Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 3 of 284
Found at i:694471 original size:50 final size:49
Alignment explanation
Indices: 694268--694535 Score: 229
Period size: 49 Copynumber: 5.6 Consensus size: 49
694258 TGTGAAAGCT
*
694268 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--C-ACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-AGT-TGAGAGCC
* * * * ** *
694314 AATGTAAGACCATGCCTGGGACATGGCATCGGCATTG-AGATGACTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGTTGAGAGCC
* * *
694362 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACG-AGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAAGTTGAGAGCC
* * * * *
694406 AGTGTAAGACTATGTCTGGCACATGGCATCGGCATGGTTA-TGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG-AAGT-TGAGAGCC
* *
694456 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGTTGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGTTGAGAGCC
*
694505 AGTGTAAGACCATGTCTGGGACATGGTATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
694536 ACACTTTACC
Statistics
Matches: 178, Mismatches: 29, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.06
45 13 0.07
46 30 0.17
47 27 0.15
48 23 0.13
49 38 0.21
50 36 0.20
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGTTGAGAGCC
Found at i:694485 original size:142 final size:140
Alignment explanation
Indices: 694268--694529 Score: 352
Period size: 142 Copynumber: 1.9 Consensus size: 140
694258 TGTGAAAGCT
*
694268 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGCCTGG
1 AGTGTAAGACATGTCTGGCACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGCCTGG
* *
694333 GACATGGCATCGGCATTG-AGATGACT-GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCTA
66 GACATGGCATCGGCATCGAAGATGA-TAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTA
694395 CGAGATGTGTC
130 CGAGATGTGTC
** * *
694406 AGTGTAAGACTATGTCTGGCACATGGCATCGG-CATGGTTATGTGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGAC-ATGTCTGGCACAT-GCATCGGCCA-CATTA--TGAGAGCCAATGTAAGACCATG
* * *
694470 TCTGGGACATGGCATCGGCCTCGAAGTTGATAGCCAGTGTAAGACCATGTCTGGGACATG
61 CCTGGGACATGGCATCGGCATCGAAGATGATAGCCAGTGTAAGACCATGTCTGGGACATG
694530 GTATCGACAC
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
138 10 0.09
139 14 0.13
140 10 0.09
142 41 0.39
143 16 0.15
144 15 0.14
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGCACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGCCTGG
GACATGGCATCGGCATCGAAGATGATAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTAC
GAGATGTGTC
Found at i:698150 original size:16 final size:14
Alignment explanation
Indices: 698124--698163 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
698114 GAGTTTTAGT
*
698124 TTTTTATTTTTTAA
1 TTTTAATTTTTTAA
698138 TTAATTAATTTTTTAA
1 TT--TTAATTTTTTAA
698154 TTTTAATTTT
1 TTTTAATTTT
698164 ATTTTCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:699173 original size:7 final size:7
Alignment explanation
Indices: 699163--699197 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
699153 ATATAATAAT
699163 TCTGGTA
1 TCTGGTA
699170 TCTGGTA
1 TCTGGTA
699177 TCTGGTA
1 TCTGGTA
*
699184 TCTGGCA
1 TCTGGTA
699191 TCTGGTA
1 TCTGGTA
699198 GTTCTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.40
Consensus pattern (7 bp):
TCTGGTA
Found at i:703083 original size:34 final size:34
Alignment explanation
Indices: 703040--703108 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
703030 ATTTTGAATG
*
703040 AATGGTAAGTTATACTTATTAGCCATATGAGCTT
1 AATGGTAAGTTATACTTATTAGCCATACGAGCTT
703074 AATGGTAAGTTATACTTATTAGCCATACGAGCTT
1 AATGGTAAGTTATACTTATTAGCCATACGAGCTT
703108 A
1 A
703109 CTAACTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (34 bp):
AATGGTAAGTTATACTTATTAGCCATACGAGCTT
Found at i:708076 original size:90 final size:90
Alignment explanation
Indices: 707922--708093 Score: 308
Period size: 90 Copynumber: 1.9 Consensus size: 90
707912 TCAACTTTTG
* * *
707922 TGGACTCTTCTGTTGAGAACATTAAAATAGTCAGGGAATTTCTAGATGTTTTTCTCGATGAGTTA
1 TGGACTCTTCTGTTGAGAACATTAAAACAGTCAAGGAATTTCTAGATGTTTTTCTCGATAAGTTA
707987 TCGGGTTTACTTTTGAATCAGTTTA
66 TCGGGTTTACTTTTGAATCAGTTTA
*
708012 TGGACTCTTCTGTTGAGAACATTAAAACAGTGAAGGAATTTCTAGATGTTTTTCTCGATAAGTTA
1 TGGACTCTTCTGTTGAGAACATTAAAACAGTCAAGGAATTTCTAGATGTTTTTCTCGATAAGTTA
708077 TCGGGTTTACTTTTGAA
66 TCGGGTTTACTTTTGAA
708094 CCAGGAAGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (90 bp):
TGGACTCTTCTGTTGAGAACATTAAAACAGTCAAGGAATTTCTAGATGTTTTTCTCGATAAGTTA
TCGGGTTTACTTTTGAATCAGTTTA
Found at i:715279 original size:17 final size:17
Alignment explanation
Indices: 715257--715290 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
715247 ACATCTGGTA
*
715257 ATTCTGTTTTATCTGAT
1 ATTCTGTTGTATCTGAT
715274 ATTCTGTTGTATCTGAT
1 ATTCTGTTGTATCTGAT
715291 TGTGGGGCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.56
Consensus pattern (17 bp):
ATTCTGTTGTATCTGAT
Found at i:725245 original size:26 final size:25
Alignment explanation
Indices: 725216--725291 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
725206 GTCTAGGACA
725216 TGCATCAGGCACATTGTGAGAGCTAG
1 TGCATCA-GCACATTGTGAGAGCTAG
* *
725242 TGCA--AG-ACATGTCTGGGA-C-A-
1 TGCATCAGCACAT-TGTGAGAGCTAG
725262 TGCATCAGCTACATTGTGAGAGCTAG
1 TGCATCAGC-ACATTGTGAGAGCTAG
725288 TGCA
1 TGCA
725292 AGACATGTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 7 0.18
23 11 0.29
24 6 0.16
25 1 0.03
26 8 0.21
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (25 bp):
TGCATCAGCACATTGTGAGAGCTAG
Found at i:725249 original size:46 final size:46
Alignment explanation
Indices: 725184--725310 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
725174 CATATAGGTT
* *
725184 ATTGTG-G-GCTAGTGTAAGACATGTCTAGGACATGCATCAGGC-AC
1 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCA-GCTAC
725228 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCAGCTAC
1 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCAGCTAC
725274 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGC
1 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGC
725311 CTTAGTTACG
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
44 6 0.08
45 3 0.04
46 69 0.88
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCAGCTAC
Found at i:725251 original size:22 final size:22
Alignment explanation
Indices: 725226--725297 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
725216 TGCATCAGGC
725226 ACATTGTGAGAGCTAGTGCAAG
1 ACATTGTGAGAGCTAGTGCAAG
* *
725248 ACATGTCTGGGA-C-A-TGCATCAG
1 ACAT-TGTGAGAGCTAGTGCA--AG
725270 CTACATTGTGAGAGCTAGTGCAAG
1 --ACATTGTGAGAGCTAGTGCAAG
725294 ACAT
1 ACAT
725298 GTCTGGGACA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 11 0.29
23 10 0.26
24 7 0.18
25 1 0.03
26 4 0.11
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (22 bp):
ACATTGTGAGAGCTAGTGCAAG
Found at i:726419 original size:13 final size:13
Alignment explanation
Indices: 726401--726425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
726391 TGGCTGTGTG
726401 AAGGACATGGGCC
1 AAGGACATGGGCC
726414 AAGGACATGGGC
1 AAGGACATGGGC
726426 GTGTGCCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.40, T:0.08
Consensus pattern (13 bp):
AAGGACATGGGCC
Found at i:732957 original size:46 final size:45
Alignment explanation
Indices: 732812--732973 Score: 159
Period size: 46 Copynumber: 3.5 Consensus size: 45
732802 GTTATTGTGG
* * *
732812 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGA-A
* *
732858 GCTAGTGTAAGACGTGT-TAGGGACATGCATCGGTCT-CGAGATGCAA
1 GCTAGTGTAAGACATGTCT-GGGACATGCATCAG-CTACGAGATG-AA
* *
732904 GCCAGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGA-A
* *
732950 GTTAGTGTTAGACTATGTCTGGGA
1 GCTAGTGTAAGAC-ATGTCTGGGA
732974 TGTGGCATTG
Statistics
Matches: 96, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
45 4 0.04
46 79 0.82
47 13 0.14
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAA
Found at i:735876 original size:47 final size:46
Alignment explanation
Indices: 735813--736026 Score: 177
Period size: 47 Copynumber: 4.6 Consensus size: 46
735803 GAGAGCAAGA
*
735813 GTAAGACTATGTCTGGGACATGGCATCGGCATTGAGACGAGT-GCTAGT
1 GTAAGAC-ATGTCTGGGACATGGCATCGGC-TTGAGACGA-TAGCCAGT
* * * * *
735861 GTAAGACGTGTCTGGGACAT-GCATTAGCCTCGATACG-TAAGCCAGT
1 GTAAGACATGTCTGGGACATGGCA-TCGGCTTGAGACGAT-AGCCAGT
* * **
735907 GTAAGACATGTCTGGGACAT-GCGTCGGCTATGAGATGATAGTTAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCT-TGAGACGATAGCCAGT
* * *
735953 GTAAGACCATGTCTGGGACATGGCTTCGACTTGAGA-TATAAGCCAGT
1 GTAAGA-CATGTCTGGGACATGGCATCGGCTTGAGACGAT-AGCCAGT
* *
736000 GTAAGACCGTGTCTAGGACATGGCATC
1 GTAAGA-CATGTCTGGGACATGGCATC
736027 TACATCTTAG
Statistics
Matches: 135, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 52 0.39
47 64 0.47
48 14 0.10
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGGCATCGGCTTGAGACGATAGCCAGT
Found at i:735995 original size:93 final size:92
Alignment explanation
Indices: 735813--736026 Score: 227
Period size: 93 Copynumber: 2.3 Consensus size: 92
735803 GAGAGCAAGA
*
735813 GTAAGACTATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACGTGTCTGGGA
1 GTAAGAC-ATGTCTGGGACAT-GCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGA
* * *
735878 CATGCATTAGCCTCGATACGTAAGCCAGT
64 CATGCATTAGACTCGAGACATAAGCCAGT
* * *
735907 GTAAGACATGTCTGGGACATGCGTCGGC-TATGAGATGA-TAGTTAGTGTAAGACCATGTCTGGG
1 GTAAGACATGTCTGGGACATGCATCGGCAT-TGAGACGAGT-GCTAGTGTAAGA-CATGTCTGGG
* * *
735970 ACATGGC-TTCGACTTGAGATATAAGCCAGT
63 ACAT-GCATTAGACTCGAGACATAAGCCAGT
* *
736000 GTAAGACCGTGTCTAGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
736027 TACATCTTAG
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
91 2 0.02
92 25 0.25
93 49 0.49
94 21 0.21
95 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (92 bp):
GTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACA
TGCATTAGACTCGAGACATAAGCCAGT
Found at i:743070 original size:46 final size:46
Alignment explanation
Indices: 742935--743150 Score: 140
Period size: 46 Copynumber: 4.6 Consensus size: 46
742925 CATTTGTGAG
* *
742935 AGCTAGTGTAAGACCATGTCTTGGACATGGCATTTG-CATTGAG--ATGA
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GC-TTTGAC-TCGAGACAT-A
* * * *
742982 GTGCTAGTGTAAGA-CTTTTCTGGGACATGCATTGACCTCGAGACATA
1 -AGCTAGTGTAAGACCATGTCTGGGACATGCTTTGA-CTCGAGACATA
* *
743029 AGCTAGTGTAAGA-CATGTCTGGGACATGCTTTGGCTACGAGATGAT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCTTTGACT-CGAGA-CATA
* * * * *
743075 AG-TCAGTGTAAGACCATGTATGGGATATTGCTTCGACTTGAGATATA
1 AGCT-AGTGTAAGACCATGTCTGGGACA-TGCTTTGACTCGAGACATA
* * * *
743122 AGCCAGTGTAAGATCGTGTCTAGGACATG
1 AGCTAGTGTAAGACCATGTCTGGGACATG
743151 GCATCTACAT
Statistics
Matches: 133, Mismatches: 24, Indels: 24
0.73 0.13 0.13
Matches are distributed among these distances:
45 6 0.05
46 55 0.41
47 50 0.38
48 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (46 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCTTTGACTCGAGACATA
Found at i:743099 original size:93 final size:93
Alignment explanation
Indices: 742935--743150 Score: 203
Period size: 93 Copynumber: 2.3 Consensus size: 93
742925 CATTTGTGAG
* * * *
742935 AGCTAGTGTAAGACCATGTCTTGGACATGGCATTTGCATTGAGATGAGTGCTAGTGTAAGACTTT
1 AGCTAGTGTAAGACCATGTCTAGGACAT-GCATTTGCATCGAGATGAGTGCTAGTGTAAGACATG
*
743000 TCTGGGACA-TGCATT-GACCTCGAGACATA
65 TATGGGACATTGC-TTCGA-CTCGAGACATA
*
743029 AGCTAGTGTAAGA-CATGTCTGGGACATGC-TTTGGC-TACGAGATGA-TAG-TCAGTGTAAGAC
1 AGCTAGTGTAAGACCATGTCTAGGACATGCATTT-GCAT-CGAGATGAGT-GCT-AGTGTAAGA-
* * *
743089 CATGTATGGGATATTGCTTCGACTTGAGATATA
61 CATGTATGGGACATTGCTTCGACTCGAGACATA
* * *
743122 AGCCAGTGTAAGATCGTGTCTAGGACATG
1 AGCTAGTGTAAGACCATGTCTAGGACATG
743151 GCATCTACAT
Statistics
Matches: 103, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
91 6 0.06
92 21 0.20
93 45 0.44
94 31 0.30
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (93 bp):
AGCTAGTGTAAGACCATGTCTAGGACATGCATTTGCATCGAGATGAGTGCTAGTGTAAGACATGT
ATGGGACATTGCTTCGACTCGAGACATA
Found at i:748877 original size:374 final size:374
Alignment explanation
Indices: 748188--748935 Score: 1496
Period size: 374 Copynumber: 2.0 Consensus size: 374
748178 GCATGAAAAT
748188 ATTGGTGAGCTAGTTTTAACGTTTGTAAGCCCAATTGCGAAAAATGACTAAATCGCATAAAGTGC
1 ATTGGTGAGCTAGTTTTAACGTTTGTAAGCCCAATTGCGAAAAATGACTAAATCGCATAAAGTGC
748253 AAAAGTCCTAATTTGATATCTAAAGGTGTTATTTTATTAGAGAATCAAATTTGAGGGATTTTAAA
66 AAAAGTCCTAATTTGATATCTAAAGGTGTTATTTTATTAGAGAATCAAATTTGAGGGATTTTAAA
748318 GGTCAATTAGACCCTTTTAAAGGAGCATAGCTGGCCATAGAGTCAAAGAGGAGACAAAATTTTAA
131 GGTCAATTAGACCCTTTTAAAGGAGCATAGCTGGCCATAGAGTCAAAGAGGAGACAAAATTTTAA
748383 AATTTGGTGGGTTAGGTGGGTTAGGTGGCTTATTTTGATTAAAATAGAAATAGATAAAAGAAGGA
196 AATTTGGTGGGTTAGGTGGGTTAGGTGGCTTATTTTGATTAAAATAGAAATAGATAAAAGAAGGA
748448 TGATATAATCTATTTTCATCTTCTTCCTCCATCGAAATTTTCAGCAAAGAATGGGGTTCAAGAGC
261 TGATATAATCTATTTTCATCTTCTTCCTCCATCGAAATTTTCAGCAAAGAATGGGGTTCAAGAGC
748513 TTGAAATTTTAGCAACTTTAAGCCTTCACAAGTAAGTGATCCTAATGGC
326 TTGAAATTTTAGCAACTTTAAGCCTTCACAAGTAAGTGATCCTAATGGC
748562 ATTGGTGAGCTAGTTTTAACGTTTGTAAGCCCAATTGCGAAAAATGACTAAATCGCATAAAGTGC
1 ATTGGTGAGCTAGTTTTAACGTTTGTAAGCCCAATTGCGAAAAATGACTAAATCGCATAAAGTGC
748627 AAAAGTCCTAATTTGATATCTAAAGGTGTTATTTTATTAGAGAATCAAATTTGAGGGATTTTAAA
66 AAAAGTCCTAATTTGATATCTAAAGGTGTTATTTTATTAGAGAATCAAATTTGAGGGATTTTAAA
748692 GGTCAATTAGACCCTTTTAAAGGAGCATAGCTGGCCATAGAGTCAAAGAGGAGACAAAATTTTAA
131 GGTCAATTAGACCCTTTTAAAGGAGCATAGCTGGCCATAGAGTCAAAGAGGAGACAAAATTTTAA
748757 AATTTGGTGGGTTAGGTGGGTTAGGTGGCTTATTTTGATTAAAATAGAAATAGATAAAAGAAGGA
196 AATTTGGTGGGTTAGGTGGGTTAGGTGGCTTATTTTGATTAAAATAGAAATAGATAAAAGAAGGA
748822 TGATATAATCTATTTTCATCTTCTTCCTCCATCGAAATTTTCAGCAAAGAATGGGGTTCAAGAGC
261 TGATATAATCTATTTTCATCTTCTTCCTCCATCGAAATTTTCAGCAAAGAATGGGGTTCAAGAGC
748887 TTGAAATTTTAGCAACTTTAAGCCTTCACAAGTAAGTGATCCTAATGGC
326 TTGAAATTTTAGCAACTTTAAGCCTTCACAAGTAAGTGATCCTAATGGC
748936 TTTTCTTAAA
Statistics
Matches: 374, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
374 374 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (374 bp):
ATTGGTGAGCTAGTTTTAACGTTTGTAAGCCCAATTGCGAAAAATGACTAAATCGCATAAAGTGC
AAAAGTCCTAATTTGATATCTAAAGGTGTTATTTTATTAGAGAATCAAATTTGAGGGATTTTAAA
GGTCAATTAGACCCTTTTAAAGGAGCATAGCTGGCCATAGAGTCAAAGAGGAGACAAAATTTTAA
AATTTGGTGGGTTAGGTGGGTTAGGTGGCTTATTTTGATTAAAATAGAAATAGATAAAAGAAGGA
TGATATAATCTATTTTCATCTTCTTCCTCCATCGAAATTTTCAGCAAAGAATGGGGTTCAAGAGC
TTGAAATTTTAGCAACTTTAAGCCTTCACAAGTAAGTGATCCTAATGGC
Found at i:749778 original size:46 final size:46
Alignment explanation
Indices: 749734--749892 Score: 133
Period size: 47 Copynumber: 3.4 Consensus size: 46
749724 ATGCAAGACG
*
749734 TGTCTGGGACATGCATCGGCCTCAAGATGTAAGCCAATGTAAGA-CA
1 TGTCTGGGACATGCATCGG-CTCGAGATGTAAGCCAATGTAAGACCA
* * * * * *
749780 TGTCTCGTACATACGTCGGCTACGAGATG-ATAGTCAGTGTAAGACCA
1 TGTCTGGGACATGCATCGGCT-CGAGATGTA-AGCCAATGTAAGACCA
* * * * * * *
749827 TGTCTAGGACAAGGCTTCGACTTGAGATATAAGCCAATGTAAGACCG
1 TGTCTGGGAC-ATGCATCGGCTCGAGATGTAAGCCAATGTAAGACCA
749874 TGTCTGGGACATGGCATCG
1 TGTCTGGGACAT-GCATCG
749893 ACATCTTACC
Statistics
Matches: 86, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
45 3 0.03
46 33 0.38
47 42 0.49
48 8 0.09
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTCTGGGACATGCATCGGCTCGAGATGTAAGCCAATGTAAGACCA
Found at i:758680 original size:15 final size:15
Alignment explanation
Indices: 758644--758684 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
758634 ACCATGTAAG
*
758644 TTAAATTTTTTA-AA
1 TTAAATTTTTTATTA
758658 TT--ATTTTTTATTA
1 TTAAATTTTTTATTA
758671 TTAAATTTTTTATT
1 TTAAATTTTTTATT
758685 GCATATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 8 0.35
13 3 0.13
14 2 0.09
15 10 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAAATTTTTTATTA
Found at i:760960 original size:15 final size:15
Alignment explanation
Indices: 760940--760970 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
760930 AATCACATTC
760940 ATATTATATATACTA
1 ATATTATATATACTA
760955 ATATTATATATACTA
1 ATATTATATATACTA
760970 A
1 A
760971 GAGGATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTATATATACTA
Found at i:761549 original size:2 final size:2
Alignment explanation
Indices: 761542--761580 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
761532 ATGCCAATTT
761542 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
761581 TATTTGCACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:763868 original size:19 final size:19
Alignment explanation
Indices: 763844--763880 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
763834 TTCTATATTA
*
763844 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
763863 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
763881 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:763944 original size:3 final size:3
Alignment explanation
Indices: 763839--763927 Score: 65
Period size: 3 Copynumber: 28.7 Consensus size: 3
763829 TGAATTTCTA
* * * *
763839 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* *
763887 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA
763928 CATTTACTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
2 3 0.04
3 56 0.82
4 9 0.13
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:764127 original size:3 final size:3
Alignment explanation
Indices: 764107--764163 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
764097 GTATTTTTAC
*
764107 TAT TAT T-T CTAT TGT TAT TAT TAT TAT TAT TAT TAT TA- TATT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
*
764152 ATAA TAT TAT TA
1 -TAT TAT TAT TA
764164 ATAGGTACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 3 0.07
3 37 0.82
4 5 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:764551 original size:24 final size:26
Alignment explanation
Indices: 764524--764579 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
764514 ACTATCTTAT
764524 GTATATATTCAAACACTA-TA-TATA
1 GTATATATTCAAACACTATTACTATA
*
764548 GTATAT-TTCTAACACTATTACTATA
1 GTATATATTCAAACACTATTACTATA
764573 -TATATAT
1 GTATATAT
764580 ATATATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 10 0.36
24 13 0.46
25 5 0.18
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (26 bp):
GTATATATTCAAACACTATTACTATA
Found at i:764574 original size:22 final size:22
Alignment explanation
Indices: 764525--764577 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
764515 CTATCTTATG
764525 TATATA-TTCAAACACTATATA
1 TATATATTTCAAACACTATATA
*
764546 TAGTATATTTCTAACACTATTACTA
1 TA-TATATTTCAAACACTA-TA-TA
764571 TATATAT
1 TATATAT
764578 ATATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.07
22 4 0.15
23 10 0.37
24 7 0.26
25 4 0.15
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.43
Consensus pattern (22 bp):
TATATATTTCAAACACTATATA
Found at i:766176 original size:21 final size:20
Alignment explanation
Indices: 766147--766199 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
766137 ATTTTTGTTT
766147 TTAACTTTTTTATTTAATTA
1 TTAACTTTTTTATTTAATTA
766167 TTAACTTTTTTTATTTAATTA
1 TTAAC-TTTTTTATTTAATTA
*
766188 TTAACATTTTTA
1 TTAACTTTTTTA
766200 ACATATAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAACTTTTTTATTTAATTA
Found at i:770285 original size:33 final size:33
Alignment explanation
Indices: 770233--770363 Score: 154
Period size: 33 Copynumber: 4.0 Consensus size: 33
770223 GCGGACCACC
* * *
770233 CTGTGTTTGCTGTCTTGGAGGACTTACTCTGTT
1 CTGTGTTTACTGTCCTAGAGGACTTACTCTGTT
* * * * *
770266 CCGTGTTTATTGTCCTGGAGAACTTACTCTATT
1 CTGTGTTTACTGTCCTAGAGGACTTACTCTGTT
*
770299 CTGTGTTTACTGTCCTAGAGGATTTACTCTGTT
1 CTGTGTTTACTGTCCTAGAGGACTTACTCTGTT
* * *
770332 CTGTGTTTACTATCTTAGAGGACATACTCTGT
1 CTGTGTTTACTGTCCTAGAGGACTTACTCTGT
770364 GGATGCCATA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (33 bp):
CTGTGTTTACTGTCCTAGAGGACTTACTCTGTT
Found at i:771468 original size:40 final size:40
Alignment explanation
Indices: 771423--771560 Score: 249
Period size: 40 Copynumber: 3.5 Consensus size: 40
771413 GCTAGGTTTA
771423 TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
1 TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
* *
771463 TAACCCAGATATATTTTACCAGCACAAAGCCTACGAGATT
1 TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
*
771503 TAACCCGGATATATTTTACCAGCACAAAGCCTGCGGGATT
1 TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
771543 TAACCCGGATATATTTTA
1 TAACCCGGATATATTTTA
771561 TATTATATAT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
Found at i:775100 original size:17 final size:17
Alignment explanation
Indices: 775078--775110 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
775068 AAAATAACCA
*
775078 TTATCCAGGAACAACTC
1 TTATCCAAGAACAACTC
775095 TTATCCAAGAACAACT
1 TTATCCAAGAACAACT
775111 ATCATTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (17 bp):
TTATCCAAGAACAACTC
Found at i:780265 original size:63 final size:60
Alignment explanation
Indices: 780130--780251 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
780120 CATTATTGTG
*
780130 AATAAAATTTATATTATTCCTTCTCTATTTCTTTATATTTATGCTTATACAACTTATGTA
1 AATAAAATTTAAATTATTCCTTCTCTATTTCTTTATATTTATGCTTATACAACTTATGTA
*
780190 AATAAAATTTAAATTATTCCTTCTCTATTTTTTTTTCATATTTATGCTTATACAACTTATGT
1 AATAAAATTTAAATTATTCCTTCTCTA--TTTCTTT-ATATTTATGCTTATACAACTTATGT
780252 CCTTCTAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
60 26 0.46
62 6 0.11
63 25 0.44
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.52
Consensus pattern (60 bp):
AATAAAATTTAAATTATTCCTTCTCTATTTCTTTATATTTATGCTTATACAACTTATGTA
Found at i:781197 original size:54 final size:54
Alignment explanation
Indices: 781134--781244 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
781124 TGATTAACAC
*
781134 TAAATTTATTCTATTGAAAAAAAATCATGAAAAATTCAAACCTAATAATATTAG
1 TAAATTTATTCTATTGAAAAAAAATCATAAAAAATTCAAACCTAATAATATTAG
781188 TAAATTTATTCTATTGAAAAAAAATCATAAAAAATTCAAACCTAATAATATTAG
1 TAAATTTATTCTATTGAAAAAAAATCATAAAAAATTCAAACCTAATAATATTAG
781242 TAA
1 TAA
781245 TTAACTTTCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (54 bp):
TAAATTTATTCTATTGAAAAAAAATCATAAAAAATTCAAACCTAATAATATTAG
Found at i:785568 original size:20 final size:20
Alignment explanation
Indices: 785538--785639 Score: 80
Period size: 20 Copynumber: 5.1 Consensus size: 20
785528 ACAATGCTAT
*
785538 ACAGGGGCACCGAAGTGCAA
1 ACAGAGGCACCGAAGTGCAA
* * *
785558 GCAGAGGCACCGTAGTGTAA
1 ACAGAGGCACCGAAGTGCAA
* ** *
785578 ACAGGGGCACAAAAGTGAAA
1 ACAGAGGCACCGAAGTGCAA
* *
785598 ATAG-GGCACCAAAGTGCATA
1 ACAGAGGCACCGAAGTGCA-A
* *
785618 ACAAAGGCACTGAAGTGCAA
1 ACAGAGGCACCGAAGTGCAA
785638 AC
1 AC
785640 CCGTACAAGT
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
19 12 0.19
20 39 0.62
21 12 0.19
ACGTcount: A:0.40, C:0.21, G:0.29, T:0.10
Consensus pattern (20 bp):
ACAGAGGCACCGAAGTGCAA
Found at i:798954 original size:64 final size:64
Alignment explanation
Indices: 798853--798984 Score: 176
Period size: 64 Copynumber: 2.1 Consensus size: 64
798843 GTGAAGTTAA
* * * *
798853 ACCTACTATGGTTACGCTTCAATTAACAGATTGATCCTTAGCACCTCC-AGAAGGAAAAATTGAG
1 ACCTACTACGGTTACGCTTCAATTAACAGATCGATCCTTAGCACATCCGA-AAGGAAAAATCGAG
* * * *
798917 ACCTACTACGGTTACGCTTCAGTTAGCATATCGATCCTTAGCATATCCGAAAGGAAAAATCGAG
1 ACCTACTACGGTTACGCTTCAATTAACAGATCGATCCTTAGCACATCCGAAAGGAAAAATCGAG
798981 ACCT
1 ACCT
798985 TCAATTAGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
64 58 0.98
65 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (64 bp):
ACCTACTACGGTTACGCTTCAATTAACAGATCGATCCTTAGCACATCCGAAAGGAAAAATCGAG
Found at i:799008 original size:50 final size:50
Alignment explanation
Indices: 798933--799029 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
798923 TACGGTTACG
* * * *
798933 CTTCAGTTAGCATATCGATCCTTAGCATATCC-GAAAGGAAAAATCGAGAC
1 CTTCAATTAGCAGATCGATACTTAGCATATCCAG-AACGAAAAATCGAGAC
*
798983 CTTCAATTAGCAGATTGATACTTAGCATATCCAGAACGAAAAATCGA
1 CTTCAATTAGCAGATCGATACTTAGCATATCCAGAACGAAAAATCGA
799030 TGATGTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 40 0.98
51 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (50 bp):
CTTCAATTAGCAGATCGATACTTAGCATATCCAGAACGAAAAATCGAGAC
Found at i:803415 original size:21 final size:20
Alignment explanation
Indices: 803375--803423 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
803365 GACTCCAATG
803375 TCAAGCAAGGAACAAGATGA
1 TCAAGCAAGGAACAAGATGA
803395 CTCAAGCAA-GAACAAGAATGA
1 -TCAAGCAAGGAACAAG-ATGA
*
803416 TGAAGCAA
1 TCAAGCAA
803424 AAGATGGGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.10
Consensus pattern (20 bp):
TCAAGCAAGGAACAAGATGA
Found at i:806481 original size:17 final size:17
Alignment explanation
Indices: 806444--806482 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
806434 ATATGTGAGA
*
806444 TAAGTTAAATAATTAAT
1 TAAGTTAAATAATTAAC
* *
806461 TAAGTTAAATATTTTAC
1 TAAGTTAAATAATTAAC
806478 TAAGT
1 TAAGT
806483 GCGATTAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
TAAGTTAAATAATTAAC
Found at i:810023 original size:49 final size:48
Alignment explanation
Indices: 809818--810077 Score: 144
Period size: 48 Copynumber: 5.5 Consensus size: 48
809808 GAATATGAGT
* * * * ** *
809818 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCATTG--AGACGAGA
1 GCCAGTGTAAGACCTGTCTGGGACATGCATCGGCCTCGATAGATAAAA
* * *
809864 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGGAT--ATACAA
1 GCCAGTGTAAGACCTGTCTGGGACATGCATCGGCCTC--GATAGATAAAA
* * * * * * * * **
809912 GCTAGTGCAAAACCTGTCTAGGACATGGCGTCAG-CTTG-TTG-T--GT
1 GCCAGTGTAAGACCTGTCTGGGACAT-GCATCGGCCTCGATAGATAAAA
* * * * *
809956 GTCAGTGTAAGACTTGTCTGGGACATGGTATCGGCAC-CGATAGATGAGA
1 GCCAGTGTAAGACCTGTCTGGGACAT-GCATCGGC-CTCGATAGATAAAA
* *
810005 GCCAGTGTAAGACCTGTCTGGGACATGCATTGGCCTCGATATATAAAA
1 GCCAGTGTAAGACCTGTCTGGGACATGCATCGGCCTCGATAGATAAAA
* *
810053 GTCAGTGTAAGACCTGTTTGGGACA
1 GCCAGTGTAAGACCTGTCTGGGACA
810078 CAGCATTAAG
Statistics
Matches: 162, Mismatches: 38, Indels: 26
0.72 0.17 0.12
Matches are distributed among these distances:
44 25 0.15
45 2 0.01
46 38 0.23
47 2 0.01
48 65 0.40
49 30 0.19
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCTGTCTGGGACATGCATCGGCCTCGATAGATAAAA
Found at i:810064 original size:48 final size:49
Alignment explanation
Indices: 809956--810077 Score: 149
Period size: 48 Copynumber: 2.5 Consensus size: 49
809946 CTTGTTGTGT
* * * *
809956 GTCAGTGTAAGACTTGTCTGGGACATGGTATCGGCACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATAAAA
* * *
810005 GCCAGTGTAAGACCTGTCTGGGACAT-GCATTGGC-CTCGATATATAAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGATAGATAAAA
*
810053 GTCAGTGTAAGACCTGTTTGGGACA
1 GTCAGTGTAAGACCTGTCTGGGACA
810078 CAGCATTAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.02
48 38 0.60
49 24 0.38
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATAAAA
Found at i:812097 original size:43 final size:43
Alignment explanation
Indices: 812050--812201 Score: 205
Period size: 43 Copynumber: 3.4 Consensus size: 43
812040 GTTAGGATAT
* *
812050 TATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATGGGA
1 TATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGGA
812093 TATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCATATGGGA
1 TATTATAAGATATTATCTCTTAGCAATTTGATTCC---T---A-ATGGGA
*
812143 TATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
1 TATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGGA
*
812186 TATTATAGGATATTAT
1 TATTATAAGATATTAT
812202 TATGGGATAT
Statistics
Matches: 98, Mismatches: 4, Indels: 14
0.84 0.03 0.12
Matches are distributed among these distances:
43 53 0.54
44 1 0.01
46 1 0.01
47 1 0.01
49 1 0.01
50 41 0.42
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (43 bp):
TATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGGA
Found at i:812145 original size:50 final size:50
Alignment explanation
Indices: 812087--812188 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
812077 TTGATTCCTA
812087 ATGGGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCAT
1 ATGGGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCAT
812137 ATGGGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCAT
1 ATGGGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCAT
812187 AT
1 AT
812189 TATAGGATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (50 bp):
ATGGGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCAT
Found at i:812211 original size:56 final size:50
Alignment explanation
Indices: 812090--812235 Score: 193
Period size: 50 Copynumber: 2.8 Consensus size: 50
812080 ATTCCTAATG
*
812090 GGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCATATG
1 GGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCATATA
812140 GGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCATATTATA
1 GGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGC--A-TATA
* * * *
812193 GGATATTATTATGGGATATTAACTTTTAACAATTTGATTCCTA
1 GGATATTA-TA--AGATATTATCTCTTAGCAATTTGATTCCTA
812236 CATAACTACT
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
50 45 0.53
52 1 0.01
53 11 0.13
54 2 0.02
56 26 0.31
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (50 bp):
GGATATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCATATA
Found at i:812903 original size:27 final size:27
Alignment explanation
Indices: 812873--813050 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
812863 ATATTGAGTC
* * * *
812873 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
812900 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
812927 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
812955 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
812982 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
813009 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
813036 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
813051 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:813012 original size:82 final size:81
Alignment explanation
Indices: 812894--813049 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
812884 TGCTATATAA
* *
812894 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
812959 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
812976 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
813040 CACTTAGTGC
65 CACTTAGTGC
813050 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:819702 original size:27 final size:27
Alignment explanation
Indices: 819672--819849 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
819662 ATATTGAGTC
* * * *
819672 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
819699 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
819726 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
819754 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
819781 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
819808 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
819835 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
819850 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:819811 original size:82 final size:81
Alignment explanation
Indices: 819693--819848 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
819683 TGCTATATAA
* *
819693 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
819758 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
819775 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
819839 CACTTAGTGC
65 CACTTAGTGC
819849 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:822467 original size:49 final size:49
Alignment explanation
Indices: 822411--822644 Score: 270
Period size: 49 Copynumber: 4.7 Consensus size: 49
822401 TAGCCAAAGC
* *
822411 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
822460 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
822510 CATCTGATACACGTGGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* ** * *
822561 TATCGGGTATGCATAGTTGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
822610 AATCCGGTACACTTAGTAGCCTGCACTTAGTACTA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTA
822645 TGTAACACCC
Statistics
Matches: 155, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 72 0.46
50 48 0.31
51 35 0.23
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:823393 original size:27 final size:27
Alignment explanation
Indices: 823343--823432 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
823333 NNNNNNNNNN
** *
823343 ACTTAGTGCCGCATGGTCAATTCGCAC
1 ACTTAGTGCAACATAGTCAATTCGCAC
* * *
823370 ACTTAGTGCATCATATTCATTTCGCAC
1 ACTTAGTGCAACATAGTCAATTCGCAC
*
823397 ACTTAGTGCAACATAGTCAAATCGCAC
1 ACTTAGTGCAACATAGTCAATTCGCAC
823424 ACTTAGTGC
1 ACTTAGTGC
823433 TGTACAATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (27 bp):
ACTTAGTGCAACATAGTCAATTCGCAC
Found at i:828669 original size:23 final size:25
Alignment explanation
Indices: 828624--828669 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
828614 TAGAAACATC
* *
828624 AAAATAAATATTTCTCAACATATTG
1 AAAATAAATATTTCTAAAAATATTG
828649 AAAATAAAT-TTT-TAAAAATAT
1 AAAATAAATATTTCTAAAAATAT
828670 GTATACTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 3 0.16
25 9 0.47
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAATAAATATTTCTAAAAATATTG
Found at i:828746 original size:30 final size:30
Alignment explanation
Indices: 828710--828772 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
828700 ACTTAACAAG
*
828710 CAAATGC-TTCTAAAATAATAACAAAATTAA
1 CAAATGCGTT-TAAAATAATAAAAAAATTAA
828740 CAAATGCGTTTAAAATAATAAAAAAATTAA
1 CAAATGCGTTTAAAATAATAAAAAAATTAA
828770 CAA
1 CAA
828773 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCGTTTAAAATAATAAAAAAATTAA
Found at i:828827 original size:22 final size:22
Alignment explanation
Indices: 828802--828844 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
828792 TATCCAAACA
828802 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
828824 ATAATATTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
828845 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:831253 original size:17 final size:17
Alignment explanation
Indices: 831226--831281 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
831216 TAATTATTAC
*
831226 TTTTAGTTTATTTTTCA
1 TTTTAATTTATTTTTCA
831243 TTTTGAA-TTATTGATTT-A
1 TTTT-AATTTATT--TTTCA
831261 TTTTAATTTACTTTTTCA
1 TTTTAATTTA-TTTTTCA
831279 TTT
1 TTT
831282 CAACGTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
17 14 0.44
18 13 0.41
19 5 0.16
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTAATTTATTTTTCA
Found at i:832026 original size:8 final size:7
Alignment explanation
Indices: 832001--832031 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
831991 TTAATTTTAA
832001 TTAATAT
1 TTAATAT
832008 TTAATAT
1 TTAATAT
832015 TTAATAAT
1 TTAAT-AT
832023 TTAATAT
1 TTAATAT
832030 TT
1 TT
832032 TTTTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTAATAT
Found at i:832026 original size:15 final size:14
Alignment explanation
Indices: 832001--832031 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
831991 TTAATTTTAA
832001 TTAATATTTAATAT
1 TTAATATTTAATAT
832015 TTAATAATTTAATAT
1 TTAAT-ATTTAATAT
832030 TT
1 TT
832032 TTTTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATATTTAATAT
Found at i:832140 original size:21 final size:21
Alignment explanation
Indices: 832092--832140 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
832082 ATTTACATTA
832092 TAATA-TAT-TATTATTAATT
1 TAATATTATGTATTATTAATT
*
832111 TAATTTTATGTATTATTAATT
1 TAATATTATGTATTATTAATT
*
832132 TTATATTAT
1 TAATATTAT
832141 ATAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 18 0.72
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TAATATTATGTATTATTAATT
Found at i:838877 original size:20 final size:21
Alignment explanation
Indices: 838829--838891 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
838819 ATTCATTTCT
* *
838829 ATCCGTATGAACT-GTAATTC
1 ATCCGTATAAACTAGTAGTTC
* *
838849 ATTCATAT-AACTAGTAGTTC
1 ATCCGTATAAACTAGTAGTTC
*
838869 ATCCGTATAAAC-AATAGTTC
1 ATCCGTATAAACTAGTAGTTC
838889 ATC
1 ATC
838892 ACTAATAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 4 0.11
20 28 0.80
21 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (21 bp):
ATCCGTATAAACTAGTAGTTC
Found at i:838941 original size:20 final size:20
Alignment explanation
Indices: 838842--838941 Score: 62
Period size: 20 Copynumber: 5.0 Consensus size: 20
838832 CGTATGAACT
*
838842 GTAATTCATTCATAT-AACTA
1 GTAATTCATCCATATAAAC-A
* *
838862 GTAGTTCATCCGTATAAACA
1 GTAATTCATCCATATAAACA
* *
838882 ATAGTTCAT-CACTA-ATAACA
1 GTAATTCATCCA-TATA-AACA
* * * * *
838902 ATAATTTAACCGTATTAACA
1 GTAATTCATCCATATAAACA
838922 GTAATTCATCCATATAAACA
1 GTAATTCATCCATATAAACA
838942 CATATCTTAT
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
19 2 0.03
20 54 0.90
21 4 0.07
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (20 bp):
GTAATTCATCCATATAAACA
Found at i:839115 original size:25 final size:25
Alignment explanation
Indices: 839077--839202 Score: 81
Period size: 23 Copynumber: 5.3 Consensus size: 25
839067 CCATGATCGG
* * *
839077 TAAGCTCCTCTTGAGCTGATGAACAG
1 TAAGCT-CTATTGAGCTGATAAACAA
*
839103 TAAGCTTTATTGAGCT--TAAACAA
1 TAAGCTCTATTGAGCTGATAAACAA
* *
839126 TAAGCTCTATCGAGCTG---AACAG
1 TAAGCTCTATTGAGCTGATAAACAA
*
839148 TAAGCTC-ATACGAGCTG--AAACAA
1 TAAGCTCTAT-TGAGCTGATAAACAA
* * *
839171 TAAGCTCCAATGAGCTGA-AAACAG
1 TAAGCTCTATTGAGCTGATAAACAA
839195 TAAGCTCT
1 TAAGCTCT
839203 TACGAGCTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.02
22 18 0.22
23 36 0.43
24 13 0.16
25 8 0.10
26 6 0.07
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (25 bp):
TAAGCTCTATTGAGCTGATAAACAA
Found at i:839147 original size:45 final size:46
Alignment explanation
Indices: 839096--839210 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 46
839086 CTTGAGCTGA
* * * *
839096 TGAACAGTAAGCTTTAT-TGAGCTTAAACAATAAGCT-CTATCGAGC
1 TGAACAGTAAGCTTCATACGAGCTGAAACAATAAGCTCCAAT-GAGC
839141 TGAACAGTAAGC-TCATACGAGCTGAAACAATAAGCTCCAATGAGC
1 TGAACAGTAAGCTTCATACGAGCTGAAACAATAAGCTCCAATGAGC
*
839186 TGAAAACAGTAAGC-TCTTACGAGCT
1 TG--AACAGTAAGCTTCATACGAGCT
839211 AATATATTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
44 3 0.05
45 35 0.57
46 3 0.05
47 20 0.33
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (46 bp):
TGAACAGTAAGCTTCATACGAGCTGAAACAATAAGCTCCAATGAGC
Found at i:839177 original size:23 final size:23
Alignment explanation
Indices: 839114--839210 Score: 101
Period size: 23 Copynumber: 4.2 Consensus size: 23
839104 AAGCTTTATT
*
839114 GAGCTTAAACAATAAGCTC-TATC
1 GAGCTGAAACAATAAGCTCATA-C
*
839137 GAGCTG-AACAGTAAGCTCATAC
1 GAGCTGAAACAATAAGCTCATAC
*
839159 GAGCTGAAACAATAAGCTCCA-AT
1 GAGCTGAAACAATAAGCT-CATAC
* *
839182 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTG-AAACAATAAGCTCATAC
839206 GAGCT
1 GAGCT
839211 AATATATTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
22 18 0.29
23 25 0.40
24 19 0.31
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (23 bp):
GAGCTGAAACAATAAGCTCATAC
Found at i:840059 original size:21 final size:20
Alignment explanation
Indices: 840012--840059 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
840002 AAATCATTTT
*
840012 ATAAAACTTGTTAATCTAGC
1 ATAAAACTTGATAATCTAGC
* * *
840032 TTCAAACTTTGATAATCTATC
1 ATAAAAC-TTGATAATCTAGC
840053 ATAAAAC
1 ATAAAAC
840060 ATCTAAACAA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (20 bp):
ATAAAACTTGATAATCTAGC
Found at i:842456 original size:49 final size:49
Alignment explanation
Indices: 842396--842664 Score: 205
Period size: 49 Copynumber: 5.6 Consensus size: 49
842386 CATCAAAGTT
* *
842396 GATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATTGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
* * * * * *
842445 GATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCC
* * *
842494 GATGCCATGTCCCAGACAGGTCTTACACTAACTTGT-ATATCTCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAGGCC
* * * * * **
842543 GATG-GATGTCCCAGACATGTCTTACACT-AGCTCTCATCT-T-AATACC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCC
* * * * * *
842589 GAT-ACATGTCCTAGACATGTTTTACACTGGCTTGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAGGCC
* *
842637 GATG-CATGTCCCATACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
842665 AGCACACATA
Statistics
Matches: 172, Mismatches: 37, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
46 31 0.18
47 5 0.03
48 55 0.32
49 79 0.46
50 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
Found at i:842508 original size:98 final size:97
Alignment explanation
Indices: 842396--842667 Score: 284
Period size: 94 Copynumber: 2.8 Consensus size: 97
842386 CATCAAAGTT
* * *
842396 GATGCCATGTCCCAGACAGGTCTTACATTGACTT-TCATATATTGAGGCCGATGCCG-TGTCCCA
1 GATGCCATGTCCCAGACAGGTCTTACACTAACTTGT-ATATATCGAGGCCGATG--GATGTCCCA
* *
842459 GATAGGTCTTACACTGGCTCTCATCTATCGGTGTC
63 GACAGGTCTTACACTAGCTCTCATCTATCGGTGTC
* *
842494 GATGCCATGTCCCAGACAGGTCTTACACTAACTTGTATATCTCGAGGCTGATGGATGTCCCAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTAACTTGTATATATCGAGGCCGATGGATGTCCCAGAC
* ** **
842559 ATGTCTTACACTAGCTCTCATCT-T-AATACC
66 AGGTCTTACACTAGCTCTCATCTATCGGTGTC
* * * * ** * * *
842589 GAT-ACATGTCCTAGACATGTTTTACACTGGCTTGTATATCTCGAGGCCGATGCATGTCCCATAC
1 GATGCCATGTCCCAGACAGGTCTTACACTAACTTGTATATATCGAGGCCGATGGATGTCCCAGAC
*
842653 ATGTCTTACACTAGC
66 AGGTCTTACACTAGC
842668 ACACATATCA
Statistics
Matches: 151, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
94 67 0.44
95 5 0.03
96 2 0.01
97 30 0.20
98 46 0.30
99 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (97 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAACTTGTATATATCGAGGCCGATGGATGTCCCAGAC
AGGTCTTACACTAGCTCTCATCTATCGGTGTC
Found at i:849088 original size:28 final size:28
Alignment explanation
Indices: 849023--849089 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
849013 CGACCGGGCA
*
849023 CACGCCTGTATGCCTTACACGGCCATGG
1 CACGCCTGTGTGCCTTACACGGCCATGG
849051 CACGCCTGTGTGCCTTACACGGCCATGG
1 CACGCCTGTGTGCCTTACACGGCCATGG
849079 CACGCCTGTGT
1 CACGCCTGTGT
849090 CGTAGCCCGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.15, C:0.36, G:0.27, T:0.22
Consensus pattern (28 bp):
CACGCCTGTGTGCCTTACACGGCCATGG
Found at i:851535 original size:8 final size:8
Alignment explanation
Indices: 851522--851546 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
851512 ATGCATAGTT
851522 TTTTTTTA
1 TTTTTTTA
851530 TTTTTTTA
1 TTTTTTTA
851538 TTTTTTTA
1 TTTTTTTA
851546 T
1 T
851547 AGCAAGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:859729 original size:49 final size:49
Alignment explanation
Indices: 859573--859753 Score: 163
Period size: 49 Copynumber: 3.7 Consensus size: 49
859563 CATGGGATAA
* * *
859573 GATGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATC
1 GATGTCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATC
* * * * * * *
859621 AAAGTCGATG-CATGTCCCAGATAGGTCTTATACTGACTTTCATATATC
1 GATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATC
* * * *
859669 GAAT-CCAATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATC
1 G-ATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATC
* * *
859718 GGTGTCGATGCCATGTCCCAGAAAAGTCTTACACTG
1 GATGTCGATGCCATGTCCCAGACAGGTCTTACACTG
859754 ACATATAACA
Statistics
Matches: 102, Mismatches: 26, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
46 15 0.15
47 12 0.12
48 14 0.14
49 61 0.60
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATC
Found at i:859839 original size:48 final size:46
Alignment explanation
Indices: 859682--859893 Score: 155
Period size: 46 Copynumber: 4.5 Consensus size: 46
859672 TCCAATGCCG
* * * *
859682 TGTCCCAGACAGGTCTTACACTGGCTCTCATCT-ATCGGTGTCGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCTCTCATCTCA-AGG-CT-GATG-CA
* * * **
859731 TGTCCCAGAAAAGTCTTACACT-GAC-AT-ATAACAA-GCTGATGCCA
1 TGTCCCAGACATGTCTTACACTAG-CTCTCATCTCAAGGCTGATG-CA
* * * *
859775 TGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGGCTGATGCA
* * * *
859823 TGTTCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCTGATGCA
*
859869 TGTGCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
859894 ACACATATCA
Statistics
Matches: 133, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
44 29 0.22
45 2 0.02
46 39 0.29
47 4 0.03
48 31 0.23
49 28 0.21
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCTGATGCA
Found at i:875357 original size:16 final size:17
Alignment explanation
Indices: 875324--875364 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
875314 ACATTTCATG
875324 TCATATC-ATAATCTAA
1 TCATATCAATAATCTAA
*
875340 TCATATCAATACTC-AA
1 TCATATCAATAATCTAA
875356 TCATCATCA
1 TCAT-ATCA
875365 CTTATACATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (17 bp):
TCATATCAATAATCTAA
Found at i:876522 original size:23 final size:23
Alignment explanation
Indices: 876493--876591 Score: 139
Period size: 23 Copynumber: 4.3 Consensus size: 23
876483 CCGATGAACA
876493 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACG
876516 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACG
*
876539 GTAAGCTCTATTGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACG
* *
876561 GTAACCTC-ATACGAGCTGAAACG
1 GTAAGCTCTAT-TGAGCTGAAACG
*
876584 ATAAGCTC
1 GTAAGCTC
876592 CAATAAGCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.03
22 16 0.24
23 50 0.74
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACG
Found at i:876604 original size:23 final size:23
Alignment explanation
Indices: 876506--876604 Score: 62
Period size: 23 Copynumber: 4.3 Consensus size: 23
876496 AGCTCTATTG
* * * *
876506 AGCTGAAACGGTAAGCTCTATTG
1 AGCTGAAACGATAAGCTCCAATA
* * * *
876529 AGCTGAAACGGTAAGCTCTATTG
1 AGCTGAAACGATAAGCTCCAATA
*
876552 AGCTG-AAC-AGTAACCT-C-ATA
1 AGCTGAAACGA-TAAGCTCCAATA
876572 CGAGCTGAAACGATAAGCTCCAATA
1 --AGCTGAAACGATAAGCTCCAATA
876597 AGCTGAAA
1 AGCTGAAA
876605 ATAGTAAGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
20 1 0.02
22 13 0.21
23 44 0.70
24 2 0.03
25 3 0.05
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (23 bp):
AGCTGAAACGATAAGCTCCAATA
Found at i:876818 original size:23 final size:24
Alignment explanation
Indices: 876784--876839 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
876774 GCATTTAATG
*
876784 ATCA-ATA-ATTCAATT-TATCAA
1 ATCATATACATTCAATTCAATCAA
*
876805 ATCATATACATTCAATTCAATTAA
1 ATCATATACATTCAATTCAATCAA
876829 AT-ATATACATT
1 ATCATATACATT
876840 TAAATACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 17 0.57
24 6 0.20
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
ATCATATACATTCAATTCAATCAA
Found at i:882970 original size:20 final size:21
Alignment explanation
Indices: 882947--882997 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
882937 CAAGCTTATA
882947 GCTCAACATA-GGTTGATT-TG
1 GCTCAACATAGGGTTG-TTGTG
*
882967 GCTCGACATAGGGTTGTTGTG
1 GCTCAACATAGGGTTGTTGTG
882988 GCTCAACATA
1 GCTCAACATA
882998 AGGATGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (21 bp):
GCTCAACATAGGGTTGTTGTG
Found at i:884372 original size:16 final size:17
Alignment explanation
Indices: 884353--884385 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
884343 TTTTATAGGT
884353 TAATTAATT-TAATTTA
1 TAATTAATTCTAATTTA
*
884369 TAATTATTTCTAATTTA
1 TAATTAATTCTAATTTA
884386 GGCTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTAATTCTAATTTA
Found at i:887580 original size:8 final size:8
Alignment explanation
Indices: 887551--887601 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
887541 GCAGTCAAAC
*
887551 TTTCAGCT
1 TTTCGGCT
* *
887559 TTTTGGCA
1 TTTCGGCT
887567 TTTCGGCT
1 TTTCGGCT
887575 TTTCGGCT
1 TTTCGGCT
*
887583 TTTCGACT
1 TTTCGGCT
*
887591 TTTTGGCT
1 TTTCGGCT
887599 TTT
1 TTT
887602 GCCGATCTAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.06, C:0.20, G:0.20, T:0.55
Consensus pattern (8 bp):
TTTCGGCT
Found at i:887598 original size:16 final size:16
Alignment explanation
Indices: 887557--887601 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
887547 AAACTTTCAG
* *
887557 CTTTTTGGCATTTCGG
1 CTTTTTGGCTTTTCGA
*
887573 CTTTTCGGCTTTTCGA
1 CTTTTTGGCTTTTCGA
887589 CTTTTTGGCTTTT
1 CTTTTTGGCTTTT
887602 GCCGATCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.04, C:0.20, G:0.20, T:0.56
Consensus pattern (16 bp):
CTTTTTGGCTTTTCGA
Found at i:888836 original size:16 final size:16
Alignment explanation
Indices: 888812--888843 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
888802 AAATTTAAAA
888812 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
888828 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
888844 GCATTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:899475 original size:21 final size:21
Alignment explanation
Indices: 899436--899475 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
899426 TTAGAGATTA
*
899436 ATTTAATTTCTTTAGATTATT
1 ATTTAATTTCTATAGATTATT
899457 ATTTAATTTACTATA-ATTA
1 ATTTAATTT-CTATAGATTA
899476 AACAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTAATTTCTATAGATTATT
Found at i:904807 original size:9 final size:9
Alignment explanation
Indices: 904793--904849 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
904783 ATCTCATGTG
904793 CATATCATA
1 CATATCATA
*
904802 CATATCATGTG
1 CATATCA--TA
904813 CATATCATA
1 CATATCATA
* *
904822 CATGTCATGTG
1 CATATCA--TA
904833 CATATCATA
1 CATATCATA
904842 CATATCAT
1 CATATCAT
904850 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:904809 original size:20 final size:20
Alignment explanation
Indices: 904781--904851 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
904771 GCATTTATGA
*
904781 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
904801 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
904821 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
904841 ACATATCATGT
1 ACATATCATGT
904852 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:904816 original size:11 final size:11
Alignment explanation
Indices: 904786--904840 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
904776 TATGAACATC
904786 TCATGTGCATA
1 TCATGTGCATA
*
904797 TCA--TACATA
1 TCATGTGCATA
904806 TCATGTGCATA
1 TCATGTGCATA
* *
904817 TCA--TACATG
1 TCATGTGCATA
904826 TCATGTGCATA
1 TCATGTGCATA
904837 TCAT
1 TCAT
904841 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:906475 original size:27 final size:27
Alignment explanation
Indices: 906437--906491 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
906427 GCTCCATGGC
906437 CTCCAAGTTTGAGAGAATTTCTTTAAA
1 CTCCAAGTTTGAGAGAATTTCTTTAAA
906464 CTCCAAGTTTGAGAGAATTTCTTTAAA
1 CTCCAAGTTTGAGAGAATTTCTTTAAA
906491 C
1 C
906492 ACTATTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
CTCCAAGTTTGAGAGAATTTCTTTAAA
Found at i:907368 original size:48 final size:48
Alignment explanation
Indices: 907274--907377 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
907264 TGTGCTAAGC
* * *
907274 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
**
907322 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
*
907370 ATAAGACC
1 GTAAGACC
907378 ATAGTTGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.17
48 40 0.83
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:909961 original size:38 final size:38
Alignment explanation
Indices: 909900--910012 Score: 154
Period size: 38 Copynumber: 2.9 Consensus size: 38
909890 ATTTGATGTG
*
909900 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
909940 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * *
909978 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
910013 TTATATTCGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 54 0.81
39 5 0.07
40 8 0.12
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:910013 original size:38 final size:38
Alignment explanation
Indices: 909916--910023 Score: 162
Period size: 38 Copynumber: 2.8 Consensus size: 38
909906 GGCTTAAAGA
** *
909916 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
909954 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
909992 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
910024 CCTTCGTGCC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:910183 original size:43 final size:43
Alignment explanation
Indices: 910016--910170 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
910006 GCTGGTATTA
* * *
910016 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGTCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
910059 TATTCGGGCCTTCGTACCTAGCAGGCTTCGCGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
910102 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
910145 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
910171 GTAATGCCGG
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:911801 original size:31 final size:31
Alignment explanation
Indices: 911766--911827 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
911756 TCTAATGGCC
911766 ATATACAAAATAATCATAATACTTTCATGAG
1 ATATACAAAATAATCATAATACTTTCATGAG
911797 ATATACAAAATAATCATAATACTTTCATGAG
1 ATATACAAAATAATCATAATACTTTCATGAG
911828 CAAACTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (31 bp):
ATATACAAAATAATCATAATACTTTCATGAG
Found at i:915773 original size:27 final size:27
Alignment explanation
Indices: 915742--915923 Score: 247
Period size: 27 Copynumber: 6.7 Consensus size: 27
915732 TTAGTTTACC
915742 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
915769 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
915796 AAATCACCAAAACACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
915823 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
915850 AAATTACCAAAAAACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
915877 AAATTACCAAAATACCCTTGGTATGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
915904 AAATTACTAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
915924 TAGGGTAGAA
Statistics
Matches: 131, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:915820 original size:54 final size:54
Alignment explanation
Indices: 915742--915923 Score: 283
Period size: 54 Copynumber: 3.4 Consensus size: 54
915732 TTAGTTTACC
*
915742 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
915796 AAATCACCAAAACACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
915850 AAATTACCAAAAAACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTATGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
915904 AAATTACTAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
915924 TAGGGTAGAA
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:915935 original size:27 final size:27
Alignment explanation
Indices: 915878--916028 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
915868 TGGTTTGTAA
* * * *
915878 AATTACCAAAATACCCTTGGTA-TGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
**
915905 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
915932 AATTACCGAAATACTCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
915959 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
915986 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
916013 AATTACCGAGATACCC
1 AATTACCGAAATACCC
916029 TAGGGTGTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.03
27 102 0.97
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:915971 original size:54 final size:54
Alignment explanation
Indices: 915913--916028 Score: 187
Period size: 54 Copynumber: 2.1 Consensus size: 54
915903 AAAATTACTA
* *
915913 AAATACCCCTGTAGGGTAGAATTACCGAAATACTCTTATAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACCG
* *
915967 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACCG
*
916021 AGATACCC
1 AAATACCC
916029 TAGGGTGTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACCG
Found at i:916352 original size:67 final size:67
Alignment explanation
Indices: 916244--916455 Score: 379
Period size: 67 Copynumber: 3.2 Consensus size: 67
916234 GAGGAAGCGT
** * * *
916244 TCTGGCAGCCTCGCTGCAATCTAGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTTACAGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
916309 TA
66 TA
916311 TCTGGCAGCCTTACAGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTTACAGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
916376 TA
66 TA
916378 TCTGGCAGCCTTACAGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTTACAGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
916443 TA
66 TA
916445 TCTGGCAGCCT
1 TCTGGCAGCCT
916456 CGCTGCAATT
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 140 1.00
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTTACAGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:916368 original size:27 final size:26
Alignment explanation
Indices: 916330--916381 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
916320 CTTACAGCAA
*
916330 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
916357 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
916382 GCAGCCTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:916435 original size:27 final size:26
Alignment explanation
Indices: 916397--916448 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
916387 CTTACAGCAA
*
916397 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
916424 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
916449 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:916598 original size:25 final size:24
Alignment explanation
Indices: 916570--916639 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 24
916560 CATTCACATT
916570 CTGATTTTGATTCTG-TTACCTGAT-A
1 CTGATTTTGATTCTGATT--CT-ATCA
*
916595 CTGATTCTGATTCTGATTCTATCA
1 CTGATTTTGATTCTGATTCTATCA
916619 CTTGATTTTGATTCTGATTCT
1 C-TGATTTTGATTCTGATTCT
916640 GATTCTAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.05
24 4 0.10
25 32 0.80
26 2 0.05
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (24 bp):
CTGATTTTGATTCTGATTCTATCA
Found at i:916602 original size:31 final size:31
Alignment explanation
Indices: 916567--916646 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
916557 TTGCATTCAC
* * *
916567 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
* **
916598 ATTCTGATTCTGATTCTATCACTTGATTTTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
916629 ATTCTGATTCTGATTCTA
1 ATTCTGATTCTGATTCTA
916647 GTTCTGATGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATCACCTGATACTG
Found at i:916662 original size:22 final size:22
Alignment explanation
Indices: 916634--916676 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
916624 TTTTGATTCT
916634 GATTCTGATTCTAGTTCTGATG
1 GATTCTGATTCTAGTTCTGATG
*
916656 GATTCTGATTGTAGTTCTGAT
1 GATTCTGATTCTAGTTCTGAT
916677 AATGTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.12, G:0.23, T:0.47
Consensus pattern (22 bp):
GATTCTGATTCTAGTTCTGATG
Found at i:916665 original size:6 final size:6
Alignment explanation
Indices: 916567--916654 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
916557 TTGCATTCAC
* *
916567 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
916615 ATCACTTG ATTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
916655 GGATTCTGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 5 0.08
6 53 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:918112 original size:14 final size:14
Alignment explanation
Indices: 918083--918173 Score: 62
Period size: 14 Copynumber: 6.5 Consensus size: 14
918073 ATAAAGCAAT
918083 AATAAGAATAAG-AA
1 AATAA-AATAAGAAA
918097 AATAAAATAAGAAA
1 AATAAAATAAGAAA
* * *
918111 AATAAAAAAATAAC
1 AATAAAATAAGAAA
* *
918125 AGT--AATAAGAAC
1 AATAAAATAAGAAA
918137 AATAAAAATAAGTAAA
1 AAT-AAAATAAG-AAA
* *
918153 AAGAAAAAAAGAAA
1 AATAAAATAAGAAA
*
918167 AAGAAAA
1 AATAAAA
918174 CAAATAATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
12 9 0.15
13 6 0.10
14 30 0.48
15 13 0.21
16 4 0.06
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (14 bp):
AATAAAATAAGAAA
Found at i:918241 original size:28 final size:28
Alignment explanation
Indices: 918205--918262 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
918195 AAGTAATAAG
*
918205 AATAATTAAATAAATAAAAGAGAGGGGC
1 AATAATTAAATAAATAAAAAAGAGGGGC
918233 AATAATTAAATAAATAAAAAAGAGGGGC
1 AATAATTAAATAAATAAAAAAGAGGGGC
918261 AA
1 AA
918263 AAGTGGGGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.60, C:0.03, G:0.19, T:0.17
Consensus pattern (28 bp):
AATAATTAAATAAATAAAAAAGAGGGGC
Found at i:922296 original size:42 final size:42
Alignment explanation
Indices: 922220--922303 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
922210 TATATGTATA
*
922220 TATATATATAGCCAAAGCTATTCCGATTCACACACTAAGTGC
1 TATATATATAGCCAAAGCTATTCCGAATCACACACTAAGTGC
* *
922262 TATATATATAGCCAAAGTTA-TCTCGAAAT-GCACACTAAGTGC
1 TATATATATAGCCAAAGCTATTC-CG-AATCACACACTAAGTGC
922304 CAAACATAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.05
42 33 0.89
43 2 0.05
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (42 bp):
TATATATATAGCCAAAGCTATTCCGAATCACACACTAAGTGC
Found at i:923967 original size:15 final size:15
Alignment explanation
Indices: 923947--923977 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
923937 TTCAAACTAT
923947 CATGTATTACTTTCA
1 CATGTATTACTTTCA
923962 CATGTATTACTTTCA
1 CATGTATTACTTTCA
923977 C
1 C
923978 TTTTTCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (15 bp):
CATGTATTACTTTCA
Found at i:933234 original size:28 final size:28
Alignment explanation
Indices: 933194--933251 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
933184 CGGCCCAGAC
*
933194 TAGTTCTGAATTCTTTCTGTTTACTAAT
1 TAGTTATGAATTCTTTCTGTTTACTAAT
933222 TAGTTATGAATTCTTTCTGTTTACTAAT
1 TAGTTATGAATTCTTTCTGTTTACTAAT
933250 TA
1 TA
933252 TTTTAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.53
Consensus pattern (28 bp):
TAGTTATGAATTCTTTCTGTTTACTAAT
Found at i:938504 original size:21 final size:19
Alignment explanation
Indices: 938466--938505 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
938456 AAATAGAAAC
938466 AAAACAAAAAATTTCAAAA
1 AAAACAAAAAATTTCAAAA
*
938485 AAAACTAACAAATATTCAAAA
1 AAAAC-AAAAAAT-TTCAAAA
938506 TAGGGGTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAACAAAAAATTTCAAAA
Found at i:939681 original size:20 final size:20
Alignment explanation
Indices: 939634--939700 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
939624 ACACCATACT
*
939634 AGAGGCATCATAGATGCATAAC
1 AGAGGCATCAAAG-TGCA-AAC
* *
939656 AAAGGCATCAAAGTTCAAAC
1 AGAGGCATCAAAGTGCAAAC
*
939676 AGAGGCA-CAAATGTGCAAGC
1 AGAGGCATCAAA-GTGCAAAC
939696 AGAGG
1 AGAGG
939701 AACTTAGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
19 4 0.11
20 20 0.53
21 3 0.08
22 11 0.29
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.13
Consensus pattern (20 bp):
AGAGGCATCAAAGTGCAAAC
Found at i:939743 original size:20 final size:20
Alignment explanation
Indices: 939715--939773 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
939705 TAGTGTGAAT
*
939715 AGAGACACCGAAATGCAAAC
1 AGAGACACCGAAATGCAAAA
* *
939735 AGAGGCACC-AAAGTGAAAAA
1 AGAGACACCGAAA-TGCAAAA
*
939755 AGAGACACCGAAGTGCAAA
1 AGAGACACCGAAATGCAAA
939774 TCACGTACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 3 0.10
20 26 0.84
21 2 0.06
ACGTcount: A:0.51, C:0.20, G:0.24, T:0.05
Consensus pattern (20 bp):
AGAGACACCGAAATGCAAAA
Found at i:946487 original size:21 final size:21
Alignment explanation
Indices: 946462--946502 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
946452 CATATTCACC
946462 TACACAAATCCATTCATCTTA
1 TACACAAATCCATTCATCTTA
946483 TACACAAATCCATTCATCTT
1 TACACAAATCCATTCATCTT
946503 TTAACATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (21 bp):
TACACAAATCCATTCATCTTA
Found at i:951416 original size:17 final size:18
Alignment explanation
Indices: 951389--951422 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
951379 AATCAAATAT
951389 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
951407 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
951423 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:961234 original size:43 final size:43
Alignment explanation
Indices: 961185--961511 Score: 417
Period size: 43 Copynumber: 7.6 Consensus size: 43
961175 ATGTGTACAA
* *
961185 GTAAGACCACGTCTAGGATGTTGGCATCGATATGTGATTACGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
* * * *
961228 GCAAGACCATGTCTGGGACGTTGGCATTGATATGTGATTACAT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
* * *
961271 GTAAGACCACGTCTGAGACGTTGGCATTGATATGTGATTATGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
* * *
961314 GTAAGACCATGTCTGAGACGTTGGCATCGATATGTGATTATGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
* * *
961357 G-AAGACCATGTCTAGGACGTTGGCATCGATATGTGATTATGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
* * * *
961399 GTAAGACCATGTCTGGGACGTTGGCATCGATATATGTTTACGA
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
* *
961442 GTAAGA-CACTGTTTGGGACAG-TGGCATCGATATGTGATTACAT
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACGT
*
961485 GTAAGACCACGTTTGGGACGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
961512 TGTACGATAT
Statistics
Matches: 253, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
42 43 0.17
43 206 0.81
44 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
Found at i:961476 original size:171 final size:171
Alignment explanation
Indices: 961187--961511 Score: 467
Period size: 171 Copynumber: 1.9 Consensus size: 171
961177 GTGTACAAGT
*
961187 AAGACCACGTCTAGGATGTTGGCATCGATATGTGATTACGTGCAAGACCATGTCTGGGACGTTGG
1 AAGACCACGTCTAGGACGTTGGCATCGATATGTGATTACGTGCAAGACCATGTCTGGGACGTTGG
* * * **
961252 CATTGATATGTGATTACATGTAAGACCACGTCTGAGACGTTGGCATTGATATGTGATTATGTGTA
66 CATCGATATATGATTACATGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGATTACATGTA
*
961317 AGACCATGTCTGAGACGTTGGCATCGATATGTGATTATGTG
131 AGACCACGTCTGAGACGTTGGCATCGATATGTGATTATGTG
* * *
961358 AAGACCATGTCTAGGACGTTGGCATCGATATGTGATTATGTGTAAGACCATGTCTGGGACGTTGG
1 AAGACCACGTCTAGGACGTTGGCATCGATATGTGATTACGTGCAAGACCATGTCTGGGACGTTGG
* * *
961423 CATCGATATATGTTTACGA-GTAAGA-CACTGTTTGGGACAG-TGGCATCGATATGTGATTACAT
66 CATCGATATATGATTAC-ATGTAAGACCAC-GTCTGAGAC-GTTGGCATCGATATGTGATTACAT
* *
961485 GTAAGACCACGTTTGGGACGTTGGCAT
128 GTAAGACCACGTCTGAGACGTTGGCAT
961512 TGTACGATAT
Statistics
Matches: 136, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
170 3 0.02
171 131 0.96
172 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (171 bp):
AAGACCACGTCTAGGACGTTGGCATCGATATGTGATTACGTGCAAGACCATGTCTGGGACGTTGG
CATCGATATATGATTACATGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGATTACATGTA
AGACCACGTCTGAGACGTTGGCATCGATATGTGATTATGTG
Found at i:972795 original size:20 final size:20
Alignment explanation
Indices: 972762--972799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
972752 ACTAATTGTG
*
972762 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
972782 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
972800 GGTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:978469 original size:30 final size:29
Alignment explanation
Indices: 978273--978479 Score: 254
Period size: 29 Copynumber: 7.1 Consensus size: 29
978263 GTATCGATGC
* * *
978273 CCATTGAATATAAAAAGGGATGATTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
978302 CCATCGAATATGAAAAGGGGTGGTGATC-A
1 CCATCGAATATGAAAAGGGATGGT-TTCGA
* **
978331 CCATCGAATATGGAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
978360 CCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
978389 CCATCGAATATGAAAAGGGATGGCTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
*
978418 TCATCGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* * * *
978447 CCATCTATTAAAGAAAATGGATGGTTTCGA
1 CCATCGAAT-ATGAAAAGGGATGGTTTCGA
978477 CCA
1 CCA
978480 CCGTTTAGCA
Statistics
Matches: 153, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
28 1 0.01
29 129 0.84
30 23 0.15
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:982070 original size:27 final size:27
Alignment explanation
Indices: 982040--982217 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
982030 ATATTGAGTC
* * * *
982040 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
982067 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
982094 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
982122 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
982149 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
982176 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
982203 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
982218 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:982179 original size:82 final size:81
Alignment explanation
Indices: 982061--982216 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
982051 TGCTATATAA
* *
982061 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
982126 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
982143 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
982207 CACTTAGTGC
65 CACTTAGTGC
982217 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:982889 original size:129 final size:129
Alignment explanation
Indices: 982743--982998 Score: 503
Period size: 129 Copynumber: 2.0 Consensus size: 129
982733 CGAATCGACT
982743 AATAAATAACTCATTGGCAAATTTTCATTAATGTTTACAACAAAATCACATATTCACTACGAGCT
1 AATAAATAACTCATTGGCAAATTTTCATTAATGTTTACAACAAAATCACATATTCACTACGAGCT
982808 GTTTTCCTGAGCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTATC
66 GTTTTCCTGAGCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTATC
*
982872 AATAAATAACTCATTGGCAAATTTTCATTAATGTTTACAACAAAATCACATATTCACTACGAGTT
1 AATAAATAACTCATTGGCAAATTTTCATTAATGTTTACAACAAAATCACATATTCACTACGAGCT
982937 GTTTTCCTGAGCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTA
66 GTTTTCCTGAGCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTA
982999 GCCGTTAATT
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (129 bp):
AATAAATAACTCATTGGCAAATTTTCATTAATGTTTACAACAAAATCACATATTCACTACGAGCT
GTTTTCCTGAGCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTATC
Found at i:984590 original size:23 final size:23
Alignment explanation
Indices: 984555--984599 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
984545 TTGCAAACTG
* *
984555 TTAAAACCTTCATTGTCTTATAT
1 TTAAAACCCTCATTGTCCTATAT
*
984578 TTAAAGCCCTCATTGTCCTATA
1 TTAAAACCCTCATTGTCCTATA
984600 CTTGCAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (23 bp):
TTAAAACCCTCATTGTCCTATAT
Found at i:986072 original size:13 final size:13
Alignment explanation
Indices: 986056--986081 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
986046 TAATTAAAGG
986056 GTTAAAATTTAAA
1 GTTAAAATTTAAA
986069 GTTAAAATTTAAA
1 GTTAAAATTTAAA
986082 AATGATCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:986148 original size:9 final size:9
Alignment explanation
Indices: 986134--986199 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
986124 AACTTTGGAT
986134 CATAACTTA
1 CATAACTTA
986143 CATAACTTA
1 CATAACTTA
986152 CATAACTTA
1 CATAACTTA
*
986161 TATAA--TA
1 CATAACTTA
*
986168 CATAA-ATA
1 CATAACTTA
* * *
986176 TATATCATA
1 CATAACTTA
986185 TCATAACTTA
1 -CATAACTTA
986195 CATAA
1 CATAA
986200 AACTTTGGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.13
8 5 0.11
9 30 0.64
10 6 0.13
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:990578 original size:7 final size:7
Alignment explanation
Indices: 990566--990593 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
990556 TTGGGTAAGG
990566 TCTCTTC
1 TCTCTTC
990573 TCTCTTC
1 TCTCTTC
990580 TCTCTTC
1 TCTCTTC
990587 TCTCTTC
1 TCTCTTC
990594 AATTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (7 bp):
TCTCTTC
Found at i:995565 original size:42 final size:43
Alignment explanation
Indices: 995465--995721 Score: 236
Period size: 42 Copynumber: 6.0 Consensus size: 43
995455 AGAACATGAC
* * * * **
995465 CTTTAGTGGCGTTTTTGGGAAAAACGTCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTT
** * *
995508 CTTTAGCGGCGTTTGTGGGGAAAGTGCTGCTAGAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTT
* * *
995551 -TTTAGCGGCATTTGTGGGGAAAGCACCGATAAAGGTAATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTT
* *
995593 -TTCTAGCAGCGTTTGTGGGGTAAGCACCGCTAAAGGTCATGTT
1 CTT-TAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTT
* * * *
995636 CTTTAGAGGTC-TTTGTGCGG-CAGCACCGGTAAAGGTCATGTT
1 CTTTAGCGG-CGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTT
* ** ** *
995678 CTATAGCGGTATTTGTAAGG-AAGCACCGCTAAAAGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTT
995720 CT
1 CT
995722 ATAGTGGTGC
Statistics
Matches: 177, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
42 92 0.52
43 82 0.46
44 3 0.02
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTT
Found at i:995592 original size:85 final size:85
Alignment explanation
Indices: 995495--995721 Score: 246
Period size: 85 Copynumber: 2.7 Consensus size: 85
995485 AAAACGTCGC
** * * *
995495 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAGTGCTGCTAGAGGTCATGTT-TTTAGCGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTTCTTTAGAGG
*
995559 -CATTTGTGGGGAAAGCACCGA
66 TC-TTTGTGCGG-AAGCACCGA
* * *
995580 TAAAGGTAATGTT-TTCTAGCAGCGTTTGTGGGGTAAGCACCGCTAAAGGTCATGTTCTTTAGAG
1 TAAAGGTCATGTTCTT-TAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTTCTTTAGAG
* *
995644 GTCTTTGTGCGGCAGCACCGG
65 GTCTTTGTGCGGAAGCACCGA
* ** ** *
995665 TAAAGGTCATGTTCTATAGCGGTATTTGTAAGG-AAGCACCGCTAAAAGTCATGTTCT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTTCT
995722 ATAGTGGTGC
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
84 25 0.21
85 77 0.65
86 16 0.13
87 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (85 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGTTCTTTAGAGG
TCTTTGTGCGGAAGCACCGA
Done.