Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 124 of 185
Found at i:38235559 original size:30 final size:30
Alignment explanation
Indices: 38235523--38235581 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
38235513 CCATAATATT
* *
38235523 ATATTATTTTGTTTAATTTATTTGGTTAAG
1 ATATTATCTTGTTTAATTCATTTGGTTAAG
*
38235553 ATATTATCTTGTTTAATTCATTTGTTTAA
1 ATATTATCTTGTTTAATTCATTTGGTTAA
38235582 AATGTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.59
Consensus pattern (30 bp):
ATATTATCTTGTTTAATTCATTTGGTTAAG
Found at i:38240078 original size:42 final size:42
Alignment explanation
Indices: 38240039--38240143 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
38240029 CTGAAGAGTC
38240039 AGAGAAACCTG-GTTATAGCACAAAACCACAGCCAGAAGAGGA
1 AGAGAAACCTGAG-TATAGCACAAAACCACAGCCAGAAGAGGA
* * * *
38240081 AGGGAAGCCTGAGTATGGCACTAAACCACAGCCAGAAGAGGA
1 AGAGAAACCTGAGTATAGCACAAAACCACAGCCAGAAGAGGA
* *
38240123 AGA-AAAGCCTGATTATGGCAC
1 AGAGAAA-CCTGAGTATAGCAC
38240144 CAAGCAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.94
43 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.27, T:0.11
Consensus pattern (42 bp):
AGAGAAACCTGAGTATAGCACAAAACCACAGCCAGAAGAGGA
Found at i:38240217 original size:165 final size:165
Alignment explanation
Indices: 38239943--38240284 Score: 639
Period size: 165 Copynumber: 2.1 Consensus size: 165
38239933 TCAACCAACA
38239943 ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
1 ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
* *
38240008 AAGACAAGGAGAAGGCCATGCCTGAAGAGTCAGAGAAACCTGGTTATAGCACAAAACCACAGCCA
66 AAGACAAGGAGAAGGCAATGCCTGAAGAGTCAGAGAAACCTGGTTATAGCACAAAACAACAGCCA
38240073 GAAGAGGAAGGGAAGCCTGAGTATGGCACTAAACC
131 GAAGAGGAAGGGAAGCCTGAGTATGGCACTAAACC
38240108 ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
1 ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
* *
38240173 AAGACAAGGAGAAGGCAATGCCTGAGGAGTCAGAGAAGCCTGGTTATAGCACAAAACAACAGCCA
66 AAGACAAGGAGAAGGCAATGCCTGAAGAGTCAGAGAAACCTGGTTATAGCACAAAACAACAGCCA
*
38240238 GAAGAGGAAGGGAAGCCTGAGTATGGTACTAAACC
131 GAAGAGGAAGGGAAGCCTGAGTATGGCACTAAACC
38240273 ACAGCCAGAAGA
1 ACAGCCAGAAGA
38240285 CAAGGAAAAG
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
165 172 1.00
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.13
Consensus pattern (165 bp):
ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
AAGACAAGGAGAAGGCAATGCCTGAAGAGTCAGAGAAACCTGGTTATAGCACAAAACAACAGCCA
GAAGAGGAAGGGAAGCCTGAGTATGGCACTAAACC
Found at i:38241879 original size:34 final size:34
Alignment explanation
Indices: 38241841--38241908 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38241831 ACTACGGAAG
38241841 GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
1 GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
38241875 GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
1 GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
38241909 ACCAAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.26
Consensus pattern (34 bp):
GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
Found at i:38250556 original size:25 final size:25
Alignment explanation
Indices: 38250510--38250576 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
38250500 GGTTACCTGG
* *
38250510 AAAGCCTTTGTGG-CATATTATCTAT
1 AAAGCCTTTGTGGTGA-ACTATCTAT
*
38250535 AAAGCCTTTGTGGTGAACTATCTGT
1 AAAGCCTTTGTGGTGAACTATCTAT
* *
38250560 AAAACCCTTGTGGTGAA
1 AAAGCCTTTGTGGTGAA
38250577 TTCTCTGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (25 bp):
AAAGCCTTTGTGGTGAACTATCTAT
Found at i:38253639 original size:38 final size:37
Alignment explanation
Indices: 38253567--38253642 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 37
38253557 ATGCCAAAAG
*
38253567 CATATATTTATACTTATCAACCACATGTACCGAATGCA
1 CATATATATATACTTATCAACCACATGTA-CGAATGCA
38253605 CATATATATATACTTAT-AATCCACACATGT-CGAATGCA
1 CATATATATATACTTATCAA--C-CACATGTACGAATGCA
38253643 TACACATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 2 0.06
38 24 0.71
39 1 0.03
40 7 0.21
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (37 bp):
CATATATATATACTTATCAACCACATGTACGAATGCA
Found at i:38253887 original size:41 final size:41
Alignment explanation
Indices: 38253830--38253969 Score: 196
Period size: 41 Copynumber: 3.4 Consensus size: 41
38253820 GATTCATCGG
38253830 CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTGC
1 CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTGC
*
38253871 CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTTC
1 CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTGC
* *
38253912 CACTTAGCCTGCTAGGCTT-TAAGCCTGAATTGA-TTCACTGT
1 CACTTAGCCTGCTAGGCTTCT-AGCCTG-ATTCAGTTCACTGC
*
38253953 CAATATA-CCTGCTAGGC
1 CACT-TAGCCTGCTAGGC
38253970 GCTGAGCCTG
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
40 1 0.01
41 84 0.92
42 6 0.07
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (41 bp):
CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTGC
Found at i:38257821 original size:93 final size:93
Alignment explanation
Indices: 38257720--38257901 Score: 337
Period size: 93 Copynumber: 2.0 Consensus size: 93
38257710 AAATCATTAA
*
38257720 GTTTAATTTAGTCCATAACCATCCACTATCTATATAGTGGGTTAATTACACTTTTAAGCCTCCTA
1 GTTTAATTTAGTCCATAACCACCCACTATCTATATAGTGGGTTAATTACACTTTTAAGCCTCCTA
*
38257785 ATTAAAAAGACATCAACAAATAGATGCT
66 ATTAAAAACACATCAACAAATAGATGCT
38257813 GTTTAATTTAGTCCATAACCACCCACTATCTATATAGTGGGTTAATTACACTTTTAAGCCTCCTA
1 GTTTAATTTAGTCCATAACCACCCACTATCTATATAGTGGGTTAATTACACTTTTAAGCCTCCTA
*
38257878 ATTAAAAACACATCAACCAATAGA
66 ATTAAAAACACATCAACAAATAGA
38257902 CGATTTTAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (93 bp):
GTTTAATTTAGTCCATAACCACCCACTATCTATATAGTGGGTTAATTACACTTTTAAGCCTCCTA
ATTAAAAACACATCAACAAATAGATGCT
Found at i:38263980 original size:41 final size:41
Alignment explanation
Indices: 38263859--38263999 Score: 155
Period size: 41 Copynumber: 3.5 Consensus size: 41
38263849 CAGATTCATC
* * *
38263859 GGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTCAAATCACC
1 GGCACTTAGCCTGCTAGGCTTTAAGCCTGAATT-AATTCACT
*
38263900 GGCACTTAGCCTGCTAGGCTTCT-AGCCT-AATTCAGTTCACT
1 GGCACTTAGCCTGCTAGGCTT-TAAGCCTGAATT-AATTCACT
* * *
38263941 GCCACTTAGCTTGCTAGGCTTTAAGCCTGAATTGATTCACT
1 GGCACTTAGCCTGCTAGGCTTTAAGCCTGAATTAATTCACT
*
38263982 GGCAATTA-CCTGCTAGGC
1 GGCACTTAGCCTGCTAGGC
38264000 GCTGAGCCTG
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
40 10 0.12
41 71 0.84
42 4 0.05
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
GGCACTTAGCCTGCTAGGCTTTAAGCCTGAATTAATTCACT
Found at i:38277241 original size:1 final size:1
Alignment explanation
Indices: 38277235--38277301 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
38277225 CCGTGGAGGC
* * * * * * * * *
38277235 AAAAAAAATAAAAAAACAAAAAAAAAAAGAATACAAGAAAATAAAAAAATAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
38277300 AA
1 AA
38277302 CCTCTACCAG
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.04, G:0.03, T:0.06
Consensus pattern (1 bp):
A
Found at i:38277249 original size:8 final size:8
Alignment explanation
Indices: 38277236--38277291 Score: 69
Period size: 8 Copynumber: 6.9 Consensus size: 8
38277226 CGTGGAGGCA
38277236 AAAAAAAT
1 AAAAAAAT
*
38277244 AAAAAAAC
1 AAAAAAAT
38277252 AAAAAAA-
1 AAAAAAAT
*
38277259 AAAAGAAT
1 AAAAAAAT
38277267 ACAAGAAAAT
1 A-AA-AAAAT
38277277 AAAAAAAT
1 AAAAAAAT
38277285 AAAAAAA
1 AAAAAAA
38277292 ACAAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.14
8 27 0.64
9 4 0.10
10 5 0.12
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.07
Consensus pattern (8 bp):
AAAAAAAT
Found at i:38277297 original size:8 final size:8
Alignment explanation
Indices: 38277236--38277300 Score: 60
Period size: 8 Copynumber: 7.9 Consensus size: 8
38277226 CGTGGAGGCA
*
38277236 AAAAAAAT
1 AAAAAAAC
38277244 AAAAAAAC
1 AAAAAAAC
38277252 AAAAAAA-
1 AAAAAAAC
38277259 AAAAGAATAC
1 AAAA-AA-AC
* *
38277269 AAGAAAAT
1 AAAAAAAC
*
38277277 AAAAAAATA
1 AAAAAAA-C
38277286 AAAAAAAC
1 AAAAAAAC
38277294 AAAAAAA
1 AAAAAAA
38277301 ACCTCTACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
7 4 0.09
8 30 0.64
9 10 0.21
10 3 0.06
ACGTcount: A:0.86, C:0.05, G:0.03, T:0.06
Consensus pattern (8 bp):
AAAAAAAC
Found at i:38278748 original size:45 final size:46
Alignment explanation
Indices: 38278683--38278828 Score: 237
Period size: 45 Copynumber: 3.2 Consensus size: 46
38278673 TGAAGTCATC
*
38278683 ATAGCAAGTCCTGTCTTCCTGTATTGGCAGCGAAGTAGAAT-GAAG
1 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGAATCGAAG
*
38278728 GTAGC-AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCGAAG
1 ATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGAATCGAAG
38278773 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCGAAG
1 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGAATCGAAG
38278818 ATAGCAAGTCT
1 ATAGCAAGTCT
38278829 GCAAAGTAGA
Statistics
Matches: 95, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
44 4 0.04
45 89 0.94
46 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (46 bp):
ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGAATCGAAG
Found at i:38279071 original size:99 final size:99
Alignment explanation
Indices: 38278923--38279502 Score: 643
Period size: 100 Copynumber: 5.8 Consensus size: 99
38278913 GATTGAAATT
* * *
38278923 GCAACGGCGAATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTC
1 GCAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTC
* *
38278988 GTTCCCCGACATTGCAATTTAAAATATTGAAGCT
66 GTTCCCCGACATTGCAATTTAAAAGATTGAAGCC
* * * * * *
38279022 GCAACGGCGAATTTTACTTTCCTGGC-GATACAGTGGATCAGATTGAAGCTACAACGG-TAATAT
1 GCAACGGCGAATCTTACTTTCCTGGCAG-TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCT
* * *
38279085 CGTTCACCAACATTTCAATTTAAAAGATTGAAGCC
65 CGTTCCCCGACATTGCAATTTAAAAGATTGAAGCC
** * * * * *
38279120 GCAACGGCGAATCTTACTTTCCTGGTGGTGTAGTGGAGCAAATTAAAGCTACGACGGCGAATCTT
1 GCAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTC
*
38279185 GCTTCCCCGACATTGCAATTAAAAAGATTGAAGCC
66 G-TTCCCCGACATTGCAATTTAAAAGATTGAAGCC
* * * * *
38279220 ACAACGGTGAATCTTACTTTCCTGGC-GATGCAGTGGATCAGATTGAAGCTACAACGACGAATCT
1 GCAACGGCGAATCTTACTTTCCTGGCAG-TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCT
**
38279284 TATTCCCCGACATTGCAA-TTAAAAGGATTGAAGCC
65 CGTTCCCCGACATTGCAATTTAAAA-GATTGAAGCC
* * * * * * * *
38279319 ACAACGGTGAATCTCACTTCCCTGGCAGTACAATGGAGCAGATTAAAGCTACGACGGCGAATCTT
1 GCAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATC-T
* * *
38279384 AC-TTCCCTGATATTGCAATTTAAAAGATTAAAGCC
65 -CGTTCCCCGACATTGCAATTTAAAAGATTGAAGCC
* * *
38279419 GCAACGACGAATCTTA-TTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACGACTGCGAATCG
1 GCAACGGCGAATCTTACTTT-CCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATC-
*
38279483 T-GTTCCCTGACATTGCAATT
64 TCGTTCCCCGACATTGCAATT
38279503 GAGGCCGCAA
Statistics
Matches: 408, Mismatches: 61, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
98 87 0.21
99 155 0.38
100 160 0.39
101 6 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (99 bp):
GCAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTC
GTTCCCCGACATTGCAATTTAAAAGATTGAAGCC
Found at i:38279232 original size:50 final size:50
Alignment explanation
Indices: 38278924--38279502 Score: 253
Period size: 50 Copynumber: 11.7 Consensus size: 50
38278914 ATTGAAATTG
* * * * ** * *
38278924 CAACGGCGAATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * **
38278974 CAACGGCGAATC-T-CGTTCCCCGACATTGCAATTTAAAATATTGAAGCTG
1 CAACGGCGAATCTTAC-TTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * * ** ** *
38279023 CAACGGCGAATTTTACTTTCCTGGCGA-TACAGTGGATCAGATTGAAGCTA
1 CAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTAAAAAGATTGAAGCCA
* * * * * *
38279073 CAACGG-TAAT-AT-CGTTCACC-AACATTTCAATTTAAAAGATTGAAGCCG
1 CAACGGCGAATCTTAC-TTC-CCTGACATTGCAATTAAAAAGATTGAAGCCA
* **** * * * ** * *
38279121 CAACGGCGAATCTTACTTTCCTGGTGGTGTAGTGGAGCAA-ATTAAAGCTA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAAT-TAAAAAGATTGAAGCCA
* * *
38279171 CGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * ** ** *
38279221 CAACGGTGAATCTTACTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTA
1 CAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTAAAAAGATTGAAGCCA
* * *
38279271 CAACGACGAATCTTA-TTCCCCGACATTGCAATTAAAAGGATTGAAGCCA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * * ** ** * *
38279320 CAACGGTGAATCTCACTTCCCTGGCAGTACAATGGAGCAGATTAAAGCTA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * *
38279370 CGACGGCGAATCTTACTTCCCTGATATTGCAATTTAAAAGATTAAAGCCG
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * * ** * * *
38279420 CAACGACGAATCTTATTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * *
38279470 CGACTGCGAATCGT-GTTCCCTGACATTGCAATT
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATT
38279503 GAGGCCGCAA
Statistics
Matches: 373, Mismatches: 140, Indels: 33
0.68 0.26 0.06
Matches are distributed among these distances:
47 2 0.01
48 27 0.07
49 97 0.26
50 241 0.65
51 6 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
Found at i:38279411 original size:199 final size:196
Alignment explanation
Indices: 38278924--38279502 Score: 716
Period size: 199 Copynumber: 2.9 Consensus size: 196
38278914 ATTGAAATTG
* * * *
38278924 CAACGGCGAATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATC-TC
1 CAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTC
* * * *
38278988 GTTCCCCGACATTGCAATTTAAAATATTGAAGCTGCAACGGCGAATTTTACTTTCCTGGCGATAC
66 -TTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGC
* * * * *
38279053 AGTGGATCAGATTGAAGCTACAACG-GTAATATCGTTCACCAACATTTCAATTTAAAAGATTGAA
130 AGTGGATCAGATTGAAGCTACAACGCG-AATCTTGTTCCCCGACATTGCAA-TTAAAAGATTGAA
*
38279117 GCCG
193 GCCA
* ** * *
38279121 CAACGGCGAATCTTACTTTCCTGGTGGTGTAGTGGAGCAAATTAAAGCTACGACGGCGAATCTTG
1 CAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTT-
* * *
38279186 CTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCTGGCGATGC
65 CTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGC
*
38279251 AGTGGATCAGATTGAAGCTACAACGACGAATCTTATTCCCCGACATTGCAATTAAAAGGATTGAA
130 AGTGGATCAGATTGAAGCTACAACG-CGAATCTTGTTCCCCGACATTGCAATTAAAA-GATTGAA
38279316 GCCA
193 GCCA
* * * *
38279320 CAACGGTGAATCTCACTTCCCTGGCAGTACAATGGAGCAGATTAAAGCTACGACGGCGAATCTTA
1 CAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTT-
* * * *
38279385 CTTCCCTGATATTGCAATTTAAAAGATTAAAGCCGCAACGACGAATCTTA-TTTCCCTGGC-AGT
65 CTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTT-CCTGGCGA-T
* * * * *
38279448 GCAGTGGAACAGATTAAAGCTACGACTGCGAATCGTGTTCCCTGACATTGCAATT
128 GCAGTGGATCAGATTGAAGCTACAAC-GCGAATCTTGTTCCCCGACATTGCAATT
38279503 GAGGCCGCAA
Statistics
Matches: 328, Mismatches: 46, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
197 53 0.16
198 93 0.28
199 180 0.55
200 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (196 bp):
CAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTC
TTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCA
GTGGATCAGATTGAAGCTACAACGCGAATCTTGTTCCCCGACATTGCAATTAAAAGATTGAAGCC
A
Found at i:38279665 original size:44 final size:41
Alignment explanation
Indices: 38279608--38279805 Score: 166
Period size: 44 Copynumber: 4.6 Consensus size: 41
38279598 CATCTAGTTT
*
38279608 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-T-AAGC-ACCAATCC
* * *
38279652 TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAGACCACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAG--CACCAATCC
* * * * * * *
38279696 TATCTCTCTAAAGTTGTAGTAGAGCAGAT-CGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCA-CCAATCC
* *
38279737 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAG--ATAAG-CACCAATCC
38279781 TATCTCCCTGAAGTT-CTAGTGGAGC
1 TATCTCCCTGAAGTTGC-AGTGGAGC
38279806 GGATTAAAAC
Statistics
Matches: 125, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.02
41 28 0.22
42 1 0.01
43 6 0.05
44 86 0.69
45 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCACCAATCC
Found at i:38279840 original size:129 final size:129
Alignment explanation
Indices: 38279518--38279824 Score: 427
Period size: 129 Copynumber: 2.4 Consensus size: 129
38279508 CGCAATGGCG
* * * *
38279518 AATCCTATCTCCCTGAAGTTGCACTGGAGTGAATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
* * * * ** ** *
38279583 CAGTAGAGTAGTTCACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTACT
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACC
* * * *
38279647 AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAGACCACAAATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
* *
38279712 TAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACC
38279776 AATCCTATCTCCCTGAAGTT-CTAGTGGAGCGGATTAAAACCACAAATCT
1 AATCCTATCTCCCTGAAGTTGC-AGTGGAGCGGATTAAAACCACAAATCT
38279825 CGTCCCCATG
Statistics
Matches: 155, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
128 1 0.01
129 154 0.99
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACC
Found at i:38284227 original size:3 final size:3
Alignment explanation
Indices: 38284219--38284258 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
38284209 CTGAAATACT
38284219 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
38284259 ACTACTACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:38284991 original size:30 final size:30
Alignment explanation
Indices: 38284957--38285038 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
38284947 TCTGGGCCTG
*
38284957 AGCCCTATACAGTAGCAGTGTGTGGGCCAA
1 AGCCCTATACAGTAACAGTGTGTGGGCCAA
* * * * **
38284987 AGCCCAATACATTATCAGAGTGTGGGCCTT
1 AGCCCTATACAGTAACAGTGTGTGGGCCAA
38285017 AG-CCTAATACAGTAACAGTGTG
1 AGCCCT-ATACAGTAACAGTGTG
38285039 GGCGTTAGCC
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 2 0.05
30 39 0.95
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (30 bp):
AGCCCTATACAGTAACAGTGTGTGGGCCAA
Found at i:38285046 original size:28 final size:29
Alignment explanation
Indices: 38285005--38285064 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
38284995 ACATTATCAG
* *
38285005 AGTGTGGGCCTTAGCCTAATACAGTAA-C
1 AGTGTGGGCCTTAGCCCAAAACAGTAATC
*
38285033 AGTGTGGGCGTTAGCCCAAAACAGTAATC
1 AGTGTGGGCCTTAGCCCAAAACAGTAATC
38285062 AGT
1 AGT
38285065 ACAAATGCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (29 bp):
AGTGTGGGCCTTAGCCCAAAACAGTAATC
Found at i:38285274 original size:26 final size:26
Alignment explanation
Indices: 38285172--38285273 Score: 123
Period size: 26 Copynumber: 3.9 Consensus size: 26
38285162 CATCAATATT
* * *
38285172 GCAGTAAAGCTACCAGTAATAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* *
38285198 ACAACAAAGCTGCCAGTAACAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* * * *
38285224 GTAGCAGAGCTGCCAGTATCAGTATC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
38285250 GCAGCAAAGCTGCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
38285274 TTTGTGGCAA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAC
Found at i:38285729 original size:14 final size:17
Alignment explanation
Indices: 38285698--38285734 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
38285688 ATTATAAAGG
38285698 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
38285715 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
38285729 ATATTA
1 ATATTA
38285735 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:38285910 original size:14 final size:14
Alignment explanation
Indices: 38285884--38285934 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
38285874 GAAAACAAAA
38285884 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
38285898 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
38285912 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
38285927 G-AATAAAA
1 GAAATAAAA
38285935 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:38285945 original size:17 final size:16
Alignment explanation
Indices: 38285923--38285956 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38285913 AAGTTAAAAT
38285923 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
38285940 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
38285956 A
1 A
38285957 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:38286677 original size:3 final size:3
Alignment explanation
Indices: 38286656--38286717 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
38286646 GTAAGTATAA
* * *
38286656 TAT TAG TAT TAA T-T TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38286703 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
38286718 GAGTGGGAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:38286887 original size:23 final size:24
Alignment explanation
Indices: 38286858--38286915 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
38286848 TGTGTGAATT
*
38286858 TGTGAAATAATTATTG-ATTGAAGG
1 TGTGAAA-AATTATTGAATTGAAAG
*
38286882 TG-GAAAAATGATTGAATTGAAAG
1 TGTGAAAAATTATTGAATTGAAAG
38286905 TGTGAAAAATT
1 TGTGAAAAATT
38286916 GTAATTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATTATTGAATTGAAAG
Found at i:38286922 original size:27 final size:23
Alignment explanation
Indices: 38286861--38286928 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 23
38286851 GTGAATTTGT
* *
38286861 GAAATAATTATTG-ATTGAAGGTG
1 GAAA-AATGATTGAATTGAAAGTG
38286884 GAAAAATGATTGAATTGAAAGTG
1 GAAAAATGATTGAATTGAAAGTG
38286907 TGAAAAATTGTAATTGAATTGA
1 -GAAAAA-TG--ATTGAATTGA
38286929 GAATATATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.18
23 13 0.34
24 6 0.16
25 2 0.05
27 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (23 bp):
GAAAAATGATTGAATTGAAAGTG
Found at i:38287131 original size:37 final size:39
Alignment explanation
Indices: 38287072--38287167 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
38287062 CGGATAGATT
* * * *
38287072 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
38287109 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
38287148 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
38287168 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:38293220 original size:14 final size:17
Alignment explanation
Indices: 38293189--38293225 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
38293179 ATTATAAAGG
38293189 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
38293206 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
38293220 ATATTA
1 ATATTA
38293226 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:38293401 original size:14 final size:14
Alignment explanation
Indices: 38293375--38293425 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
38293365 GAAAACAAAA
38293375 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
38293389 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
38293403 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
38293418 G-AATAAAA
1 GAAATAAAA
38293426 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:38293436 original size:17 final size:16
Alignment explanation
Indices: 38293414--38293447 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38293404 AAGTTAAAAT
38293414 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
38293431 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
38293447 A
1 A
38293448 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:38294168 original size:3 final size:3
Alignment explanation
Indices: 38294147--38294208 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
38294137 GTAAGTATAA
* * *
38294147 TAT TAG TAT TAA T-T TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38294194 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
38294209 GAGTGGGAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:38294378 original size:23 final size:24
Alignment explanation
Indices: 38294349--38294406 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
38294339 TGTGTGAATT
*
38294349 TGTGAAATAATTATTG-ATTGAAGG
1 TGTGAAA-AATTATTGAATTGAAAG
*
38294373 TG-GAAAAATGATTGAATTGAAAG
1 TGTGAAAAATTATTGAATTGAAAG
38294396 TGTGAAAAATT
1 TGTGAAAAATT
38294407 GTAATTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATTATTGAATTGAAAG
Found at i:38294413 original size:27 final size:23
Alignment explanation
Indices: 38294352--38294419 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 23
38294342 GTGAATTTGT
* *
38294352 GAAATAATTATTG-ATTGAAGGTG
1 GAAA-AATGATTGAATTGAAAGTG
38294375 GAAAAATGATTGAATTGAAAGTG
1 GAAAAATGATTGAATTGAAAGTG
38294398 TGAAAAATTGTAATTGAATTGA
1 -GAAAAA-TG--ATTGAATTGA
38294420 GAATATATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.18
23 13 0.34
24 6 0.16
25 2 0.05
27 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (23 bp):
GAAAAATGATTGAATTGAAAGTG
Found at i:38294622 original size:37 final size:39
Alignment explanation
Indices: 38294563--38294658 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
38294553 CGGATAGATT
* * * *
38294563 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
38294600 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
38294639 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
38294659 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:38300711 original size:14 final size:17
Alignment explanation
Indices: 38300680--38300716 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
38300670 ATTATAAAGG
38300680 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
38300697 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
38300711 ATATTA
1 ATATTA
38300717 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:38300892 original size:14 final size:14
Alignment explanation
Indices: 38300866--38300916 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
38300856 GAAAACAAAA
38300866 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
38300880 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
38300894 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
38300909 G-AATAAAA
1 GAAATAAAA
38300917 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:38300927 original size:17 final size:16
Alignment explanation
Indices: 38300905--38300938 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38300895 AAGTTAAAAT
38300905 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
38300922 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
38300938 A
1 A
38300939 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:38302092 original size:37 final size:39
Alignment explanation
Indices: 38302033--38302128 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
38302023 CGGATAGATT
* * * *
38302033 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
38302070 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
38302109 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
38302129 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:38303190 original size:27 final size:27
Alignment explanation
Indices: 38303169--38303339 Score: 197
Period size: 27 Copynumber: 6.3 Consensus size: 27
38303159 CTACCTTTCA
*
38303169 AGGGTGTTTCAGTAATTTTACCCATCG
1 AGGGTATTTCAGTAATTTTACCCATCG
*
38303196 AGGGTATTTCAGTAATTTTACCCATCA
1 AGGGTATTTCAGTAATTTTACCCATCG
* *
38303223 AGGGTA-TTCTAGTCATTTTACCCTTCG
1 AGGGTATTTC-AGTAATTTTACCCATCG
38303250 AGGGTATTTC-GATAATTTTACCCATCG
1 AGGGTATTTCAG-TAATTTTACCCATCG
* * *
38303277 AGGGTATTTCGGTAATTTTACCCTTTG
1 AGGGTATTTCAGTAATTTTACCCATCG
* *
38303304 -GAGGTATTTC-GATAATTTTACCTATTG
1 AG-GGTATTTCAG-TAATTTTACCCATCG
38303331 AGGGTATTT
1 AGGGTATTT
38303340 AGGGTTTAGG
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
26 6 0.05
27 115 0.91
28 5 0.04
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACCCATCG
Found at i:38303201 original size:54 final size:53
Alignment explanation
Indices: 38303143--38303325 Score: 188
Period size: 54 Copynumber: 3.4 Consensus size: 53
38303133 TATCCTATAG
* * * **
38303143 GGGTATTTTGGTCATTCTACCTTTCAAGGGTGTTTCAGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCAAGGGT-TTTCAGTAATTTTACCCATCGA
* * * *
38303197 GGGTATTTCAGTAATTTTACCCATCAAGGGTATTCTAGTCATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCATCAAGGGTTTTC-AGTAATTTTACCCATCGA
* * * * *
38303251 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCTTTG-
1 GGGTATTTCGGTAATTTTACCCATCAAGGGT-TTTCAGTAATTTTACCCATCGA
*
38303304 GAGGTATTTCGATAATTTTACC
1 G-GGTATTTCGGTAATTTTACC
38303326 TATTGAGGGT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 4 0.04
54 103 0.94
55 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACCCATCAAGGGTTTTCAGTAATTTTACCCATCGA
Found at i:38303311 original size:81 final size:81
Alignment explanation
Indices: 38303143--38303299 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 81
38303133 TATCCTATAG
* * * *
38303143 GGGTATTTTGGTCATTCTACCTTTCAAGGGTGTTTCAGTAATTTTACCCATCGAGGGTATTTCAG
1 GGGTATTCTAGTCATTCTACCCTTCAAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCAG
38303208 TAATTTTACCCATCAA
66 TAATTTTACCCATCAA
* * *
38303224 GGGTATTCTAGTCATTTTACCCTTCGAGGGTATTTC-GATAATTTTACCCATCGAGGGTATTTCG
1 GGGTATTCTAGTCATTCTACCCTTCAAGGGTATTTCAG-TAATTTTACCCATCGAGGGTATTTCA
38303288 GTAATTTTACCC
65 GTAATTTTACCC
38303300 TTTGGAGGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.01
81 67 0.99
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (81 bp):
GGGTATTCTAGTCATTCTACCCTTCAAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCAG
TAATTTTACCCATCAA
Found at i:38303334 original size:54 final size:54
Alignment explanation
Indices: 38303169--38303339 Score: 222
Period size: 54 Copynumber: 3.2 Consensus size: 54
38303159 CTACCTTTCA
* * *
38303169 AGGGTGTTTCAGTAATTTTACCCATCGAGGGTATTTC-AGTAATTTTACCCATCA
1 AGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGA-TAATTTTACCCATCG
*
38303223 AGGGTA-TTCTAGTCATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCG
1 AGGGTATTTC-AGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCG
* * * *
38303277 AGGGTATTTCGGTAATTTTACCCTTTG-GAGGTATTTCGATAATTTTACCTATTG
1 AGGGTATTTCAGTAATTTTACCCTTCGAG-GGTATTTCGATAATTTTACCCATCG
38303331 AGGGTATTT
1 AGGGTATTT
38303340 AGGGTTTAGG
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
53 4 0.04
54 96 0.92
55 4 0.04
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCG
Found at i:38303349 original size:7 final size:7
Alignment explanation
Indices: 38303337--38303380 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
38303327 ATTGAGGGTA
38303337 TTTAGGG
1 TTTAGGG
38303344 TTTAGGG
1 TTTAGGG
38303351 TTTAGGG
1 TTTAGGG
*
38303358 TTTAGAG
1 TTTAGGG
38303365 TTTAGGG
1 TTTAGGG
*
38303372 TTTAAGG
1 TTTAGGG
38303379 TT
1 TT
38303381 CAGTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:38303516 original size:27 final size:27
Alignment explanation
Indices: 38303486--38304097 Score: 574
Period size: 27 Copynumber: 22.7 Consensus size: 27
38303476 TATCCTATAG
* *
38303486 GGGTA-TTCTGGTCATTTTACCCTTTGA
1 GGGTATTTC-GGTAATTTTACCCTTCGA
* *
38303513 GGGTATTTCAGTAATTTTACCCGTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
38303540 GGGTATTTCAGTCATTTTACCTTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
38303567 GGGTATTTCGATAATTTTA-CCTATCGA
1 GGGTATTTCGGTAATTTTACCCT-TCGA
* *
38303594 GGGTATTTCAGTAATTTTA-CCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * * *
38303620 TGGTATTTCGATAATTTTACTCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
38303647 GGGTATTTCAGTCATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
**
38303674 GGGTATTTTAGTAATTTTA-CCTATC-A
1 GGGTATTTCGGTAATTTTACCCT-TCGA
* *
38303700 GGGGTATTTCGATCATTTTACCCTTCGA
1 -GGGTATTTCGGTAATTTTACCCTTCGA
* ** * *
38303728 AGGTATTTTAGTAATTTTACGCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
38303755 GGGTATTTTGGTCATTTTACCCTTTGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* ** *
38303782 AGGTATTTTAGTCATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
38303809 -GGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
38303835 GGGTATTTCAGTAATTTTACCCATCAA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
38303862 GGGTATTTAGGTAATTTTACCCTTC-A
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
38303888 GGGGTATTTTGGTAATTTTACCCTTCAA
1 -GGGTATTTCGGTAATTTTACCCTTCGA
***
38303916 GGGTATTTTAATAATTTTACCCTTC-A
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
38303942 GGGGTATTTCAGTAATTTTACCTTTCGA
1 -GGGTATTTCGGTAATTTTACCCTTCGA
* ** *
38303970 GGGTATTTCGATAATTTTTTCCTTCGG
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
38303997 GGGTATTTCAGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
** * * *
38304024 ACGTATTTCGGTCATTCTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
** * *
38304051 GGGTATTTTAGTAATTTTACCCATCAA
1 GGGTATTTCGGTAATTTTACCCTTCGA
38304078 GGGTATTTCGGTAATTTTAC
1 GGGTATTTCGGTAATTTTAC
38304098 GACCCAAACC
Statistics
Matches: 486, Mismatches: 87, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
26 49 0.10
27 428 0.88
28 9 0.02
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:38318935 original size:9 final size:9
Alignment explanation
Indices: 38318923--38318990 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
38318913 TTAATTTATT
38318923 AAATTTTAA
1 AAATTTTAA
**
38318932 AAATTCAAA
1 AAATTTTAA
38318941 AAATTTATAA
1 AAATTT-TAA
38318951 AAA--TTAA
1 AAATTTTAA
38318958 AAATTATTAA
1 AAATT-TTAA
**
38318968 AAGTATTTTTT
1 AA--ATTTTAA
38318979 AAATTTTAA
1 AAATTTTAA
38318988 AAA
1 AAA
38318991 ATTAATTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
7 6 0.13
8 1 0.02
9 20 0.44
10 11 0.24
11 4 0.09
12 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (9 bp):
AAATTTTAA
Found at i:38318959 original size:17 final size:17
Alignment explanation
Indices: 38318923--38318969 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
38318913 TTAATTTATT
38318923 AAATTTTAAAAATTCAAA
1 AAATTTTAAAAATT-AAA
38318941 AAATTTATAAAAATT-AA
1 AAATTT-TAAAAATTAAA
38318958 AAATTATTAAAA
1 AAATT-TTAAAA
38318970 GTATTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.44
18 7 0.26
19 8 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTTTAAAAATTAAA
Found at i:38319577 original size:98 final size:98
Alignment explanation
Indices: 38319400--38319578 Score: 286
Period size: 98 Copynumber: 1.8 Consensus size: 98
38319390 GAGTAATATG
* * *
38319400 TGGAAACAATAAGTTGACATGGTATTTCATATGTGTTAATATGTTTATCACATTAAATTTTGGAA
1 TGGAAACAATAAGTTGACATGGTATTTCACATGTGATAATATGTCTATCACATTAAATTTTGGAA
*
38319465 ATAGTTAAACTTAATAAACTTAATATCCAATTT
66 ATAGCTAAACTTAATAAACTTAATATCCAATTT
* * *
38319498 TGGAAACAATAAGTTGACATGGTATTTCACATGTGATAGTATGTCTGTCGCATTAAATTTTGGAA
1 TGGAAACAATAAGTTGACATGGTATTTCACATGTGATAATATGTCTATCACATTAAATTTTGGAA
*
38319563 ATAGCTAAATTTAATA
66 ATAGCTAAACTTAATA
38319579 TTCAATTTTG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 73 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (98 bp):
TGGAAACAATAAGTTGACATGGTATTTCACATGTGATAATATGTCTATCACATTAAATTTTGGAA
ATAGCTAAACTTAATAAACTTAATATCCAATTT
Found at i:38320954 original size:29 final size:29
Alignment explanation
Indices: 38320891--38320968 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
38320881 GTGGTCAGGG
* *
38320891 TTGCTCATACAAGCTGACATTTATGAATC
1 TTGCTCACACAAGCTGACATTTATAAATC
*
38320920 TT-CTCACACAAGTTGACATTTTATAAAT-
1 TTGCTCACACAAGCTGACA-TTTATAAATC
*
38320948 TTGCTCACACAAGCTAACATT
1 TTGCTCACACAAGCTGACATT
38320969 GTATCAATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (29 bp):
TTGCTCACACAAGCTGACATTTATAAATC
Found at i:38322150 original size:43 final size:42
Alignment explanation
Indices: 38322084--38322241 Score: 226
Period size: 43 Copynumber: 3.7 Consensus size: 42
38322074 TTTTAGAAAT
*
38322084 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGGTCA-GACCTTTAGCGGCGCTTTTCCCAC
* * *
38322127 AAACGCCGCTATAGGTCGAGACCTTTAGCGACGCTTTTTCCAA
1 AAACGCCGCTATAGGTC-AGACCTTTAGCGGCGCTTTTCCCAC
38322170 AAACGCCGCTATAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGGTC-AGACCTTTAGCGGCGCTTTTCCCAC
** *
38322213 AAACGCCGCTATAGAACAAACCTTTAGCG
1 AAACGCCGCTATAGGTCAGACCTTTAGCG
38322242 ATGCTTCTCA
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 11 0.11
43 91 0.88
44 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTATAGGTCAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:38322193 original size:86 final size:85
Alignment explanation
Indices: 38322084--38322261 Score: 268
Period size: 86 Copynumber: 2.1 Consensus size: 85
38322074 TTTTAGAAAT
* ** *
38322084 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCGAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAAC-AAAC
*
38322149 CTTTAGCGACGCTTTTTC-CAA
65 CTTTAGCGACGC-TTCTCACAA
*
38322170 AAACGCCGCTATAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAAACC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAAACC
*
38322235 TTTAGCGATGCTTCTCACAA
66 TTTAGCGACGCTTCTCACAA
38322255 AAACGCC
1 AAACGCC
38322262 ACTAAAAACA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
84 4 0.05
85 24 0.29
86 56 0.67
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAAACC
TTTAGCGACGCTTCTCACAA
Found at i:38322259 original size:42 final size:42
Alignment explanation
Indices: 38322084--38322261 Score: 212
Period size: 43 Copynumber: 4.2 Consensus size: 42
38322074 TTTTAGAAAT
* * *
38322084 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCA-AACCTTTAGCGACGCTTTTCCCAA
* * *
38322127 AAACGCCGCTATAGGTCGAGACCTTTAGCGACGCTTTTTCCAA
1 AAACGCCGCTATAGATC-AAACCTTTAGCGACGCTTTTCCCAA
* * *
38322170 AAACGCCGCTATAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAA-ACCTTTAGCGACGCTTTTCCCAA
* * * *
38322213 AAACGCCGCTATAGAACAAACCTTTAGCGATGCTTCTCACAA
1 AAACGCCGCTATAGATCAAACCTTTAGCGACGCTTTTCCCAA
38322255 AAACGCC
1 AAACGCC
38322262 ACTAAAAACA
Statistics
Matches: 118, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
42 26 0.22
43 91 0.77
44 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAACCTTTAGCGACGCTTTTCCCAA
Found at i:38322307 original size:16 final size:14
Alignment explanation
Indices: 38322266--38322308 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 14
38322256 AACGCCACTA
38322266 AAAACATAATATTTT
1 AAAA-ATAATATTTT
38322281 AAAAA-AATATTTT
1 AAAAATAATATTTT
38322294 AATCAAATAATATTT
1 AA--AAATAATATTT
38322309 ATTTTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
15 7 0.28
16 7 0.28
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAATAATATTTT
Found at i:38322563 original size:12 final size:13
Alignment explanation
Indices: 38322535--38322567 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
38322525 TATTAAAGTA
38322535 AAAATAAAAATTT
1 AAAATAAAAATTT
*
38322548 AAAATCAAAA-TT
1 AAAATAAAAATTT
38322560 AAAATAAA
1 AAAATAAA
38322568 TCAATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAAAATTT
Found at i:38326024 original size:147 final size:148
Alignment explanation
Indices: 38325786--38326899 Score: 1819
Period size: 147 Copynumber: 7.5 Consensus size: 148
38325776 GGCGTTTTTT
* * * *
38325786 CTATTTCTTACCTTTAGCGGTGTTTTTCATAAAAGTGCCGCAAAAAAATTCATTTTGAACAAAAT
1 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
*
38325851 TACCCCGTTTTGCTATGCTATGCTAAAA-GGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCG
66 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCG
38325915 -TTTTTATATAAACGCCG
131 TTTTTTATATAAACGCCG
* * *
38325932 CTATTGCTTACCTTTAGCGGCGTTTTTCGTAAAAGCGCCACAAAAAAAATTCATTTTAAACAAAA
1 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGC-AAAAAAATTCATTTTGAACAAAA
* *
38325997 CTACGCCGTTTTGCTATGCTATGCTAAAA-GGGGTTATTTTTT-AAAGTAAAATTATTTTGTGGG
65 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGC
38326060 GTTTTTTTATATAAACGCCG
130 G-TTTTTTATATAAACGCCG
**
38326080 CTATTGCTTACCTTTAGCGGCGTTTTTTGTAAAAGCGCCGCAAAAAAAATTCATTTTGAACAAAA
1 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGC-AAAAAAATTCATTTTGAACAAAA
38326145 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAA-TAAAATTATTTTGTGGC
65 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGC
* *
38326209 GTTTTTTATAAAAACGCTG
130 GTTTTTTATATAAACGCCG
*
38326228 CTATTGCTTACCTTTAGCGACGTTTTTCATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
*
38326293 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCG
66 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCG
38326358 -TTTTTATATAAACGCCG
131 TTTTTTATATAAACGCCG
* *
38326375 CTATTGCTTACCTTTAGCTGCGTTTTTCGTAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
* *
38326440 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATCTTGTGGCG
66 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCG
*
38326505 TTTTTTATAAAAACGCCG
131 TTTTTTATATAAACGCCG
*
38326523 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAA-TCGTTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
* * *
38326587 TACGCCATTTTGCTATGCTGTGCTAAAATGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCG
66 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCG
*
38326652 TTTTTTATTTAAACGCCG
131 TTTTTTATATAAACGCCG
* * * * * *
38326670 CTATTGCTTACATTTAGCGGCATTTTTCGTAAAAGCGTCACAAAAAAATTTCGTTTTGAACAAAA
1 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAA-TTCATTTTGAACAAAA
*
38326735 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGC
65 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGC
*
38326800 GTTTTTTATAAAAACGCCG
130 GTTTTTTATATAAACGCCG
* *
38326819 CTATTGCCTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGTAAAAAAATTCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
38326884 TACGCCGTTTTGCTAT
66 TACGCCGTTTTGCTAT
38326900 TCTAAAAATT
Statistics
Matches: 902, Mismatches: 57, Indels: 16
0.93 0.06 0.02
Matches are distributed among these distances:
146 57 0.06
147 405 0.45
148 274 0.30
149 163 0.18
150 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (148 bp):
CTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCG
TTTTTTATATAAACGCCG
Found at i:38326364 original size:295 final size:295
Alignment explanation
Indices: 38325786--38326899 Score: 1837
Period size: 295 Copynumber: 3.8 Consensus size: 295
38325776 GGCGTTTTTT
* * * * *
38325786 CTATTTCTTACCTTTAGCGGTGTTTTTCATAAAAGTGCCGCAAAAAAATTCATTTTGAACAAAAT
1 CTATTGCTTACCTTTAGCGGCGTTTTTCGTAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
*
38325851 TACCCCGTTTTGCTATGCTATGCTAAAA-GGGGCTA-TTTTTTAAAAGTAAAATTATTTTGTGGC
66 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAA-TAAAATTATTTTGTGGC
* * *
38325914 G-TTTTTATATAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCGTAAAAGCGCCACAAAAA
130 GTTTTTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGC-AAAA
* *
38325978 AAATTCATTTTAAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGTTA-TTTTTTAAA
194 AAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGCTATTTTTTTAAA
*
38326042 GTAAAATTATTTTGTGGGGTTTTTTTATATAAACGCCG
259 GTAAAATTATTTTGTGGCG-TTTTTTATATAAACGCCG
*
38326080 CTATTGCTTACCTTTAGCGGCGTTTTTTGTAAAAGCGCCGCAAAAAAAATTCATTTTGAACAAAA
1 CTATTGCTTACCTTTAGCGGCGTTTTTCGTAAAAGCGCCGC-AAAAAAATTCATTTTGAACAAAA
38326145 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTA-TTTTTTAAAATAAAATTATTTTGTGGC
65 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAATAAAATTATTTTGTGGC
* *
38326209 GTTTTTTATAAAAACGCTGCTATTGCTTACCTTTAGCGACGTTTTTCATAAAAGCGCCGCAAAAA
130 GTTTTTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAA
38326274 AATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAA
195 AATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAA-GGGGCTATTTTTTTAAA
38326339 GTAAAATTATTTTGTGGCG-TTTTTATATAAACGCCG
259 GTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCG
*
38326375 CTATTGCTTACCTTTAGCTGCGTTTTTCGTAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
1 CTATTGCTTACCTTTAGCGGCGTTTTTCGTAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
* *
38326440 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATCTTGTGGCG
66 TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAATAAAATTATTTTGTGGCG
38326505 TTTTTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAA
131 TTTTTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAA
* * * *
38326570 A-TCGTTTTGAACAAAACTACGCCATTTTGCTATGCTGTGCTAAAATGGGGCTATTTTTTAAAAG
196 ATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAA-GGGGCTATTTTTTTAAAG
*
38326634 TAAAATTATTTTGTGGCGTTTTTTATTTAAACGCCG
260 TAAAATTATTTTGTGGCGTTTTTTATATAAACGCCG
* * * * *
38326670 CTATTGCTTACATTTAGCGGCATTTTTCGTAAAAGCGTCACAAAAAAATTTCGTTTTGAACAAAA
1 CTATTGCTTACCTTTAGCGGCGTTTTTCGTAAAAGCGCCGCAAAAAAA-TTCATTTTGAACAAAA
*
38326735 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGC
65 CTACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAATAAAATTATTTTGTGGC
* *
38326800 GTTTTTTATAAAAACGCCGCTATTGCCTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGTAAAAA
130 GTTTTTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAA
38326865 AATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
195 AATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
38326900 TCTAAAAATT
Statistics
Matches: 773, Mismatches: 38, Indels: 15
0.94 0.05 0.02
Matches are distributed among these distances:
294 172 0.22
295 324 0.42
296 220 0.28
297 57 0.07
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (295 bp):
CTATTGCTTACCTTTAGCGGCGTTTTTCGTAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAAC
TACGCCGTTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAATAAAATTATTTTGTGGCG
TTTTTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTTCATAAAAGCGCCGCAAAAAA
ATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGGGGCTATTTTTTTAAAGT
AAAATTATTTTGTGGCGTTTTTTATATAAACGCCG
Found at i:38327349 original size:15 final size:14
Alignment explanation
Indices: 38327334--38327404 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
38327324 ACCCCTAAAT
*
38327334 CCCTAAACCTTAAAT
1 CCCTAAACCTT-AAC
38327349 CCCT-AACTCTTAAC
1 CCCTAAAC-CTTAAC
*
38327363 CCCT-AACATCTAAC
1 CCCTAAACCT-TAAC
*
38327377 CCCTAAACCCCTAAC
1 CCCTAAA-CCTTAAC
38327392 CCCTAAACCTTAA
1 CCCTAAACCTTAA
38327405 ATCCCGACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.02
14 25 0.53
15 20 0.43
16 1 0.02
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:38327369 original size:7 final size:7
Alignment explanation
Indices: 38327349--38327397 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
38327339 AACCTTAAAT
38327349 CCCTAAC
1 CCCTAAC
* *
38327356 TCTTAAC
1 CCCTAAC
38327363 CCCTAAC
1 CCCTAAC
**
38327370 ATCTAAC
1 CCCTAAC
38327377 CCCTAAAC
1 CCCT-AAC
38327385 CCCTAAC
1 CCCTAAC
38327392 CCCTAA
1 CCCTAA
38327398 ACCTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:38327405 original size:22 final size:22
Alignment explanation
Indices: 38327360--38327405 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
38327350 CCTAACTCTT
* *
38327360 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACACCTAAACCCTA
* *
38327382 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACACCTAAACCCTA
38327404 AA
1 AA
38327406 TCCCGACACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCCTA
Found at i:38327682 original size:7 final size:7
Alignment explanation
Indices: 38327662--38327733 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
38327652 CCTAGCACGT
38327662 CTAACCC
1 CTAACCC
38327669 CTAAACCC
1 CT-AACCC
38327677 CTAACCC
1 CTAACCC
38327684 TCTAACCC
1 -CTAACCC
*
38327692 CTAAACC
1 CTAACCC
* *
38327699 TTAAATCC
1 CT-AACCC
38327707 C-AACCC
1 CTAACCC
* *
38327713 CTCATCC
1 CTAACCC
*
38327720 ATAACCC
1 CTAACCC
38327727 CTAACCC
1 CTAACCC
38327734 ATAATCTCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
6 5 0.10
7 27 0.54
8 18 0.36
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAACCC
Found at i:38327682 original size:15 final size:15
Alignment explanation
Indices: 38327662--38327761 Score: 57
Period size: 15 Copynumber: 6.9 Consensus size: 15
38327652 CCTAGCACGT
38327662 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
38327677 CTAACCCTCT-AACCC
1 CTAACCC-CTAAACCC
* * *
38327692 CTAAACCTTAAATCC
1 CTAACCCCTAAACCC
* *
38327707 C-AACCCCT-CATCC
1 CTAACCCCTAAACCC
*
38327720 ATAACCCCT-AACCC
1 CTAACCCCTAAACCC
* * *
38327734 ATAATCTCTAAACCC
1 CTAACCCCTAAACCC
*
38327749 AT-ACTCCCTAAAC
1 CTAAC-CCCTAAAC
38327762 TGCCCTTAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
13 4 0.06
14 24 0.36
15 37 0.55
16 2 0.03
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.20
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:38328116 original size:114 final size:114
Alignment explanation
Indices: 38327912--38328447 Score: 749
Period size: 114 Copynumber: 4.7 Consensus size: 114
38327902 TATTTTTTTG
* * *
38327912 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTATTTTGCGGCGCTTAC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
* *
38327977 TCAAAAACGCCGC-CAAAGCCGTAAGCATTAGCGGCGCCTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAAACC-TAAGCATTAGCGGCGCCTTCTTAAAAAC
* *
38328026 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
38328091 -CTAAAAACGCCGCTAAAAACCTAAGCATTAGCGGCG-CTTCCTTAAAAAC
66 TC-AAAAACGCCGCTAAAAACCTAAGCATTAGCGGCGCCTT-CTTAAAAAC
* * *
38328140 GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTATTTTGCGGCGCTTAC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
* * * ** *
38328205 TCAAAAACGCCGCTAAAGACCTAAGCATTAGCGGCGCTTTATGGAAAAT
66 TCAAAAACGCCGCTAAAAACCTAAGCATTAGCGGCGCCTTCTTAAAAAC
* *
38328254 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTT
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
** *
38328319 TCAAAAACGCCGCTAAAGCCCTGAA-CATTAGCGGCGCTTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAAACCT-AAGCATTAGCGGCGCCTTCTTAAAAAC
* * * * *
38328368 GCTGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGACGCTTTT
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
**
38328432 TGGAAAACGCCGCTAA
66 TCAAAAACGCCGCTAA
38328448 TGCTAATTTT
Statistics
Matches: 381, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
113 34 0.09
114 337 0.88
115 10 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (114 bp):
GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
TCAAAAACGCCGCTAAAAACCTAAGCATTAGCGGCGCCTTCTTAAAAAC
Found at i:38329915 original size:27 final size:27
Alignment explanation
Indices: 38329877--38329930 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
38329867 TATTATTTTG
*
38329877 TGATTAGAGTTTTGAGTTTAGGGTTTA
1 TGATTAGAGTTTAGAGTTTAGGGTTTA
* *
38329904 TGATGTAG-GTTTAGTGTTTTGGGTTTA
1 TGAT-TAGAGTTTAGAGTTTAGGGTTTA
38329931 AGGTTTAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (27 bp):
TGATTAGAGTTTAGAGTTTAGGGTTTA
Found at i:38329965 original size:21 final size:21
Alignment explanation
Indices: 38329910--38329973 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
38329900 TTTATGATGT
* *
38329910 AGGTTTAGTGTTTTGGGTTTA
1 AGGTTTAGAGTTTGGGGTTTA
38329931 AGGTTTAGGAGTTTGGGGTTTA
1 AGGTTTA-GAGTTTGGGGTTTA
*
38329953 AGGTTT-GAGGTTTGGAGTTTA
1 AGGTTTAGA-GTTTGGGGTTTA
38329974 GGCCGCTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 18 0.47
22 18 0.47
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (21 bp):
AGGTTTAGAGTTTGGGGTTTA
Found at i:38332092 original size:10 final size:10
Alignment explanation
Indices: 38332077--38332102 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38332067 TCTTTGAAAA
38332077 CTATGTTAAG
1 CTATGTTAAG
38332087 CTATGTTAAG
1 CTATGTTAAG
38332097 CTATGT
1 CTATGT
38332103 AAGACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (10 bp):
CTATGTTAAG
Found at i:38333127 original size:87 final size:87
Alignment explanation
Indices: 38332981--38333243 Score: 492
Period size: 87 Copynumber: 3.0 Consensus size: 87
38332971 ATAGTTGAGC
38332981 AGGTTGCAGCAAGAGAAGAAAAGGTTAAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCA
1 AGGTTGCAGCAAGAGAAGAAAAGGTTAAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCA
38333046 GAGACGGCAGCGAGGGAAGCAG
66 GAGACGGCAGCGAGGGAAGCAG
38333068 AGGTTGCAGCAAGAGAAGAAAAGGTTAAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCA
1 AGGTTGCAGCAAGAGAAGAAAAGGTTAAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCA
38333133 GAGACGGCAGCGAGGGAAGCAG
66 GAGACGGCAGCGAGGGAAGCAG
38333155 AGGTTGCAGCAAGAGAAGAAAAGGTTAAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCA
1 AGGTTGCAGCAAGAGAAGAAAAGGTTAAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCA
* *
38333220 GATG-CGGCATCGAGAGAAGCAG
66 GA-GACGGCAGCGAGGGAAGCAG
38333242 AG
1 AG
38333244 CAGAGCCGAA
Statistics
Matches: 173, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
87 172 0.99
88 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.28, T:0.12
Consensus pattern (87 bp):
AGGTTGCAGCAAGAGAAGAAAAGGTTAAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCA
GAGACGGCAGCGAGGGAAGCAG
Found at i:38333722 original size:43 final size:44
Alignment explanation
Indices: 38333593--38333730 Score: 197
Period size: 44 Copynumber: 3.2 Consensus size: 44
38333583 ATTCTATAGC
* * *
38333593 GGCGTTTGTGGAAAAAATCGCCGCTAACGAACATGACCTTTAGC
1 GGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGACCTTTAGT
* * *
38333637 GGCGTTTGTGGAAAAAAACGCCACTAAAGAACATTACTTTTAGT
1 GGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGACCTTTAGT
* *
38333681 GGCGTTTGTGG-AGAAAGCGCCGCTAAAGAACATGACCTTTAGT
1 GGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGACCTTTAGT
38333724 GGCGTTT
1 GGCGTTT
38333731 ATTTCTGTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 34 0.41
44 49 0.59
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (44 bp):
GGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATGACCTTTAGT
Found at i:38338743 original size:25 final size:26
Alignment explanation
Indices: 38338714--38338767 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
38338704 ACATCTCTTA
38338714 TGAGCTTCCCGATT-A-TGGCTCTTCG
1 TGAGCTTCCCG-TTAATTGGCTCTTCG
* *
38338739 TGAGCTTTCCGTTAATTGGCTCTTTG
1 TGAGCTTCCCGTTAATTGGCTCTTCG
38338765 TGA
1 TGA
38338768 CTTTCCTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 11 0.44
26 12 0.48
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.41
Consensus pattern (26 bp):
TGAGCTTCCCGTTAATTGGCTCTTCG
Found at i:38354337 original size:18 final size:19
Alignment explanation
Indices: 38354304--38354343 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
38354294 AACATGTTTC
* *
38354304 TTTTATTTT-ATTTTTTAT
1 TTTTATTTTAAATTTTAAT
38354322 TTTTATTTTAAATTTTAAT
1 TTTTATTTTAAATTTTAAT
38354341 TTT
1 TTT
38354344 CTCATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTTAAATTTTAAT
Found at i:38357945 original size:19 final size:20
Alignment explanation
Indices: 38357903--38357955 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
38357893 TACCTTTTTT
38357903 TGCATT-CATTTCATTCATCA
1 TGCATTACATTTCA-TCATCA
38357923 -GCATTACATTTCATCA-CA
1 TGCATTACATTTCATCATCA
*
38357941 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
38357956 AAAAAGACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 21 0.70
20 7 0.23
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.42
Consensus pattern (20 bp):
TGCATTACATTTCATCATCA
Found at i:38362376 original size:43 final size:43
Alignment explanation
Indices: 38362291--38362610 Score: 401
Period size: 43 Copynumber: 7.5 Consensus size: 43
38362281 CGCTAAAAGT
* *
38362291 CATGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTATATAC
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC
* * * *
38362333 CACGACCTTTAGCGACGCTTTTTCCACAAACGCCGCTAAATAC
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC
* * * * *
38362376 CATGATCTTTAGCGACGCTTTTCCCACAAACACCGCTATAGAG
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC
*
38362419 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC
*
38362462 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC
** * *
38362505 CATGACCTTTAGCGGCGCTTTTATCACAAACGCCGTTAAAGAA
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC
** * * *
38362548 CATGACCTTTAGCGGCGCTTTTTATCACAAACGCCACTATAGAA
1 CATGACCTTTAGCGGCGC-TTTTCCCACAAACGCCGCTAAAGAC
* *
38362592 CA-AACCTTTAGCGACGCTT
1 CATGACCTTTAGCGGCGCTT
38362611 CTCGACAAAA
Statistics
Matches: 249, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
42 18 0.07
43 207 0.83
44 24 0.10
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC
Found at i:38367498 original size:14 final size:15
Alignment explanation
Indices: 38367478--38367506 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38367468 AAACCAGAAC
38367478 CCCTAA-TCCATAAT
1 CCCTAATTCCATAAT
38367492 CCCTAATTCCATAAT
1 CCCTAATTCCATAAT
38367507 ATATAAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (15 bp):
CCCTAATTCCATAAT
Found at i:38367954 original size:41 final size:41
Alignment explanation
Indices: 38367908--38368103 Score: 284
Period size: 41 Copynumber: 4.8 Consensus size: 41
38367898 AAATGTTTTT
* * ***
38367908 GCGGCGCTTTTTAAAAAACGCCGCTAAAGCATTGAGCATTA
1 GCGGCGCTTCTCAAAAAACGCCGCTAAAGCCCGGAGCATTA
* * *
38367949 GCGGCGCTTCTCCAAAAACGCTGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTCAAAAAACGCCGCTAAAGCCCGGAGCATTA
* *
38367990 GCGACGCTTCTCTAAAAACGCCGCTAAAGCCCGGAGCATTA
1 GCGGCGCTTCTCAAAAAACGCCGCTAAAGCCCGGAGCATTA
*
38368031 GCGGCGCTTCTCAAAAAACACCGCTAAAGCCCGGAGCATTA
1 GCGGCGCTTCTCAAAAAACGCCGCTAAAGCCCGGAGCATTA
*
38368072 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCC
1 GCGGCGCTTCTCAAAAAACGCCGCTAAAGCCC
38368104 CGAAAGGTCA
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTCTCAAAAAACGCCGCTAAAGCCCGGAGCATTA
Found at i:38368158 original size:65 final size:65
Alignment explanation
Indices: 38368079--38368201 Score: 219
Period size: 65 Copynumber: 1.9 Consensus size: 65
38368069 TTAGCGGCGC
* *
38368079 TTCTCCAAAAACGCCGCTAAAGCCCCGAAAGGTCAAAAAAAGATGTCGTTGGGCTTAGCGGCATT
1 TTCTCAAAAAACGCCGCTAAAGCCCCGAAAGGTCAAAAAAAGATGTCGTTGAGCTTAGCGGCATT
*
38368144 TTCTCAAAAAACGCCGCTAAAGCCCCGAAAGGTCAAAAAACGATGTCGTTGAGCTTAG
1 TTCTCAAAAAACGCCGCTAAAGCCCCGAAAGGTCAAAAAAAGATGTCGTTGAGCTTAG
38368202 GTTTTTTGCG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (65 bp):
TTCTCAAAAAACGCCGCTAAAGCCCCGAAAGGTCAAAAAAAGATGTCGTTGAGCTTAGCGGCATT
Found at i:38368241 original size:31 final size:31
Alignment explanation
Indices: 38368206--38368265 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
38368196 GCTTAGGTTT
*
38368206 TTTGCGGCGTAATTCTTATTTTTAGCGGCGC
1 TTTGCGGCGTAATTATTATTTTTAGCGGCGC
38368237 TTTGCGGCGTAATTATTATTTTTAGCGGC
1 TTTGCGGCGTAATTATTATTTTTAGCGGC
38368266 ATTTTTTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.43
Consensus pattern (31 bp):
TTTGCGGCGTAATTATTATTTTTAGCGGCGC
Found at i:38372992 original size:12 final size:11
Alignment explanation
Indices: 38372961--38372990 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38372951 TCCTACTGTC
*
38372961 AACAAACATAA
1 AACAAAAATAA
38372972 AACAAAAATAA
1 AACAAAAATAA
38372983 AACAAAAA
1 AACAAAAA
38372991 ATGGGCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (11 bp):
AACAAAAATAA
Found at i:38378008 original size:20 final size:20
Alignment explanation
Indices: 38377980--38378022 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38377970 AAAAATTTTT
* *
38377980 ATATTTAAAACCATAATAAA
1 ATATATAAAACCAAAATAAA
*
38378000 ATATATAAAACTAAAATAAA
1 ATATATAAAACCAAAATAAA
38378020 ATA
1 ATA
38378023 AAAACACCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (20 bp):
ATATATAAAACCAAAATAAA
Found at i:38380129 original size:29 final size:29
Alignment explanation
Indices: 38380090--38380145 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
38380080 GCTAATTAAG
*
38380090 ATTAAGTTTTGGTTAATTAAAGTTTAATAA
1 ATTAAGTTTTGATTAATTAAA-TTTAATAA
38380120 ATTAA-TTTTGATTAATTAAATTTAAT
1 ATTAAGTTTTGATTAATTAAATTTAAT
38380146 CAAAAGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 6 0.24
29 14 0.56
30 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (29 bp):
ATTAAGTTTTGATTAATTAAATTTAATAA
Found at i:38385747 original size:25 final size:24
Alignment explanation
Indices: 38385719--38385771 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
38385709 CTGAATAATG
* *
38385719 GTAAGCTCATACGAGCTGAGTATCA
1 GTAAGCTCATAAGAGCTG-GAATCA
*
38385744 GTAAGCTTATAAGAGCTGGAATCA
1 GTAAGCTCATAAGAGCTGGAATCA
38385768 GTAA
1 GTAA
38385772 CCCTAATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (24 bp):
GTAAGCTCATAAGAGCTGGAATCA
Found at i:38388096 original size:28 final size:28
Alignment explanation
Indices: 38388043--38388096 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
38388033 TGAGTAGCCT
* *
38388043 AAATATCATAGCTTGTATCAGCAAATTC
1 AAATATCATAACTTGTATCAGAAAATTC
* *
38388071 AAATATCATAACTTGTGTGAGAAAAT
1 AAATATCATAACTTGTATCAGAAAAT
38388097 CGAATTATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (28 bp):
AAATATCATAACTTGTATCAGAAAATTC
Found at i:38392175 original size:16 final size:16
Alignment explanation
Indices: 38392154--38392187 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
38392144 AACTCAATAG
38392154 TTAGTTGTT-TTATTAT
1 TTAGTT-TTATTATTAT
38392170 TTAGTTTTATTATTAT
1 TTAGTTTTATTATTAT
38392186 TT
1 TT
38392188 TATTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (16 bp):
TTAGTTTTATTATTAT
Found at i:38392178 original size:13 final size:13
Alignment explanation
Indices: 38392160--38392197 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
38392150 ATAGTTAGTT
38392160 GTTTTATTATTTA
1 GTTTTATTATTTA
38392173 GTTTTATTA-TTA
1 GTTTTATTATTTA
38392185 -TTTTATTTATTTA
1 GTTTTA-TTATTTA
38392198 CTTTAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
13 12 0.52
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (13 bp):
GTTTTATTATTTA
Found at i:38411778 original size:3 final size:3
Alignment explanation
Indices: 38411770--38411810 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
38411760 AACTAAAGAA
38411770 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38411811 GAAATTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:38413585 original size:23 final size:23
Alignment explanation
Indices: 38413559--38413949 Score: 285
Period size: 23 Copynumber: 16.7 Consensus size: 23
38413549 GAGCATCATG
*
38413559 TATATACCAATTTGGACAGCACT-
1 TATATACCAAATTGGACAGCA-TA
* * * *
38413582 TATACACAAAATTTGACAGCATG
1 TATATACCAAATTGGACAGCATA
* *
38413605 TATATACAAAATTGGACAGCATT
1 TATATACCAAATTGGACAGCATA
*
38413628 TAT-TCACCAAAATTGGGCAGCATA
1 TATAT-ACC-AAATTGGACAGCATA
*
38413652 TATATACCAATTTGGACAGCACT-
1 TATATACCAAATTGGACAGCA-TA
* ** * *
38413675 TATACAAAAAATTTGACAGCATG
1 TATATACCAAATTGGACAGCATA
* *
38413698 TATATACAAAATTGGACAGCATT
1 TATATACCAAATTGGACAGCATA
*
38413721 TAT-TCACCAAAATTGGGCAGCATATA
1 TATAT-ACC-AAATTGGACAGC--ATA
38413747 TATATACCAAATTGGACAGCACT-
1 TATATACCAAATTGGACAGCA-TA
* * * *
38413770 TATACACAAAATTTGACAGCATG
1 TATATACCAAATTGGACAGCATA
* *
38413793 TATATACAAAATTGGACAGCATT
1 TATATACCAAATTGGACAGCATA
*
38413816 TAT-TCACCAAAATTGGGCAGCATA
1 TATAT-ACC-AAATTGGACAGCATA
*
38413840 TATATACCAATTTGGACAGCACT-
1 TATATACCAAATTGGACAGCA-TA
* * * * *
38413863 TATACACAAAATTTGACAGGATG
1 TATATACCAAATTGGACAGCATA
* * *
38413886 TATATACAAAACTGGACAGCATT
1 TATATACCAAATTGGACAGCATA
*
38413909 TAT-TCACCAAAATTGGGCAGCATA
1 TATAT-ACC-AAATTGGACAGCATA
*
38413933 TATATACCAATTTGGAC
1 TATATACCAAATTGGAC
38413950 CATTAAAGCA
Statistics
Matches: 295, Mismatches: 52, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
22 8 0.03
23 194 0.66
24 70 0.24
25 14 0.05
26 8 0.03
27 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (23 bp):
TATATACCAAATTGGACAGCATA
Found at i:38413656 original size:93 final size:93
Alignment explanation
Indices: 38413522--38413949 Score: 732
Period size: 93 Copynumber: 4.6 Consensus size: 93
38413512 TCTACCCTGT
* * * * *
38413522 TTGGACAGC-TCTTATACATCAGAAATTGAGCATCATGTATATACCAATTTGGACAGCACTTATA
1 TTGGACAGCAT-TTATTCACCA-AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATA
38413586 CACAAAATTTGACAGCATGTATATACAAAA
64 CACAAAATTTGACAGCATGTATATACAAAA
38413616 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
*
38413681 AAAAATTTGACAGCATGTATATACAAAA
66 CAAAATTTGACAGCATGTATATACAAAA
*
38413709 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAAATTGGACAGCACTTATA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGC--ATATATATACCAATTTGGACAGCACTTATA
38413774 CACAAAATTTGACAGCATGTATATACAAAA
64 CACAAAATTTGACAGCATGTATATACAAAA
38413804 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
*
38413869 CAAAATTTGACAGGATGTATATACAAAA
66 CAAAATTTGACAGCATGTATATACAAAA
*
38413897 CTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGAC
38413950 CATTAAAGCA
Statistics
Matches: 320, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
93 211 0.66
94 17 0.05
95 92 0.29
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (93 bp):
TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
CAAAATTTGACAGCATGTATATACAAAA
Found at i:38413784 original size:188 final size:188
Alignment explanation
Indices: 38413550--38413938 Score: 724
Period size: 188 Copynumber: 2.1 Consensus size: 188
38413540 TCAGAAATTG
* *
38413550 AGCATCATGTATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAA
1 AGCAT-ATATATATACCAAATTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAA
38413615 ATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATAC
65 ATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATAC
*
38413680 AAAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGC
130 AAAAAATTTGACAGCATGTATATACAAAACTGGACAGCATTTATTCACCAAAATTGGGC
38413739 AGCATATATATATACCAAATTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAA
1 AGCATATATATATACCAAATTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAA
38413804 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
66 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
* *
38413869 CAAAATTTGACAGGATGTATATACAAAACTGGACAGCATTTATTCACCAAAATTGGGC
131 AAAAATTTGACAGCATGTATATACAAAACTGGACAGCATTTATTCACCAAAATTGGGC
38413927 AGCATATATATA
1 AGCATATATATA
38413939 CCAATTTGGA
Statistics
Matches: 195, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
188 190 0.97
189 5 0.03
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (188 bp):
AGCATATATATATACCAAATTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAA
TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA
AAAAATTTGACAGCATGTATATACAAAACTGGACAGCATTTATTCACCAAAATTGGGC
Found at i:38414678 original size:28 final size:28
Alignment explanation
Indices: 38414639--38414734 Score: 156
Period size: 28 Copynumber: 3.4 Consensus size: 28
38414629 TAATACGTTT
* *
38414639 GCACACTTAGTGCTTTGCCATTAAACTC
1 GCACACTTAGTGCTTTACAATTAAACTC
*
38414667 ACACACTTAGTGCTTTACAATTAAACTC
1 GCACACTTAGTGCTTTACAATTAAACTC
*
38414695 GCACACTTAGTGCTTTACAATTAAATTC
1 GCACACTTAGTGCTTTACAATTAAACTC
38414723 GCACACTTAGTG
1 GCACACTTAGTG
38414735 TCGAAAGTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTTTACAATTAAACTC
Found at i:38416334 original size:21 final size:20
Alignment explanation
Indices: 38416309--38416360 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
38416299 TTTTTCCTAG
38416309 GATGTAAATTGTA-TATAATT
1 GATGTAAATTGTATTA-AATT
*
38416329 GAATGTGAATTGTATTAAATT
1 G-ATGTAAATTGTATTAAATT
38416350 GATGTTAAATT
1 GATG-TAAATT
38416361 CATTCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 21 0.78
22 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.44
Consensus pattern (20 bp):
GATGTAAATTGTATTAAATT
Found at i:38416972 original size:24 final size:25
Alignment explanation
Indices: 38416919--38416974 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
38416909 TTCCCGATAT
* *
38416919 ATGGCTATTTGGAGCTTCCCAATTA
1 ATGGCTCTTTGGAGCTACCCAATTA
38416944 ATGGCTCTTTGGAGCTACCC-ATTA
1 ATGGCTCTTTGGAGCTACCCAATTA
*
38416968 TTGGCTC
1 ATGGCTC
38416975 GCATGAGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (25 bp):
ATGGCTCTTTGGAGCTACCCAATTA
Found at i:38416996 original size:24 final size:25
Alignment explanation
Indices: 38416969--38417024 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
38416959 TACCCATTAT
*
38416969 TGGCTCGCATGAGCTTCTTG-AATA
1 TGGCTCGCATGAGCTTCCTGTAATA
* *
38416993 TGGCTCACATGAGCTTCCTGTTATA
1 TGGCTCGCATGAGCTTCCTGTAATA
38417018 TGGCTCG
1 TGGCTCG
38417025 AGATAGGGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (25 bp):
TGGCTCGCATGAGCTTCCTGTAATA
Found at i:38422946 original size:25 final size:25
Alignment explanation
Indices: 38422917--38422965 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
38422907 ATAAGTTTAC
38422917 AACATATCTAAAATACA-TATAAGCA
1 AACATATCTAAAA-ACATTATAAGCA
* *
38422942 AACATATGTATAAACATTATAAGC
1 AACATATCTAAAAACATTATAAGC
38422966 TTATAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (25 bp):
AACATATCTAAAAACATTATAAGCA
Found at i:38423221 original size:41 final size:41
Alignment explanation
Indices: 38423161--38423269 Score: 157
Period size: 41 Copynumber: 2.7 Consensus size: 41
38423151 TTTAACATAT
*
38423161 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT-CAGA
* * *
38423202 TCACCGACACTTAGTCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
38423243 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
38423270 AAGTCCGAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 2 0.03
41 57 0.97
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:38423306 original size:82 final size:82
Alignment explanation
Indices: 38423161--38423318 Score: 182
Period size: 82 Copynumber: 1.9 Consensus size: 82
38423151 TTTAACATAT
* * * * *
38423161 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAATCACCGACACTTAGTCTGCTAGG-
1 TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGAATCCAATCACCGACACTTAGCCTACTAGGT
38423225 TTTATAACCTGATTCAGA
66 TTTA-AACCTGATTCAGA
*
38423243 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCC-GAAT-CATTTCACC-AGC-CTTAAGCCTACT
1 TCACCGGCACTTAGCCTGCTAGACTTAAAG-CCTGAATCCA-ATCACCGA-CACTT-AGCCTACT
38423304 AGGTTTTAAACCTGA
62 AGGTTTTAAACCTGA
38423319 AAATTTCAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
81 6 0.09
82 53 0.82
83 6 0.09
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (82 bp):
TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGAATCCAATCACCGACACTTAGCCTACTAGGT
TTTAAACCTGATTCAGA
Found at i:38433347 original size:26 final size:26
Alignment explanation
Indices: 38433318--38433367 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
38433308 CCGATATATA
* *
38433318 GCTCTTCGTGAGCTTTCTGATTAAAG
1 GCTCTTCGTGAGCTTCCTAATTAAAG
*
38433344 GCTCTTTGTGAGCTTCCTAATTAA
1 GCTCTTCGTGAGCTTCCTAATTAA
38433368 TCGCTCTCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
GCTCTTCGTGAGCTTCCTAATTAAAG
Found at i:38433373 original size:26 final size:26
Alignment explanation
Indices: 38433318--38433374 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
38433308 CCGATATATA
* * *
38433318 GCTCTTCGTGAGCTTTCTGATTAAAG
1 GCTCTTCGTGAGCTTCCTAATTAAAC
* *
38433344 GCTCTTTGTGAGCTTCCTAATTAATC
1 GCTCTTCGTGAGCTTCCTAATTAAAC
38433370 GCTCT
1 GCTCT
38433375 CCGGAACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (26 bp):
GCTCTTCGTGAGCTTCCTAATTAAAC
Found at i:38433455 original size:25 final size:25
Alignment explanation
Indices: 38433318--38433455 Score: 63
Period size: 26 Copynumber: 5.5 Consensus size: 25
38433308 CCGATATATA
* *
38433318 GCTCTTCGTGAGCTTTCTGATTAAAG
1 GCTCTTCG-GAGCTTCCTGATTAATG
* * *
38433344 GCTCTTTGTGAGCTTCCTAATTAATC
1 GCTCTTCG-GAGCTTCCTGATTAATG
* * *
38433370 GCTCTCCGGAACTTTCC-GA-T-ATA
1 GCTCTTCGGAGC-TTCCTGATTAATG
* *
38433393 GCTCGCTT--GAACTTCCCGA-TATATG
1 GCT--CTTCGGAGCTTCCTGATTA-ATG
* * *
38433418 GCTATCCGAAGCTTCCTGATTAATG
1 GCTCTTCGGAGCTTCCTGATTAATG
38433443 GCTCTTCGGAGCT
1 GCTCTTCGGAGCT
38433456 ACCCATTATT
Statistics
Matches: 83, Mismatches: 20, Indels: 19
0.68 0.16 0.16
Matches are distributed among these distances:
22 4 0.05
23 13 0.16
24 1 0.01
25 32 0.39
26 33 0.40
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
GCTCTTCGGAGCTTCCTGATTAATG
Found at i:38436251 original size:26 final size:26
Alignment explanation
Indices: 38436183--38436261 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
38436173 TTCTATTGCT
* * * *
38436183 ATACCAATATTTTTAAAGATATACCA
1 ATACTAATATTTCTAACGACATACCA
*
38436209 ATACTAAAATTTCTAACGACATACCA
1 ATACTAATATTTCTAACGACATACCA
38436235 ATACTAATATTTCTAAC-ACTATACCA
1 ATACTAATATTTCTAACGAC-ATACCA
38436261 A
1 A
38436262 AATTTTTATC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 2 0.04
26 44 0.96
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.32
Consensus pattern (26 bp):
ATACTAATATTTCTAACGACATACCA
Found at i:38436266 original size:20 final size:20
Alignment explanation
Indices: 38436243--38436290 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
38436233 CAATACTAAT
38436243 ATTTCTAACACTATACCAAA
1 ATTTCTAACACTATACCAAA
* * * *
38436263 ATTTTTATCACTTTATCAAA
1 ATTTCTAACACTATACCAAA
*
38436283 ATATCTAA
1 ATTTCTAA
38436291 TGGATGAAAA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTCTAACACTATACCAAA
Found at i:38437016 original size:4 final size:4
Alignment explanation
Indices: 38437007--38437033 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
38436997 ACTAGTCTTA
38437007 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
38437034 AGTTCTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:38442277 original size:23 final size:23
Alignment explanation
Indices: 38442251--38442427 Score: 89
Period size: 23 Copynumber: 7.4 Consensus size: 23
38442241 TGTACAACAA
38442251 TGGACAGCAATTAAGCATC-AATT
1 TGGACAGC-ATTAAGCATCAAATT
**
38442274 TGGACAGCATTAATATGC-TCAAAAA
1 TGGACAGCATT-A-A-GCATCAAATT
*
38442299 TGGACAGCATTTAAGCA-CTAATT
1 TGGACAGCA-TTAAGCATCAAATT
* **
38442322 TGGACAGCATTAATATGC-TAAAAAA
1 TGGACAGCATT-A-A-GCATCAAATT
* *
38442347 TAGACAGCATTTAAGCA-CTAATT
1 TGGACAGCA-TTAAGCATCAAATT
**
38442370 TGGACAGCATTAATATGC-TCAAAAA
1 TGGACAGCATT-A-A-GCATCAAATT
*
38442395 TGGACAGCAATTAAGCA-CTAATT
1 TGGACAGC-ATTAAGCATCAAATT
38442418 TGGACAGCAT
1 TGGACAGCAT
38442428 CTTATCATCA
Statistics
Matches: 115, Mismatches: 21, Indels: 37
0.66 0.12 0.21
Matches are distributed among these distances:
22 9 0.08
23 50 0.43
24 8 0.07
25 41 0.36
26 7 0.06
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (23 bp):
TGGACAGCATTAAGCATCAAATT
Found at i:38442305 original size:25 final size:25
Alignment explanation
Indices: 38442274--38442408 Score: 125
Period size: 25 Copynumber: 5.5 Consensus size: 25
38442264 AGCATCAATT
38442274 TGGACAGCATTAATATGCTCAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
* * * **
38442299 TGGACAGCATT--TAAGCACTAATT
1 TGGACAGCATTAATATGCTCAAAAA
*
38442322 TGGACAGCATTAATATGCTAAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
* * * * **
38442347 TAGACAGCATT--TAAGCACTAATT
1 TGGACAGCATTAATATGCTCAAAAA
38442370 TGGACAGCATTAATATGCTCAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
38442395 TGGACAGCAATTAA
1 TGGACAGC-ATTAA
38442409 GCACTAATTT
Statistics
Matches: 81, Mismatches: 24, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
23 34 0.42
25 42 0.52
26 5 0.06
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (25 bp):
TGGACAGCATTAATATGCTCAAAAA
Found at i:38442322 original size:48 final size:48
Alignment explanation
Indices: 38442249--38442427 Score: 306
Period size: 48 Copynumber: 3.7 Consensus size: 48
38442239 TTTGTACAAC
38442249 AATGGACAGCAATTAAGCA-TCAATTTGGACAGCATTAATATGCTCAAA
1 AATGGACAGCAATTAAGCACT-AATTTGGACAGCATTAATATGCTCAAA
* *
38442297 AATGGACAGCATTTAAGCACTAATTTGGACAGCATTAATATGCTAAAA
1 AATGGACAGCAATTAAGCACTAATTTGGACAGCATTAATATGCTCAAA
* *
38442345 AATAGACAGCATTTAAGCACTAATTTGGACAGCATTAATATGCTCAAA
1 AATGGACAGCAATTAAGCACTAATTTGGACAGCATTAATATGCTCAAA
38442393 AATGGACAGCAATTAAGCACTAATTTGGACAGCAT
1 AATGGACAGCAATTAAGCACTAATTTGGACAGCAT
38442428 CTTATCATCA
Statistics
Matches: 124, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
48 123 0.99
49 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (48 bp):
AATGGACAGCAATTAAGCACTAATTTGGACAGCATTAATATGCTCAAA
Found at i:38449690 original size:48 final size:48
Alignment explanation
Indices: 38449637--38449837 Score: 298
Period size: 48 Copynumber: 4.2 Consensus size: 48
38449627 AACAACATTC
* * *
38449637 GGACAGCATTGATTTG-TACAAAAATGGACAGCAACTAAGCA-TCAATTT
1 GGACAGCATTAATATGCT-CAAAAATGGACAGCAATTAAGCACT-AATTT
*
38449685 GGACAGCATTAATATGCTCAAAAATGGACAGCATTTAAGCACTAATTT
1 GGACAGCATTAATATGCTCAAAAATGGACAGCAATTAAGCACTAATTT
* * *
38449733 GGACAGCATTAATATGCTTAAAAATAGACAGCATTTAAGCACTAATTT
1 GGACAGCATTAATATGCTCAAAAATGGACAGCAATTAAGCACTAATTT
*
38449781 GGACAGCATTAATATGTTCAAAAATGGACAGCAATTAAGCACTAATTT
1 GGACAGCATTAATATGCTCAAAAATGGACAGCAATTAAGCACTAATTT
38449829 GGACAGCAT
1 GGACAGCAT
38449838 CTTATCATCA
Statistics
Matches: 141, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
48 139 0.99
49 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.26
Consensus pattern (48 bp):
GGACAGCATTAATATGCTCAAAAATGGACAGCAATTAAGCACTAATTT
Found at i:38449715 original size:25 final size:25
Alignment explanation
Indices: 38449684--38449818 Score: 116
Period size: 25 Copynumber: 5.5 Consensus size: 25
38449674 AGCATCAATT
38449684 TGGACAGCATTAATATGCTCAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
* * * **
38449709 TGGACAGCATT--TAAGCACTAATT
1 TGGACAGCATTAATATGCTCAAAAA
*
38449732 TGGACAGCATTAATATGCTTAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
* * * * **
38449757 TAGACAGCATT--TAAGCACTAATT
1 TGGACAGCATTAATATGCTCAAAAA
*
38449780 TGGACAGCATTAATATGTTCAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
38449805 TGGACAGCAATTAA
1 TGGACAGC-ATTAA
38449819 GCACTAATTT
Statistics
Matches: 80, Mismatches: 25, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
23 34 0.43
25 41 0.51
26 5 0.06
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (25 bp):
TGGACAGCATTAATATGCTCAAAAA
Found at i:38449739 original size:23 final size:23
Alignment explanation
Indices: 38449709--38449837 Score: 98
Period size: 23 Copynumber: 5.4 Consensus size: 23
38449699 TGCTCAAAAA
38449709 TGGACAGCATTTAAGCACTAATT
1 TGGACAGCATTTAAGCACTAATT
* * **
38449732 TGGACAGCATTAATATGC-TTAAAAA
1 TGGACAGCATT--TAAGCACT-AATT
*
38449757 TAGACAGCATTTAAGCACTAATT
1 TGGACAGCATTTAAGCACTAATT
* ** * **
38449780 TGGACAGCATTAATATGTTCAAAAA
1 TGGACAGCATT--TAAGCACTAATT
*
38449805 TGGACAGCAATTAAGCACTAATT
1 TGGACAGCATTTAAGCACTAATT
38449828 TGGACAGCAT
1 TGGACAGCAT
38449838 CTTATCATCA
Statistics
Matches: 76, Mismatches: 24, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
23 42 0.55
24 2 0.03
25 32 0.42
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (23 bp):
TGGACAGCATTTAAGCACTAATT
Found at i:38450506 original size:43 final size:42
Alignment explanation
Indices: 38450441--38450594 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
38450431 AGCTCATACA
* * *
38450441 ATGCCA-TATCCCAGATATGGTCTTACATGTTAACACATTTCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTT-ACTCATTTCG
* * * *
38450483 ATGCCACTGTCCCAGACAAGGTCTTATACG--ACTCATATACG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTTACTCAT-TTCG
* *
38450524 ATGCCAAC-GTCCCAGACATGGCCTTACATGTTCTCTCACTTT-G
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGTT-ACTCA-TTTCG
*
38450567 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCACTGTCCCAGACATGGTCTTACA
38450595 CAAAATCACA
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
40 5 0.06
41 26 0.29
42 9 0.10
43 43 0.48
44 5 0.06
45 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTTACTCATTTCG
Found at i:38455782 original size:19 final size:22
Alignment explanation
Indices: 38455760--38455812 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
38455750 TTATATGGTC
*
38455760 CTTTTCTTTTTA-TT-TTT-TT
1 CTTTTCTTTCTAGTTCTTTGTT
38455779 CTTTTCTTTCTAGTTCTTTGTT
1 CTTTTCTTTCTAGTTCTTTGTT
38455801 CTTCTTCTTTCT
1 CTT-TTCTTTCT
38455813 TTTATCTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.38
20 2 0.07
21 3 0.10
22 5 0.17
23 8 0.28
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.74
Consensus pattern (22 bp):
CTTTTCTTTCTAGTTCTTTGTT
Found at i:38455788 original size:23 final size:23
Alignment explanation
Indices: 38455762--38455815 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
38455752 ATATGGTCCT
* *
38455762 TTTCTTTTTATTTTTTTCTT-TTC
1 TTTCTTTTT-CTTTGTTCTTCTTC
**
38455785 TTTCTAGTTCTTTGTTCTTCTTC
1 TTTCTTTTTCTTTGTTCTTCTTC
38455808 TTTCTTTT
1 TTTCTTTT
38455816 ATCTCTTTGC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTCTTTTTCTTTGTTCTTCTTC
Found at i:38457088 original size:22 final size:24
Alignment explanation
Indices: 38457045--38457109 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 24
38457035 ATCTTTTTGT
38457045 ATATGAAACTGAAATTGCTTCTGC
1 ATATGAAACTGAAATTGCTTCTGC
* * *
38457069 ATATGTAACT-AATTTG-TTCTGA
1 ATATGAAACTGAAATTGCTTCTGC
*
38457091 ATCTG-AACTGAAATTGCTT
1 ATATGAAACTGAAATTGCTT
38457110 TTGTTACCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 4 0.12
22 14 0.41
23 7 0.21
24 9 0.26
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGAAACTGAAATTGCTTCTGC
Found at i:38458106 original size:15 final size:15
Alignment explanation
Indices: 38458086--38458124 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
38458076 TACTGATTTC
*
38458086 TTAAATTTTTAGATA
1 TTAAATTTATAGATA
*
38458101 TTAAATTTATAGATT
1 TTAAATTTATAGATA
*
38458116 TTAAGTTTA
1 TTAAATTTA
38458125 AAGGTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (15 bp):
TTAAATTTATAGATA
Found at i:38458730 original size:15 final size:17
Alignment explanation
Indices: 38458691--38458731 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
38458681 ATTGGAATGG
38458691 TGAATTGATGATGAAAT
1 TGAATTGATGATGAAAT
*
38458708 TGATATTGAT-A-GAATT
1 TGA-ATTGATGATGAAAT
38458724 TGAATTGA
1 TGAATTGA
38458732 ACTGATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 4 0.18
18 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (17 bp):
TGAATTGATGATGAAAT
Found at i:38474510 original size:6 final size:6
Alignment explanation
Indices: 38474499--38474530 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
38474489 GAGGGTAAGC
38474499 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
38474531 GTTAATTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:38478288 original size:19 final size:20
Alignment explanation
Indices: 38478245--38478288 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
38478235 TATGACCCCT
38478245 ATTTTCTAAAATTTTTAAGA
1 ATTTTCTAAAATTTTTAAGA
* *
38478265 TTTTTCTAAAA-TTTTATGA
1 ATTTTCTAAAATTTTTAAGA
38478284 ATTTT
1 ATTTT
38478289 TTCGTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTCTAAAATTTTTAAGA
Found at i:38479551 original size:23 final size:23
Alignment explanation
Indices: 38479489--38479535 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38479479 AGACACAATG
38479489 CACAAAGTCTCGAGACATGAACC
1 CACAAAGTCTCGAGACATGAACC
38479512 CACAAAGTCTCGAGACATGAACC
1 CACAAAGTCTCGAGACATGAACC
38479535 C
1 C
38479536 CTAATGTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.32, G:0.17, T:0.13
Consensus pattern (23 bp):
CACAAAGTCTCGAGACATGAACC
Found at i:38480474 original size:119 final size:119
Alignment explanation
Indices: 38480263--38480497 Score: 400
Period size: 119 Copynumber: 2.0 Consensus size: 119
38480253 TTTTACATGG
* *
38480263 TTTAGTTAAGGGCAAAGTGATAAATGTTCAATTAAATTGTAATCAAATAAAAAAACAAAGGCTAT
1 TTTAGTTAAGGGCAAAGTGATAAATATTCAATTAAATTATAATCAAATAAAAAAACAAAGGCTAT
*
38480328 CATCTCTTTCCTTTTTTTTTTGCCGAAAATGGGAAGAAAGAAACTGGGAGTTAA
66 CATCTCTTTCCTTTTGTTTTTGCCGAAAATGGGAAGAAAGAAACTGGGAGTTAA
* * *
38480382 TTTAGTTAAGGGCAAAGTGGTAAATATTTAATTAAATTATAATCAAATAAAATAAACAAATGCTA
1 TTTAGTTAAGGGCAAAGTGATAAATATTCAATTAAATTATAATCAAATAAAA-AAACAAAGGCTA
38480447 TCATCTCTTTCC-TTTGTTTTTGCCGAAAATGGGAAGAAAGAAACTGGGAGT
65 TCATCTCTTTCCTTTTGTTTTTGCCGAAAATGGGAAGAAAGAAACTGGGAGT
38480498 AGCTTAAGTG
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
119 86 0.79
120 23 0.21
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (119 bp):
TTTAGTTAAGGGCAAAGTGATAAATATTCAATTAAATTATAATCAAATAAAAAAACAAAGGCTAT
CATCTCTTTCCTTTTGTTTTTGCCGAAAATGGGAAGAAAGAAACTGGGAGTTAA
Found at i:38485160 original size:56 final size:56
Alignment explanation
Indices: 38485093--38485204 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
38485083 CAAGTGCCAA
*
38485093 GCTATTGGTTGAATGGTAATATGATTATTTATAAGATGCATTGTATTGGTCAGTAT
1 GCTATTGGTTGAATGGTAATATGATTATTTATAAGATGCATTGAATTGGTCAGTAT
*
38485149 GCTATTGGTTGAATGGTAATATGATTATTTATAAGATGCATTGAATTGGTTAGTAT
1 GCTATTGGTTGAATGGTAATATGATTATTTATAAGATGCATTGAATTGGTCAGTAT
38485205 TTAAGTGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.43
Consensus pattern (56 bp):
GCTATTGGTTGAATGGTAATATGATTATTTATAAGATGCATTGAATTGGTCAGTAT
Found at i:38488655 original size:11 final size:11
Alignment explanation
Indices: 38488639--38488682 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
38488629 ATTTTTAAAA
38488639 TTTTAAAATTT
1 TTTTAAAATTT
38488650 TTTTAAAATACTTT
1 TTTT-AAA-A-TTT
*
38488664 TTTTAAATTTT
1 TTTTAAAATTT
38488675 TTTTAAAA
1 TTTTAAAA
38488683 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 14 0.50
12 3 0.11
13 4 0.14
14 7 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:38488667 original size:25 final size:26
Alignment explanation
Indices: 38488639--38488692 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
38488629 ATTTTTAAAA
*
38488639 TTTTAAAATTTTTTT-AAAATACTTT
1 TTTTAAAATTTTTTTAAAAATAATTT
*
38488664 TTTTAAATTTTTTTTAAAAATAATTT
1 TTTTAAAATTTTTTTAAAAATAATTT
38488690 TTT
1 TTT
38488693 AGTGTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTAAAATTTTTTTAAAAATAATTT
Found at i:38489847 original size:16 final size:16
Alignment explanation
Indices: 38489822--38489856 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38489812 GTTTTACTCT
*
38489822 TAAAAGTATTTTTAAA
1 TAAAAGTATTATTAAA
*
38489838 TAAAATTATTATTAAA
1 TAAAAGTATTATTAAA
38489854 TAA
1 TAA
38489857 GATGTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAAAGTATTATTAAA
Done.