Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 92 of 362
Found at i:29528210 original size:46 final size:46
Alignment explanation
Indices: 29528157--29528329 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
29528147 TTGAGCATCC
*
29528157 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
* * * *
29528203 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCT
* * * *
29528250 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
* * *
29528296 GAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29528330 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 57 0.55
47 29 0.28
48 3 0.03
50 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
Found at i:29528310 original size:93 final size:93
Alignment explanation
Indices: 29528151--29528322 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
29528141 GAATGGTTGA
* * * * *
29528151 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
29528216 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
29528244 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
*
29528309 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
29528323 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29555388 original size:66 final size:69
Alignment explanation
Indices: 29555224--29555388 Score: 164
Period size: 66 Copynumber: 2.4 Consensus size: 69
29555214 ATACTATGTA
* * *
29555224 GTAGCTAGGTCACATGTGTGATA-CGAGATG--TGAC-CCATGTAGACAAGAGAGCTACGGGAGA
1 GTAGCTAGGTCACATGGGTGATACCAAG-TGAAAGACACCATGTAGACAAGAGAGCTAC--G-GA
29555285 GGATAAAT
62 GGATAAAT
* * *
29555293 GTAGCTAGGTCGCATGTGTGATTCCAAGTGAAAGACACCATGTAGACAAGAGAGCTAC-GA-GAT
1 GTAGCTAGGTCACATGGGTGATACCAAGTGAAAGACACCATGTAGACAAGAGAGCTACGGAGGAT
29555356 AAAT
66 AAAT
* * *
29555360 -TGGCTAGGTCACATGGGTGGTACTAAGTG
1 GTAGCTAGGTCACATGGGTGATACCAAGTG
29555389 TTCACCATGT
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
66 23 0.28
67 7 0.09
68 2 0.02
69 23 0.28
70 3 0.04
71 3 0.04
72 21 0.26
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (69 bp):
GTAGCTAGGTCACATGGGTGATACCAAGTGAAAGACACCATGTAGACAAGAGAGCTACGGAGGAT
AAAT
Found at i:29562872 original size:65 final size:68
Alignment explanation
Indices: 29562743--29562872 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 68
29562733 GGGATGTATC
* * *
29562743 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTAC--G-GAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
29562808 AAGACA
63 AAGACA
* * *
29562814 CCATGTAGACAAGAGAGCTAC-GA-GATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
29562873 TTCACCATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
65 23 0.43
66 7 0.13
67 2 0.04
71 21 0.40
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGAAG
ACA
Found at i:29573198 original size:27 final size:27
Alignment explanation
Indices: 29573164--29573314 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
29573154 ATATACTCAC
* *
29573164 TCGCACACTTAGTGCCACGTAATCAAA
1 TCGCACACTTAGTGCCACATAGTCAAA
* *
29573191 TCGCACACTTAGTGCTACATAGTCAGAC
1 TCGCACACTTAGTGCCACATAGTCA-AA
* * *
29573219 TCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCCACATAGTCAAA
* **
29573246 TCGCACACTTAGTG-CATCATATTCATT
1 TCGCACACTTAGTGCCA-CATAGTCAAA
* *
29573273 TCGCACACTTAGTGCAACATAGTCGAA
1 TCGCACACTTAGTGCCACATAGTCAAA
29573300 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
29573315 TGTACAATTT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 79 0.76
28 24 0.23
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (27 bp):
TCGCACACTTAGTGCCACATAGTCAAA
Found at i:29573231 original size:55 final size:54
Alignment explanation
Indices: 29573139--29573315 Score: 205
Period size: 55 Copynumber: 3.3 Consensus size: 54
29573129 ATATTGAGCC
* * * *
29573139 CGCACACTCAGTGCTATATACTC-ACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATACTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * * *
29573192 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATACTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
* ** * *
29573247 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTA-CATACTCAACTCGCACACTTAGTGCCACATAGTCAAAT
29573301 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29573316 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 20 0.19
54 38 0.37
55 46 0.44
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATACTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:29573258 original size:82 final size:81
Alignment explanation
Indices: 29573164--29573314 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
29573154 ATATACTCAC
* * *
29573164 TCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACACT
1 TCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCACACT
29573228 TAGTGCCGCATGGTCAAT
64 TAGTGCCGCATGGTCAAT
* **
29573246 TCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
1 TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
29573311 GTGC
66 GTGC
29573315 TGTACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 19 0.31
82 43 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:29577646 original size:15 final size:16
Alignment explanation
Indices: 29577615--29577648 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
29577605 TATATACTTG
*
29577615 TAATGTCATATTATGT
1 TAATGACATATTATGT
29577631 TAATGACATA-TATGT
1 TAATGACATATTATGT
29577646 TAA
1 TAA
29577649 GTAGTTGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TAATGACATATTATGT
Found at i:29579877 original size:39 final size:39
Alignment explanation
Indices: 29579823--29579948 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
29579813 TTCAGTGATG
*
29579823 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
29579862 TATATCCGGACTTAGGATCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
29579901 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
29579940 TATGTCCGG
1 TATATCCGG
29579949 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:29579962 original size:39 final size:38
Alignment explanation
Indices: 29579823--29579986 Score: 177
Period size: 39 Copynumber: 4.2 Consensus size: 38
29579813 TTCAGTGATG
* * *
29579823 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGAC-TAAGGTCCGCAGGCTACGTGCTGGAAT
* *
29579862 TATATCCGGACTTAGGATCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTAAGG-TCCGCAGGCTACGTGCTGGAAT
*
29579901 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGAC-TAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
29579940 TATGTCCGGGCTAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTAAGGT-CCGCAGGCTACGTGCTGGAAT
29579979 TATA-CCGG
1 TATATCCGG
29579987 GTTTAAATTC
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 12 0.11
39 92 0.85
40 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (38 bp):
TATATCCGGACTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:29579962 original size:78 final size:78
Alignment explanation
Indices: 29579823--29579966 Score: 200
Period size: 78 Copynumber: 1.8 Consensus size: 78
29579813 TTCAGTGATG
* * * * *
29579823 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGATCCGCAGGC
1 TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
29579888 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
29579901 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAG-TCCCGCAGG
1 TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGAT-CCGCAGG
29579965 CT
65 CT
29579967 TCGAGCTGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.02
78 56 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
TATATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
TATGTGCTGGAAT
Found at i:29579975 original size:78 final size:78
Alignment explanation
Indices: 29579823--29579986 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
29579813 TTCAGTGATG
* * * * * *
29579823 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGATCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
*
29579888 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* *
29579901 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAG-TCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGAT-CCGCAGG
*
29579965 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
29579979 TATA-CCGG
1 TATATCCGG
29579987 GTTTAAATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 6 0.08
78 68 0.92
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTAAAGATCCGCAGGC
TATGAGCTGGAAT
Found at i:29581852 original size:16 final size:17
Alignment explanation
Indices: 29581823--29581854 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29581813 AAGGTCACTT
29581823 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
29581840 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
29581855 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:29582085 original size:42 final size:42
Alignment explanation
Indices: 29582009--29582160 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
29581999 CATACCAATA
* * * **
29582009 CCATATCCCAGATTTGGTCTTACATGGGATCTCATATCGATG
1 CCATAGCCCAGATATGGTCTTACACGAAATCTCATATCGATG
* *
29582051 CCAATAGCCCAGCTATGGTCTTACACG-ATTCTCATATCGATG
1 CC-ATAGCCCAGATATGGTCTTACACGAAATCTCATATCGATG
* * *
29582093 CCAT-GTCCCTGATATGGTCTTACATGAAATCTTATAAT-GATG
1 CCATAG-CCCAGATATGGTCTTACACGAAATCTCAT-ATCGATG
*
29582135 CCATAACCCAGATATGGTCTTACACG
1 CCATAGCCCAGATATGGTCTTACACG
29582161 TAGACTCATA
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 19 0.21
42 49 0.54
43 22 0.24
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
CCATAGCCCAGATATGGTCTTACACGAAATCTCATATCGATG
Found at i:29582169 original size:84 final size:84
Alignment explanation
Indices: 29582009--29582170 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 84
29581999 CATACCAATA
* ** * *
29582009 CCATATCCCAGATTTGGTCTTACATGGGATCTCATATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CCATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAATAACCCAGATATGGTCTTA
**
29582074 CACGATTCTCATATCGATG
66 CACGAGACTCATATCGATG
* * *
29582093 CCATGTCCCTGATATGGTCTTACATGAAATCTTATAAT-GATGCC-ATAACCCAGATATGGTCTT
1 CCATATCCCAGATATGGTCTTACATGAAATCTCAT-ATCGATGCCAATAACCCAGATATGGTCTT
29582156 ACACGTAGACTCATA
65 ACACG-AGACTCATA
29582171 ACCCTAATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 22 0.33
84 42 0.64
85 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (84 bp):
CCATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAATAACCCAGATATGGTCTTA
CACGAGACTCATATCGATG
Found at i:29587751 original size:16 final size:17
Alignment explanation
Indices: 29587722--29587753 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29587712 AAGGTCACTT
29587722 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
29587739 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
29587754 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:29587984 original size:42 final size:42
Alignment explanation
Indices: 29587908--29588059 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
29587898 CATACCAATA
* * * **
29587908 CCATATCCCAGATTTGGTCTTACATGGGATCTCATATCGATG
1 CCATAGCCCAGATATGGTCTTACACGAAATCTCATATCGATG
* *
29587950 CCAATAGCCCAGCTATGGTCTTACACG-ATTCTCATATCGATG
1 CC-ATAGCCCAGATATGGTCTTACACGAAATCTCATATCGATG
* * *
29587992 CCAT-GTCCCTGATATGGTCTTACATGAAATCTTATAAT-GATG
1 CCATAG-CCCAGATATGGTCTTACACGAAATCTCAT-ATCGATG
*
29588034 CCATAACCCAGATATGGTCTTACACG
1 CCATAGCCCAGATATGGTCTTACACG
29588060 TAGACTCATA
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 19 0.21
42 49 0.54
43 22 0.24
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
CCATAGCCCAGATATGGTCTTACACGAAATCTCATATCGATG
Found at i:29588068 original size:84 final size:84
Alignment explanation
Indices: 29587908--29588069 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 84
29587898 CATACCAATA
* ** * *
29587908 CCATATCCCAGATTTGGTCTTACATGGGATCTCATATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CCATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAATAACCCAGATATGGTCTTA
**
29587973 CACGATTCTCATATCGATG
66 CACGAGACTCATATCGATG
* * *
29587992 CCATGTCCCTGATATGGTCTTACATGAAATCTTATAAT-GATGCC-ATAACCCAGATATGGTCTT
1 CCATATCCCAGATATGGTCTTACATGAAATCTCAT-ATCGATGCCAATAACCCAGATATGGTCTT
29588055 ACACGTAGACTCATA
65 ACACG-AGACTCATA
29588070 ACCCTAATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 22 0.33
84 42 0.64
85 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (84 bp):
CCATATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAATAACCCAGATATGGTCTTA
CACGAGACTCATATCGATG
Found at i:29597066 original size:6 final size:6
Alignment explanation
Indices: 29597040--29597079 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
29597030 TAAAGAAGAT
* *
29597040 AAATAA AGATAA AAGTAA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
29597080 GTTCTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:29597066 original size:13 final size:14
Alignment explanation
Indices: 29597050--29597081 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
29597040 AAATAAAGAT
29597050 AAAAGTAA-AAATA
1 AAAAGTAATAAATA
29597063 AAAA-TAATAAATA
1 AAAAGTAATAAATA
29597076 AAAAGT
1 AAAAGT
29597082 TCTTAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAGTAATAAATA
Found at i:29606477 original size:83 final size:83
Alignment explanation
Indices: 29606383--29606535 Score: 272
Period size: 83 Copynumber: 1.8 Consensus size: 83
29606373 GGATATAGCA
*
29606383 ACTCGCACAAATGCCTTCGGGTCTT-AGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTCA-CCCGGATATAGTCACTAGCACAAATGCCTTCGGGACT
*
29606447 TGGCCCGGGTATAGCAACT
65 TAGCCCGGGTATAGCAACT
29606466 ACTCGCACAAATGCCTTCGGGACTTCACCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTCACCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTT
29606531 AGCCC
66 AGCCC
29606536 AGATATCGTC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
83 66 0.99
84 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (83 bp):
ACTCGCACAAATGCCTTCGGGACTTCACCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTT
AGCCCGGGTATAGCAACT
Found at i:29606483 original size:43 final size:40
Alignment explanation
Indices: 29606357--29606541 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 40
29606347 AACCCAAGTA
* * *
29606357 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
29606396 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
29606436 CCTTCGGGACTTGGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
29606479 CCTTCGGGACTTCA-CCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTT-AGCCCGGATATAGTCACTAGCACAAATG
*
29606519 CCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
29606542 CGTCCGAATA
Statistics
Matches: 127, Mismatches: 10, Indels: 17
0.82 0.06 0.11
Matches are distributed among these distances:
39 13 0.10
40 77 0.61
41 1 0.01
43 35 0.28
44 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:29608658 original size:16 final size:16
Alignment explanation
Indices: 29608637--29608673 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
29608627 CGGCAAATCC
*
29608637 CAAAATGTCAAAAAGT
1 CAAAATGCCAAAAAGT
29608653 CAAAATGCCAAAAAGT
1 CAAAATGCCAAAAAGT
29608669 CAAAA
1 CAAAA
29608674 GTTTGGCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (16 bp):
CAAAATGCCAAAAAGT
Found at i:29610226 original size:17 final size:18
Alignment explanation
Indices: 29610193--29610226 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29610183 TTTAAAGAAG
29610193 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
29610211 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
29610227 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:29615344 original size:47 final size:47
Alignment explanation
Indices: 29615291--29615482 Score: 276
Period size: 47 Copynumber: 4.1 Consensus size: 47
29615281 TTAGGATTTT
* *
29615291 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
29615338 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
29615385 AATGTAATGAATGTGAACATGCATATATGAGACAAGGCCGAATGTCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
29615432 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
29615479 AATG
1 AATG
29615483 CGAAATGTGT
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:29615592 original size:46 final size:46
Alignment explanation
Indices: 29615456--29615601 Score: 175
Period size: 46 Copynumber: 3.1 Consensus size: 46
29615446 GAACATGTAT
* * *
29615456 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGTTAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
29615502 ATATGAGATAAAGTCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
29615548 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATGTG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG-G
29615595 TATATGT
1 -ATATGT
29615602 ATATATATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 76 0.92
47 1 0.01
48 6 0.07
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:29625572 original size:40 final size:40
Alignment explanation
Indices: 29625511--29625691 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
29625501 CATTTGAATG
*
29625511 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
*
29625551 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
* * * * *
29625591 TTATCCGGGCTAAGACCCGAAGGCATTTGTCCGAGTTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
* * * *
29625631 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
* *
29625671 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
29625692 AAACTTGGGT
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.11
40 108 0.86
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
Found at i:29631554 original size:15 final size:15
Alignment explanation
Indices: 29631519--29631570 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
29631509 TTAAGAATTT
*
29631519 TATTAAATTAT-ATA
1 TATTTAATTATAATA
29631533 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
29631547 TATTTAATAATAAT-
1 TATTTAATTATAATA
29631561 TATGTTAATT
1 TAT-TTAATT
29631571 TATATTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:29631608 original size:120 final size:120
Alignment explanation
Indices: 29631461--29631686 Score: 452
Period size: 120 Copynumber: 1.9 Consensus size: 120
29631451 AGTAAATTAT
29631461 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
29631526 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAG
66 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAG
29631581 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
29631646 TTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TTATATATTTTAATTATAATATATTTAATAATAATTATGTT
29631687 TAAATATGAT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 106 1.00
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.49
Consensus pattern (120 bp):
AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAG
Found at i:29631669 original size:16 final size:16
Alignment explanation
Indices: 29631648--29631689 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
29631638 TTATTAAATT
*
29631648 ATATATTTTAATTATA
1 ATATATTTTAATAATA
29631664 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
29631679 AT-TATGTTTAA
1 ATATAT-TTTAA
29631690 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:29631674 original size:15 final size:15
Alignment explanation
Indices: 29631639--29631680 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29631629 TTAAGAATTT
*
29631639 TATTAAATTAT-ATA
1 TATTTAATTATAATA
29631653 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
29631667 TATTTAATAATAAT
1 TATTTAATTATAAT
29631681 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:29631915 original size:45 final size:43
Alignment explanation
Indices: 29631815--29631924 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
29631805 TTTTCCATTA
29631815 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
29631854 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
29631899 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
29631925 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:29631926 original size:16 final size:16
Alignment explanation
Indices: 29631905--29631972 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
29631895 GATTTGCTAT
*
29631905 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
29631921 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
29631937 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29631953 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29631969 TACA
1 TACA
29631973 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:29634649 original size:32 final size:33
Alignment explanation
Indices: 29634601--29634674 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 33
29634591 ATTTGCATTT
*
29634601 CTGATACTGAATTGTAATGGGCTAA-GCCCACA
1 CTGATACTGAACTGTAATGGGCTAAGGCCCACA
*
29634633 CTGATACTGTACTGTAATGGGCTAAGGCCCACA
1 CTGATACTGAACTGTAATGGGCTAAGGCCCACA
29634666 -TCGATACTG
1 CT-GATACTG
29634675 GACTAATACT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 24 0.63
33 14 0.37
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (33 bp):
CTGATACTGAACTGTAATGGGCTAAGGCCCACA
Found at i:29649409 original size:16 final size:16
Alignment explanation
Indices: 29649388--29649456 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
29649378 GATTAGCTAT
*
29649388 TACACCACTAATCCAA
1 TACACCTCTAATCCAA
29649404 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
29649421 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29649437 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29649453 TACA
1 TACA
29649457 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:29649432 original size:33 final size:32
Alignment explanation
Indices: 29649388--29649456 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
29649378 GATTAGCTAT
29649388 TACACCACTAATCCAATACACCTCTAATCCCAA
1 TACACCACTAATCCAATACACCTCTAAT-CCAA
*
29649421 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCACTAATCCAATACACCTCTAATCCAA
29649453 TACA
1 TACA
29649457 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (32 bp):
TACACCACTAATCCAATACACCTCTAATCCAA
Found at i:29653243 original size:27 final size:27
Alignment explanation
Indices: 29653213--29653390 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29653203 ATATTAAGTC
* * *
29653213 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
29653240 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
29653268 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
29653295 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
29653322 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
29653349 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
29653376 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29653391 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:29653297 original size:55 final size:54
Alignment explanation
Indices: 29653213--29653390 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
29653203 ATATTAAGTC
* * *
29653213 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
29653268 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
29653322 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
29653376 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29653391 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:29653379 original size:81 final size:82
Alignment explanation
Indices: 29653234--29653389 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
29653224 TGCTATATAA
* *
29653234 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
29653299 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
29653316 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
29653379 ACACTTAGTGC
65 ACACTTAGTGC
29653390 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:29661252 original size:27 final size:27
Alignment explanation
Indices: 29661222--29661397 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 27
29661212 ATATTAAGTC
* * * *
29661222 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29661249 CGCACACTTAGTGC-ACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
29661275 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
29661302 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29661329 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29661356 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29661383 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29661398 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.18
27 103 0.81
28 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29661386 original size:81 final size:80
Alignment explanation
Indices: 29661243--29661396 Score: 236
Period size: 81 Copynumber: 1.9 Consensus size: 80
29661233 TGCTATATAA
* * *
29661243 TCAACTCGCACACTTAGTGCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCACA
1 TCAACTCGCACACTTAGTGCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
29661308 CTTAGTGCCGCATGG
66 CTTAGTGCCGCATGG
* * **
29661323 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
29661388 ACTTAGTGC
65 ACTTAGTGC
29661397 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
80 20 0.30
81 46 0.70
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
CTTAGTGCCGCATGG
Found at i:29669465 original size:79 final size:80
Alignment explanation
Indices: 29669354--29669525 Score: 235
Period size: 79 Copynumber: 2.2 Consensus size: 80
29669344 GCTCCTCGTT
**
29669354 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACATAGCCCGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACCC
29669417 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* **
29669434 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCC-GAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
*
29669497 GATTTAGTATCTCGCA
65 GATTTAGTAACTCGCA
29669513 CAAATGCCTTCGG
1 CAAATGCCTTCGG
29669526 ATCATAGTCC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
78 5 0.06
79 62 0.75
80 16 0.19
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATTTAGTAACTCGCA
Found at i:29669538 original size:119 final size:120
Alignment explanation
Indices: 29669354--29669575 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 120
29669344 GCTCCTCGTT
*
29669354 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACATAACCCGG
* *
29669419 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCA
* * **
29669473 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCATAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CATAAC
* *
29669534 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCC
62 CCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCC
29669576 GGACATCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
118 8 0.09
119 62 0.70
120 18 0.20
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACATAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCA
Found at i:29669578 original size:40 final size:39
Alignment explanation
Indices: 29669354--29669578 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 39
29669344 GCTCCTCGTT
* *
29669354 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * *
29669394 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
*
29669434 CAAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
29669473 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * * *
29669513 CAAATGCCTTC-GGATCATAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
29669554 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29669579 CATCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
38 3 0.02
39 29 0.18
40 114 0.72
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:29675764 original size:27 final size:27
Alignment explanation
Indices: 29675726--29675839 Score: 142
Period size: 27 Copynumber: 4.2 Consensus size: 27
29675716 CAGCATGGCT
* *
29675726 ACCAGA-ACAGATATTGTGACAGAGTC
1 ACCAGATACAGATATTGTGGCAGAGCC
29675752 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGATACAGATATTGTGGCAGAGCC
* * *
29675779 ACCAGAAACAGATATTCGTGGCAAAGCT
1 ACCAGATACAGATATT-GTGGCAGAGCC
*
29675807 ACCAGAT-CAGATATTTGTGGTAGAGCC
1 ACCAGATACAGATA-TTGTGGCAGAGCC
29675834 ACCAGA
1 ACCAGA
29675840 ACGCTTCCTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
ACCAGATACAGATATTGTGGCAGAGCC
Found at i:29675818 original size:54 final size:55
Alignment explanation
Indices: 29675726--29675840 Score: 157
Period size: 55 Copynumber: 2.1 Consensus size: 55
29675716 CAGCATGGCT
*
29675726 ACCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGAAACAGATATTGTGACAAAGTCACCAGATACAGATATTTGTGGCAGAGCC
* *
29675779 ACCAGAAACAGATATTCGTGGCAAAG-CTACCAGAT-CAGATATTTGTGGTAGAGCC
1 ACCAGAAACAGATATT-GTGACAAAGTC-ACCAGATACAGATATTTGTGGCAGAGCC
29675834 ACCAGAA
1 ACCAGAA
29675841 CGCTTCCTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
53 5 0.09
54 17 0.31
55 33 0.60
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (55 bp):
ACCAGAAACAGATATTGTGACAAAGTCACCAGATACAGATATTTGTGGCAGAGCC
Found at i:29680984 original size:29 final size:29
Alignment explanation
Indices: 29680945--29681023 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
29680935 CTTAATAATC
*
29680945 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
29680975 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
29681004 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
29681024 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:29687373 original size:46 final size:44
Alignment explanation
Indices: 29687289--29687403 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 44
29687279 GATGAGAGCT
*
29687289 AGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATAT--GCC
* * **
29687335 AGTGTAAGACATGTCTGGGACATGCATC-AGCTACGAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATATGCC
*
29687379 AGTGTAAGACCATGTCTGGGGCATG
1 AGTGTAAGA-CATGTCTGGGACATG
29687404 GCATTGGCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 10 0.16
45 17 0.28
46 34 0.56
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATGCC
Found at i:29687436 original size:48 final size:46
Alignment explanation
Indices: 29687334--29687456 Score: 144
Period size: 48 Copynumber: 2.7 Consensus size: 46
29687324 AGATATAAGC
*
29687334 CAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGAGGTGT
* * **
29687378 TAGTGTAAGACCATGTCTGGGGCATGGCATTGGC-ACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACG---AGAGGTGT
*
29687426 CAGTGTAAGACCATGTCTAGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
29687457 GGTATGGATA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 9 0.14
45 16 0.25
46 6 0.09
48 34 0.52
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGAGGTGT
Found at i:29687595 original size:47 final size:47
Alignment explanation
Indices: 29687239--29687648 Score: 270
Period size: 47 Copynumber: 8.7 Consensus size: 47
29687229 ACTGTTACAA
* ** * *
29687239 CCAGTATAAGACCATGTCCAGGACATGGCATTGGCATTGAGATGA-GAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGAC-TTGATA-GATGAG
* * * * *
29687287 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTTGAGATATAAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGA-CTTGATAGATGAG
* * *
29687333 CCAGTGTAAGA-CATGTCTGGGACAT-GCA-TCAGC-T-ACGAGATGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGA-CTTGA-TAGATGAG
** * * * *
29687377 TTAGTGTAAGACCATGTCTGGGGCATGGCATTGGCACGT-ATAGAGGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATT-G-ACTTGATAGATGAG
* * * *
29687425 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGTA-TGGATATG-TGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT-TG-ACTTGATA-GAT--GAG
* * * * * *
29687475 CTAGTGTAAGACCATGTTTGAGACATGGCGTTAGCCTCGATTTCA-AT-AG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATT-GACTTGA--T-AGATGAG
* *
29687524 TCAGTGTAAGACCATGTTTGGGACATGGCATTGACTTGATAGATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGATAGATGAG
* * *
29687571 CCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATGGATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGATAGATGAG
*
29687618 CCAGTGTAAGACTATGTCTGGGACATGGCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT
29687649 CGGCATCATA
Statistics
Matches: 288, Mismatches: 52, Indels: 45
0.75 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 15 0.05
45 17 0.06
46 46 0.16
47 87 0.30
48 54 0.19
49 34 0.12
50 31 0.11
52 2 0.01
53 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGATAGATGAG
Found at i:29691383 original size:42 final size:42
Alignment explanation
Indices: 29691337--29691457 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
29691327 TATCATACTA
* *
29691337 ATGCCATATCCAAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
* *
29691379 ATGCCAATAGCCCAGCA-ATGGTCTTACA-CGAATCTCATATCG
1 ATGCC-ATATCCCAG-ATATGGTCTTACATGGAATCTCATATCG
* *
29691421 ATGTCATATCCCAGATATGGTCTTACATGCAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCA
29691458 ACTAACACTA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
40 1 0.01
41 19 0.28
42 28 0.42
43 18 0.27
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
Found at i:29693480 original size:44 final size:44
Alignment explanation
Indices: 29693417--29693508 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
29693407 AATAAAAGAA
*
29693417 ATTTCTATGACTTTGGAAATAATTTAATTGAGTCAATTTATTCG
1 ATTTCTATGACTTTGGAAATAATTTAATTCAGTCAATTTATTCG
29693461 ATTTCTATGACTTTGGAAATAATTTAATTCAGTCAATTTATTCG
1 ATTTCTATGACTTTGGAAATAATTTAATTCAGTCAATTTATTCG
29693505 ATTT
1 ATTT
29693509 TGAATTAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.47
Consensus pattern (44 bp):
ATTTCTATGACTTTGGAAATAATTTAATTCAGTCAATTTATTCG
Found at i:29694157 original size:31 final size:30
Alignment explanation
Indices: 29694120--29694219 Score: 103
Period size: 31 Copynumber: 3.3 Consensus size: 30
29694110 TATTAAATTC
29694120 AATTTAATATTTATCTAGATAATATTTTATT
1 AATTTAATATTTATCT-GATAATATTTTATT
* * * * **
29694151 AATTTAATAGTAATATGA-GATATTAAATTT
1 AATTTAATATTTATCTGATAATATTTTA-TT
*
29694181 AATTTAACATTTATCTTGATAATATTTTATT
1 AATTTAATATTTATC-TGATAATATTTTATT
29694212 AATTTAAT
1 AATTTAAT
29694220 GTTAATGTGA
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
29 6 0.12
30 15 0.29
31 25 0.48
32 6 0.12
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (30 bp):
AATTTAATATTTATCTGATAATATTTTATT
Found at i:29696534 original size:28 final size:29
Alignment explanation
Indices: 29696493--29696549 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
29696483 GCTGTAAATT
* *
29696493 ACGCTTTGGCAAATA-A-ATAAATTGAATA
1 ACGCTTTCGAAAATATATATAAA-TGAATA
29696521 ACGCTTTCGAAAATATATATAAATGAATA
1 ACGCTTTCGAAAATATATATAAATGAATA
29696550 TGAGTAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.52
29 7 0.28
30 5 0.20
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (29 bp):
ACGCTTTCGAAAATATATATAAATGAATA
Found at i:29699556 original size:22 final size:22
Alignment explanation
Indices: 29699531--29699573 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29699521 TAAAATGATT
* *
29699531 TAAATGAAGTGTTAAGTGATAG
1 TAAATAAAGTGTGAAGTGATAG
29699553 TAAATAAAGTGTGAAGTGATA
1 TAAATAAAGTGTGAAGTGATA
29699574 TGATAGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (22 bp):
TAAATAAAGTGTGAAGTGATAG
Found at i:29701873 original size:27 final size:27
Alignment explanation
Indices: 29701843--29701947 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
29701833 TTAGTTTACC
* *
29701843 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATCACCAAAATACCCCTGGTTTATA
* * * *
29701870 AAATTACTAAAGTACCCTTGGTTTATA
1 AAATCACCAAAATACCCCTGGTTTATA
* * *
29701897 AAATCGCCAAAATACCCTTGGCTTATA
1 AAATCACCAAAATACCCCTGGTTTATA
* *
29701924 AAATCAACAAAATACCCCTAGTTT
1 AAATCACCAAAATACCCCTGGTTT
29701948 GTAGTTTTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATCACCAAAATACCCCTGGTTTATA
Found at i:29701978 original size:27 final size:27
Alignment explanation
Indices: 29701961--29702416 Score: 601
Period size: 27 Copynumber: 16.9 Consensus size: 27
29701951 GTTTTTTCGC
*
29701961 AATACCCCTGTAGGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGA
29701988 AATACCCCTGTAGGGTAGAATTACC-A
1 AATACCCCTGTAGGGTAGAATTACCGA
*
29702014 GAATACCCCTGTAGGATAGAATTACCGA
1 -AATACCCCTGTAGGGTAGAATTACCGA
* *
29702042 AATACCCCTGTAGGGTAGAATTACTGG
1 AATACCCCTGTAGGGTAGAATTACCGA
*
29702069 AATACCTCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* * *
29702096 AATACCCCTATATGGTAGAATTACAGA
1 AATACCCCTGTAGGGTAGAATTACCGA
*
29702123 AATACCCCTGTAGGGTAGAATTACAGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
29702150 AATACCCTTATAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
29702177 AATATCCCTGTAGGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
29702204 AATACCCCTGTAGGGTAGAATTATCGG
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
29702231 AATACACCTATAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* * *
29702258 AATACCCCTGTAAGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGA
* * *
29702285 AATACCCCTATAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGA
*
29702312 AATACCCCTGTATGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* **
29702339 AACACCCCTGTAGGGTAGAATTACTAA
1 AATACCCCTGTAGGGTAGAATTACCGA
*
29702366 AATACCCCTGTAGGGTGGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* * * *
29702393 GATA-CCTTGTGGGGTAAAATTACC
1 AATACCCCTGTAGGGTAGAATTACC
29702417 ATTTTGGCCG
Statistics
Matches: 376, Mismatches: 51, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
26 16 0.04
27 359 0.95
28 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAGAATTACCGA
Found at i:29702895 original size:22 final size:22
Alignment explanation
Indices: 29702843--29702907 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
29702833 TTAAAGCCTT
* *
29702843 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
29702865 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
29702887 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
29702908 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:29703154 original size:27 final size:26
Alignment explanation
Indices: 29703066--29703166 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
29703056 ATTCTGTTAA
* *
29703066 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
29703093 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
29703120 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* * *
29703147 GTGACTCTGTCATAATATCT
1 GTGGCTCTGCCACAATATCT
29703167 AATAACTGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 9 0.14
27 50 0.76
28 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:29703337 original size:19 final size:19
Alignment explanation
Indices: 29703315--29703372 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
29703305 TTCTGGTTTT
29703315 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
29703334 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
29703346 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
29703365 TGATTCTG
1 TGATTCTG
29703373 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:29703342 original size:6 final size:6
Alignment explanation
Indices: 29703327--29703423 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
29703317 ATTCTGTTAC
* * *
29703327 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
29703376 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
29703424 AACGTTTCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:29703399 original size:37 final size:31
Alignment explanation
Indices: 29703315--29703414 Score: 164
Period size: 31 Copynumber: 3.2 Consensus size: 31
29703305 TTCTGGTTTT
*
29703315 TGATTCTGTTACCTGATACTGATTCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
29703346 TGATTCTGTTACCTGATACTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
29703377 TGATTCTGTCACCTAATTCTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
29703408 TGATTCT
1 TGATTCT
29703415 AGTTCTGATA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:29705046 original size:34 final size:34
Alignment explanation
Indices: 29705003--29705070 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
29704993 TTGCCTTTAA
*
29705003 ATAAAGAGAACCTTGAGGAGAGTAAAGGTACCTT
1 ATAAAGAGAACCATGAGGAGAGTAAAGGTACCTT
29705037 ATAAAGAGAACCATGAGGAGAGTAAAGGTACCTT
1 ATAAAGAGAACCATGAGGAGAGTAAAGGTACCTT
29705071 TCTTGGCTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.19
Consensus pattern (34 bp):
ATAAAGAGAACCATGAGGAGAGTAAAGGTACCTT
Found at i:29705463 original size:27 final size:27
Alignment explanation
Indices: 29705433--29705546 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 27
29705423 TTAGTTTACC
* *
29705433 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
** *
29705460 AAATTATTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
29705487 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* * **
29705514 AAATCAACAAAATACCCCTGGTTTGGA
1 AAATTACCAAAATACCCCTGGTTTATA
29705541 AAATTA
1 AAATTA
29705547 TCGCAATACC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:29705572 original size:27 final size:27
Alignment explanation
Indices: 29705542--29706168 Score: 778
Period size: 27 Copynumber: 23.3 Consensus size: 27
29705532 TGGTTTGGAA
* * * *
29705542 AATTATCGCAATACCCCAGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
29705569 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
29705596 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
29705623 AATTACTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
29705650 AAATACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
29705677 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
29705704 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
29705731 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
29705758 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
29705785 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
29705812 AATTACCGGAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
29705839 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
29705866 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * **
29705893 AATTACTGAAACACTACTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
29705920 AATTATTGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
29705947 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
29705974 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
29706001 AATTACTGAAATACCCTTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
29706028 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
29706055 AATTATCAC-AAA-A-CCCTAGTAGGGTAG
1 AATTA-C-CGAAATACCCCT-GTAGGGTAG
*
29706082 AATTACCGAAATACCCCTGTAGGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
29706109 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
29706136 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
29706162 AATTACC
1 AATTACC
29706169 ATTTTGGCCC
Statistics
Matches: 529, Mismatches: 63, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
25 1 0.00
26 24 0.05
27 495 0.94
28 8 0.02
29 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:29710623 original size:40 final size:41
Alignment explanation
Indices: 29710564--29710795 Score: 303
Period size: 40 Copynumber: 5.8 Consensus size: 41
29710554 CATTTGAATG
* * *
29710564 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
29710604 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
29710644 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
29710684 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
29710724 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
29710764 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
29710796 TTGTGGTTAT
Statistics
Matches: 168, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 161 0.96
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:29710778 original size:120 final size:120
Alignment explanation
Indices: 29710564--29710815 Score: 418
Period size: 120 Copynumber: 2.1 Consensus size: 120
29710554 CATTTGAATG
* * *
29710564 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
29710629 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
29710684 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
29710748 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
29710804 ATATCC-GGCTAA
1 ATATCCGGGCTAA
29710816 ATTCCGAAGA
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
119 6 0.05
120 114 0.93
121 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:29710811 original size:80 final size:80
Alignment explanation
Indices: 29710564--29710795 Score: 340
Period size: 80 Copynumber: 2.9 Consensus size: 80
29710554 CATTTGAATG
* *
29710564 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
29710629 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* * *
29710644 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
29710709 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* * * * *
29710724 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
*
29710788 AATTGTGC
65 ATTTGTGC
29710796 TTGTGGTTAT
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 134 0.99
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:29718664 original size:40 final size:41
Alignment explanation
Indices: 29718605--29718835 Score: 294
Period size: 40 Copynumber: 5.8 Consensus size: 41
29718595 CATTTGAATG
* * *
29718605 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
29718645 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
29718685 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
29718725 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
29718765 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
29718805 ATA-CCCGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
29718836 TTGTGGTTAT
Statistics
Matches: 167, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.16
40 135 0.81
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:29720754 original size:17 final size:18
Alignment explanation
Indices: 29720728--29720761 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29720718 GGGTGTTACA
29720728 GTTATAAATTTT-TTTTT
1 GTTATAAATTTTATTTTT
*
29720745 GTTATGAATTTTATTTT
1 GTTATAAATTTTATTTT
29720762 ATATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
GTTATAAATTTTATTTTT
Found at i:29727630 original size:40 final size:40
Alignment explanation
Indices: 29727482--29727693 Score: 232
Period size: 40 Copynumber: 5.3 Consensus size: 40
29727472 CATTTGAATG
* * *
29727482 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
29727522 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
29727562 TTATCCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
29727602 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * * ** *
29727642 ATACCCGGGTTAACACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
29727682 ATATCC-GGCTAA
1 ATATCCGGGCTAA
29727694 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 143 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:29730474 original size:30 final size:30
Alignment explanation
Indices: 29730438--29730498 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
29730428 AGCTAATTTT
29730438 CCCTAAAACTAGACTTACATATATTCTTAC
1 CCCTAAAACTAGACTTACATATATTCTTAC
29730468 CCCTAAAACTAGACTTACATATATTCTTAC
1 CCCTAAAACTAGACTTACATATATTCTTAC
29730498 C
1 C
29730499 ATAAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (30 bp):
CCCTAAAACTAGACTTACATATATTCTTAC
Found at i:29732247 original size:20 final size:19
Alignment explanation
Indices: 29732222--29732265 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
29732212 ATTGGGCATT
29732222 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTT-G
*
29732242 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
29732261 GCCCA
1 GCCCA
29732266 AAACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (19 bp):
GCCCATTTCAACACAGTTG
Found at i:29732905 original size:8 final size:8
Alignment explanation
Indices: 29732888--29732920 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
29732878 TCTCGAAATA
29732888 TCGGCTTT
1 TCGGCTTT
*
29732896 TCGGCATT
1 TCGGCTTT
29732904 TCGGCTTT
1 TCGGCTTT
29732912 TCGGCTTT
1 TCGGCTTT
29732920 T
1 T
29732921 GCCGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.48
Consensus pattern (8 bp):
TCGGCTTT
Found at i:29738356 original size:25 final size:25
Alignment explanation
Indices: 29738322--29738373 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
29738312 GAAAATAGAC
29738322 ATAATAATATTTGATTTCATAACTT
1 ATAATAATATTTGATTTCATAACTT
29738347 ATAATAATATTTGATTTCATAACTT
1 ATAATAATATTTGATTTCATAACTT
29738372 AT
1 AT
29738374 TCATCATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (25 bp):
ATAATAATATTTGATTTCATAACTT
Found at i:29738903 original size:16 final size:16
Alignment explanation
Indices: 29738884--29738914 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29738874 CTTCTTCACT
29738884 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29738900 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29738915 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:29738920 original size:20 final size:20
Alignment explanation
Indices: 29738881--29738920 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29738871 AAACTTCTTC
* *
29738881 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
29738901 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
29738921 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:29739288 original size:55 final size:53
Alignment explanation
Indices: 29739107--29739361 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
29739097 ACACGGGTAC
* * * *
29739107 CTTACCATTGCCATG-ATTGTCATGGTCTTACATGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* * *
29739155 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCGTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
29739208 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * * *
29739263 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGAC
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
29739317 CTTACCAACTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTG
29739362 AACCCTAATG
Statistics
Matches: 171, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
48 15 0.09
49 20 0.12
52 2 0.01
53 44 0.26
54 14 0.08
55 74 0.43
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:29739297 original size:108 final size:110
Alignment explanation
Indices: 29739153--29739353 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
29739143 ATCCTTTTGA
* * *
29739153 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCGTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAGACCTCACCAA
29739216 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 CTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
29739261 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAAC
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACCTCACCAAC
29739326 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
29739354 TATCCTTGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.56
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACCTCACCAAC
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:29745020 original size:108 final size:109
Alignment explanation
Indices: 29744868--29745068 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 109
29744858 ATCCTTTTGA
* *
29744868 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAG-CTCACCAA-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAGACTCACCAAC
29744931 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
29744976 AACTTATCAATGCCATGTCTTGACATGGTCTTACATTATTTCCTTGCCTTAGAGACCTTACCAAC
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGA-CTCACCAAC
*
29745041 TTCCATGCCTTGGCATGGTCTTACATGG
65 TGCCATGCCTTGGCATGGTCTTACATGG
29745069 TATCCTTGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.55
109 7 0.08
110 27 0.33
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACTCACCAACT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:29745023 original size:55 final size:54
Alignment explanation
Indices: 29744821--29745076 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 54
29744811 ACGAGGGTAC
* * * * * *
29744821 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATTGTATCCTTGCCTTATAGAA
* * * *
29744870 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAG
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATTGTATCCTTGCCTTATAGAA
* * * *
29744923 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATTGTATCC-TTGCCTTATAG-AA
* * * * * *
29744978 CTTATCAATGCCATGTCTTGACATGGTCTTACATTATTTCCTTGCCTTAGAGAC
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATTGTATCCTTGCCTTATAGAA
* * *
29745032 CTTACCAACTTCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 CTTACCAA-TGCCATGCCTTGACATGGTCTTACATTGTATCCTTG
29745077 AACCCTAATG
Statistics
Matches: 169, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 40 0.24
52 4 0.02
53 43 0.25
54 9 0.05
55 71 0.42
56 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATTGTATCCTTGCCTTATAGAA
Found at i:29746976 original size:11 final size:11
Alignment explanation
Indices: 29746960--29746984 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29746950 TTATATATAC
29746960 TAATAAAATAA
1 TAATAAAATAA
29746971 TAATAAAATAA
1 TAATAAAATAA
29746982 TAA
1 TAA
29746985 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:29747942 original size:42 final size:42
Alignment explanation
Indices: 29747890--29748008 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
29747880 CTCATAGCAC
* *
29747890 CATACCAATGCCATATCCCAGATATGGTCTTACAT-AGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAG-TCT
* * *
29747932 CATATCAATGCCACTAGCCCAGCTATGGGCTTACATGAAGTCT
1 CATATCAATGCCA-TATCCCAGATATGGTCTTACATGAAGTCT
* * * * *
29747975 CATATCGACGCCATATTCTAGATATGGTTTTACA
1 CATATCAATGCCATATCCCAGATATGGTCTTACA
29748009 CGTAATCTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 27 0.44
43 33 0.53
44 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAAGTCT
Found at i:29757670 original size:17 final size:16
Alignment explanation
Indices: 29757633--29757669 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
29757623 AAATATTTAA
29757633 TTTTTGAATTTGATAT
1 TTTTTGAATTTGATAT
29757649 TTTTTGAATTTGATAT
1 TTTTTGAATTTGATAT
29757665 TTTTT
1 TTTTT
29757670 TTCTCTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.68
Consensus pattern (16 bp):
TTTTTGAATTTGATAT
Found at i:29757932 original size:19 final size:18
Alignment explanation
Indices: 29757908--29757955 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
29757898 AAATTCTAAG
* *
29757908 AAATTATAATAAATATTTT
1 AAATTATAA-AAATAATAT
29757927 AAATTAT-AAAATAATAT
1 AAATTATAAAAATAATAT
29757944 AAATTATAAAAA
1 AAATTATAAAAA
29757956 ATTAAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 14 0.54
18 5 0.19
19 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTATAAAAATAATAT
Found at i:29761227 original size:29 final size:29
Alignment explanation
Indices: 29761159--29761218 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
29761149 ATTAAGAACC
29761159 AAAGAGAAAATTCTCACAAAGTAATGTTT
1 AAAGAGAAAATTCTCACAAAGTAATGTTT
29761188 AAAGAGAAAATTCTCACAAAGTAATGTTT
1 AAAGAGAAAATTCTCACAAAGTAATGTTT
29761217 AA
1 AA
29761219 TTTAGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (29 bp):
AAAGAGAAAATTCTCACAAAGTAATGTTT
Found at i:29763037 original size:46 final size:46
Alignment explanation
Indices: 29762984--29763120 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
29762974 TATATATACA
* * * *
29762984 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
29763030 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
29763076 CATCTCATACACATTTCGCATTAGCCATTCAGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
29763121 ATACACTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:29764966 original size:79 final size:82
Alignment explanation
Indices: 29764830--29765012 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 82
29764820 TCGAATGATG
* *
29764830 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
29764894 TTTGCGAGTTACTA-AT
66 TGTGCGAGTTACTATAA
* * * **
29764910 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
29764972 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
29764990 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29765013 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:29765021 original size:40 final size:40
Alignment explanation
Indices: 29764830--29765014 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
29764820 TCGAATGATG
* * * *
29764830 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
29764870 TCCGGACTAAGAT-CCGAAGGCATTTTTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29764910 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29764949 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29764990 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29765015 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29765036 original size:79 final size:77
Alignment explanation
Indices: 29764866--29765047 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 77
29764856 GCTAAGTGAA
* * *
29764866 TATATCCGGACTAAGATCCGAAGGCATTTTTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCA
1 TATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCA
**
29764931 TTGGTGCGAGTTAC
64 TTGGAACGAGTTAC
* *
29764945 TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCGAAGG
1 TATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAG-CCCGAAGG
*
29765009 CATTTGAACGAG-TAGC
62 CATTGGAACGAGTTA-C
*
29765025 TATATCCGGTTAAATTCCGAAGG
1 TATATCCGGTT-AAGTCCGAAGG
29765048 TACGTGATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
78 1 0.01
79 55 0.63
80 31 0.36
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (77 bp):
TATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTAC
Found at i:29772967 original size:40 final size:40
Alignment explanation
Indices: 29772883--29773067 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
29772873 TCGAATGATG
* *
29772883 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
29772922 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29772963 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
29773002 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29773041 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29773068 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29773019 original size:79 final size:81
Alignment explanation
Indices: 29772883--29773065 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
29772873 TCGAATGATG
* *
29772883 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
29772947 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
29772962 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
29773024 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
29773042 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
29773066 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:29773089 original size:79 final size:78
Alignment explanation
Indices: 29772884--29773100 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
29772874 CGAATGATGT
* *
29772884 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
29772947 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
29772964 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
29773027 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
29773043 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
29773101 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:29774520 original size:47 final size:47
Alignment explanation
Indices: 29774447--29774651 Score: 322
Period size: 47 Copynumber: 4.4 Consensus size: 47
29774437 GGGTACGGGG
29774447 TGTT-ACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
1 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
*
29774493 TGTTCACATTCATCACATTGTCCATTCGGCCTTATCACATATATGCA
1 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
* *
29774540 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATACGCA
1 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
** * *
29774587 TGTTCACATTCATCACATTTTCCATTCGGCCTTATCTCATATATACA
1 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
**
29774634 CATTCACATTCATCACAT
1 TGTTCACATTCATCACAT
29774652 AAAATCCTAA
Statistics
Matches: 148, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 4 0.03
47 144 0.97
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (47 bp):
TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
Found at i:29774532 original size:22 final size:22
Alignment explanation
Indices: 29774457--29774532 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
29774447 TGTTACATTC
*
29774457 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGTCCATTCGGCCTT
* * * *
29774479 ATCACATATATGCATGTTC-ACATT
1 ATCACAT-TGTCCA--TTCGGCCTT
29774503 CATCACATTGTCCATTCGGCCTT
1 -ATCACATTGTCCATTCGGCCTT
29774526 ATCACAT
1 ATCACAT
29774533 ATATGCATGT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 7 0.17
25 10 0.25
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGTCCATTCGGCCTT
Found at i:29777822 original size:3 final size:3
Alignment explanation
Indices: 29777816--29777862 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
29777806 TAAACTCAGT
*
29777816 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
29777863 TTTTAAGTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:29781988 original size:50 final size:48
Alignment explanation
Indices: 29781782--29782062 Score: 215
Period size: 46 Copynumber: 5.9 Consensus size: 48
29781772 CGACCACATT
* * * *
29781782 ATGAGAGCCAGTGTAAGACCATATCAGGGACATGGCATCGGCATTG-AG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAAG
* * * * * * *
29781830 ATGAGTGCTAGTGTAAGA-CATGTCTGGAACAT-GCATTAGCCTCGGTAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATT-GGCAC-GAAG
* *
29781878 AT-A-AGCCAGTATAAGA-CATGTCTGGGACAT-GCATCGGCTACG-AG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGAAG
* * * *
29781922 AT--GTGTCAGTGTAAGACCATGTTTGGGACATGGCATTAGCACGATTATG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGA--A-G
* * * *
29781971 -TGAGAGCTAGTGTAAGACCATGTCTGCGACATGGCATCGGCCTCGAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGG-CACGAAG
*
29782019 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
29782063 TTTACCCATG
Statistics
Matches: 181, Mismatches: 37, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
44 13 0.07
45 19 0.10
46 38 0.21
47 15 0.08
48 24 0.13
49 38 0.21
50 30 0.17
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGAAG
Found at i:29790300 original size:49 final size:49
Alignment explanation
Indices: 29790227--29790414 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
29790217 TAGCCGAAGC
29790227 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *** *
29790276 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * * *
29790327 TTTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
** *
29790376 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
29790415 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
49 75 0.65
50 2 0.02
51 38 0.33
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:29790346 original size:100 final size:100
Alignment explanation
Indices: 29790232--29790415 Score: 323
Period size: 100 Copynumber: 1.8 Consensus size: 100
29790222 GAAGCTATCT
* **
29790232 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAGTAGCC
29790297 TGCACTTAGTACTACACACATGATCACAGTTTTCG
66 TGCACTTAGTACTACACACATGATCACAGTTTTCG
* *
29790332 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAGTAGCC
29790397 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
29790416 GTGACCTCAC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (100 bp):
GGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCACAGTTTTCG
Found at i:29797793 original size:30 final size:30
Alignment explanation
Indices: 29797759--29797819 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
29797749 TCCTTAACTC
29797759 AAACTTTTGTAAAATTACAATTTTGCCCCT
1 AAACTTTTGTAAAATTACAATTTTGCCCCT
* * *
29797789 AAACTTTTGTATATTTACACTTTTGCCCCT
1 AAACTTTTGTAAAATTACAATTTTGCCCCT
29797819 A
1 A
29797820 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.43
Consensus pattern (30 bp):
AAACTTTTGTAAAATTACAATTTTGCCCCT
Found at i:29804571 original size:7 final size:7
Alignment explanation
Indices: 29804559--29804583 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29804549 AATTTTGACT
29804559 AAAATAG
1 AAAATAG
29804566 AAAATAG
1 AAAATAG
29804573 AAAATAG
1 AAAATAG
29804580 AAAA
1 AAAA
29804584 AGGAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATAG
Found at i:29805691 original size:50 final size:49
Alignment explanation
Indices: 29805478--29805754 Score: 181
Period size: 46 Copynumber: 5.8 Consensus size: 49
29805468 CGGCCACATT
*
29805478 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGTA--TTG-AG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACCTTGAAG
* * * * * *
29805526 ATGAGTGCTAGTGTAAGA-CATGTCTGGGACA-CGCAT-TAGCCTCG-GG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCTTGAAG
* * * *
29805572 ACGTA-AGCCAGTATAAGA-CATGTCTGGGACAT-GCATCG-GC-T-ACG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAAG
* * * *
29805616 A-GATGTGTCATTGTAAGACCATGTCTGGGACATGGCATCGACACGGTT-ATG
1 ATGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-C--TTGAAG
* ** * *
29805667 -TGAGAGCTAGTGTAAGACCATGTCTGCAACATGGCAACGGCCTTGAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAAG
*
29805715 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
29805755 GCACTTTACC
Statistics
Matches: 175, Mismatches: 35, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 11 0.06
45 15 0.09
46 42 0.24
47 15 0.09
48 19 0.11
49 35 0.20
50 30 0.17
51 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAAG
Found at i:29808718 original size:40 final size:40
Alignment explanation
Indices: 29808664--29808857 Score: 302
Period size: 40 Copynumber: 4.9 Consensus size: 40
29808654 GATATAGCTT
* *
29808664 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
29808704 CTCGCACAATTGCCTTCGGGACTTAGCCTGGTTATAGTAA
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
29808744 CTCGCACAATTGCCTTCGGGACTTGGCCCGATTATAGTAA
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
29808784 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
29808824 CTCGCACAAATT-CCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCAC-AATTGCCTTCGGGACTTAGCCCGGTTAT
29808858 CAATCCGAAT
Statistics
Matches: 141, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.09
40 125 0.89
41 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:29808773 original size:80 final size:80
Alignment explanation
Indices: 29808637--29808857 Score: 306
Period size: 80 Copynumber: 2.8 Consensus size: 80
29808627 AAACCAAGTA
** * * *
29808637 CCTTCGGGGTTTAG-CCGGATATAGCT-TCTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATA
*
29808700 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * * *
29808716 CCTTCGGGACTTAGCCTGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGATTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAG
29808781 TAACTCGCACAAATG
66 TAACTCGCACAAATG
29808796 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATT-CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATTGCCTTCGGGACTTAGCCCGGTTAT
29808858 CAATCCGAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 25 0.20
80 96 0.77
81 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:29816612 original size:6 final size:6
Alignment explanation
Indices: 29816594--29816659 Score: 91
Period size: 6 Copynumber: 11.3 Consensus size: 6
29816584 AAATCTTAAG
* * *
29816594 AAAATA ACAATA AACATA AACATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
29816642 AAAAT- AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AA
29816660 TGGACTCAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
5 10 0.18
6 45 0.82
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:29824667 original size:16 final size:18
Alignment explanation
Indices: 29824641--29824673 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29824631 CTAGACCCCC
29824641 TGAATACCTAAG-CGGAA
1 TGAATACCTAAGACGGAA
29824658 TGAA-ACCTAAGACGGA
1 TGAATACCTAAGACGGA
29824674 TCCTGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (18 bp):
TGAATACCTAAGACGGAA
Found at i:29825485 original size:14 final size:14
Alignment explanation
Indices: 29825466--29825495 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
29825456 TTATTTGCAA
29825466 TTTAAATTTTTTAT
1 TTTAAATTTTTTAT
29825480 TTTAAATTTTTTAT
1 TTTAAATTTTTTAT
29825494 TT
1 TT
29825496 GCAATTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTAAATTTTTTAT
Found at i:29825501 original size:14 final size:14
Alignment explanation
Indices: 29825465--29825502 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
29825455 TTTATTTGCA
29825465 ATTT-AAATTTTTT
1 ATTTGAAATTTTTT
*
29825478 ATTTTAAATTTTTT
1 ATTTGAAATTTTTT
*
29825492 ATTTGCAATTT
1 ATTTGAAATTT
29825503 AGTGTATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (14 bp):
ATTTGAAATTTTTT
Found at i:29831559 original size:22 final size:22
Alignment explanation
Indices: 29831526--29831569 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
29831516 AACCACCTCA
29831526 AACCCAATAACCCATTCATTGTT
1 AACCCAATAACCCATT-ATTGTT
29831549 AACCC-ATAACCCATTATTGTT
1 AACCCAATAACCCATTATTGTT
29831570 GAAATCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 10 0.48
23 5 0.24
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.32
Consensus pattern (22 bp):
AACCCAATAACCCATTATTGTT
Found at i:29837224 original size:36 final size:32
Alignment explanation
Indices: 29837172--29837239 Score: 82
Period size: 36 Copynumber: 2.0 Consensus size: 32
29837162 CCATTTGTTC
* *
29837172 CAGTTAGGCCTTAGCCCCTTTTTCAGTAGCAGTAT
1 CAGTTAGGCCTGAG-CCC-ATTTCAGTA-CAGTAT
29837207 CAGTCTAGGCCTGAGCCCATTTCAGTACAGTAT
1 CAGT-TAGGCCTGAGCCCATTTCAGTACAGTAT
29837240 GCAAACAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.20
34 8 0.27
35 7 0.23
36 9 0.30
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (32 bp):
CAGTTAGGCCTGAGCCCATTTCAGTACAGTAT
Found at i:29843561 original size:32 final size:32
Alignment explanation
Indices: 29843520--29843604 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
29843510 TGAAATTGAA
** *
29843520 ATGGGCTAGGCCCAACTGATATTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATATTAATTCTGAG
29843552 ATGGGCTAGGCCCAACTGATATTAATTCTGAG
1 ATGGGCTAGGCCCAACTGATATTAATTCTGAG
*
29843584 ATGGGCTAGGCCCAATTGATA
1 ATGGGCTAGGCCCAACTGATA
29843605 CTGTAATAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATATTAATTCTGAG
Found at i:29854609 original size:47 final size:45
Alignment explanation
Indices: 29854518--29854729 Score: 169
Period size: 47 Copynumber: 4.5 Consensus size: 45
29854508 GTGCTAGTAA
* * *
29854518 AAGACCATGTCTGGGACATGGCATCGGCACAGAGACGAGTGCCAGTGT
1 AAGA-CATGTCTGGGACATGGCATCGCCTC-GAGATGA-TGCCAGTGT
* * *
29854566 AAGACTTGTTTGGGACAT-GCATCGGCCTCGACGATGATAGCCAGAGT
1 AAGACATGTCTGGGACATGGCATC-GCCTCGA-GATGAT-GCCAGTGT
* * * * * * **
29854613 AAGGCGTGTCTGGGACA-CGCATCGACTAAGAGTTG-TGTTAGTGT
1 AAGACATGTCTGGGACATGGCATCGCCT-CGAGATGATGCCAGTGT
*
29854657 AAGACATGTCTGGGACATGGCATCAGCCTCGATGATGATGGCCAATGT
1 AAGACATGTCTGGGACATGGCATC-GCCTCGA-GATGAT-GCCAGTGT
29854705 AAGACCATGTCTGGGACATGGCATC
1 AAGA-CATGTCTGGGACATGGCATC
29854730 TGCAACTTAT
Statistics
Matches: 129, Mismatches: 24, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
44 20 0.16
45 8 0.06
46 20 0.16
47 48 0.37
48 13 0.10
49 20 0.16
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (45 bp):
AAGACATGTCTGGGACATGGCATCGCCTCGAGATGATGCCAGTGT
Found at i:29857634 original size:42 final size:43
Alignment explanation
Indices: 29857523--29857690 Score: 139
Period size: 43 Copynumber: 3.9 Consensus size: 43
29857513 AGATGCTCAT
* * * *
29857523 AATCAAGTACAATGTCGATGTCCCAGAC-GTGGTCTTACATGTA
1 AATCAAATACGATGCCGATGTCCCAGACAG-GGTCTTACACGTA
* **
29857566 ATTC-AATATCGATGCCTCTGTCCCAGACAGGGTCTTACACG-A
1 AATCAAATA-CGATGCCGATGTCCCAGACAGGGTCTTACACGTA
* * *
29857608 AATCAAATACGATGCCGATGTCCCAGATATGGTCTTATACGTA
1 AATCAAATACGATGCCGATGTCCCAGACAGGGTCTTACACGTA
* * * *
29857651 AATCTCAAT-CGAGGCCTG-TGTCCTAGACACGGTCTTACAC
1 AATC-AAATACGATGCC-GATGTCCCAGACAGGGTCTTACAC
29857691 AATGTCACAG
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 34 0.34
43 61 0.61
44 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
AATCAAATACGATGCCGATGTCCCAGACAGGGTCTTACACGTA
Found at i:29857673 original size:85 final size:85
Alignment explanation
Indices: 29857523--29857690 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
29857513 AGATGCTCAT
* * * * *
29857523 AATCAAGTACAATGTCGATGTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTC
1 AATCAAATACAATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTC
*
29857588 CCAGACAGGGTCTTACACGA
66 CCAGACACGGTCTTACACGA
* * * *
29857608 AATCAAATACGATGCCGATGTCCCAGATATGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTG
1 AATCAAATACAATGCCGATGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTCTG
*
29857671 TCCTAGACACGGTCTTACAC
64 TCCCAGACACGGTCTTACAC
29857691 AATGTCACAG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 64 0.91
86 4 0.06
87 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (85 bp):
AATCAAATACAATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTC
CCAGACACGGTCTTACACGA
Found at i:29864455 original size:47 final size:45
Alignment explanation
Indices: 29864342--29864559 Score: 165
Period size: 47 Copynumber: 4.7 Consensus size: 45
29864332 GATTTCTAGT
** *
29864342 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACAAGACGA
** *
29864388 GTGCCAGTAAAAGACAATGTCTGGGACATGGCATCGGCACAGAGACGA
1 GTGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGCCACA-AGACGA
* * *
29864436 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTC--GACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCG-CCACAAGACGA
* ** * * * *
29864480 TGATAGCCAGAGTAAGATGTGTCTGGGACACGCATCGGC-TAAGA-GTT
1 -G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGCCACAAGACG-A
* *
29864527 GTGCTAGTGTAAAACATGTCTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
29864560 ATCACGTATA
Statistics
Matches: 135, Mismatches: 27, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
44 30 0.22
45 2 0.01
46 23 0.17
47 60 0.44
48 20 0.15
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGCCACAAGACGA
Found at i:29866484 original size:43 final size:43
Alignment explanation
Indices: 29866272--29866473 Score: 266
Period size: 43 Copynumber: 4.7 Consensus size: 43
29866262 ATATCGTACA
* * *
29866272 ATGCCAATGTCTCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
29866315 ATG-CTACTGTCCCAGACAG-GGTCTTACACATAATCACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
*
29866358 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
29866401 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
29866444 AT-CCTAACGTTCCAGACGTGGTATTACACG
1 ATGCC-AACGTCCCAGACGTGGTCTTACACG
29866474 CACACACATA
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
42 5 0.04
43 131 0.94
44 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:29874079 original size:99 final size:99
Alignment explanation
Indices: 29873973--29874261 Score: 350
Period size: 99 Copynumber: 2.9 Consensus size: 99
29873963 AGGCTTCCCG
**
29873973 GATGACTTGCCACAAAGGCTTCCAAGATG-TCTTGCCAAAAAGGCTTCCTAGATGTCTTGCCACA
1 GATGACTTGCCACAAAGGCTTCCAAGATGATC-CACCAAAAAGGCTTCCTAGATGTCTTGCCACA
*
29874037 AAGGCTTTACAAATGATCTGCCATAAAGCTTCCTA
65 AAGGCTTTACAAATGATCTGCCACAAAGCTTCCTA
* * * * *
29874072 GATGACTTACCACAAAGGCTTTACAA-ATGATCCACCACAAAGGCTTCTTAGATGTCTTGCTACA
1 GATGACTTGCCACAAAGGC-TTCCAAGATGATCCACCAAAAAGGCTTCCTAGATGTCTTGCCACA
*
29874136 AAGGATTTACAAATGATCTGCCACAAAGCTTCCTA
65 AAGGCTTTACAAATGATCTGCCACAAAGCTTCCTA
* * * * * * * ** *
29874171 GATGACTCGTCACAAAGGCTT-TACGATGATCCACCAAAAAGGCTTCCCAAATGACTCACCAGAA
1 GATGACTTGCCACAAAGGCTTCCAAGATGATCCACCAAAAAGGCTTCCTAGATGTCTTGCCACAA
* *
29874235 AGGCTTTACAGATTATCTGCCACAAAG
66 AGGCTTTACAAATGATCTGCCACAAAG
29874262 TCTTTACAGA
Statistics
Matches: 161, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
97 1 0.01
98 56 0.35
99 97 0.60
100 7 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (99 bp):
GATGACTTGCCACAAAGGCTTCCAAGATGATCCACCAAAAAGGCTTCCTAGATGTCTTGCCACAA
AGGCTTTACAAATGATCTGCCACAAAGCTTCCTA
Found at i:29874087 original size:49 final size:50
Alignment explanation
Indices: 29873963--29874261 Score: 311
Period size: 49 Copynumber: 6.0 Consensus size: 50
29873953 TTCACCTTAC
** * *
29873963 AGGCTTCCCGGATGACTTGCCACAAAGGC-TTCCAAGATG-TCTTGCCAAAA
1 AGGCTTCCTAGATGACTTGCCACAAAGGCTTTACAA-ATGATC-TGCCACAA
* *
29874013 AGGCTTCCTAGATGTCTTGCCACAAAGGCTTTACAAATGATCTGCCATAA
1 AGGCTTCCTAGATGACTTGCCACAAAGGCTTTACAAATGATCTGCCACAA
* **
29874063 A-GCTTCCTAGATGACTTACCACAAAGGCTTTACAAATGATCCACCACAA
1 AGGCTTCCTAGATGACTTGCCACAAAGGCTTTACAAATGATCTGCCACAA
* * * *
29874112 AGGCTTCTTAGATGTCTTGCTACAAAGGATTTACAAATGATCTGCCACAA
1 AGGCTTCCTAGATGACTTGCCACAAAGGCTTTACAAATGATCTGCCACAA
* * * ** *
29874162 A-GCTTCCTAGATGACTCGTCACAAAGGCTTTAC-GATGATCCACCAAAA
1 AGGCTTCCTAGATGACTTGCCACAAAGGCTTTACAAATGATCTGCCACAA
* * ** * * *
29874210 AGGCTTCCCAAATGACTCACCAGAAAGGCTTTACAGATTATCTGCCACAA
1 AGGCTTCCTAGATGACTTGCCACAAAGGCTTTACAAATGATCTGCCACAA
29874260 AG
1 AG
29874262 TCTTTACAGA
Statistics
Matches: 208, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
48 12 0.06
49 97 0.47
50 92 0.44
51 7 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (50 bp):
AGGCTTCCTAGATGACTTGCCACAAAGGCTTTACAAATGATCTGCCACAA
Found at i:29874261 original size:25 final size:25
Alignment explanation
Indices: 29873980--29874386 Score: 193
Period size: 25 Copynumber: 16.4 Consensus size: 25
29873970 CCGGATGACT
*
29873980 TGCCACAAAGGC-TTCCAAGATG-TC
1 TGCCACAAAGGCTTTAC-AGATGATC
* *
29874004 TTGCCAAAAAGGC-TTCCTAGATG-TC
1 -TGCCACAAAGGCTTTAC-AGATGATC
*
29874029 TTGCCACAAAGGCTTTACAAATGATC
1 -TGCCACAAAGGCTTTACAGATGATC
* *
29874055 TGCCATAAA-GC-TTCCTAGATGA-C
1 TGCCACAAAGGCTTTAC-AGATGATC
* *
29874078 TTACCACAAAGGCTTTACAAATGATC
1 -TGCCACAAAGGCTTTACAGATGATC
** *
29874104 CACCACAAAGGCTTCT-TAGATG-TC
1 TGCCACAAAGGCTT-TACAGATGATC
* * *
29874128 TTGCTACAAAGGATTTACAAATGATC
1 -TGCCACAAAGGCTTTACAGATGATC
*
29874154 TGCCACAAA-GC-TTCCTAGATGA-C
1 TGCCACAAAGGCTTTAC-AGATGATC
*
29874177 TCGTCACAAAGGCTTTAC-GATGATC
1 T-GCCACAAAGGCTTTACAGATGATC
** * ** *
29874202 CACCAAAAAGGCTTCCCAAATGA-C
1 TGCCACAAAGGCTTTACAGATGATC
* * *
29874226 TCACCAGAAAGGCTTTACAGATTATC
1 T-GCCACAAAGGCTTTACAGATGATC
* *
29874252 TGCCACAAAGTCTTTACAGATTAT-
1 TGCCACAAAGGCTTTACAGATGATC
*
29874276 TCGCCATAAAGGCTTCT-CAGATG-TC
1 T-GCCACAAAGGCTT-TACAGATGATC
* * *
29874301 TTGCCATAAAGGCTTTACAGATAATT
1 -TGCCACAAAGGCTTTACAGATGATC
* ***
29874327 TGCCATAAAGGCTTCGTAGATGA-C
1 TGCCACAAAGGCTTTACAGATGATC
* * *
29874351 TCGCTACAAAGGCTTCATAGATGATC
1 T-GCCACAAAGGCTTTACAGATGATC
* *
29874377 CGCCATAAAG
1 TGCCACAAAG
29874387 CCTTCCCAGT
Statistics
Matches: 296, Mismatches: 59, Indels: 54
0.72 0.14 0.13
Matches are distributed among these distances:
23 9 0.03
24 51 0.17
25 215 0.73
26 21 0.07
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (25 bp):
TGCCACAAAGGCTTTACAGATGATC
Found at i:29874317 original size:50 final size:50
Alignment explanation
Indices: 29874252--29874440 Score: 175
Period size: 50 Copynumber: 3.8 Consensus size: 50
29874242 ACAGATTATC
* *
29874252 TGCCACAAAGTCTTTACAGATTATTCGCCATAAAGGCTTCTCAGATGTCT
1 TGCCACAAAGGCTTTACAGATAATTCGCCATAAAGGCTTCTCAGATGTCT
* * *
29874302 TGCCATAAAGGCTTTACAGATAATTTGCCATAAAGGCTTCGT-AGATGACT
1 TGCCACAAAGGCTTTACAGATAATTCGCCATAAAGGCTTC-TCAGATGTCT
* * * * * * * * * *
29874352 CGCTACAAAGGCTTCATAGATGATCCGCCATAAAGCCTTCCCAGTTGTCA
1 TGCCACAAAGGCTTTACAGATAATTCGCCATAAAGGCTTCTCAGATGTCT
* * * *
29874402 TGCCAAAAAGGCTTT-CAAAATAATTCACCACAAAGGCTT
1 TGCCACAAAGGCTTTAC-AGATAATTCGCCATAAAGGCTT
29874441 GGTTTGGTTT
Statistics
Matches: 107, Mismatches: 29, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
50 106 0.99
51 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TGCCACAAAGGCTTTACAGATAATTCGCCATAAAGGCTTCTCAGATGTCT
Done.