: 2.6 Consensus size: 41
76752236 ACTGGCAATT
* * *
76752246 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
76752287 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
76752328 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
76752352 TTATCTCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:76757356 original size:23 final size:23
Alignment explanation
Indices: 76757328--76757375 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
76757318 GCCAACTCTT
76757328 TAATATTAAATATTCAAATCCAA
1 TAATATTAAATATTCAAATCCAA
76757351 TAATATTAAATATTCAAATCCAA
1 TAATATTAAATATTCAAATCCAA
76757374 TA
1 TA
76757376 GATTTTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (23 bp):
TAATATTAAATATTCAAATCCAA
Found at i:76763060 original size:43 final size:42
Alignment explanation
Indices: 76763007--76763212 Score: 243
Period size: 43 Copynumber: 4.9 Consensus size: 42
76762997 TTTTAGAAAT
* * *
76763007 AAACGCCGCTATAAATCATGACCTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCAC
* * *
76763050 AAACGCCGCTATAGATCAGGACCTTTAGCGGTGCTTTTGCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAC
* ** *
76763092 AAACGCCGCTATAGATCAAGGCCTTTAGCAACGCCTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCG-CTTTTCCAC
* * *
76763135 AAATGCCGCTATAGCTCAAGACCTTTAGCGGCGATTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCG-CTTTTCCAC
* *
76763178 AAACGCCGCTATAGAACAAG-CCTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTT
76763213 ATCATAAAAA
Statistics
Matches: 137, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
41 2 0.01
42 42 0.31
43 93 0.68
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCAC
Found at i:76763158 original size:85 final size:86
Alignment explanation
Indices: 76763007--76763210 Score: 268
Period size: 85 Copynumber: 2.4 Consensus size: 86
76762997 TTTTAGAAAT
* * * * ** *
76763007 AAACGCCGCTATAAATCATGACCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAAGGCCTTTAGCGACGCCTTTCCCACAAACGCCGCTATAGATCAAGAC
* *
76763072 CTTTAGCGGTG-CTTTTGCAC
66 CTTTAGCGGCGACTTTTCCAC
* * *
76763092 AAACGCCGCTATAGATCAAGGCCTTTAGCAACGCCTTTCCCACAAATGCCGCTATAGCTCAAGAC
1 AAACGCCGCTATAGATCAAGGCCTTTAGCGACGCCTTTCCCACAAACGCCGCTATAGATCAAGAC
*
76763157 CTTTAGCGGCGATTTTTCCAC
66 CTTTAGCGGCGACTTTTCCAC
*
76763178 AAACGCCGCTATAGAACAA-GCCTTTAGCGACGC
1 AAACGCCGCTATAGATCAAGGCCTTTAGCGACGC
76763211 TTATCATAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 78 0.76
86 25 0.24
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTATAGATCAAGGCCTTTAGCGACGCCTTTCCCACAAACGCCGCTATAGATCAAGAC
CTTTAGCGGCGACTTTTCCAC
Found at i:76764762 original size:94 final size:95
Alignment explanation
Indices: 76764580--76764768 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 95
76764570 TTATAATAAT
* *
76764580 TGAGAAAAAAGTACGTGCTGCAAGAATGGTATCACCAACTCTAGAACTTCAAAAACAAAAAAGGG
1 TGAGAAAAAAGTACCTACTGCAAGAATGGTATCACCAACTCTAGAACTTCAAAAACAAAAAAGGG
76764645 AAGCGCACAGAGGCAATGAAAGAGGAAGCA
66 AAGCGCACAGAGGCAATGAAAGAGGAAGCA
* ** *
76764675 TGAGAAAAAGGTACCTACTGCAAGAATGGTATTGCCAGCTCTAGAACTTCAAAAAC-AAAAAGGG
1 TGAGAAAAAAGTACCTACTGCAAGAATGGTATCACCAACTCTAGAACTTCAAAAACAAAAAAGGG
**
76764739 AAGCGCGTAGAGGCAATGAAAGAGGAAGCA
66 AAGCGCACAGAGGCAATGAAAGAGGAAGCA
76764769 CTCAGGCTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 36 0.42
95 50 0.58
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.14
Consensus pattern (95 bp):
TGAGAAAAAAGTACCTACTGCAAGAATGGTATCACCAACTCTAGAACTTCAAAAACAAAAAAGGG
AAGCGCACAGAGGCAATGAAAGAGGAAGCA
Found at i:76767221 original size:24 final size:25
Alignment explanation
Indices: 76767194--76767246 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
76767184 AATGACACCG
*
76767194 TTTTGTTATGTTAAAAATT-TTTTA
1 TTTTATTATGTTAAAAATTGTTTTA
* * *
76767218 TTTTATTTTTTTATAAATTGTTTTA
1 TTTTATTATGTTAAAAATTGTTTTA
76767243 TTTT
1 TTTT
76767247 TTGCGGCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.70
Consensus pattern (25 bp):
TTTTATTATGTTAAAAATTGTTTTA
Found at i:76767620 original size:254 final size:243
Alignment explanation
Indices: 76767166--76767737 Score: 797
Period size: 254 Copynumber: 2.3 Consensus size: 243
76767156 AATTATATTC
* * * *
76767166 CTATATCATTTTGAACAAAATGACACCGTTTTGTTATGTTAAAAATTTTTTATTTTATTTTTTTA
1 CTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTA
* * * * *
76767231 TAAATTGTTTTATTTTTTGCGGCGTTTTTATAAAAAATGCCGCTATTGCTTATCTTTTGTGGCGT
66 TAAATTGATTTATTTTTTGCGGCGTTTTTATAAAAAACGCCACTATTGCTTATCTTTGGAGGCGT
* ** *
76767296 TTTCCATAAAAACGCCACAAAAATTTTTTCATTTTGAACAAAATGACGCCGTTTTGCTATTTTGG
131 TTTCAATAAAAACGCCACAAAAAAGTTTTCATTTTGAACAAAATGACACCGTTTTGCTATTTTGG
76767361 TTTTTAATAATTGATTTATTATTTGCGGCGTTTTTATCAAAAGCGCGATAAAGACGCCG
196 TTTTTAATAATTGATTTATTATTTGCGGCG--TTTAT----A--GC-A-AAA-ACGCCG
*
76767420 CTATTTCATTTTGAACAAAATGACGCCGTTTTACTATGCTAAAAATTTTTTATTTTATTTTTTTA
1 CTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTA
76767485 TAAATTGATTTATTTTTTGCGGCGCTTTTTAT-AAAAACGCCACTATTGCTTATCTTTGGAGGCG
66 TAAATTGATTTATTTTTTGCGGCG-TTTTTATAAAAAACGCCACTATTGCTTATCTTTGGAGGCG
* * *
76767549 TTTTTAATAAAAACTCCACAAAAAAGTTTTCATTTTGAACAAAATGACATCGTTTTGCTATTTTG
130 TTTTCAATAAAAACGCCACAAAAAAGTTTTCATTTTGAACAAAATGACACCGTTTTGCTATTTTG
* * * *
76767614 GTTTTTATTAATTGATTTATTTTTTGCGGCGTTTATATCAAAAACGCCT
195 GTTTTTAATAATTGATTTATTATTTGCGGCGTTTATAGCAAAAACGCCG
** * *
76767663 CTATTTCATTTTGAACAAAATGACGATGTTTTGCTATGCTAAAATTTTTTTATTTT-GTTTTTTA
1 CTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTA
76767727 TAAATTGATTT
66 TAAATTGATTT
76767738 TTTATAATAA
Statistics
Matches: 291, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
242 18 0.06
243 57 0.20
244 3 0.01
245 1 0.00
246 1 0.00
248 1 0.00
252 5 0.02
254 198 0.68
255 7 0.02
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (243 bp):
CTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTTA
TAAATTGATTTATTTTTTGCGGCGTTTTTATAAAAAACGCCACTATTGCTTATCTTTGGAGGCGT
TTTCAATAAAAACGCCACAAAAAAGTTTTCATTTTGAACAAAATGACACCGTTTTGCTATTTTGG
TTTTTAATAATTGATTTATTATTTGCGGCGTTTATAGCAAAAACGCCG
Found at i:76767911 original size:19 final size:19
Alignment explanation
Indices: 76767874--76767911 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
76767864 ATCCATATCA
*
76767874 TTTTTATTTTTATTTTTAT
1 TTTTTATTTTTATTCTTAT
76767893 TTTTGTATTTTT-TTCTTAT
1 TTTT-TATTTTTATTCTTAT
76767912 AATTTGGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTATTCTTAT
Found at i:76768381 original size:21 final size:20
Alignment explanation
Indices: 76768351--76768391 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
76768341 CTAACCCCCT
*
76768351 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
76768372 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
76768392 TAATTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:76768383 original size:29 final size:29
Alignment explanation
Indices: 76768298--76768380 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
76768288 CCCTGAATCT
*
76768298 CTAAACCTTAAATCCCTAACTCTTAACCA
1 CTAAACCTTAAATCCCTAACCCTTAACCA
* * *
76768327 CT-AACATCTAAA-CCCTAACCCCCTAACCC
1 CTAAACCT-TAAATCCCTAA-CCCTTAACCA
76768356 CTAAACCTTAAATCCC-AACCCTTAA
1 CTAAACCTTAAATCCCTAACCCTTAA
76768381 ACCATAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
28 16 0.36
29 21 0.48
30 7 0.16
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (29 bp):
CTAAACCTTAAATCCCTAACCCTTAACCA
Found at i:76768704 original size:15 final size:15
Alignment explanation
Indices: 76768680--76768709 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76768670 AACCCCTAAT
76768680 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
76768695 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
76768710 ATTAAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:76769231 original size:119 final size:118
Alignment explanation
Indices: 76768957--76769330 Score: 525
Period size: 119 Copynumber: 3.2 Consensus size: 118
76768947 AATATTTTTA
* * * *
76768957 GCGGCGCTTTCCCAAAAACGCCGTTAAAGCGCTGAGCATTAGCGGCGCTTTCTTAAAAAACTGCT
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAGCCGCT
* ** *
76769022 AAATCCTCGAAAATTCAGAAAACGGCGTTGTTGGGCTTAGG-----TTTTTCT
66 AAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTTTTCT
76769070 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA-GCCGC
*
76769135 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTTTTTT
65 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTTTTCT
* *
76769189 GTGGCGCTTTCCCAAAAACGCCGCGAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA-GCCGC
* *
76769254 TAAATCCCCGAAAGCTCAGAAAACCGTGTCGTTGGGCTTAGG----TTTTTT-T
65 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTTTTCT
* *
76769303 GCGGCGCTTTCTCAGAAACGCCGCTAAA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAA
76769331 TCCCCGAAAG
Statistics
Matches: 237, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
113 57 0.24
114 66 0.28
115 6 0.03
119 108 0.46
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (118 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAGCCGCT
AAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTTTTCT
Found at i:76769350 original size:73 final size:72
Alignment explanation
Indices: 76769230--76769473 Score: 337
Period size: 72 Copynumber: 3.4 Consensus size: 72
76769220 CTGAGCATTA
* *
76769230 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACCGTGTCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACCGAGTCGTTGGGCTTAG
76769295 GTTTTTTT
66 G-TTTTTT
* * * * *
76769303 GCGGCGCTTTCTCAGAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAGCGTCGTTGGGCTTAT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACCGAGTCGTTGGGCTTAG
76769368 GTTTTTT
66 GTTTTTT
* * * * * *
76769375 GTGGCACTTTCTCAGAAACGCCGCTAAATCCCCGAAAGCTCGGGAAA-CGAAGTCGTTAGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACCG-AGTCGTTGGGCTTA
76769439 GGTTTTTT
65 GGTTTTTT
*
76769447 GCAGCGCTTTCTCAAAAACGCCGCTAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAA
76769474 TGCTTATTTT
Statistics
Matches: 151, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
71 1 0.01
72 90 0.60
73 60 0.40
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (72 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACCGAGTCGTTGGGCTTAG
GTTTTTT
Found at i:76771704 original size:23 final size:21
Alignment explanation
Indices: 76771664--76771711 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
76771654 TTTTAAAGTT
76771664 TTGAAAGTTGTCATTGTTGAGAA
1 TTGAAAGTTGTCATTGTT-A-AA
*
76771687 TTGAAAGTT-TTATGTGTTAAA
1 TTGAAAGTTGTCAT-TGTTAAA
76771708 TTGA
1 TTGA
76771712 TAGAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 4 0.17
23 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (21 bp):
TTGAAAGTTGTCATTGTTAAA
Found at i:76774763 original size:11 final size:10
Alignment explanation
Indices: 76774735--76774772 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
76774725 GGTAGATATT
76774735 TTTCTTTCCT-
1 TTTCTTT-CTG
76774745 TTTCTTTCTG
1 TTTCTTTCTG
76774755 TTTCGTTTCTG
1 TTTC-TTTCTG
76774766 TTTCTTT
1 TTTCTTT
76774773 TTGGATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.00, C:0.21, G:0.08, T:0.71
Consensus pattern (10 bp):
TTTCTTTCTG
Found at i:76777117 original size:25 final size:25
Alignment explanation
Indices: 76777089--76777175 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
76777079 CAACTCTCTT
* *
76777089 GAGCTTCTTGATATTTGGCTCGCAA
1 GAGCTTCTCGTTATTTGGCTCGCAA
* * * * *
76777114 GAGCTTCCCGTTACTTAGCTCACAT
1 GAGCTTCTCGTTATTTGGCTCGCAA
* *
76777139 GAGCTTCTCGTTATATGGCTCGAAA
1 GAGCTTCTCGTTATTTGGCTCGCAA
76777164 GAGCTTCTCGTT
1 GAGCTTCTCGTT
76777176 TACATGCTCG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCTCGTTATTTGGCTCGCAA
Found at i:76777192 original size:25 final size:25
Alignment explanation
Indices: 76777104--76777192 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
76777094 TCTTGATATT
* *
76777104 TGGCTCGCAA-GAGCTTCCCGTTACT
1 TGGCTCG-AATGAGCTTCTCGTTACA
* *
76777129 TAGCTC-ACATGAGCTTCTCGTTATA
1 TGGCTCGA-ATGAGCTTCTCGTTACA
*
76777154 TGGCTCGAAAGAGCTTCTCGTTTACA
1 TGGCTCGAATGAGCTTCTCG-TTACA
*
76777180 T-GCTCGTATGAGC
1 TGGCTCGAATGAGC
76777193 ACATATGTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 43 0.84
26 6 0.12
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (25 bp):
TGGCTCGAATGAGCTTCTCGTTACA
Found at i:76777192 original size:50 final size:50
Alignment explanation
Indices: 76777088--76777184 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
76777078 ACAACTCTCT
* * * *
76777088 TGAGCTTCTTGATATTTGGCTCGCAAGAGCTTCCCGTTACTTAGCTCACA
1 TGAGCTTCTCGATATATGGCTCGAAAGAGCTTCCCGTTACATAGCTCACA
* *
76777138 TGAGCTTCTCGTTATATGGCTCGAAAGAGCTTCTCGTTTACAT-GCTC
1 TGAGCTTCTCGATATATGGCTCGAAAGAGCTTCCCG-TTACATAGCTC
76777185 GTATGAGCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 35 0.88
51 5 0.12
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (50 bp):
TGAGCTTCTCGATATATGGCTCGAAAGAGCTTCCCGTTACATAGCTCACA
Found at i:76780549 original size:25 final size:27
Alignment explanation
Indices: 76780512--76780575 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 27
76780502 ATGTGTATGC
* * *
76780512 ATGTATATTTATA-ATAATTAAAA-GT
1 ATGTACATATATATATAATAAAAATGT
*
76780537 ATGTACATATATATATTATAAAAATGT
1 ATGTACATATATATATAATAAAAATGT
76780564 ATG--CATATATAT
1 ATGTACATATATAT
76780576 TTTGAAGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 20 0.61
26 8 0.24
27 5 0.15
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (27 bp):
ATGTACATATATATATAATAAAAATGT
Found at i:76780813 original size:24 final size:27
Alignment explanation
Indices: 76780781--76780852 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 27
76780771 TGAAATATGC
*
76780781 AAAAAAATGTATTTATA-AT-AATT-T
1 AAAAAAATGTATATATATATAAATTAT
76780805 AAAAAAATGTACGTATATATATAAATTAT
1 AAAAAAATGTA--TATATATATAAATTAT
76780834 AAAAAATATGTATATATAT
1 AAAAAA-ATGTATATATAT
76780853 TGCAAAAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
24 11 0.27
26 5 0.12
27 2 0.05
28 11 0.27
29 7 0.17
30 5 0.12
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.38
Consensus pattern (27 bp):
AAAAAAATGTATATATATATAAATTAT
Found at i:76780928 original size:3 final size:3
Alignment explanation
Indices: 76780916--76780988 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
76780906 GATGATGATG
*
76780916 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
76780964 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
76780989 CAGAATGACT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:76781485 original size:24 final size:23
Alignment explanation
Indices: 76781445--76781506 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
76781435 CCCAGCCTGT
*
76781445 TTTTTATTTAAAA-TAAAAATTATA
1 TTTTTA-TTAAAATTAAAAACTA-A
76781469 TTTTTATTAAAATT-AAAACTAA
1 TTTTTATTAAAATTAAAAACTAA
*
76781491 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
76781507 TTGTTATCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 14 0.41
23 13 0.38
24 7 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTTATTAAAATTAAAAACTAA
Found at i:76781500 original size:22 final size:23
Alignment explanation
Indices: 76781452--76781506 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
76781442 TGTTTTTTAT
* * *
76781452 TTAAAATAAAAATTATATTTTTA
1 TTAAAATTAAAACTATATTGTTA
76781475 TTAAAATTAAAACTA-ATTGTTA
1 TTAAAATTAAAACTATATTGTTA
76781497 TTAAAATTAA
1 TTAAAATTAA
76781507 TTGTTATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TTAAAATTAAAACTATATTGTTA
Found at i:76781501 original size:16 final size:16
Alignment explanation
Indices: 76781480--76781518 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
76781470 TTTTATTAAA
76781480 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
*
76781496 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
*
76781512 ATCAAAA
1 ATTAAAA
76781519 TTGTATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:76781672 original size:93 final size:92
Alignment explanation
Indices: 76781565--76781754 Score: 296
Period size: 93 Copynumber: 2.1 Consensus size: 92
76781555 TTTGTAAAAT
* *
76781565 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATAAAATT
1 CTAACATTTTGTTAGTAAAATTATCAATTGTTAATTATATTAATTGTTACTAAAATTATAAAATT
76781630 ATATCAAATTATTAA-T-TATTAATTGTTA
66 AT-T--AATTATTAATTGTATTAATTGTTA
* *
76781658 CTAACATTTTGTTAGTAAAATTATCAATTGTTAATTATATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATCAATTGTTAATTATATTAATTGTTACTAAAATTATAAAATT
76781723 ATTAATTATTAATTGTATTAATTGTTA
66 ATTAATTATTAATTGTATTAATTGTTA
76781750 -TAACA
1 CTAACA
76781755 AAATCTAACA
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
90 9 0.10
91 6 0.07
92 13 0.14
93 63 0.69
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (92 bp):
CTAACATTTTGTTAGTAAAATTATCAATTGTTAATTATATTAATTGTTACTAAAATTATAAAATT
ATTAATTATTAATTGTATTAATTGTTA
Found at i:76781690 original size:19 final size:19
Alignment explanation
Indices: 76781666--76781719 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 19
76781656 TACTAACATT
76781666 TTGTTAGTAAAATTATCAA
1 TTGTTAGTAAAATTATCAA
** *
76781685 TTGTTA--ATTA-TATTAA
1 TTGTTAGTAAAATTATCAA
76781701 TTGTTAGTAAAATTATCAA
1 TTGTTAGTAAAATTATCAA
76781720 ATTATTAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
16 11 0.42
17 2 0.08
18 2 0.08
19 11 0.42
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (19 bp):
TTGTTAGTAAAATTATCAA
Found at i:76781715 original size:16 final size:16
Alignment explanation
Indices: 76781647--76781715 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
76781637 ATTATTAATT
* *
76781647 ATTAATTGTTACTAAC
1 ATTAATTGTTAGTAAA
76781663 ATT--TTGTTAGTAAA
1 ATTAATTGTTAGTAAA
* * *
76781677 ATTATCAATTGTTAATTAT
1 A-T-T-AATTGTTAGTAAA
76781696 ATTAATTGTTAGTAAA
1 ATTAATTGTTAGTAAA
76781712 ATTA
1 ATTA
76781716 TCAAATTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 18 0.45
17 1 0.03
18 1 0.03
19 9 0.22
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (16 bp):
ATTAATTGTTAGTAAA
Found at i:76790339 original size:25 final size:26
Alignment explanation
Indices: 76790311--76790359 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
76790301 ATTAATCTTG
76790311 TATTATTATTGATT-ATTATTATCAC
1 TATTATTATTGATTCATTATTATCAC
* *
76790336 TATTATTATTTATTCATTTTTATC
1 TATTATTATTGATTCATTATTATC
76790360 TTTTTAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (26 bp):
TATTATTATTGATTCATTATTATCAC
Found at i:76801367 original size:4 final size:4
Alignment explanation
Indices: 76801360--76801397 Score: 58
Period size: 4 Copynumber: 9.0 Consensus size: 4
76801350 GTTCCAATCA
76801360 ATTT ATTT ATTT ATTT ATTTT ATCTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT A-TTT AT-TT ATTT ATTT ATTT
76801398 CAAGATACGT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:76801389 original size:18 final size:17
Alignment explanation
Indices: 76801361--76801397 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
76801351 TTCCAATCAA
76801361 TTTATTTATTTATTTAT
1 TTTATTTATTTATTTAT
76801378 TTTATCTTATTTATTTAT
1 TTTAT-TTATTTATTTAT
76801396 TT
1 TT
76801398 CAAGATACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTATTTATTTAT
Found at i:76803647 original size:19 final size:19
Alignment explanation
Indices: 76803623--76803667 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
76803613 AACGTCTCTT
*
76803623 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
76803642 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
76803661 TATGCAT
1 TTTGCAT
76803668 AAAAAGCGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:76806494 original size:9 final size:9
Alignment explanation
Indices: 76806477--76806513 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
76806467 TGAGTTTTTG
76806477 AATTCGAAT
1 AATTCGAAT
*
76806486 AACTCGAAT
1 AATTCGAAT
*
76806495 AATTCGAAC
1 AATTCGAAT
76806504 AATTCGAAT
1 AATTCGAAT
76806513 A
1 A
76806514 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:76807523 original size:21 final size:20
Alignment explanation
Indices: 76807499--76807539 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
76807489 AGTGATGTGA
*
76807499 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAG-TAAAAATG
76807520 AAAAATGAAAAGTAAAAATG
1 AAAAATGAAAAGTAAAAATG
76807540 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAAGTAAAAATG
Found at i:76807524 original size:7 final size:7
Alignment explanation
Indices: 76807499--76807539 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
76807489 AGTGATGTGA
76807499 AAAAATG
1 AAAAATG
76807506 AAAAGATG
1 AAAA-ATG
76807514 -AAAATG
1 AAAAATG
76807520 AAAAATG
1 AAAAATG
*
76807527 AAAAGT-
1 AAAAATG
76807533 AAAAATG
1 AAAAATG
76807540 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 8 0.28
7 18 0.62
8 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:76807529 original size:13 final size:13
Alignment explanation
Indices: 76807500--76807539 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
76807490 GTGATGTGAA
76807500 AAAATGAAAAGATG
1 AAAATGAAAA-ATG
76807514 AAAATGAAAAATG
1 AAAATGAAAAATG
76807527 AAAA-GTAAAAATG
1 AAAATG-AAAAATG
76807540 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 14 0.56
14 10 0.40
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:76808954 original size:89 final size:89
Alignment explanation
Indices: 76808803--76809936 Score: 1199
Period size: 89 Copynumber: 12.8 Consensus size: 89
76808793 AGTAGGCTAG
* * *
76808803 GAAGAAAATAGATCTTATCTTCATGTACTGGCGTGAAGTAGATTAAAGATACCAGATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
*
76808868 CCCATACTGGTGGCGAAGCAGATC
66 CCCATACTGGTGGCGAAGTAGATC
*
76808892 GAAGAAAACAGATCTTGTCTTCATGTACTGACGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
*
76808957 CCCATACTGGTGGCAAAGTAGATC
66 CCCATACTGGTGGCGAAGTAGATC
* *
76808981 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAAATACCAGATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
76809046 CCCATACTGGTGGCGAAGTAGATC
66 CCCATACTGGTGGCGAAGTAGATC
* *
76809070 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAAATACCAGATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
76809135 CCCATACTGGTGGCGAAGTAGATC
66 CCCATACTGGTGGCGAAGTAGATC
* * * *
76809159 GAAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAAATCAAAGATAGCAGATCTTATCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
*
76809224 CCCATATTGGTGGCGAAGTAGATC
66 CCCATACTGGTGGCGAAGTAGATC
* * * * *
76809248 GAAGATAGCAGATCTTGTCTTCATGTA-TAGGCGTGAAGTAGATTAAAGACAACAGATCTTGTCT
1 GAAGAAAACAGATCTTGTCTTCATGTACT-GGCGTGAAGTAGATCAAAGATACCAGATCTTGTCT
* * *
76809312 CCCCATACTGGTGGTGGAGTAGATC
65 TCCCATACTGGTGGCGAAGTAGATC
* * * * * *
76809337 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATAAAAGATAGCAGATATTATCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
* *
76809402 CCAATACTGGTGGTGAAGTAGATC
66 CCCATACTGGTGGCGAAGTAGATC
** * * * **
76809426 GGAA-AAAGTAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCT
1 -GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCT
76809490 TCCCATACTGGTGGCGAAGTAGATC
65 TCCCATACTGGTGGCGAAGTAGATC
* *
76809515 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AGCAGATCATGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
* * * * *
76809579 CCTATATTGGTAGTGAAGTGGATC
66 CCCATACTGGTGGCGAAGTAGATC
* * * *** * * **
76809603 GAA-TATACAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAA-AAAGTAGATCTTGTC
1 GAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAAGATACCAGATCTTGTC
*** * * *
76809666 TTCATGTACTGG-CGTGAGGTAGATC
64 TTCCCATACTGGTGGCGAAGTAGATC
* * * *** * * * * *
76809691 AAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACCAGATCTTGTCT
*** * * *
76809756 TCATGTACTGG-CGTGAGGTAGATC
65 TCCCATACTGGTGGCGAAGTAGATC
* * * *** * * * * *
76809780 AAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACCAGATCTTGTCT
*** * *
76809845 TCATGTACTGG-CGTGAAGTAGATC
65 TCCCATACTGGTGGCGAAGTAGATC
* * * * * * * *
76809869 AAAGATACCAGATCTTGTATTCCCATATCAGTGGC--GAAGTAGATCGAAGATAACAGATCTTGT
1 GAAGAAAACAGATCTTGTCTT--CATGT-ACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGT
76809932 CTTCC
63 CTTCC
76809937 TGTATTGGCA
Statistics
Matches: 938, Mismatches: 95, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
87 21 0.02
88 66 0.07
89 840 0.90
90 4 0.00
91 3 0.00
92 4 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (89 bp):
GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
CCCATACTGGTGGCGAAGTAGATC
Found at i:76809713 original size:399 final size:400
Alignment explanation
Indices: 76809033--76809957 Score: 1200
Period size: 399 Copynumber: 2.3 Consensus size: 400
76809023 TTAAAAATAC
** * * ***
76809033 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCATATACTGG-CGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATAC
* * * ** * * *
76809098 TGG-CGTGAAGTAGAT-TAA-AAATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
65 TGGTGGCGAAGTAGATCGAAGAAA-A-CAGATCTTGTCTTCCTGTACTGG-CGTGAAGTAGATCA
* * *
76809160 AAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAAATCAAAGATAGCAGATCTTATCTTC
127 AAGAAAACAGATCATGTCTTCATATACTGGCATGAAGTAAATCAAAGATAGCAGATCTTATCTCC
* * *
76809225 CCATATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATAGGCGTGAAGTAGA
192 CCATACTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATAGGCGTGAAGTAGA
*
76809290 TTAAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGT
257 TCAAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGT
* * * *
76809355 CTTCATGTATTGGCGTGAAGTAGATAAAAGATAGCAGATATTATCTTCCAATACTGGTGGTGAAG
322 CTTCATGTACTGGCGTGAAGTAGATAAAAGACAACAGATATTATCTCCCAATACTGGTGGTGAAG
76809420 TAGATCGGAA-AAAG
387 TAGATC-GAAGAAAG
* **
76809434 TAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACT
1 CAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATACT
*
76809499 GGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG-
66 GGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCAAAGA
* * * * ** * * *
76809563 AAGCAGATCATGTCTTCCTATATTGGTAGTGAAGTGGATCGAATATA-CAGATCTTGTCTCCCCA
131 AAACAGATCATGTCTTCATATACTGGCA-TGAAGTAAATCAAAGATAGCAGATCTTATCTCCCCA
* * *
76809627 TACTGGTGGTGAAGTAGATCGAAAAAAGTAGATCTTGTCTTCATGTACT-GGCGTGAGGTAGATC
195 TACTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTA-TAGGCGTGAAGTAGATC
76809691 AAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCT
259 AAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCT
* * * * * *
76809756 TCATGTACTGGCGTGAGGTAGATCAAAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTA
324 TCATGTACTGGCGTGAAGTAGATAAAAGACAACAGATATTATCTCCCAATACTGGTGGTGAAGTA
76809821 GATCGAAGAAAG
389 GATCGAAGAAAG
* * * * *
76809833 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTATTCCCATA-T
1 CAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATACT
* * * *
76809897 CAGTGGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAATGAAGTAGAT
66 -GGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTGTACTGGC-GTGAAGTAGAT
76809958 TGAAGATACA
Statistics
Matches: 456, Mismatches: 60, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
398 4 0.01
399 320 0.70
400 76 0.17
401 50 0.11
402 3 0.01
403 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (400 bp):
CAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATACT
GGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTGTACTGGCGTGAAGTAGATCAAAGA
AAACAGATCATGTCTTCATATACTGGCATGAAGTAAATCAAAGATAGCAGATCTTATCTCCCCAT
ACTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATAGGCGTGAAGTAGATCAA
AGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTC
ATGTACTGGCGTGAAGTAGATAAAAGACAACAGATATTATCTCCCAATACTGGTGGTGAAGTAGA
TCGAAGAAAG
Found at i:76810010 original size:488 final size:490
Alignment explanation
Indices: 76808972--76809980 Score: 1315
Period size: 488 Copynumber: 2.1 Consensus size: 490
76808962 ACTGGTGGCA
* *** * * *
76808972 AAGTAGATCGAAGAAA-ACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGAT-TAA-AAATAC
1 AAGTAGATCGAAGAAACA-AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA-A-
* * * * *
76809033 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTAC
63 CAGATCTTGTCTTCACATACTGGTCGCGAAGTAGATCAAAGAAAACAGATCATGTCTTCATATAC
* * *
76809098 TGGCGTGAAGTAGATTAAAAATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
128 TGGAGTGAAGTAGATCAAAAATACCAGATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCGAAG
* * *
76809163 AAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAAATCAAAGATAGCAGATCTTATCTTCCCA
193 AAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAAATCAAAGACAACAGATCTTATCTCCCCA
* * *
76809228 TATTGGTGGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATAGGCGTGAAGTAGATTA
258 TACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATAGGCGTGAAGTAGATCA
76809293 AAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTT
323 AAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * * * *
76809358 CATGTATTGGCGTGAAGTAGATAAAAGATAGCAGATATTATCTTCCAATACTGGTGGTGAAGTAG
388 CATGTACTGGCGTGAAGTAGATAAAAGATACCAGATATTATATTCCAATACTAGTGGCGAAGTAG
* *
76809423 ATCGGAAAAAGTAGATCTTGTCTTCATATACTGGCGTG
453 ATCGGAAAAAGCAGATCTTGTCTTCATATACTGGCATG
** *
76809461 AAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAG
1 AAGTAGATCGAAGAAACAAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAG
** * * * *
76809526 ATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG-AAGCAGATCATGTCTTCCTATATTGG
66 ATCTTGTCTTCACATACTGGTCGCGAAGTAGATCAAAGAAAACAGATCATGTCTTCATATACTGG
* * * *
76809589 TAGTGAAGTGGATCGAATATA-CAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAA-AA
131 -AGTGAAGTAGATCAAAAATACCAGATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCGAAGAA
* * * * *
76809652 AAGTAGATCTTGTCTTCATGTACTGGCGTGAGGTAGATCAAAGACAACAGATCTTGTCTCCCCAT
195 AA-CAGATCTTGTCTTCATGTACTGGCATGAAGTAAATCAAAGACAACAGATCTTATCTCCCCAT
* * *
76809717 ACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT-GGCGTGAGGTAGATCA
259 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTA-TAGGCGTGAAGTAGATCA
76809781 AAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTT
323 AAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTT
* * * *
76809846 CATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTATTCCCATA-TCAGTGGCGAAGTA
388 CATGTACTGGCGTGAAGTAGATAAAAGATACCAGATATTATATTCCAATACT-AGTGGCGAAGTA
* * *
76809910 GATC-GAAGATAA-CAGATCTTGTCTTCCTGTATTGGCAATG
452 GATCGGAA-A-AAGCAGATCTTGTCTTCATATACTGGC-ATG
* *
76809950 AAGTAGATTGAAGATACAAG-TCTTATCTTCC
1 AAGTAGATCGAAGAAACAAGATCTTATCTTCC
76809981 TGAAGTTGCA
Statistics
Matches: 451, Mismatches: 58, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
487 8 0.02
488 322 0.71
489 85 0.19
490 30 0.07
491 3 0.01
492 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (490 bp):
AAGTAGATCGAAGAAACAAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAG
ATCTTGTCTTCACATACTGGTCGCGAAGTAGATCAAAGAAAACAGATCATGTCTTCATATACTGG
AGTGAAGTAGATCAAAAATACCAGATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCGAAGAAA
ACAGATCTTGTCTTCATGTACTGGCATGAAGTAAATCAAAGACAACAGATCTTATCTCCCCATAC
TGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATAGGCGTGAAGTAGATCAAAG
ACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCAT
GTACTGGCGTGAAGTAGATAAAAGATACCAGATATTATATTCCAATACTAGTGGCGAAGTAGATC
GGAAAAAGCAGATCTTGTCTTCATATACTGGCATG
Found at i:76815575 original size:16 final size:16
Alignment explanation
Indices: 76815554--76815584 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
76815544 GTTCCATCTT
76815554 TTTATTATTATTTTTC
1 TTTATTATTATTTTTC
76815570 TTTATTATTATTTTT
1 TTTATTATTATTTTT
76815585 TATTTCTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTATTATTTTTC
Found at i:76817678 original size:11 final size:11
Alignment explanation
Indices: 76817662--76817707 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
76817652 ATTTTGAAAG
76817662 TAAAATTTTAA
1 TAAAATTTTAA
76817673 TAAAATATTTAA
1 TAAAAT-TTTAA
* *
76817685 TTATAATTTAAA
1 -TAAAATTTTAA
76817697 TAAAATTTTAA
1 TAAAATTTTAA
76817708 CTTTGTTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 15 0.52
12 9 0.31
13 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAAAATTTTAA
Found at i:76817845 original size:18 final size:19
Alignment explanation
Indices: 76817809--76817848 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
76817799 TTAAATGCTA
*
76817809 AAATTTTATATATTGTTTT
1 AAATTTTATATATTATTTT
76817828 AAATTTTA-ATATTATTTT
1 AAATTTTATATATTATTTT
76817846 AAA
1 AAA
76817849 GTTCAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATTTTATATATTATTTT
Found at i:76818349 original size:25 final size:25
Alignment explanation
Indices: 76818315--76818367 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
76818305 ATTGCTTCAA
* *
76818315 TTTAAAATTATTTATATTTAATTAT
1 TTTAAAATTATTAAAATTTAATTAT
*
76818340 TTTAAAATTATTAAAATTTAATTTT
1 TTTAAAATTATTAAAATTTAATTAT
76818365 TTT
1 TTT
76818368 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTAAAATTATTAAAATTTAATTAT
Found at i:76819108 original size:40 final size:40
Alignment explanation
Indices: 76819064--76819141 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
76819054 CTTAAAATTT
* *
76819064 TTAAAAATAGAAATA-TATATATTAAAAAA-TAACAAAAATA
1 TTAAAAATAGAAA-AGCATAAATTAAAAAATTAA-AAAAATA
76819104 TTAAAAATAGAAAAGCATAAATTAAAAAATTAAAAAAA
1 TTAAAAATAGAAAAGCATAAATTAAAAAATTAAAAAAA
76819142 GAATATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 1 0.03
40 30 0.88
41 3 0.09
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (40 bp):
TTAAAAATAGAAAAGCATAAATTAAAAAATTAAAAAAATA
Found at i:76820377 original size:17 final size:17
Alignment explanation
Indices: 76820355--76820403 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
76820345 AAGAAACGAT
76820355 AATTTTTACTATTTTAA
1 AATTTTTACTATTTTAA
* * *
76820372 AATTTTTAATAATTTAC
1 AATTTTTACTATTTTAA
*
76820389 AATTTCTACTATTTT
1 AATTTTTACTATTTT
76820404 TTATTTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTTTACTATTTTAA
Found at i:76823303 original size:17 final size:17
Alignment explanation
Indices: 76823283--76823324 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
76823273 AAAAATTCAA
*
76823283 AAAAATAAA-AAATATTT
1 AAAAATAAATAAAT-TTG
76823300 AAAAATAAATAAATTTG
1 AAAAATAAATAAATTTG
76823317 AAAAATAA
1 AAAAATAA
76823325 TCATACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
AAAAATAAATAAATTTG
Found at i:76824447 original size:18 final size:18
Alignment explanation
Indices: 76824424--76824483 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
76824414 TCTGAACTTG
76824424 TAAAATAAATTATATTTT
1 TAAAATAAATTATATTTT
*
76824442 TAAAATTAATTTATATTTCT
1 TAAAA-TAAATTATATTT-T
*
76824462 TAAAA-AAATTTTAATTTT
1 TAAAATAAATTAT-ATTTT
76824480 TAAA
1 TAAA
76824484 TTTATATTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 15 0.42
19 15 0.42
20 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAATAAATTATATTTT
Found at i:76824457 original size:19 final size:18
Alignment explanation
Indices: 76824424--76824483 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
76824414 TCTGAACTTG
*
76824424 TAAAATAAATTATATTTT
1 TAAAATAATTTATATTTT
76824442 TAAAATTAATTTATATTTCT
1 TAAAA-TAATTTATATTT-T
*
76824462 TAAAAAAATTT-TAATTTT
1 TAAAATAATTTAT-ATTTT
76824480 TAAA
1 TAAA
76824484 TTTATATTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 11 0.30
19 20 0.54
20 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAATAATTTATATTTT
Found at i:76831854 original size:23 final size:25
Alignment explanation
Indices: 76831814--76831860 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
76831804 AAAAGTTAAA
*
76831814 AATCAAATTTAACTAAAAA-ATAAG
1 AATCAAATTTAACAAAAAATATAAG
76831838 AATCAAA-TTAACAAAAAATATAA
1 AATCAAATTTAACAAAAAATATAA
76831861 ACATTAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (25 bp):
AATCAAATTTAACAAAAAATATAAG
Found at i:76836225 original size:12 final size:13
Alignment explanation
Indices: 76836203--76836231 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
76836193 AAAAAAATAT
76836203 TTTTTTATTATTA
1 TTTTTTATTATTA
76836216 TTTTTT-TTATTA
1 TTTTTTATTATTA
76836228 TTTT
1 TTTT
76836232 CTCCCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTATTA
Found at i:76836347 original size:30 final size:30
Alignment explanation
Indices: 76836313--76836375 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
76836303 ACTTATTTTA
76836313 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
76836343 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
76836373 TTG
1 TTG
76836376 CTTGTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:76842159 original size:15 final size:15
Alignment explanation
Indices: 76842139--76842168 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76842129 ACTTAGACCC
*
76842139 ATTAAACCCCAAATT
1 ATTAAACCCAAAATT
76842154 ATTAAACCCAAAATT
1 ATTAAACCCAAAATT
76842169 CAAGCCCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTAAACCCAAAATT
Found at i:76843413 original size:42 final size:41
Alignment explanation
Indices: 76843328--76843414 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
76843318 ATAGCACCTA
*
76843328 TTTTAATATATGTATATACAAATTATTTAGTTTAAATGGTTT
1 TTTTAATATATGTATATA-AAATTATTTAGTTGAAATGGTTT
* * **
76843370 TTTTTATATATGTATAT-ATATTATTTAGTTGAAATTATTT
1 TTTTAATATATGTATATAAAATTATTTAGTTGAAATGGTTT
76843410 TTTTA
1 TTTTA
76843415 TATGTTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 23 0.59
42 16 0.41
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.57
Consensus pattern (41 bp):
TTTTAATATATGTATATAAAATTATTTAGTTGAAATGGTTT
Found at i:76843569 original size:25 final size:25
Alignment explanation
Indices: 76843519--76843569 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
76843509 TACTTTGCTA
76843519 ATGATTTATTTTAAGTTATTTATAT
1 ATGATTTATTTTAAGTTATTTATAT
* *
76843544 ATGATTCTATTTTTAGTTGTTT-TAT
1 ATGATT-TATTTTAAGTTATTTATAT
76843569 A
1 A
76843570 CATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (25 bp):
ATGATTTATTTTAAGTTATTTATAT
Found at i:76844783 original size:16 final size:16
Alignment explanation
Indices: 76844762--76844800 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
76844752 AATTATGGAA
76844762 ATATATAAAAACATGT
1 ATATATAAAAACATGT
**
76844778 ATATATAAAAGTATGT
1 ATATATAAAAACATGT
76844794 ATATATA
1 ATATATA
76844801 TGTATACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:76847869 original size:22 final size:22
Alignment explanation
Indices: 76847842--76847910 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
76847832 TTTCCGATTA
*
76847842 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
76847864 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* * *
76847886 ATATCACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
76847908 TTA
1 TTA
76847911 ATAGTGCATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:76856827 original size:41 final size:41
Alignment explanation
Indices: 76856771--76856937 Score: 244
Period size: 41 Copynumber: 4.0 Consensus size: 41
76856761 TTAATATAAA
* * * *
76856771 CAGATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
76856813 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
76856854 CAGTTCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
76856895 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
76856936 CA
1 CA
76856938 NNNNNNNNNN
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 107 0.96
42 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:76859635 original size:22 final size:22
Alignment explanation
Indices: 76859599--76859645 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
76859589 AATATGGAAC
76859599 GTAATATTAAAAGATATGATTCT
1 GTAATATTAAAAGATATGATT-T
* *
76859622 GTAATATT-AGAGATTTGATTT
1 GTAATATTAAAAGATATGATTT
76859643 GTA
1 GTA
76859646 GATAACTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 10 0.45
23 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
GTAATATTAAAAGATATGATTT
Found at i:76860325 original size:24 final size:24
Alignment explanation
Indices: 76860298--76860344 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
76860288 ATTCTTTTTA
*
76860298 TTTTATTTCTTTACCCTCTCTTCT
1 TTTTATCTCTTTACCCTCTCTTCT
* * *
76860322 TTTTCTCTCTTTTCCCTTTCTTC
1 TTTTATCTCTTTACCCTCTCTTC
76860345 CATGGCTGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTATCTCTTTACCCTCTCTTCT
Found at i:76861927 original size:14 final size:15
Alignment explanation
Indices: 76861908--76861940 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
76861898 GCCCGGGCCC
*
76861908 AAAACC-AAATAAAT
1 AAAACCAAAACAAAT
76861922 AAAACCAAAACAAAT
1 AAAACCAAAACAAAT
76861937 AAAA
1 AAAA
76861941 GAGTTCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAACCAAAACAAAT
Found at i:76863236 original size:22 final size:22
Alignment explanation
Indices: 76863148--76863237 Score: 65
Period size: 22 Copynumber: 4.0 Consensus size: 22
76863138 TATTCATTTT
***
76863148 ATATTATTTATTTTAAACCGCA
1 ATATTATTTATTTTAAATTTCA
* * *
76863170 TTATTATTTA-TTTAAGTTACA
1 ATATTATTTATTTTAAATTTCA
* *
76863191 TATATTATTTGTTTTAAACCATTTTA
1 -ATATTATTTATTTT-AA--ATTTCA
76863217 ATATTATTTATTTTAAATTTC
1 ATATTATTTATTTTAAATTTC
76863238 CCCAATACAC
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
21 7 0.14
22 21 0.41
23 3 0.06
24 4 0.08
25 13 0.25
26 3 0.06
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (22 bp):
ATATTATTTATTTTAAATTTCA
Found at i:76863335 original size:17 final size:17
Alignment explanation
Indices: 76863315--76863353 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
76863305 TTGTTCCATT
**
76863315 TTATTATTTGTTTTAAA
1 TTATTATTTAATTTAAA
76863332 TTATTATTTAATTTAAA
1 TTATTATTTAATTTAAA
76863349 TTATT
1 TTATT
76863354 GTATAAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATTATTTAATTTAAA
Found at i:76864718 original size:46 final size:45
Alignment explanation
Indices: 76864569--76864729 Score: 265
Period size: 45 Copynumber: 3.6 Consensus size: 45
76864559 TACGTATGAT
*
76864569 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC-TAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTTA-GCTAC
*
76864612 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTTAGCTAC
76864657 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCTTAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-CTTAGCTAC
76864703 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
76864730 AATACTCAAA
Statistics
Matches: 111, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
43 10 0.09
44 5 0.05
45 60 0.54
46 36 0.32
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTTAGCTAC
Found at i:76876393 original size:44 final size:44
Alignment explanation
Indices: 76876331--76876642 Score: 221
Period size: 44 Copynumber: 6.8 Consensus size: 44
76876321 TATGGTGGAC
* *
76876331 CTTATCTTCCTGAAGTTGCAGTGGTGCAGATTGAAGCCACCAGC
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGT
* * ** * *
76876375 CTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGT
* ** * * *
76876420 CTTGTC-TCACTGAAGATTGCAGTGGAATAGATTAAATCTACAAATTATGGCAGAT
1 CTTATCTTC-CTGAAG-TTGCAGTGGAGCAGATTGAAGC--C-----A--CCAG-T
* * *
76876475 CTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCAACAGC
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGT
* * ** * *
76876519 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGT
** * *
76876563 CTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGCCACAAGT
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGT
* * * *
76876607 CTTATATCCCTGAAGTTGCAGTGGAGTAGACTGAAG
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG
76876643 GTAGCAAATT
Statistics
Matches: 207, Mismatches: 48, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
44 140 0.68
45 16 0.08
46 15 0.07
47 1 0.00
52 1 0.00
53 1 0.00
54 20 0.10
55 12 0.06
56 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGT
Found at i:76876554 original size:144 final size:144
Alignment explanation
Indices: 76876175--76876586 Score: 576
Period size: 144 Copynumber: 2.9 Consensus size: 144
76876165 GATTGAAGTC
* * *
76876175 ATTATCGCGGATCTTATCTTTCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAACCTTATCTAC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTAC
* * * * *
76876240 CTGAAGTTACAGCGGAGCAGACTGAAGACAGTGAATCTTGTTTCCCCGAAGATTGCAGTGGAACA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTGTCTCCCTGAAGATTGCAGTGGAACA
76876305 AATTAAAGCTACAA
131 AATTAAAGCTACAA
* * * * *
76876319 ATTATGGTGGACCTTATCTTCCTGAAGTTGCAGTGGTGCAGATTGAAGCCACCAGCCTTATCTTC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTAC
* *
76876384 CTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTGTCTCACTGAAGATTGCAGTGGAATA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTGTCTCCCTGAAGATTGCAGTGGAACA
* *
76876449 GATTAAATCTACAA
131 AATTAAAGCTACAA
* * *
76876463 ATTATGGCAGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCAACAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTAC
* ** * * *
76876528 CTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAATCTTATCCCCCTGAAG-TTGCAGTGG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTGTCTCCCTGAAGATTGCAGTGG
76876587 GGCAGATTGA
Statistics
Matches: 237, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
142 9 0.04
143 16 0.07
144 212 0.89
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (144 bp):
ATTATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTAC
CTGAAGTTGCAGCGGAGCAGACTGAAGATAGCGAATCTTGTCTCCCTGAAGATTGCAGTGGAACA
AATTAAAGCTACAA
Found at i:76876642 original size:88 final size:89
Alignment explanation
Indices: 76876484--76876651 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 89
76876474 TCTTATCTTT
* *
76876484 CTGAAGTTGCAGTGGAGCAGATTGAAGCCAACAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGG
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCCAACAGCCTTATATCCCTGAAGTTGCAGTGGAGCAGA
*
76876549 TTGAAGATA-CAAATCTTATCCCC
66 CTGAAGATAGCAAATCTTATCCCC
* * *
76876572 CTGAAGTTGCAGTGGGGCAGATTGAAGCC-ACAAGTCTTATATCCCTGAAGTTGCAGTGGAGTAG
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCCAAC-AGCCTTATATCCCTGAAGTTGCAGTGGAGCAG
*
76876636 ACTGAAGGTAGCAAAT
65 ACTGAAGATAGCAAAT
76876652 TTCATTTCCA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
87 2 0.03
88 64 0.90
89 5 0.07
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (89 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAGCCAACAGCCTTATATCCCTGAAGTTGCAGTGGAGCAGA
CTGAAGATAGCAAATCTTATCCCC
Found at i:76878336 original size:22 final size:22
Alignment explanation
Indices: 76878248--76878336 Score: 63
Period size: 22 Copynumber: 3.9 Consensus size: 22
76878238 TATTCATTTT
***
76878248 ATATTATTTATTTTAAACCGCA
1 ATATTATTTATTTTAAATTTCA
* * *
76878270 TTATTATTTA-TTTAAGTTACA
1 ATATTATTTATTTTAAATTTCA
* *
76878291 TATATTATTTGTTTTAAACCATTTTA
1 -ATATTATTTATTTT-AA--ATTTCA
76878317 ATATTATTTATTTTAAATTT
1 ATATTATTTATTTTAAATTT
76878337 GTCCAATGTA
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
21 7 0.14
22 21 0.41
23 3 0.06
24 4 0.08
25 13 0.25
26 3 0.06
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (22 bp):
ATATTATTTATTTTAAATTTCA
Found at i:76878433 original size:17 final size:17
Alignment explanation
Indices: 76878411--76878447 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
76878401 TTTTTCCATT
**
76878411 TTATTATTTGTTTTAAA
1 TTATTATTTAATTTAAA
76878428 TTATTATTTAATTTAAA
1 TTATTATTTAATTTAAA
76878445 TTA
1 TTA
76878448 CTGTATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATTATTTAATTTAAA
Found at i:76878590 original size:26 final size:27
Alignment explanation
Indices: 76878535--76878588 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
76878525 ATGTTGTGTA
*
76878535 TTATTTTAAACTTCTTTTTCTATTTAT
1 TTATTTTAAACTTCTTTATCTATTTAT
*
76878562 TTATTTTGAACTT-TTTATCTA-TTAT
1 TTATTTTAAACTTCTTTATCTATTTAT
76878587 TT
1 TT
76878589 TAAATAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 7 0.28
27 12 0.48
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (27 bp):
TTATTTTAAACTTCTTTATCTATTTAT
Found at i:76880051 original size:28 final size:28
Alignment explanation
Indices: 76879985--76880044 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
76879975 AGATAAGGTC
76879985 ATATACGAATAGCAGGAAGATTTAAAAT
1 ATATACGAATAGCAGGAAGATTTAAAAT
*
76880013 ATATACGAATAGTAGGAAGATTTAAAAT
1 ATATACGAATAGCAGGAAGATTTAAAAT
76880041 ATAT
1 ATAT
76880045 TTTAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (28 bp):
ATATACGAATAGCAGGAAGATTTAAAAT
Found at i:76885944 original size:4 final size:4
Alignment explanation
Indices: 76885935--76885960 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
76885925 TTCTTATTCG
76885935 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
76885961 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:76887016 original size:3 final size:3
Alignment explanation
Indices: 76886956--76887002 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
76886946 TTTCATATCC
76886956 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
76887003 GACTATTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:76894219 original size:48 final size:48
Alignment explanation
Indices: 76894105--76894262 Score: 131
Period size: 48 Copynumber: 3.2 Consensus size: 48
76894095 TTATTTTAAA
* * * * * *
76894105 TAAATTAAAACTCTAGTTATCCTAATTTAATTTAAACTCTTAATTATC-
1 TAAA-TAAAATTCTAATTATCTTAATTTGATTTAAATTATTAATTATCT
*
76894153 TAAATTAGAATTCTAATTATCTTAATTTGATTTAAATTATTAATTATCT
1 TAAA-TAAAATTCTAATTATCTTAATTTGATTTAAATTATTAATTATCT
* * * *
76894202 TAACTAAAATT-TGAATTATTATCTAACCTATGAGTTTAAATTGTTAATTATCT
1 TAAATAAAATTCT-AATTA-TCT-TAA--TTTGA-TTTAAATTATTAATTATCT
76894255 TAAATAAA
1 TAAATAAA
76894263 TTAGAACTCT
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 52 0.58
49 5 0.06
50 3 0.03
52 4 0.04
53 25 0.28
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (48 bp):
TAAATAAAATTCTAATTATCTTAATTTGATTTAAATTATTAATTATCT
Found at i:76901195 original size:13 final size:13
Alignment explanation
Indices: 76901177--76901219 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
76901167 TTTTATTTTG
*
76901177 ATTTAAAATTAGA
1 ATTTAAAATTAAA
*
76901190 ATTTAAAAATAAA
1 ATTTAAAATTAAA
* *
76901203 ATTCAAAATTACA
1 ATTTAAAATTAAA
76901216 ATTT
1 ATTT
76901220 TGCATTGAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
ATTTAAAATTAAA
Found at i:76901353 original size:15 final size:15
Alignment explanation
Indices: 76901329--76901370 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
76901319 TGATAAATTG
*
76901329 GAAAAA-TAAATTTT
1 GAAAAATTAAATATT
76901343 GAAAAATTAAATATT
1 GAAAAATTAAATATT
*
76901358 GAAAATTTAAATA
1 GAAAAATTAAATA
76901371 ATAAAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
GAAAAATTAAATATT
Found at i:76906229 original size:72 final size:72
Alignment explanation
Indices: 76906108--76906278 Score: 249
Period size: 72 Copynumber: 2.4 Consensus size: 72
76906098 AAATTCATAT
* ** * *
76906108 ATAAACAAATATTGATAAAACTA-ATTTAGTATAAATAAGTAGAATATAAATTCAATATCCAAAG
1 ATAAACAACTATTGATAAAACTAGATTTAACATAAATAAGTAGAACATAAATTCAATATCCAAAA
76906172 ACCAAAC
66 ACCAAAC
*
76906179 ATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTA-ACATAAATAAGTAGAACATAAATTCAATATCCAAA
76906243 AACCAAAC
65 AACCAAAC
*
76906251 ATAAATAACTATTGATAAAACTAG-TTTA
1 ATAAACAACTATTGATAAAACTAGATTTA
76906279 GCATTGTTGT
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 24 0.27
72 65 0.73
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTTAACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:76906724 original size:18 final size:18
Alignment explanation
Indices: 76906703--76906750 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
76906693 TCCATCAATT
*
76906703 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
76906721 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
76906739 TGAACATCATTT
1 TGAACATCATTT
76906751 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:76909839 original size:11 final size:11
Alignment explanation
Indices: 76909823--76909851 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
76909813 TATAGAAGAA
76909823 TGTAAAATTTC
1 TGTAAAATTTC
76909834 TGTAAAATTTC
1 TGTAAAATTTC
76909845 TGTAAAA
1 TGTAAAA
76909852 ATCAAGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (11 bp):
TGTAAAATTTC
Found at i:76910886 original size:33 final size:33
Alignment explanation
Indices: 76910849--76910921 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
76910839 ATTATATTTA
* *
76910849 TTTTAGTATTATTTAAATATAAATA-TTAAATAT
1 TTTTAGT-TTATTAAAAAATAAATATTTAAATAT
* ** *
76910882 TTTTAATTTATTAAAAAATATTTATTTTAATAT
1 TTTTAGTTTATTAAAAAATAAATATTTAAATAT
76910915 TTTTAGT
1 TTTTAGT
76910922 GATTTTAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (33 bp):
TTTTAGTTTATTAAAAAATAAATATTTAAATAT
Found at i:76914186 original size:23 final size:24
Alignment explanation
Indices: 76914129--76914196 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
76914119 TTTTAATAGG
* *
76914129 ATTATTATTAAATATTTTATATTAT
1 ATTA-TATTAAATATTTTATACTAA
* *
76914154 TTTA-ATTTAATATTTTATACTAA
1 ATTATATTAAATATTTTATACTAA
76914177 ATTATATTAAAGTATTTTAT
1 ATTATATTAAA-TATTTTAT
76914197 TTTATATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 19 0.54
24 5 0.14
25 11 0.31
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (24 bp):
ATTATATTAAATATTTTATACTAA
Found at i:76914250 original size:25 final size:23
Alignment explanation
Indices: 76914222--76914285 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
76914212 ATTTGGAAAT
76914222 AATATTTTAAATTGAATTATATTAA
1 AATATTTTAAATT--ATTATATTAA
* *
76914247 AATATTTTTAATTTTTATATTAA
1 AATATTTTAAATTATTATATTAA
* * *
76914270 ATTATATTAAAATATT
1 AATATTTTAAATTATT
76914286 TAACATATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 20 0.62
25 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATTTTAAATTATTATATTAA
Found at i:76914273 original size:33 final size:34
Alignment explanation
Indices: 76914221--76914286 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
76914211 AATTTGGAAA
*
76914221 TAATATTTTAAATTGAATTATATTAAAATATTTT
1 TAATATTTTAAATTAAATTATATTAAAATATTTT
*
76914255 TAAT-TTTTATATTAAATTATATTAAAATATTT
1 TAATATTTTAAATTAAATTATATTAAAATATTT
76914287 AACATATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (34 bp):
TAATATTTTAAATTAAATTATATTAAAATATTTT
Found at i:76917673 original size:42 final size:42
Alignment explanation
Indices: 76917624--76917782 Score: 178
Period size: 42 Copynumber: 3.8 Consensus size: 42
76917614 TTTCGTGTTT
*
76917624 AGTTTTTGTTTAGCTCTTATGAGCTTCTGTTCAA-CTTATATG
1 AGTTTTTGTTTAGCTCTTATGAGCTTCTGTTCAACCCT-TATG
* * *
76917666 AGTTTTTGATTAGCTCTT-TCGAGCTTCTGTTTAACCCTTCTG
1 AGTTTTTGTTTAGCTCTTAT-GAGCTTCTGTTCAACCCTTATG
* * *
76917708 GGTTTTTATTCAGCTCTTATGAGCTTCTGTTCAACCCTTATG
1 AGTTTTTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATG
* * * * *
76917750 GGTTTCTGTTTAGCACTTATGTGCTTTTGTTCA
1 AGTTTTTGTTTAGCTCTTATGAGCTTCTGTTCA
76917783 GCCTTCGAGC
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 94 0.96
43 3 0.03
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (42 bp):
AGTTTTTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATG
Found at i:76917747 original size:21 final size:21
Alignment explanation
Indices: 76917639--76917782 Score: 60
Period size: 21 Copynumber: 6.9 Consensus size: 21
76917629 TTGTTTAGCT
76917639 CTTATGAGCTTCTGTTCAA-C
1 CTTATGAGCTTCTGTTCAACC
* * * * *
76917659 TTATATGAGTTTTTGATT-AGCT
1 CT-TATGAGCTTCTG-TTCAACC
*
76917681 CTT-TCGAGCTTCTGTTTAACC
1 CTTAT-GAGCTTCTGTTCAACC
* * * * * * *
76917702 CTTCTGGGTTTTTATTCAGCT
1 CTTATGAGCTTCTGTTCAACC
76917723 CTTATGAGCTTCTGTTCAACC
1 CTTATGAGCTTCTGTTCAACC
* * * * *
76917744 CTTATGGGTTTCTGTTTAGCA
1 CTTATGAGCTTCTGTTCAACC
* *
76917765 CTTATGTGCTTTTGTTCA
1 CTTATGAGCTTCTGTTCA
76917783 GCCTTCGAGC
Statistics
Matches: 85, Mismatches: 33, Indels: 11
0.66 0.26 0.09
Matches are distributed among these distances:
20 4 0.05
21 77 0.91
22 4 0.05
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.47
Consensus pattern (21 bp):
CTTATGAGCTTCTGTTCAACC
Found at i:76933235 original size:7 final size:8
Alignment explanation
Indices: 76933201--76933233 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
76933191 TCGTTTCTCC
76933201 AAATTTT-
1 AAATTTTA
*
76933208 AAGTTTTA
1 AAATTTTA
76933216 AAATTTTA
1 AAATTTTA
76933224 AAATTTTA
1 AAATTTTA
76933232 AA
1 AA
76933234 TTATTTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (8 bp):
AAATTTTA
Found at i:76933264 original size:25 final size:24
Alignment explanation
Indices: 76933219--76933265 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
76933209 AGTTTTAAAA
*
76933219 TTTTAAAATTTTAAATTATTTTCC
1 TTTTAAAATTTTAAATAATTTTCC
76933243 TTTTCAAAATTTTAACA-AATTTT
1 TTTT-AAAATTTTAA-ATAATTTT
76933266 TATCTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 15 0.75
26 1 0.05
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTAAAATTTTAAATAATTTTCC
Found at i:76933954 original size:7 final size:7
Alignment explanation
Indices: 76933942--76933966 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
76933932 AGTATTTTGG
76933942 TTGAAGC
1 TTGAAGC
76933949 TTGAAGC
1 TTGAAGC
76933956 TTGAAGC
1 TTGAAGC
76933963 TTGA
1 TTGA
76933967 TTTCTGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (7 bp):
TTGAAGC
Found at i:76939183 original size:23 final size:23
Alignment explanation
Indices: 76939082--76939189 Score: 101
Period size: 23 Copynumber: 4.7 Consensus size: 23
76939072 TCTTTTTACG
*
76939082 GAGAATCTTCATTGTTTATTGCA
1 GAGAATCTTCATTGTTCATTGCA
* * ** * *
76939105 GCGAATCTTTACCGATCATTGTA
1 GAGAATCTTCATTGTTCATTGCA
* *
76939128 GAGAATCTCCACTGTTC-TTGCA
1 GAGAATCTTCATTGTTCATTGCA
* *
76939150 AAAAATCTTCATTGTTCATTGCA
1 GAGAATCTTCATTGTTCATTGCA
*
76939173 GAGAATATTCATTGTTC
1 GAGAATCTTCATTGTTC
76939190 GTCTTTGTTT
Statistics
Matches: 64, Mismatches: 20, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
22 17 0.27
23 47 0.73
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (23 bp):
GAGAATCTTCATTGTTCATTGCA
Found at i:76940536 original size:20 final size:20
Alignment explanation
Indices: 76940482--76940543 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
76940472 AAAGCACTAT
*
76940482 AGTGCAAACAGGGACACCAA
1 AGTGCAAACAGGGGCACCAA
* * *
76940502 AGTGTAAA-TGGGGCACCGA
1 AGTGCAAACAGGGGCACCAA
76940521 AGTGCAAACAGGGGCACCAA
1 AGTGCAAACAGGGGCACCAA
76940541 AGT
1 AGT
76940544 ACAATCCAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.39, C:0.21, G:0.31, T:0.10
Consensus pattern (20 bp):
AGTGCAAACAGGGGCACCAA
Found at i:76940723 original size:30 final size:30
Alignment explanation
Indices: 76940683--76940858 Score: 187
Period size: 30 Copynumber: 5.9 Consensus size: 30
76940673 TGTGTTTAAA
*
76940683 AAAATTTACATTTTTACCCCTAAACTTT-TC
1 AAAA-TTACATTTTGACCCCTAAACTTTCTC
* * *
76940713 TAAAATTACATTTTGACCTCTAAAATTTTTC
1 -AAAATTACATTTTGACCCCTAAACTTTCTC
** *
76940744 AAAATTACATTTCAACCCCTAAACATTCT-
1 AAAATTACATTTTGACCCCTAAACTTTCTC
** *
76940773 GTAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTC
* *
76940803 GAAATTGCATTTTGA-CCCTAAACTTTCTC
1 AAAATTACATTTTGACCCCTAAACTTTCTC
* *
76940832 AAAATTACATTTTGGCCCCAAAACTTT
1 AAAATTACATTTTGACCCCTAAACTTT
76940859 TGCTGTGTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
29 51 0.42
30 65 0.53
31 6 0.05
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTCTC
Found at i:76940808 original size:59 final size:59
Alignment explanation
Indices: 76940683--76940858 Score: 192
Period size: 59 Copynumber: 2.9 Consensus size: 59
76940673 TGTGTTTAAA
* * * *
76940683 AAAATTTACATTTTTACCCCTAAACTTTTCTAAAATTACATTTTGACCTCTAAAATTTTTC
1 AAAA-TTACATTTTAACCCCTAAAC-TTTCTAAAATTACATTTTGACCCCTAAACTTTCTC
* * ** *
76940744 AAAATTACATTTCAACCCCTAAACATTCTGTAATTACATTTTAACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTAAAATTACATTTTGACCCCTAAACTTTCTC
* * * * *
76940803 GAAATTGCATTTTGA-CCCTAAACTTTCTCAAAATTACATTTTGGCCCCAAAACTTT
1 AAAATTACATTTTAACCCCTAAACTTTCT-AAAATTACATTTTGACCCCTAAACTTT
76940859 TGCTGTGTTT
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
58 12 0.13
59 61 0.64
60 18 0.19
61 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (59 bp):
AAAATTACATTTTAACCCCTAAACTTTCTAAAATTACATTTTGACCCCTAAACTTTCTC
Found at i:76941360 original size:3 final size:3
Alignment explanation
Indices: 76941352--76941409 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
76941342 GGCCGAACGG
76941352 AGA AGA AGA AGA A-A A-A AG- AGA AGA A-A AGA AGGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA
* *
76941394 ACA AGA ACA AGA AGA A
1 AGA AGA AGA AGA AGA A
76941410 AGAAAAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 8 0.17
3 36 0.77
4 3 0.06
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:76941432 original size:15 final size:16
Alignment explanation
Indices: 76941405--76941436 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
76941395 CAAGAACAAG
76941405 AAGAAAGAAAAATAAA
1 AAGAAAGAAAAATAAA
76941421 AAGAAA-AAAAATAAA
1 AAGAAAGAAAAATAAA
76941436 A
1 A
76941437 CAATAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (16 bp):
AAGAAAGAAAAATAAA
Found at i:76941497 original size:21 final size:20
Alignment explanation
Indices: 76941465--76941524 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 20
76941455 TTTGAATAGT
*
76941465 CGGGTCGACCCGACTCGACC
1 CGGGTCGACCCGACCCGACC
*
76941485 CGGGTCTGACCCGACCCGATC
1 CGGGTC-GACCCGACCCGACC
*
76941506 C-GGT-GACCCAACCCGACC
1 CGGGTCGACCCGACCCGACC
76941524 C
1 C
76941525 AGCAGCAGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 13 0.37
20 9 0.26
21 13 0.37
ACGTcount: A:0.17, C:0.47, G:0.27, T:0.10
Consensus pattern (20 bp):
CGGGTCGACCCGACCCGACC
Found at i:76941747 original size:8 final size:8
Alignment explanation
Indices: 76941734--76941796 Score: 69
Period size: 8 Copynumber: 8.0 Consensus size: 8
76941724 AGAGAGAAGA
76941734 AAAAAAAG
1 AAAAAAAG
76941742 AAAAAAAG
1 AAAAAAAG
76941750 AGAAAAAAG
1 A-AAAAAAG
76941759 AAAAAAAG
1 AAAAAAAG
*
76941767 -AGAAAA-
1 AAAAAAAG
*
76941773 AAAAAGAG
1 AAAAAAAG
76941781 AAAAAGAA-
1 AAAAA-AAG
76941789 AAAAAAAG
1 AAAAAAAG
76941797 TTAAATTTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
7 11 0.24
8 26 0.57
9 9 0.20
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:76941760 original size:29 final size:26
Alignment explanation
Indices: 76941728--76941795 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 26
76941718 GAAAGAAGAG
76941728 AGAAGAAAAAAAAGAAAAAAAGAGAAAAA
1 AGAA-AAAAAAAA-AAAAAAAGAG-AAAA
76941757 AGAAAAAAAGAGAAAAAAAAAGAGAAAA
1 AGAAAAAAA-A-AAAAAAAAAGAGAAAA
76941785 AGAAAAAAAAA
1 AGAAAAAAAAA
76941796 GTTAAATTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 18 0.49
29 15 0.41
30 2 0.05
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (26 bp):
AGAAAAAAAAAAAAAAAAAGAGAAAA
Found at i:76941793 original size:17 final size:17
Alignment explanation
Indices: 76941730--76941794 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 17
76941720 AAGAAGAGAG
76941730 AAGAAAAAAAAGAAAAA
1 AAGAAAAAAAAGAAAAA
*
76941747 AAGAGAAAAAAGAAAAAA
1 AAGAAAAAAAAG-AAAAA
*
76941765 AGAGAAAAAAAAAGAGAAA
1 A-AG-AAAAAAAAGAAAAA
76941784 AAGAAAAAAAA
1 AAGAAAAAAAA
76941795 AGTTAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 19 0.45
18 8 0.19
19 7 0.17
20 8 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAGAAAAA
Found at i:76941796 original size:10 final size:9
Alignment explanation
Indices: 76941730--76941794 Score: 80
Period size: 9 Copynumber: 7.2 Consensus size: 9
76941720 AAGAAGAGAG
76941730 AAGAAAAAA
1 AAGAAAAAA
76941739 AAG-AAAAA
1 AAGAAAAAA
*
76941747 AAGAGAAAA
1 AAGAAAAAA
76941756 AAGAAAAAA
1 AAGAAAAAA
76941765 AGAGAAAAAA
1 A-AGAAAAAA
*
76941775 AA-AGAGAAA
1 AAGA-AAAAA
76941784 AAGAAAAAA
1 AAGAAAAAA
76941793 AA
1 AA
76941795 AGTTAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
8 9 0.19
9 29 0.60
10 10 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:76941939 original size:8 final size:8
Alignment explanation
Indices: 76941926--76941966 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
76941916 TATTTTATGC
76941926 ATTTTTAT
1 ATTTTTAT
76941934 ATTTTTAT
1 ATTTTTAT
*
76941942 ATTTTTGT
1 ATTTTTAT
76941950 A--TTTAT
1 ATTTTTAT
76941956 ATTTTTA-
1 ATTTTTAT
76941963 ATTT
1 ATTT
76941967 AATTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
6 5 0.17
7 4 0.14
8 20 0.69
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:76941979 original size:16 final size:16
Alignment explanation
Indices: 76941958--76941995 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
76941948 GTATTTATAT
76941958 TTTTAATTTAATTTAA
1 TTTTAATTTAATTTAA
* *
76941974 TTTTAATTTTATTTTA
1 TTTTAATTTAATTTAA
76941990 TTTTAA
1 TTTTAA
76941996 ATAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTAATTTAATTTAA
Found at i:76942516 original size:17 final size:17
Alignment explanation
Indices: 76942478--76942516 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
76942468 CCGTGTTTCA
*
76942478 AAAAATCTTCGCGTTTT
1 AAAAATCTTCACGTTTT
* *
76942495 CAAAATTTTCACGTTTT
1 AAAAATCTTCACGTTTT
76942512 AAAAA
1 AAAAA
76942517 AAAATTTCCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATCTTCACGTTTT
Found at i:76942548 original size:17 final size:17
Alignment explanation
Indices: 76942528--76942781 Score: 80
Period size: 18 Copynumber: 14.6 Consensus size: 17
76942518 AAATTTCCGA
76942528 TGTTTCAAAAATTCTTG
1 TGTTTCAAAAATTCTTG
*
76942545 TGTTTTAAAAATTTCTCTG
1 TGTTTCAAAAA-TTCT-TG
*
76942564 T-TTTTAAAAATT-TTCG
1 TGTTTCAAAAATTCTT-G
*
76942580 TATTTTCAAAAAAATTC--G
1 T-GTTTC--AAAAATTCTTG
* ** * *
76942598 TATTTTGAAAATCCTCG
1 TGTTTCAAAAATTCTTG
* *
76942615 TGCTTTCAGAAATT-TCCG
1 TG-TTTCAAAAATTCT-TG
*
76942633 TGTTTTCACAAATT-TTCG
1 TG-TTTCAAAAATTCTT-G
** * *
76942651 TGTTTTCAACGACTCTAG
1 TG-TTTCAAAAATTCTTG
*
76942669 TGTTTCACAAATT-TTCG
1 TGTTTCAAAAATTCTT-G
*
76942686 TGTTTTAAAAATTTCTATG
1 TGTTTCAAAAA-TTCT-TG
*
76942705 T-TTT--AAAATTCTCG
1 TGTTTCAAAAATTCTTG
* *
76942719 TGTTTCAAAAAATATTG
1 TGTTTCAAAAATTCTTG
* * *
76942736 TGTTTTAAAGATT-TTCA
1 TGTTTCAAAAATTCTT-G
76942753 TGTTTTCAAAAATTCTTG
1 TG-TTTCAAAAATTCTTG
76942771 TGTTTCAAAAA
1 TGTTTCAAAAA
76942782 CTTTCGTCTT
Statistics
Matches: 176, Mismatches: 37, Indels: 48
0.67 0.14 0.18
Matches are distributed among these distances:
14 2 0.01
15 14 0.08
16 10 0.06
17 63 0.36
18 70 0.40
19 9 0.05
20 8 0.05
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAAATTCTTG
Found at i:76942574 original size:18 final size:18
Alignment explanation
Indices: 76942528--76942800 Score: 74
Period size: 17 Copynumber: 15.6 Consensus size: 18
76942518 AAATTTCCGA
*
76942528 TGTTTCAAAAA-TTCTTG
1 TGTTTTAAAAATTTCTTG
76942545 TGTTTTAAAAATTTCTCTG
1 TGTTTTAAAAATTTCT-TG
*
76942564 T-TTTTAAAAATTT-TCG
1 TGTTTTAAAAATTTCTTG
* *
76942580 TATTTTCAAAAAAATTC--G
1 TGTTTT--AAAAATTTCTTG
* * * *
76942598 TATTTTGAAAA-TCCTCG
1 TGTTTTAAAAATTTCTTG
* * *
76942615 TGCTTTCAGAAATTTC-CG
1 TG-TTTTAAAAATTTCTTG
* *
76942633 TGTTTTCACAAATTT-TCG
1 TGTTTT-AAAAATTTCTTG
** * *
76942651 TGTTTTCAACGA-CTCTAG
1 TGTTTT-AAAAATTTCTTG
* * *
76942669 TGTTTCACAAATTT-TCG
1 TGTTTTAAAAATTTCTTG
*
76942686 TGTTTTAAAAATTTC-TA
1 TGTTTTAAAAATTTCTTG
*
76942703 TGTTTT-AAAA-TTCTCG
1 TGTTTTAAAAATTTCTTG
* * *
76942719 TGTTTCAAAAA-ATATTG
1 TGTTTTAAAAATTTCTTG
* *
76942736 TGTTTTAAAGATTTTCATG
1 TGTTTTAAA-AATTTCTTG
*
76942755 T-TTTCAAAAA-TTCTTG
1 TGTTTTAAAAATTTCTTG
* * *
76942771 TGTTTCAAAAACTTTCGTC
1 TGTTTTAAAAA-TTTCTTG
*
76942790 TTTTTTAAAAA
1 TGTTTTAAAAA
76942801 AATTCGTGTT
Statistics
Matches: 189, Mismatches: 45, Indels: 42
0.68 0.16 0.15
Matches are distributed among these distances:
15 5 0.03
16 21 0.11
17 68 0.36
18 66 0.35
19 29 0.15
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.47
Consensus pattern (18 bp):
TGTTTTAAAAATTTCTTG
Found at i:76942739 original size:50 final size:52
Alignment explanation
Indices: 76942515--76942781 Score: 165
Period size: 53 Copynumber: 5.1 Consensus size: 52
76942505 ACGTTTTAAA
* * *
76942515 AAAAAAT-TTCCGATGTTTCAAAAATTCTT-GTGTTTTAAAAATTTCTC-TGTTTT
1 AAAAAATATT-CG-TGTTTTAAAAATT-TTCATGTTTTAAAAA-TTCTCGTGTTTC
* * * ** * * * *
76942568 TAAAAATTTTCGTATTTTCAAAAAAATTCGTATTTTGAAAATCCTCGTGCTTTC
1 AAAAAATATTCGTGTTTT-AAAAATTTTCATGTTTTAAAAATTCTCGTG-TTTC
* * * ** * *
76942622 -AGAAAT-TTCCGTGTTTTCACAAATTTTCGTGTTTTCAACGACTCTAGTGTTTC
1 AAAAAATATT-CGTGTTTT-AAAAATTTTCATGTTTT-AAAAATTCTCGTGTTTC
* *
76942675 -ACAAATTTTCGTGTTTTAAAAA-TTTCTATGTTTT-AAAATTCTCGTGTTTC
1 AAAAAATATTCGTGTTTTAAAAATTTTC-ATGTTTTAAAAATTCTCGTGTTTC
* *
76942725 AAAAAATATT-GTGTTTTAAAGATTTTCATGTTTTCAAAAATTCTTGTGTTTC
1 AAAAAATATTCGTGTTTTAAAAATTTTCATGTTTT-AAAAATTCTCGTGTTTC
76942777 AAAAA
1 AAAAA
76942782 CTTTCGTCTT
Statistics
Matches: 169, Mismatches: 32, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
50 30 0.18
51 15 0.09
52 42 0.25
53 68 0.40
54 14 0.08
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (52 bp):
AAAAAATATTCGTGTTTTAAAAATTTTCATGTTTTAAAAATTCTCGTGTTTC
Found at i:76942772 original size:35 final size:34
Alignment explanation
Indices: 76942535--76942780 Score: 150
Period size: 35 Copynumber: 7.1 Consensus size: 34
76942525 CGATGTTTCA
76942535 AAAATTCTT-GTGTTTT-AAAAATTTCTCTGT-TTTT
1 AAAATT-TTCGTGTTTTCAAAAA-TTCT-TGTGTTTT
* *
76942569 AAAAATTTTCGTATTTTCAAAAAAATTC--GTATTTT
1 -AAAATTTTCGTGTTTTC--AAAAATTCTTGTGTTTT
** * * *
76942604 GAAAATCCTCGTGCTTTCAGAAATT-TCCGTGTTTT
1 -AAAATTTTCGTGTTTTCAAAAATTCT-TGTGTTTT
** * * *
76942639 CACAAATTTTCGTGTTTTCAACGACTCTAGTGTTTC
1 -A-AAATTTTCGTGTTTTCAAAAATTCTTGTGTTTT
*
76942675 ACAAATTTTCGTGTTTT-AAAAATT-TCTATGTTTT
1 A-AAATTTTCGTGTTTTCAAAAATTCT-TGTGTTTT
* * *
76942709 AAAATTCTCGTG-TTTCAAAAAATATTGTGTTTT
1 AAAATTTTCGTGTTTTCAAAAATTCTTGTGTTTT
* *
76942742 AAAGATTTTCATGTTTTCAAAAATTCTTGTGTTTC
1 AAA-ATTTTCGTGTTTTCAAAAATTCTTGTGTTTT
76942777 AAAA
1 AAAA
76942781 ACTTTCGTCT
Statistics
Matches: 164, Mismatches: 32, Indels: 31
0.72 0.14 0.14
Matches are distributed among these distances:
32 3 0.02
33 33 0.20
34 23 0.14
35 74 0.45
36 22 0.13
37 4 0.02
38 5 0.03
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (34 bp):
AAAATTTTCGTGTTTTCAAAAATTCTTGTGTTTT
Found at i:76950093 original size:399 final size:398
Alignment explanation
Indices: 76948783--76950216 Score: 1684
Period size: 405 Copynumber: 3.6 Consensus size: 398
76948773 CTACTCCTGA
* * * * *
76948783 GGAATGTGGCACCTCAGCTAGATTAGATTCGGGGCCTTGTTGAAAAGCACTCTGTATATCCTCCA
1 GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGTTG-AAAGCATTATGTATATCCTCCA
* * * * *
76948848 GAGATCTCGCCTCAACAACTGGTAAATCCGAATTGGTATCTGCATCACCCTGCTGATTCTCAATC
65 GAGATCTCGCCTCAACAACAGGTAAATCCGAAGTGGTATCTGCATGATCCGGCTGATTCTCAATC
* * * *
76948913 ATGCTTGGAAGAATTATTTCCTCAACATCAACTCCTTCATGAAATTGCTTAAAAGCCAAATCAAT
130 ATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAAT
* * * * *
76948978 GTCTTCCAA-TGATCTTGCTTCAAGAACAGGCAGCTCTGCATTGGTCTCCATCTTCATTTCCTCT
195 ATCTT-CAACCGATCTTGCTTCAAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTCT
* * * * * * * * *
76949042 GTTTCTTCATGGTCATTTTTTGGTTCACCGGCAGAATTCTGACTATTTTCTTGAATGCCAGAGAC
259 ATTTCTTCAT--TCATTTTTCGGTTCACCAGCAGCATTCTCACAATCTTCTTCAATACCAGAGAC
* *** ** * * *
76949107 GGCACGGCCAACTTCAATCTCTTTATTAGAAACCACATCATGCTGCTCCATTTCTGATGATCCAT
322 AGCATTACCAACTTCAATCTC-TTAGAAGAAACCACATCATGCTGCTCTACTTCTGATGATCCAA
*
76949172 TTCTCAAGTCTGT
386 TCCTCAAGTCTGT
* * * * * *
76949185 GGAAAGTGGCAGCTCGGCCAGATTAGGTTCTGGACCCTT-TTGGAACGCATTACGTATATCCTCC
1 GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGG-GCCTTGTT-GAAAGCATTATGTATATCCTCC
* * * ** ** * * *
76949249 AGAGATCTTGCCTCGACAACAGGTAACTTTGAAGTGAAATCTTCATGATCCAGCTGATCCTCAAT
64 AGAGATCTCGCCTCAACAACAGGTAAATCCGAAGTGGTATCTGCATGATCCGGCTGATTCTCAAT
* * * * *
76949314 CATGCTTGCAAGAACTACTTCCTCAACATCTACACCTTCATGAAGTTGCTTAAAAGCCAAATCAA
129 CATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAA
76949379 TATCTTCAACCGATCTTGCATTC-AGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTC
194 TATCTTCAACCGATCTTGC-TTCAAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTC
* *
76949443 TATTTCTTCATATTCTTTTTTCGGTTCACCAGCAGCAACATTCTCA-AGATGTTCTTCAA-AGCC
258 TATTTCTTC--ATTCATTTTTCGGTTCACCAGCAG---CATTCTCACA-ATCTTCTTCAATA-CC
* * * *
76949506 AGAGACTGC-TTGCCCAACTTCAACCTCATTAGAAGAAACCACATCATGCAGCTCTACTTCTGAT
316 AGAGACAGCATT-ACCAACTTCAATCTC-TTAGAAGAAACCACATCATGCTGCTCTACTTCTGAT
76949570 GATCC-ATGCCTCAAGTCTGCT
379 GATCCAAT-CCTCAAGTCTG-T
* * * * * *
76949591 -GAATGCGGCAGCTCAGCTGGATTAGGTTCCGGTCCTTTTATGAAAGCATTATGTATATCATCCA
1 GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGT-TGAAAGCATTATGTATATCCTCCA
* * * * * *
76949655 GAGATCTTGCCTCGACAACAGG-AAATTCTGAAGTGGTATCTGTATGATCTGGCAGATTCTCAAT
65 GAGATCTCGCCTCAACAACAGGTAAA-TCCGAAGTGGTATCTGCATGATCCGGCTGATTCTCAAT
76949719 CATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAA
129 CATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAA
* * * ** * *
76949784 TATCTTCAACCGATCTTGCTTCAAGAACAGGTAGCTCCACATTGGTTTCTGTCTTTAGTTCTTCT
194 TATCTTCAACCGATCTTGCTTCAAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTCT
* * *
76949849 ATTTCTTC-TTCATTTTTGGGTTCACCAGCAGCATTATCACAACCTTCTTCAATACCAGAGACAG
259 ATTTCTTCATTCATTTTTCGGTTCACCAGCAGCATTCTCACAATCTTCTTCAATACCAGAGACAG
* * * *
76949913 CATTACTAACTTCGATCTCTTCAGAAGAAACAACAACATGCTGCTCTACTTCTGATGATCCAATC
324 CATTACCAACTTCAATCTCTT-AGAAGAAACCACATCATGCTGCTCTACTTCTGATGATCCAATC
76949978 CTCAAGTCTGT
388 CTCAAGTCTGT
* *
76949989 GGAATGTGGCAGCTGAGCTAGATTAGGTTCTGGGTCTTGTTGCAAAGCATTATGTATATCCTCCA
1 GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGTTG-AAAGCATTATGTATATCCTCCA
*
76950054 GAGATCTCGCCTCAACAACAGGTAAATCCG-AGTTGGTATCTGCATGATCCGGCTGATTCTTAAT
65 GAGATCTCGCCTCAACAACAGGTAAATCCGAAG-TGGTATCTGCATGATCCGGCTGATTCTCAAT
* *
76950118 CATACTTGGAAGAATTACTTCCTCAAAATCCACTCCTTCATGAAGTTGCTTAAATGCCAAATCAA
129 CATACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAA
* * *
76950183 TATCTTCTACTGATCTTGTTTCAAGAACAGGCAG
194 TATCTTCAACCGATCTTGCTTCAAGAACAGGCAG
76950217 TCCCACACTG
Statistics
Matches: 880, Mismatches: 125, Indels: 57
0.83 0.12 0.05
Matches are distributed among these distances:
398 7 0.01
399 280 0.32
400 9 0.01
401 3 0.00
402 255 0.29
403 8 0.01
404 12 0.01
405 304 0.35
406 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (398 bp):
GGAATGTGGCAGCTCAGCTAGATTAGGTTCTGGGCCTTGTTGAAAGCATTATGTATATCCTCCAG
AGATCTCGCCTCAACAACAGGTAAATCCGAAGTGGTATCTGCATGATCCGGCTGATTCTCAATCA
TACTTGGAAGAATTACTTCCTCAACATCCACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATA
TCTTCAACCGATCTTGCTTCAAGAACAGGCAGCTCCGCATTGGTCTCCATCTTCAATTCTTCTAT
TTCTTCATTCATTTTTCGGTTCACCAGCAGCATTCTCACAATCTTCTTCAATACCAGAGACAGCA
TTACCAACTTCAATCTCTTAGAAGAAACCACATCATGCTGCTCTACTTCTGATGATCCAATCCTC
AAGTCTGT
Found at i:76955535 original size:30 final size:30
Alignment explanation
Indices: 76955501--76955558 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
76955491 TTTCCTAAAA
* *
76955501 TATGTGTTGTGAATCATTCTTTACTTAACC
1 TATGTGTTATGAATAATTCTTTACTTAACC
*
76955531 TATGTGTTATGAATAATTCTTTTCTTAA
1 TATGTGTTATGAATAATTCTTTACTTAA
76955559 GAATATGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (30 bp):
TATGTGTTATGAATAATTCTTTACTTAACC
Found at i:76959147 original size:21 final size:23
Alignment explanation
Indices: 76959109--76959155 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
76959099 TTTAAAAATA
76959109 TTTAAAAATATATATTTTTA-ATT
1 TTTAAAAATATA-ATTTTTAGATT
76959132 TTT-AAAA-ATAATTTTTAGATT
1 TTTAAAAATATAATTTTTAGATT
76959153 TTT
1 TTT
76959156 TTTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 4 0.17
23 3 0.13
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTAAAAATATAATTTTTAGATT
Found at i:76963979 original size:17 final size:17
Alignment explanation
Indices: 76963951--76964004 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
76963941 TATAAATCTT
76963951 AAAAAATATATATTATAA
1 AAAAAAT-TATATTATAA
*
76963969 AAAAAATTATACATATTAA
1 AAAAAATTATA-TTA-TAA
76963988 ACAGAAAATTATATTAT
1 A-A-AAAATTATATTAT
76964005 TTAATTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 4 0.13
18 9 0.30
19 5 0.17
20 3 0.10
21 9 0.30
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAAAATTATATTATAA
Found at i:76963986 original size:21 final size:21
Alignment explanation
Indices: 76963960--76964000 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
76963950 TAAAAAATAT
76963960 ATATTATAA-AAAAAATTATAC
1 ATATTA-AACAAAAAATTATAC
*
76963981 ATATTAAACAGAAAATTATA
1 ATATTAAACAAAAAATTATA
76964001 TTATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (21 bp):
ATATTAAACAAAAAATTATAC
Found at i:76967457 original size:44 final size:42
Alignment explanation
Indices: 76967409--76967539 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 42
76967399 CTTTAAAGGT
* *
76967409 ATAGGATTCATCGTTTTAATCTGCCCCACTGCAACTTCAAGGAG
1 ATAGGATT-ATCG-TTCAATCTGCTCCACTGCAACTTCAAGGAG
* * *
76967453 ATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1 ATAGGATTA-TCG-TTCAATCTGCTCCACTGCAACTTCAAGGAG
*
76967497 ATAAGACTTGTATC-TTCAATCTGCTCCACTGCAACTTCAAGGA
1 ATAGGA--T-TATCGTTCAATCTGCTCCACTGCAACTTCAAGGA
76967540 AATGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 68 0.93
46 2 0.03
47 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
ATAGGATTATCGTTCAATCTGCTCCACTGCAACTTCAAGGAG
Found at i:76967851 original size:218 final size:218
Alignment explanation
Indices: 76967550--76967987 Score: 700
Period size: 218 Copynumber: 2.0 Consensus size: 218
76967540 AATGTGATTT
* *
76967550 GTTTTCGATCTGTTTCACTGCCAGTACAGGAAGACAAGATCTACGATCTTCAACCTACTCCACTG
1 GTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTG
* * *
76967615 CTGCTCATGGAGATAGGACTAGTGGCTTAAATCTACTTCCCTATTGCCTT-AGAAAGATAAGATT
66 CTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTACTTCCCTACTACCTTGAG-AAGATAAGATT
76967679 CGCCATCTTCGATCTGCTCCACTT-CTGCTCAGGGAGACAGGATCTGCAATCTTCAACCTACTCC
130 CGCCATCTTCGATCTGCTCCA-TTACTGCTCAGGGAGACAGGATCTGCAATCTTCAACCTACTCC
*
76967743 ACTACTGCTCAGGGAGATAGGACCA
194 ACTACCGCTCAGGGAGATAGGACCA
* *
76967768 GTTTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTACAATCTTCAACCTACTCCGCTG
1 GTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTG
* **
76967833 TTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTGTTTCCCTACTACCTTGAGAAGATAAGATTC
66 CTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTACTTCCCTACTACCTTGAGAAGATAAGATTC
* * * *
76967898 GCCATCTTCGATTTGCTCCATTACTGCTTAGGGAGACAGGATCTGCAATTTTCAACCTACTCCAT
131 GCCATCTTCGATCTGCTCCATTACTGCTCAGGGAGACAGGATCTGCAATCTTCAACCTACTCCAC
*
76967963 TGCCGCTCAGGGAGATAGGACCA
196 TACCGCTCAGGGAGATAGGACCA
76967986 GT
1 GT
76967988 AGCTTAAATC
Statistics
Matches: 202, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
217 2 0.01
218 198 0.98
219 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (218 bp):
GTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTG
CTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTACTTCCCTACTACCTTGAGAAGATAAGATTC
GCCATCTTCGATCTGCTCCATTACTGCTCAGGGAGACAGGATCTGCAATCTTCAACCTACTCCAC
TACCGCTCAGGGAGATAGGACCA
Found at i:76967953 original size:132 final size:132
Alignment explanation
Indices: 76967805--76968119 Score: 450
Period size: 132 Copynumber: 2.4 Consensus size: 132
76967795 AGGAAGGCAA
* * * * * * **
76967805 GATCTACAATCTTCAACCTACTCCGCTGTTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTGTT
1 GATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGTAGCTTAAATCTACT
* * *
76967870 TCCCTACTACCTTGAGAAGATAAGATTCGCCATCTTCGATTTGCTCCATTACTGCTTAGGGAGAC
66 TCCATACTACCTTGAGAAGATAAGATTCGCCATCTTCGATATGCTCCACTACTGCTTAGGGAGAC
76967935 AG
131 AG
* * *
76967937 GATCTGCAATTTTCAACCTACTCCATTGCCGCTCAGGGAGATAGGACCAGTAGCTTAAATCTACT
1 GATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGTAGCTTAAATCTACT
* * * * *
76968002 TCCATACTGCCTTGGGAAGATAAGATTCGCCATCTTCGGTATGTTCCACTACTGCTTAGGGAGAT
66 TCCATACTACCTTGAGAAGATAAGATTCGCCATCTTCGATATGCTCCACTACTGCTTAGGGAGAC
76968067 AG
131 AG
*
76968069 GATCTGCAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACCAGT
1 GATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGT
76968120 TTTTGATCTG
Statistics
Matches: 160, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 160 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
GATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGTAGCTTAAATCTACT
TCCATACTACCTTGAGAAGATAAGATTCGCCATCTTCGATATGCTCCACTACTGCTTAGGGAGAC
AG
Done.