Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 155 of 433
Found at i:48390685 original size:40 final size:40
Alignment explanation
Indices: 48390611--48390796 Score: 176
Period size: 40 Copynumber: 4.7 Consensus size: 40
48390601 CCGCACCAAG
* * * * * * *
48390611 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
* * *
48390651 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
** *
48390691 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
* * * * **
48390731 GTCCTT-GGGACTTAGCCCGGATGTAGCCACTAGCACATTT
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
*
48390771 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
48390797 TTTCCAGCAT
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
39 4 0.03
40 110 0.93
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAAT
Found at i:48390797 original size:80 final size:81
Alignment explanation
Indices: 48390611--48390832 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 81
48390601 CCGCACCAAG
* * * ** * * * * *
48390611 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATG-CCTTCGGGTCTTAGCCCGGATTT
1 GCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCCTTCGGGACTTAGCCCGGATGT
*
48390675 AACAACTTGCACGAAT
66 AACAACTAGCACGAAT
*
48390691 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAATGTCCTT-GGGACTTAGCCCGGATGT
1 GCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCCTTCGGGACTTAGCCCGGATGT
* * *
48390755 AGCCACTAGCAC-ATTT
66 AACAACTAGCACGA-AT
* * * *
48390771 GCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATTAACGT-CTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCCTTCGGGACTTAGCCCGGAT
48390833 ATCATTCAAT
Statistics
Matches: 119, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
79 4 0.03
80 111 0.93
81 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (81 bp):
GCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCCTTCGGGACTTAGCCCGGATGT
AACAACTAGCACGAAT
Found at i:48394773 original size:20 final size:20
Alignment explanation
Indices: 48394748--48394814 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
48394738 TTATGAATAC
48394748 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48394768 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
48394788 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
48394808 ATCATGT
1 ATCATGT
48394815 ATATCAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48394779 original size:11 final size:11
Alignment explanation
Indices: 48394748--48394803 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
48394738 TTATGAATAC
48394748 ATCATGTGCAT
1 ATCATGTGCAT
*
48394759 ATCA--TACAT
1 ATCATGTGCAT
48394768 ATCATGTGCAT
1 ATCATGTGCAT
*
48394779 ATC--GTACAT
1 ATCATGTGCAT
48394788 ATCATGTGCAT
1 ATCATGTGCAT
48394799 ATCAT
1 ATCAT
48394804 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:48401152 original size:45 final size:44
Alignment explanation
Indices: 48401103--48401269 Score: 173
Period size: 45 Copynumber: 3.9 Consensus size: 44
48401093 AGGATTTCCG
* *
48401103 ATATGTGTTATCGTATAAGACCATGTCTGGGACATTGGCATCGAT
1 ATATGTGATATCATATAAGACCATGTCTGGGACATTGGCATCG-T
* *
48401148 ATATGTGGT-TACATGTAAGACCATGTCTGGGACATTGGCATCGT
1 ATATGTGATAT-CATATAAGACCATGTCTGGGACATTGGCATCGT
* * * *
48401192 AT-T-TGAT-TCGTATAAGACCCTTTCTGGGACAGTGGCATCG-
1 ATATGTGATATCATATAAGACCATGTCTGGGACATTGGCATCGT
* * * *
48401232 ATATGTGATAGCATGTAAGACCACGTCTGGGATATTGG
1 ATATGTGATATCATATAAGACCATGTCTGGGACATTGG
48401270 GATTGTATGA
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.02
41 28 0.28
42 8 0.08
43 21 0.21
44 4 0.04
45 38 0.38
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (44 bp):
ATATGTGATATCATATAAGACCATGTCTGGGACATTGGCATCGT
Found at i:48404489 original size:21 final size:21
Alignment explanation
Indices: 48404457--48404498 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48404447 ATAACAACTA
48404457 ATAATAATTATTATATT-TTAT
1 ATAATAATTATTA-ATTGTTAT
48404478 ATAAT-ATATATTAATTGTTAT
1 ATAATAAT-TATTAATTGTTAT
48404499 TAACCTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATAATAATTATTAATTGTTAT
Found at i:48408100 original size:30 final size:30
Alignment explanation
Indices: 48408064--48408131 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
48408054 CACAGGCAGA
*
48408064 GACACGGCTGTGTGTCTCAG-TCGTGTGGGG
1 GACACGGCTGTGTCTCTCAGCT-GTGTGGGG
*
48408094 GACACGGCTGTGTCTCTCAGCTGTGTGTGG
1 GACACGGCTGTGTCTCTCAGCTGTGTGGGG
48408124 GACACGGC
1 GACACGGC
48408132 CTTAGCACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 34 0.97
31 1 0.03
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.25
Consensus pattern (30 bp):
GACACGGCTGTGTCTCTCAGCTGTGTGGGG
Found at i:48413915 original size:19 final size:20
Alignment explanation
Indices: 48413891--48413929 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48413881 TTAGGGGGAC
48413891 CAAAAAGTT-ATATTTTGTT
1 CAAAAAGTTGATATTTTGTT
* *
48413910 CAAAAATTTGATTTTTTGTT
1 CAAAAAGTTGATATTTTGTT
48413930 AATTATGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
CAAAAAGTTGATATTTTGTT
Found at i:48416661 original size:167 final size:167
Alignment explanation
Indices: 48416373--48416691 Score: 469
Period size: 167 Copynumber: 1.9 Consensus size: 167
48416363 TATGTATGCA
* * *
48416373 AGTAAGACCACATTTAATACGTTGGCATCGGTATGTGATTCTGATAAGTGCGTGCGAGTAAGACC
1 AGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATAAGTGCGTGCAAGTAAGACC
* * * *
48416438 ATGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTATCCGAGTAAGACCATGTTTAAT
66 ACGTTTAATACATTGGCATCGATATGTGATTCCGATATATGTATCCGAGCAAGACCACGTTTAAT
*
48416503 ACGTTGGCATCGGTATGTGATTCCGAAATATGTGTGG
131 ACGTTGGCATCGATATGTGATTCCGAAATATGTGTGG
** * * * *
48416540 AGTAAGACCATGTTTAATATGTTGGCATCGATTTGTGATTCCGATATGTGTGTGCAAGTAAGACC
1 AGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATAAGTGCGTGCAAGTAAGACC
** *
48416605 ACGTTTAATAGGTTGGCATCGATATGTGATTCCGATATATGTGA-GCGAGCAAGACCACGTTTAA
66 ACGTTTAATACATTGGCATCGATATGTGATTCCGATATATGT-ATCCGAGCAAGACCACGTTTAA
48416669 TACGTTGGCATCGATATGTGATT
130 TACGTTGGCATCGATATGTGATT
48416692 TCGATATGTG
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
167 133 0.99
168 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (167 bp):
AGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATAAGTGCGTGCAAGTAAGACC
ACGTTTAATACATTGGCATCGATATGTGATTCCGATATATGTATCCGAGCAAGACCACGTTTAAT
ACGTTGGCATCGATATGTGATTCCGAAATATGTGTGG
Found at i:48416734 original size:56 final size:56
Alignment explanation
Indices: 48416373--48416747 Score: 445
Period size: 56 Copynumber: 6.7 Consensus size: 56
48416363 TATGTATGCA
** * * * * *
48416373 AGTAAGACCACATTTAATACGTTGGCATCGGTATGTGATTCTGATAAGTGCGTGCG
1 AGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACG
* * *
48416429 AGTAAGACCATGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTATCCG
1 AGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACG
* * * *
48416485 AGTAAGACCATGTTTAATACGTTGGCATCGGTATGTGATTCCGAAATATGTGT-GG
1 AGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACG
* * * *
48416540 AGTAAGACCATGTTTAATATGTTGGCATCGATTTGTGATTCCGATATGTGTGTGCA
1 AGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACG
* * *
48416596 AGTAAGACCACGTTTAATAGGTTGGCATCGATATGTGATTCCGATATATGTG-AGCG
1 AGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTA-CG
* * * *
48416652 AGCAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCGATATGTGTTTACG
1 AGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACG
*
48416708 AGTAAGACGC-TGTCTAGGATA-G-TGGCATCGATATGTGATT
1 AGTAAGAC-CATGTTTA--ATACGTTGGCATCGATATGTGATT
48416748 ACATGTAAGA
Statistics
Matches: 277, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
55 49 0.18
56 222 0.80
57 3 0.01
58 3 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (56 bp):
AGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTACG
Found at i:48421480 original size:23 final size:22
Alignment explanation
Indices: 48421452--48421496 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
48421442 GAAATAAACA
48421452 AATAAGTATGGATAATAAAGAAT
1 AATAAGTATGGATAAT-AAGAAT
*
48421475 AATAAGTATGGGTAATAAGAAT
1 AATAAGTATGGATAATAAGAAT
48421497 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (22 bp):
AATAAGTATGGATAATAAGAAT
Found at i:48422944 original size:40 final size:40
Alignment explanation
Indices: 48422778--48422945 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
48422768 CATTTGAATG
* * *
48422778 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
48422818 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
48422858 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
48422898 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
48422938 GTATCCGG
1 ATATCCGG
48422946 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:48430935 original size:40 final size:40
Alignment explanation
Indices: 48430769--48430936 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
48430759 CATTTGAATG
* * *
48430769 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
48430809 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
48430849 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
48430889 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
48430929 GTATCCGG
1 ATATCCGG
48430937 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:48438932 original size:40 final size:40
Alignment explanation
Indices: 48438766--48438933 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
48438756 CATTTGAATG
* * * *
48438766 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
48438806 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
48438846 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
48438886 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
48438926 GTATCCGG
1 ATATCCGG
48438934 TTAAATCCCG
Statistics
Matches: 101, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:48444054 original size:6 final size:7
Alignment explanation
Indices: 48444032--48444057 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48444022 CACATACCAG
48444032 AAATTAA
1 AAATTAA
48444039 AAATTAA
1 AAATTAA
48444046 AAATTAA
1 AAATTAA
48444053 AAATT
1 AAATT
48444058 TAGGGCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:48449239 original size:3 final size:3
Alignment explanation
Indices: 48449231--48449288 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
48449221 ACTAAAACTC
48449231 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48449279 TAT TAT TAT T
1 TAT TAT TAT T
48449289 TGCAACAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:48452078 original size:42 final size:42
Alignment explanation
Indices: 48452010--48452122 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
48452000 TGTGTTATCG
* * ***
48452010 TGTAAGACCACATCTAGGACGTTGGCATCATATTTGATTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
*
48452052 TGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCA-TCATATTTGATTACA
48452095 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
48452123 TGTACAAGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.02
42 23 0.38
43 35 0.58
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
Found at i:48457769 original size:31 final size:31
Alignment explanation
Indices: 48457726--48457840 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
48457716 TTAGTCTTGA
* *
48457726 CATAT-ACTGGGCTGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
48457756 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
48457787 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
48457818 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
48457841 ACTGTAAACG
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
30 5 0.06
31 77 0.94
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:48457911 original size:42 final size:42
Alignment explanation
Indices: 48457864--48457955 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
48457854 TGGCCCTTAG
* * ** *
48457864 GCCCATTTCAATGTCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
48457906 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
48457948 GCCCATTT
1 GCCCATTT
48457956 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:48458131 original size:25 final size:25
Alignment explanation
Indices: 48458103--48458172 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
48458093 CTCTTTTAAT
* *
48458103 AACTGGAGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
48458128 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
48458153 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
48458173 ATCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:48459025 original size:27 final size:27
Alignment explanation
Indices: 48458985--48459071 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
48458975 TATTCATCAT
*
48458985 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
* *
48459012 TTTACCCTATAGGGGCTTTACAGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
48459039 TTTACCCTACAGGGGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
48459066 TTTACC
1 TTTACC
48459072 TAATAGGGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:48459155 original size:27 final size:27
Alignment explanation
Indices: 48459125--48459176 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
48459115 GTAAATCTAC
*
48459125 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGAGTATTTCTA-TAATTTTGT
*
48459152 AAACCAATAGTATTTCTATAATTTT
1 AAACCAAGAGTATTTCTATAATTTT
48459177 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAGAGTATTTCTATAATTTTGT
Found at i:48459265 original size:27 final size:26
Alignment explanation
Indices: 48459233--48459412 Score: 189
Period size: 27 Copynumber: 6.7 Consensus size: 26
48459223 TTACAAATTG
* *
48459233 AGGGTATTTCAGTAATTTCACAAACC
1 AGGGTATTTTAGTAATTTTACAAACC
* *
48459259 AGTGGTATTTTGGTAATTTTACAAACTA
1 AG-GGTATTTTAGTAATTTTACAAAC-C
*
48459287 AGGGTATTTTGGTAATTTTACAAACC
1 AGGGTATTTTAGTAATTTTACAAACC
* *
48459313 AGGGGTATTTTAGCAATTTTACAGACC
1 A-GGGTATTTTAGTAATTTTACAAACC
* * * *
48459340 AAGGTATTTTAGTAATTTTACTGATCG
1 AGGGTATTTTAGTAATTTTAC-AAACC
* **
48459367 AGGGTATTTTGGTAATTTTTTAAACC
1 AGGGTATTTTAGTAATTTTACAAACC
48459393 AAGGGTATTTTAGTAATTTT
1 -AGGGTATTTTAGTAATTTT
48459413 GTAAATCGAG
Statistics
Matches: 127, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
26 23 0.18
27 102 0.80
28 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTAGTAATTTTACAAACC
Found at i:48459276 original size:102 final size:101
Alignment explanation
Indices: 48459131--48459323 Score: 228
Period size: 101 Copynumber: 1.9 Consensus size: 101
48459121 CTACAAACCA
*** * *
48459131 AGGGTATTTCAGTAATTTTGTAAACCAATAGTATTTCTATAATTTTTAGAAAGTCAA-GGTATTT
1 AGGGTATTTCAGTAATTTCACAAACCAATAGTATTTCTATAA-TTTTACAAACT-AAGGGTATTT
* ** *
48459195 TTGTAACTTTGTAAATCAGGGGTATTTTTTACAAATTG
64 TGGTAACTTTACAAACCAGGGGTATTTTTTACAAATTG
* * *
48459233 AGGGTATTTCAGTAATTTCACAAACCAGTGGTATTT-TGGTAATTTTACAAACTAAGGGTATTTT
1 AGGGTATTTCAGTAATTTCACAAACCAATAGTATTTCT-ATAATTTTACAAACTAAGGGTATTTT
*
48459297 GGTAATTTTACAAACCAGGGGTATTTT
65 GGTAACTTTACAAACCAGGGGTATTTT
48459324 AGCAATTTTA
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
100 2 0.03
101 40 0.53
102 34 0.45
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (101 bp):
AGGGTATTTCAGTAATTTCACAAACCAATAGTATTTCTATAATTTTACAAACTAAGGGTATTTTG
GTAACTTTACAAACCAGGGGTATTTTTTACAAATTG
Found at i:48459302 original size:54 final size:53
Alignment explanation
Indices: 48459233--48459412 Score: 218
Period size: 54 Copynumber: 3.4 Consensus size: 53
48459223 TTACAAATTG
* * *
48459233 AGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAG-GGTATTTTGGTAATTTTACAAACCA
* * * *
48459287 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACCA
1 AGGGTATTTTAGTAATTTTACAAACCA-GGGTATTTTGGTAATTTTACAAACCA
* * * **
48459341 A-GGTATTTTAGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTTTAAACCA
1 AGGGTATTTTAGTAATTTTAC-AAACCAGGGTATTTTGGTAATTTTACAAACCA
48459394 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTAGTAATTTT
48459413 GTAAATCGAG
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 40 0.37
54 66 0.62
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAACCA
Found at i:48459371 original size:80 final size:81
Alignment explanation
Indices: 48459233--48459412 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 81
48459223 TTACAAATTG
* * * *
48459233 AGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTG
48459298 GTAATTTTACAAACCA
66 GTAATTTTACAAACCA
* * * ** *
48459314 GGGGTATTTTAGCAATTTTACAGACCA-AGGTATTTTAGTAATTTTACTGA-TCGAGGGTATTTT
1 AGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACT-AAGGGTATTTT
**
48459377 GGTAATTTTTTAAACCA
65 GGTAATTTTACAAACCA
48459394 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTAGTAATTTT
48459413 GTAAATCGAG
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 61 0.73
81 22 0.26
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTG
GTAATTTTACAAACCA
Found at i:48459417 original size:27 final size:27
Alignment explanation
Indices: 48459233--48459480 Score: 178
Period size: 27 Copynumber: 9.2 Consensus size: 27
48459223 TTACAAATTG
* * *
48459233 AGGGTATTTCAGTAATTTCACAAACC-
1 AGGGTATTTTAGTAATTTTATAAACCA
* * *
48459259 AGTGGTATTTTGGTAATTTTACAAACTA
1 AG-GGTATTTTAGTAATTTTATAAACCA
* *
48459287 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTAGTAATTTTATAAACCA
* * * *
48459314 GGGGTATTTTAGCAATTTTACAGACCA
1 AGGGTATTTTAGTAATTTTATAAACCA
* * *
48459341 A-GGTATTTTAGTAATTTTACT-GATCG
1 AGGGTATTTTAGTAATTTTA-TAAACCA
* *
48459367 AGGGTATTTTGGTAATTTTTTAAACCA
1 AGGGTATTTTAGTAATTTTATAAACCA
* * *
48459394 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTATAAACCA
*** * * *
48459421 AGGGTAAAATAGTAATTCTGTAAATCA
1 AGGGTATTTTAGTAATTTTATAAACCA
*** * *
48459448 AGGGTAAAATAGTAATTCTATAAATCA
1 AGGGTATTTTAGTAATTTTATAAACCA
48459475 AGGGTA
1 AGGGTA
48459481 AAACGGTAAT
Statistics
Matches: 188, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
26 24 0.13
27 162 0.86
28 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTATAAACCA
Found at i:48459436 original size:54 final size:54
Alignment explanation
Indices: 48459337--48459575 Score: 158
Period size: 54 Copynumber: 4.4 Consensus size: 54
48459327 AATTTTACAG
* *** * * *
48459337 ACCAA-GGTATTTTAGTAATTTTACT-GATCGAGGGTATTTTGGTAATTTTTTAA
1 ACCAAGGGTATTTTAGTAATTTTA-TAAATCGAGGGTAAAATAGTAATTCTGTAA
*
48459390 ACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAA
1 ACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAA
* *** * * **
48459444 ATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAA
1 ACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAA
* * ***** * * * * *
48459498 ATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTCTATAA
1 ACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAA
* * * * *
48459552 ATCGAGGATACTTTGGTAATTTTA
1 ACCAAGGGTATTTTAGTAATTTTA
48459576 CAATTTGAGA
Statistics
Matches: 152, Mismatches: 32, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 6 0.04
54 146 0.96
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (54 bp):
ACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAA
Found at i:48459477 original size:81 final size:81
Alignment explanation
Indices: 48459378--48459574 Score: 241
Period size: 81 Copynumber: 2.4 Consensus size: 81
48459368 GGGTATTTTG
* * * * * *
48459378 GTAATTTTTTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTATAAATCAAGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
48459443 AATCAAGGGTAAAATA
66 AATCAAGGGTAAAATA
*** * *
48459459 GTAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTATAAATCAAGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* * *
48459524 AGTCGAGGGTAAAATG
66 AATCAAGGGTAAAATA
* * *
48459540 GTAATTCTATAAATCGAGGATACTTTGGTAATTTT
1 GTAATTCTATAAATCAAGGGTAATTTGGTAATTTT
48459575 ACAATTTGAG
Statistics
Matches: 95, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (81 bp):
GTAATTCTATAAATCAAGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAATA
Found at i:48459481 original size:27 final size:27
Alignment explanation
Indices: 48459403--48459558 Score: 213
Period size: 27 Copynumber: 5.8 Consensus size: 27
48459393 AAGGGTATTT
*
48459403 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
48459430 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
48459457 TAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
**
48459484 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
48459511 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
48459538 TGGTAATTCTATAAATCGAGG
1 TAGTAATTCTGTAAATCGAGG
48459559 ATACTTTGGT
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:48461826 original size:45 final size:43
Alignment explanation
Indices: 48461775--48461925 Score: 157
Period size: 42 Copynumber: 3.5 Consensus size: 43
48461765 CTGAGATATT
* *
48461775 GTGTAAGACCGTGTCTGGGACATAGGCCTCGAT-T-TGAGGTTGTAC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATATCTGA--TT-T-C
*
48461820 GTGTAAGACCATGTCTGGGACATTGGCATC-ATATCTGATTTC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATATCTGATTTC
* * *
48461862 GTGTAAGACCCTGTCTGGGACAGAGGCATCGATA-CTGAATTAC
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATATCTG-ATTTC
* *
48461905 ATGTAAGACCACGTCTGGGAC
1 GTGTAAGACCATGTCTGGGAC
48461926 GTCGGCATTG
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
42 31 0.34
43 26 0.28
44 4 0.04
45 28 0.30
46 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATAGGCATCGATATCTGATTTC
Found at i:48461933 original size:43 final size:42
Alignment explanation
Indices: 48461821--48461933 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
48461811 AGGTTGTACG
* * * * *
48461821 TGTAAGACCATGTCTGGGACATTGGCATCATATCTGATTTCG
1 TGTAAGACCACGTCTGGGACGTAGGCATCATATCTGATTACA
48461863 TGTAAGACC-CTGTCTGGGACAG-AGGCATCGATA-CTGAATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTAGGCATC-ATATCTG-ATTACA
*
48461906 TGTAAGACCACGTCTGGGACGTCGGCAT
1 TGTAAGACCACGTCTGGGACGTAGGCAT
48461934 TGTACCCGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
42 28 0.47
43 30 0.51
44 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTAGGCATCATATCTGATTACA
Found at i:48466217 original size:59 final size:58
Alignment explanation
Indices: 48466121--48466252 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
48466111 AAAATTGTAC
48466121 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
48466179 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
48466238 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48466253 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:48466241 original size:88 final size:89
Alignment explanation
Indices: 48466091--48466252 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
48466081 GACAAGATTG
* * *
48466091 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
48466156 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
48466180 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
48466244 AAGTGTGCG
66 AAGTGTGCG
48466253 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:48466264 original size:29 final size:29
Alignment explanation
Indices: 48466121--48466252 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
48466111 AAAATTGTAC
*
48466121 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
48466150 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
48466179 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
48466209 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
48466238 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48466253 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:48475079 original size:13 final size:13
Alignment explanation
Indices: 48475061--48475089 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48475051 TTTAGTTTAA
48475061 TTAGTTAATTAGT
1 TTAGTTAATTAGT
48475074 TTAGTTAATTAGT
1 TTAGTTAATTAGT
48475087 TTA
1 TTA
48475090 ATAAATGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:48476765 original size:3 final size:3
Alignment explanation
Indices: 48476757--48476795 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
48476747 CAATTTAATT
48476757 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48476796 CCAATTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48481783 original size:32 final size:33
Alignment explanation
Indices: 48481722--48481784 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
48481712 GTAAAATTAT
* *
48481722 AAAATCTAACAACAATAAAAAGTAGTTTCAATA
1 AAAATCTAAAAACAATAAAAAATAGTTTCAATA
48481755 AAAAT-TAAAAACAATAAATAAATA-TTTCAA
1 AAAATCTAAAAACAATAAA-AAATAGTTTCAA
48481785 AACATCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (33 bp):
AAAATCTAAAAACAATAAAAAATAGTTTCAATA
Found at i:48487311 original size:40 final size:40
Alignment explanation
Indices: 48487274--48487452 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 40
48487264 GCTACTCGTT
*
48487274 CAAATGCCTTCGGGACATT-GCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TTAACCCGGATT-TAGTAACTCGCA
* *
48487314 CAGATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
48487354 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
48487394 CGAATGCCTTC-GGATCTTAGTCCGGGTATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
48487435 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
48487453 GCTCGGACAT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 5 0.04
40 102 0.86
41 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48491008 original size:13 final size:13
Alignment explanation
Indices: 48490990--48491015 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48490980 TAATTAAGAA
48490990 CAAGTCAAATATT
1 CAAGTCAAATATT
48491003 CAAGTCAAATATT
1 CAAGTCAAATATT
48491016 TATCATACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CAAGTCAAATATT
Found at i:48494038 original size:46 final size:45
Alignment explanation
Indices: 48493985--48494151 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
48493975 TGATAAGTGT
48493985 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATAAGA
* * *
48494031 GCCAGTGTAAGACATGTCTGGGACATGCATCGG--CATTGAGAGGTGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATT-ATA--AGA
* * * **
48494077 GCTACTATAAGAAATGTCTGGGACATGCATCGGCCTCGAGTTATACTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-A-TTATAAGA
*
48494125 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
48494152 GTGTCAGCTT
Statistics
Matches: 99, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
46 63 0.64
48 24 0.24
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATAAGA
Found at i:48494231 original size:49 final size:49
Alignment explanation
Indices: 48494174--48494301 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 49
48494164 TGTGTGTCAG
* * **
48494174 TGTAAGACCTGTCTAGGACATGGCATCTACAC-CGATAGATGAGGGCTAA
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCTAA
* * * * * *
48494223 TGTAAGACCTGTCTGGGACACGACATCGGCCTCGATATATGAAAGTTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCTAA
48494272 TGTAAGACCTGTCTGGGACATGGCATCGAC
1 TGTAAGACCTGTCTGGGACATGGCATCGAC
48494302 TTTGATGTGC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 1 0.02
49 64 0.98
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCTAA
Found at i:48497893 original size:29 final size:29
Alignment explanation
Indices: 48497851--48497916 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
48497841 ATCCTGACTC
* *
48497851 AGAGTTGACTTAAATTGGCATGTACCTCT
1 AGAGTCGACTTAAATTGGCATGTACCTAT
48497880 AGAGTCGACTTAAATTGGCATGTACCTAT
1 AGAGTCGACTTAAATTGGCATGTACCTAT
*
48497909 AGACTCGA
1 AGAGTCGA
48497917 TTCTAAGCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (29 bp):
AGAGTCGACTTAAATTGGCATGTACCTAT
Found at i:48500965 original size:20 final size:21
Alignment explanation
Indices: 48500928--48500985 Score: 84
Period size: 20 Copynumber: 2.8 Consensus size: 21
48500918 TAGTAATTTG
48500928 AATTT-AAAATTTGAAAACTT
1 AATTTGAAAATTTGAAAACTT
48500948 AATTTGAAAATTTG-AAACTT
1 AATTTGAAAATTTGAAAACTT
*
48500968 AATTTGAAAGATTGGAAA
1 AATTTGAAA-ATTTGAAA
48500986 TAGTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 20 0.59
21 12 0.35
22 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (21 bp):
AATTTGAAAATTTGAAAACTT
Found at i:48505740 original size:18 final size:18
Alignment explanation
Indices: 48505700--48505741 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
48505690 CCCATATTGC
48505700 AGCCCATGTAGGCCCACA
1 AGCCCATGTAGGCCCACA
* *
48505718 CGCCCGTGT-GGCCCACA
1 AGCCCATGTAGGCCCACA
48505735 TAGCCCA
1 -AGCCCA
48505742 AAAATGGCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.43, G:0.24, T:0.12
Consensus pattern (18 bp):
AGCCCATGTAGGCCCACA
Found at i:48527870 original size:25 final size:26
Alignment explanation
Indices: 48527800--48527882 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
48527790 CATGAAATTC
48527800 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
48527826 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* **
48527852 TTATCATG-GACATTTACCTAACTTA
1 TTATCATGAAACATTTACCTAACCCA
48527877 TTATCA
1 TTATCA
48527883 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 20 0.37
26 34 0.63
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:48531532 original size:37 final size:37
Alignment explanation
Indices: 48531473--48531618 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
48531463 AGCTCAGACG
* *
48531473 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
48531510 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
48531547 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
48531584 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
48531619 ATATATTTCT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:48531900 original size:47 final size:47
Alignment explanation
Indices: 48531821--48532061 Score: 356
Period size: 47 Copynumber: 5.1 Consensus size: 47
48531811 CATACATATT
* * * *
48531821 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
48531868 CCACATTGGCCATTAGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
48531915 TCACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
48531962 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
48532009 TCACATTGGCCATTCAGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
48532056 TCACAT
1 TCACAT
48532062 AAAATCCTAA
Statistics
Matches: 175, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 175 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:48532062 original size:25 final size:25
Alignment explanation
Indices: 48531936--48532062 Score: 81
Period size: 25 Copynumber: 5.3 Consensus size: 25
48531926 ATTCGGCTTT
**
48531936 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
48531961 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
**
48531983 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
48532008 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATGCACATTCA-CATTC
* *
48532030 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
48532055 ATCACATA
1 ATCACATA
48532063 AAATCCTAAA
Statistics
Matches: 73, Mismatches: 19, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
22 20 0.27
23 12 0.16
24 11 0.15
25 30 0.41
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:48537500 original size:26 final size:26
Alignment explanation
Indices: 48537464--48537547 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
48537454 CATGAAATTC
48537464 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
48537490 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
48537516 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
48537542 TTATCA
1 TTATCA
48537548 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:48539228 original size:57 final size:57
Alignment explanation
Indices: 48539138--48539285 Score: 235
Period size: 57 Copynumber: 2.6 Consensus size: 57
48539128 TGCTAGCTAG
48539138 AACTAAGTTTGTCTACGTTATGTATAGATGTTATCTAAATTTTGTGGTATCCACCAA
1 AACTAAGTTTGTCTACGTTATGTATAGATGTTATCTAAATTTTGTGGTATCCACCAA
* *
48539195 AACTAAGTTTGTCTACGTTATGTACAGAAGTTATCTAAATTTTGTGGTATCCACCAA
1 AACTAAGTTTGTCTACGTTATGTATAGATGTTATCTAAATTTTGTGGTATCCACCAA
* * *
48539252 ATCTAAGTATTTTC-ACATTATGTATAGATGTTAT
1 AACTAAGT-TTGTCTACGTTATGTATAGATGTTAT
48539286 TTAGAGTCTA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
57 79 0.95
58 4 0.05
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (57 bp):
AACTAAGTTTGTCTACGTTATGTATAGATGTTATCTAAATTTTGTGGTATCCACCAA
Found at i:48541617 original size:4 final size:4
Alignment explanation
Indices: 48541608--48541640 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
48541598 TTTTTAAACT
48541608 TTAA TTAA TTAA TTAA TTAA TTAA TTAA -TAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
48541641 CAAAAAACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:48541891 original size:15 final size:15
Alignment explanation
Indices: 48541871--48541922 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
48541861 ACTACAAAAC
48541871 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
48541886 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
48541905 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
48541920 ATT
1 ATT
48541923 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:48542041 original size:22 final size:22
Alignment explanation
Indices: 48542013--48542056 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48542003 ATTTTAAATA
48542013 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
48542035 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
48542057 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:48542141 original size:10 final size:9
Alignment explanation
Indices: 48542112--48542137 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48542102 TGAAAAATAT
48542112 AATATTTTA
1 AATATTTTA
48542121 AATATTTTA
1 AATATTTTA
48542130 AATATTTT
1 AATATTTT
48542138 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:48546967 original size:50 final size:51
Alignment explanation
Indices: 48546869--48546976 Score: 200
Period size: 50 Copynumber: 2.1 Consensus size: 51
48546859 ATAGATATAG
*
48546869 ATAGTATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTT
1 ATAGGATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTT
48546920 ATAGGATGGTAGAAAGATTCATA-TTTTTTTCTACCATACTATCGAGTTTT
1 ATAGGATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTT
48546970 ATAGGAT
1 ATAGGAT
48546977 ACTGCTGATT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 34 0.61
51 22 0.39
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.43
Consensus pattern (51 bp):
ATAGGATGGTAGAAAGATTCATATTTTTTTTCTACCATACTATCGAGTTTT
Found at i:48548741 original size:29 final size:25
Alignment explanation
Indices: 48548684--48548732 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
48548674 AAATATTTAT
48548684 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
48548709 TAGAAATAAATAGATATTATAAAA
1 TAGAAATAAATAGATATTATAAAA
48548733 GAAACTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:48551468 original size:28 final size:28
Alignment explanation
Indices: 48551417--48551471 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
48551407 TGTCCATTTA
* * *
48551417 TCCTAGATTGATACTTATAGTTTTTTTG
1 TCCTAGATTGATACCTAAACTTTTTTTG
*
48551445 TCCTAGATTGGTACCTAAACTTTTTTT
1 TCCTAGATTGATACCTAAACTTTTTTT
48551472 TCGTCCACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.51
Consensus pattern (28 bp):
TCCTAGATTGATACCTAAACTTTTTTTG
Found at i:48551647 original size:13 final size:14
Alignment explanation
Indices: 48551573--48551644 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 14
48551563 CTTGTAACTC
*
48551573 TTCTTGTTTTTGTT
1 TTCTTGTTTTTCTT
*
48551587 TT-TTGTTTTTATT
1 TTCTTGTTTTTCTT
*
48551600 TTCCTTCTTTTTC-T
1 TT-CTTGTTTTTCTT
*
48551614 TCCATT-TTTTTCTT
1 TTC-TTGTTTTTCTT
*
48551628 TTCTTTTCTTTTCTT
1 TTCTTGT-TTTTCTT
48551643 TT
1 TT
48551645 TTTAGCTTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
13 21 0.45
14 10 0.21
15 16 0.34
ACGTcount: A:0.03, C:0.15, G:0.04, T:0.78
Consensus pattern (14 bp):
TTCTTGTTTTTCTT
Found at i:48554555 original size:28 final size:28
Alignment explanation
Indices: 48554509--48554562 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
48554499 AAAAAGTAGT
48554509 CTTTGTGGCGATATTTGTTAAAGGAATC
1 CTTTGTGGCGATATTTGTTAAAGGAATC
*
48554537 CTTTGTGGTGAT-TTCTGTTAAAGGAA
1 CTTTGTGGCGATATT-TGTTAAAGGAA
48554563 GTTTTTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (28 bp):
CTTTGTGGCGATATTTGTTAAAGGAATC
Found at i:48554606 original size:28 final size:28
Alignment explanation
Indices: 48554524--48554681 Score: 95
Period size: 28 Copynumber: 5.6 Consensus size: 28
48554514 TGGCGATATT
* * * *
48554524 TGTTAAAGGAATCCTTTGTG-GTGATTTC
1 TGTTAAAGGAAGCCTTTATGCCT-ATCTC
** * * *
48554552 TGTTAAAGGAAGTTTTTATGACGATCTT
1 TGTTAAAGGAAGCCTTTATGCCTATCTC
*
48554580 TGTTACAGGAAGCCTTTATGCCTATCTC
1 TGTTAAAGGAAGCCTTTATGCCTATCTC
* * *
48554608 AGTTTAAAGGATGCCTTTGTGCCTATCTC
1 TG-TTAAAGGAAGCCTTTATGCCTATCTC
* * * * *
48554637 AGTTAAATGAATGCCTTT-TGGCAAACTC
1 TGTTAAAGGAA-GCCTTTATGCCTATCTC
*
48554665 TGTTAAAAGGATGCCTT
1 TGTT-AAAGGAAGCCTT
48554682 CGTGGCAAGA
Statistics
Matches: 100, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
28 64 0.64
29 36 0.36
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (28 bp):
TGTTAAAGGAAGCCTTTATGCCTATCTC
Found at i:48554625 original size:29 final size:28
Alignment explanation
Indices: 48554586--48554681 Score: 95
Period size: 29 Copynumber: 3.4 Consensus size: 28
48554576 TCTTTGTTAC
*
48554586 AGGAAGCCTTTATGCCTATCTCAGTTTAA
1 AGGATGCCTTT-TGCCTATCTCAGTTTAA
48554615 AGGATGCCTTTGTGCCTATCTCAG-TTAA
1 AGGATGCCTTT-TGCCTATCTCAGTTTAA
* * * * * *
48554643 ATGAATGCCTTTTGGCAAACTCTGTTAAA
1 A-GGATGCCTTTTGCCTATCTCAGTTTAA
48554672 AGGATGCCTT
1 AGGATGCCTT
48554682 CGTGGCAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (28 bp):
AGGATGCCTTTTGCCTATCTCAGTTTAA
Found at i:48565704 original size:25 final size:25
Alignment explanation
Indices: 48565661--48565724 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
48565651 GAATTCTCTA
*
48565661 GAAAGCCTTT-TGGCGATTT-TTTT
1 GAAAGCCTTTGTGGCGATTTATCTT
*
48565684 GGAAAACCTTTGTGGCGATTTATCTT
1 -GAAAGCCTTTGTGGCGATTTATCTT
48565710 GAAAGCCTTTGTGGC
1 GAAAGCCTTTGTGGC
48565725 AAAACCTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.26
25 23 0.66
26 3 0.09
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGATTTATCTT
Found at i:48569375 original size:715 final size:712
Alignment explanation
Indices: 48567388--48569526 Score: 3187
Period size: 712 Copynumber: 3.0 Consensus size: 712
48567378 ACCAATAAAA
* * *
48567388 AAATCCCATGATTTACGACACTTATTTTTTGAAGTAAAGCAACTGGTATTTATAAATGAAGTAAC
1 AAATCCCATAATTTACGACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
* * *
48567453 TAAAACTGAACAATTACATCACACTA-CTGTATCACAAAAAGAAAATGAATCGTTCAGCTTG-AA
66 TAAAACTGAATAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAATCGTTCAGCTTGAAA
* *
48567516 AAAAAAGCCAACTATTGAATAACGTT-GAGGTGAAACTTTATTCGAAGCATCAAAAACATTCCTA
131 AAAAAAGCCAACTGTTGAATAACGTTAG-GGTGAAACTTCATTCGAAGCATCAAAAACATTCCTA
* * *
48567580 GGCCTTTCAACTCCAATGTATCTTGAAGGTAACAAATTTCAGAGACTCTCCACATATCTGGCCTC
195 GGCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTC
** * * *
48567645 CATTGTGGTCTAATATGGGGGTCCGTCCACCATCGGTCCTCTTCTACTGTAGCAGTAAACGTAAG
260 CACCGTGGTCTAATATGGGGGTCCGTCCACCATCGGTCCTCCTCTACTATAGCAGAAAACGTAAG
* * * * *
48567710 CACTCATTAAGTTAGATAAATTGTTTCTCCTCTCTTTAATCCTTCTGTTGCTAAAAAGGTAAGCC
325 CACTCCTTGAGTCAGATAAATTGTTT-TCCTCTCTTTAATCATTCTGTTGCTAAAAAGGTGAGCC
* * * * * *
48567775 ACACCATTCGTCTTTCTTGGTGCATGCCTGAAGTGACAGTTACTGTAGCTTTCTCGTAGTGATTT
389 ACACCATTTGTCTTTCTTGGTGCATGCCTAAAG-GACAATGACTGTAGCTTTCCCGTAGCGATTT
* *
48567840 TGAGTTCCTTATATACAAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAAC
453 TGAGTTTCTTATATACGAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAA-
* *
48567905 A-GTCAAAGTGTCCCCTTCTATTTCCACCTCATAAAACCCCAAATCTAATCCCATCTGCACCACC
517 ATGTCAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATCTGCACCACC
* * *
48567969 TGGCAACATACAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTAGA
582 TGGTAACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGGA
* ** * *
48568034 ACCCAATACTCTCTTATTTGCATTCCTAAACACTAATCTTGTGCAGGATTTCATGAAATAATTTT
647 ACCCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAATGATTTT
48568099 G
712 G
* *
48568100 AAATCCCATGATTTACAACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
1 AAATCCCATAATTTACGACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
* * *
48568165 TAAAACCGAATAGTTATATCACACTAGTTGTATCAC-AAAAGAAAATGAATCGTTCAGCCT-AAA
66 TAAAACTGAATAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAATCGTTCAGCTTGAAA
* *
48568228 AAAAAAACCAACTGTTGAATAATGTTAGGGTGAAA-TGTCATTCGAAGCATCAAAAACATTCCTA
131 AAAAAAGCCAACTGTTGAATAACGTTAGGGTGAAACT-TCATTCGAAGCATCAAAAACATTCCTA
* * **
48568292 GGCCTTTCAACTCCAATGTATACTAAAGGTAACAAATTTCGGAGACTCTCTGCATACCTGGCCTC
195 GGCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTC
* * * * * *
48568357 CACCGTGGCCTAATATGGGGGTCCGTCCACCATCGGTCCTCCTCTGCTACAGTAGCAAATGTAAG
260 CACCGTGGTCTAATATGGGGGTCCGTCCACCATCGGTCCTCCTCTACTATAGCAGAAAACGTAAG
* *
48568422 CACTCCTTGAGTCAGATAAATTGTTTTACCTCTATTTAATCATTCTATTGCTAAAAAGGTGAGCC
325 CACTCCTTGAGTCAGATAAATTGTTTT-CCTCTCTTTAATCATTCTGTTGCTAAAAAGGTGAGCC
* * *
48568487 ACACTATTTGTCTTTCTTGGTGCATGCCTAAAGTA-ATAGTGACTGTAGCTTTCCCGTAGCTATT
389 ACACCATTTGTCTTTCTTGGTGCATGCCTAAAGGACA-A-TGACTGTAGCTTTCCCGTAGCGA-T
* *
48568551 TTTGAGTTTCTTATATACGGACAAATGGTAGATCTATCCACCCTATTTGCAAGAAGCTTTTTACA
451 TTTGAGTTTCTTATATACGAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACA
* * * * *
48568616 ATTTTTAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATATGCACTAC
516 AATGTCAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATCTGCACCAC
* * * * * *
48568681 CTAGTAACATGCAAGGGCTTTTACAACAAATGACAAATGTATATAGTCATTAACTACTAATCTGG
581 CTGGTAACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGG
*
48568746 AACCCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGTAGGACTTCATGAAATGATTT
646 AACCCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAATGATTT
48568811 TG
711 TG
* * * *
48568813 AGATCCTATAATTTACGACACTTATTTTTTAAAGTAAAGCAATTGGTATTTATAAATAAAATAAC
1 AAATCCCATAATTTACGACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
* * *
48568878 TAAAATTGAATAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAACCGTTCATCTTGAAA
66 TAAAACTGAATAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAATCGTTCAGCTTGAAA
* * *
48568943 AAAAAAGCCAATTGTTGAATAACGTTAGGGTGAAACTTCATTTGAAGCATAAAAAACATTCCTAG
131 AAAAAAGCCAACTGTTGAATAACGTTAGGGTGAAACTTCATTCGAAGCATCAAAAACATTCCTAG
48569008 GCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTCC
196 GCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTCC
* * * *
48569073 ACCGTTGTCTAATATGGTGGGTCCATCCACCATTGGTCCTCCTCTACTATAGCAAAAAACGTAAG
261 ACCGTGGTCTAATATGG-GGGTCCGTCCACCATCGGTCCTCCTCTACTATAGCAGAAAACGTAAG
* *
48569138 CACTCCTTGAGTCAGATAAATTGTTTGTCCTCTCTTTAATCTTTCTGTTGCTAAAAAGGTGAGCT
325 CACTCCTTGAGTCAGATAAATTGTTT-TCCTCTCTTTAATCATTCTGTTGCTAAAAAGGTGAGCC
* * * *
48569203 ACACGATTTGTCTTTCTCGGTGCATGCCAAAAAGGACAATGACTGTAGCTTTCCCGTAGCGATAT
389 ACACCATTTGTCTTTCTTGGTGCATGCC-TAAAGGACAATGACTGTAGCTTTCCCGTAGCGATTT
* * *
48569268 TGAGTTTCTTATATATGCACAAATGGTAGATCTATCCATCCTATCTGCAAGAAGCTTTTTACAAA
453 TGAGTTTCTTATATACGAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAAA
* * *
48569333 TGTCAAAGCATCCCCTTCTATTTCCACCTCCTAAAACCCCAAATTTAATCCTATCTGCACCACCT
518 TGTCAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATCTGCACCACCT
*
48569398 GGTAACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATGTGGAA
583 GGTAACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGGAA
*
48569463 CCCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAACGATTTT
648 CCCAAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAATGATTTT
48569527 AAAAAGCAGC
Statistics
Matches: 1277, Mismatches: 134, Indels: 29
0.89 0.09 0.02
Matches are distributed among these distances:
710 1 0.00
711 3 0.00
712 383 0.30
713 337 0.26
714 21 0.02
715 377 0.30
716 147 0.12
717 7 0.01
718 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (712 bp):
AAATCCCATAATTTACGACACTTATTTTTTGAAGTAAAGCAATTGGTATTTATAAATGAAATAAC
TAAAACTGAATAGTTACATCACACTAGTTGTATCACAAAAAGAAAATGAATCGTTCAGCTTGAAA
AAAAAAGCCAACTGTTGAATAACGTTAGGGTGAAACTTCATTCGAAGCATCAAAAACATTCCTAG
GCCTTTCAACTCCAATGTATCCTGAAGGTAACAAATTTCGGAGACTCTCCACATACCTGGCCTCC
ACCGTGGTCTAATATGGGGGTCCGTCCACCATCGGTCCTCCTCTACTATAGCAGAAAACGTAAGC
ACTCCTTGAGTCAGATAAATTGTTTTCCTCTCTTTAATCATTCTGTTGCTAAAAAGGTGAGCCAC
ACCATTTGTCTTTCTTGGTGCATGCCTAAAGGACAATGACTGTAGCTTTCCCGTAGCGATTTTGA
GTTTCTTATATACGAACAAATGGTAGATCTATCCACCCTATCTGCAAGAAGCTTTTTACAAATGT
CAAAGCGTCCCCTTCTATTTCCACCTCCTAAAACCCCAAATCTAATCCCATCTGCACCACCTGGT
AACATGCAAGGGCTTCTACAACAAACGACAAAGGTATATGGTTATTAACTACTAATCTGGAACCC
AAGACTCTCTCGTTTGCATTCCTAAACACTAATCTTGTGCAGGACTTCATGAAATGATTTTG
Found at i:48581571 original size:31 final size:31
Alignment explanation
Indices: 48581517--48581591 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
48581507 CATATAGATA
*
48581517 CTAAATAAAATAATAAGATAATAATAAATAT
1 CTAATTAAAATAATAAGATAATAATAAATAT
* * *
48581548 CTTATTAAAATATTAA-ATAAATAATAATTAT
1 CTAATTAAAATAATAAGAT-AATAATAAATAT
48581579 CTAATT-AAATAAT
1 CTAATTAAAATAAT
48581592 TATAAAATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 8 0.22
31 29 0.78
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAGATAATAATAAATAT
Found at i:48583393 original size:15 final size:15
Alignment explanation
Indices: 48583373--48583401 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48583363 TAAATCATCC
48583373 TATGTATTGATATTG
1 TATGTATTGATATTG
48583388 TATGTATTGATATT
1 TATGTATTGATATT
48583402 TCTTACTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (15 bp):
TATGTATTGATATTG
Found at i:48592421 original size:2 final size:2
Alignment explanation
Indices: 48592414--48592445 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48592404 CGTTTCATAG
48592414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48592446 CAAAGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48593148 original size:11 final size:11
Alignment explanation
Indices: 48593129--48593157 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
48593119 ATACCTGTGA
48593129 AAAAT-AAAAT
1 AAAATAAAAAT
48593139 AAAATAAAAAT
1 AAAATAAAAAT
48593150 AAAATAAA
1 AAAATAAA
48593158 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:48600841 original size:15 final size:15
Alignment explanation
Indices: 48600821--48600854 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
48600811 ATGAATGATA
48600821 GAGATAGACCCATTC
1 GAGATAGACCCATTC
48600836 GAGATAGACCCATTC
1 GAGATAGACCCATTC
48600851 GAGA
1 GAGA
48600855 GCATGTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (15 bp):
GAGATAGACCCATTC
Found at i:48603839 original size:35 final size:35
Alignment explanation
Indices: 48603790--48603963 Score: 150
Period size: 35 Copynumber: 4.9 Consensus size: 35
48603780 AATACACATG
* * *
48603790 GTTCATTACATCATCACATATGGCCGAATATACAA
1 GTTCAATATATCATCACATGTGGCCGAATATACAA
* * * **
48603825 GTACAATATATCATCATATATGATCGAATATACAA
1 GTTCAATATATCATCACATGTGGCCGAATATACAA
* * * * *
48603860 GTTCAATAAAACATCACATGTAGTCGAATATTCAA
1 GTTCAATATATCATCACATGTGGCCGAATATACAA
* * * *
48603895 GTTTAATATAACATCACATGTGGCCAAATATATATAA
1 GTTCAATATATCATCACATGTGGCC-GA-ATATACAA
* * *
48603932 GTTCAATACATCATCACTTGTGGCCAAATATA
1 GTTCAATATATCATCACATGTGGCCGAATATA
48603964 TATAAGTTCA
Statistics
Matches: 112, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
35 82 0.73
36 3 0.03
37 27 0.24
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (35 bp):
GTTCAATATATCATCACATGTGGCCGAATATACAA
Found at i:48603947 original size:37 final size:37
Alignment explanation
Indices: 48603852--48603977 Score: 148
Period size: 37 Copynumber: 3.5 Consensus size: 37
48603842 ATATGATCGA
* * * *
48603852 ATATACAAGTTCAATAAAACATCACATGTAGTCGAAT
1 ATATACAAGTTCAATACAACATCACATGTGGCCAAAT
* *
48603889 AT-T-CAAGTTTAATATAACATCACATGTGGCCAAAT
1 ATATACAAGTTCAATACAACATCACATGTGGCCAAAT
* * *
48603924 ATATATAAGTTCAATACATCATCACTTGTGGCCAAAT
1 ATATACAAGTTCAATACAACATCACATGTGGCCAAAT
*
48603961 ATATATAAGTTCAATAC
1 ATATACAAGTTCAATAC
48603978 CTATGTGGCC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
35 29 0.38
36 2 0.03
37 46 0.60
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (37 bp):
ATATACAAGTTCAATACAACATCACATGTGGCCAAAT
Found at i:48611760 original size:35 final size:35
Alignment explanation
Indices: 48611607--48611788 Score: 132
Period size: 35 Copynumber: 5.1 Consensus size: 35
48611597 TACTTACTTG
* * ** *
48611607 TATGGCCGAATACACATGGTTCGTTATATCATCACA
1 TATGGCCGAATATACA-AGTTCAATATAACATCACA
* *
48611643 TATGGCCGAATATACAAGTACAATA-AATCATCATA
1 TATGGCCGAATATACAAGTTCAATATAA-CATCACA
* *
48611678 TATGACCGAATATACAAGTTCAATAAAACATCACA
1 TATGGCCGAATATACAAGTTCAATATAACATCACA
*** ** * *
48611713 TGCAGTTGAATATTCAAGTTTAATATAACATCACA
1 TATGGCCGAATATACAAGTTCAATATAACATCACA
* * * * *
48611748 TGTGGCCAAATATATATAAGTTCAATACATCATCACA
1 TATGGCC-GA-ATATACAAGTTCAATATAACATCACA
48611785 TATG
1 TATG
48611789 TACATACCTA
Statistics
Matches: 112, Mismatches: 30, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
34 1 0.01
35 69 0.62
36 18 0.16
37 24 0.21
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (35 bp):
TATGGCCGAATATACAAGTTCAATATAACATCACA
Found at i:48613698 original size:36 final size:36
Alignment explanation
Indices: 48613655--48613729 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
48613645 TTGTTAACAT
48613655 TCAATCATTTATTCAAAACTATTTCATATTTTTCAA
1 TCAATCATTTATTCAAAACTATTTCATATTTTTCAA
48613691 TCAATCATTTATTCAAAACTATTTCATATTTTTCAA
1 TCAATCATTTATTCAAAACTATTTCATATTTTTCAA
48613727 TCA
1 TCA
48613730 TACTTCTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (36 bp):
TCAATCATTTATTCAAAACTATTTCATATTTTTCAA
Found at i:48613717 original size:19 final size:19
Alignment explanation
Indices: 48613659--48613717 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
48613649 TAACATTCAA
48613659 TCATTTATTCAAAACTATT
1 TCATTTATTCAAAACTATT
* * *
48613678 TCATATTTTTC-AATC-A-A
1 TCAT-TTATTCAAAACTATT
48613695 TCATTTATTCAAAACTATT
1 TCATTTATTCAAAACTATT
48613714 TCAT
1 TCAT
48613718 ATTTTTCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 5 0.17
17 7 0.23
18 2 0.07
19 11 0.37
20 5 0.17
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (19 bp):
TCATTTATTCAAAACTATT
Found at i:48615616 original size:37 final size:37
Alignment explanation
Indices: 48615557--48615665 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
48615547 AGCTCAGATG
* * *
48615557 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
48615594 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
48615631 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
48615666 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:48615866 original size:48 final size:48
Alignment explanation
Indices: 48615812--48616326 Score: 401
Period size: 48 Copynumber: 10.1 Consensus size: 48
48615802 ACACATCGCC
*
48615812 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48615860 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
48615912 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
48615960 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * * ** *
48616012 TATATATTTCACATTAACCATTCACCTTTACCACATATATATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * * *** * * * *
48616062 TATATATATATATATATATATATATTTC-GCATTAGCCATTCGGCTTTAC-CA-CAT-A
1 TACATAT-T-T-CACA-CTAGCCA-TTCGGCTTTA-CCA--C--ATATACATATC-TCA
* *
48616117 TACATATCTCATACATATTTTACATTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATAT-T--T-C-------ACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
48616176 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
48616224 TACATATTTCACATTAGTCATTCGGCTTTACCACATAGACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
48616272 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48616320 TATATAT
1 TACATAT
48616327 ATATATATAT
Statistics
Matches: 388, Mismatches: 46, Indels: 66
0.78 0.09 0.13
Matches are distributed among these distances:
48 220 0.57
49 2 0.01
50 10 0.03
51 3 0.01
52 86 0.22
53 2 0.01
54 7 0.02
55 15 0.04
56 4 0.01
57 6 0.02
58 5 0.01
59 13 0.03
61 6 0.02
62 7 0.02
63 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:48615933 original size:100 final size:100
Alignment explanation
Indices: 48615815--48616330 Score: 587
Period size: 100 Copynumber: 5.0 Consensus size: 100
48615805 CATCGCCTAC
* *
48615815 ATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
48615880 TTCGGCTTTACCACATATACATATCTCATATATAT
66 TTCGGCTTTACCACATATACATATCTCATATATAT
* *
48615915 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCC
1 ATATTTCACATTAG-CCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCC
48615979 ATTCGGCTTTACCACATATACATATCTCATATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * *
48616015 ATATTTCACATTAACCATTC-ACCTTTACCACATATATATATCTCATATATATATATATATATAT
1 ATATTTCACATTAGCCATTCGA-CTTTACCACATATACATATCTC--ATACATAT-T-T-CACAT
*** * * * * * *
48616079 ATATATATTTC-GCATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
60 -TAGCCA-TTCGGCTTTA-CCA--C--ATATA-CATATCT-CATA--T-ATAT
*
48616131 ATATTTTACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
48616196 TTCGACTTTACCACATATACATATCTC---T-TAC
66 TTCGGCTTTACCACATATACATATCTCATATATAT
* * *
48616227 ATATTTCACATTAGTCATTCGGCTTTACCACATAGACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
48616292 TTCAGCTTTACCACATATACATATCTCATATATAT
66 TTCGGCTTTACCACATATACATATCTCATATATAT
48616327 ATAT
1 ATAT
48616331 ATATATATAT
Statistics
Matches: 348, Mismatches: 42, Indels: 52
0.79 0.10 0.12
Matches are distributed among these distances:
96 89 0.26
98 1 0.00
99 2 0.01
100 138 0.40
102 7 0.02
103 2 0.01
104 6 0.02
105 6 0.02
106 8 0.02
107 7 0.02
109 7 0.02
110 7 0.02
111 6 0.02
112 6 0.02
113 5 0.01
114 7 0.02
115 1 0.00
116 42 0.12
117 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.37
Consensus pattern (100 bp):
ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:48616053 original size:2 final size:2
Alignment explanation
Indices: 48616046--48616086 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
48616036 CCTTTACCAC
*
48616046 AT AT AT AT AT CT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48616087 TTCGCATTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.97
3 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48616101 original size:120 final size:116
Alignment explanation
Indices: 48615963--48616182 Score: 343
Period size: 120 Copynumber: 1.9 Consensus size: 116
48615953 TATCTCATAC
*
48615963 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATAT-TTT-ACATTA
* *
48616028 ACCATTC-ACCTTTACCACATATATATATCTCATATATATATATATATATATATAT
62 ACCATTCGA-CTTTACCACATATACATATCTCATACATATATATATATATATATAT
* *
48616083 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTTACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTTACATTAACCA
48616148 TTCGACTTTACCACATATACATATCTCATACATAT
66 TTCGACTTTACCACATATACATATCTCATACATAT
48616183 TTCACATTAG
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
116 40 0.43
117 4 0.04
118 7 0.07
120 43 0.46
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (116 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTTACATTAACCA
TTCGACTTTACCACATATACATATCTCATACATATATATATATATATATAT
Found at i:48616326 original size:2 final size:2
Alignment explanation
Indices: 48616319--48616352 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48616309 TACATATCTC
48616319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48616353 TTCGCATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48616354 original size:122 final size:122
Alignment explanation
Indices: 48616227--48616448 Score: 372
Period size: 122 Copynumber: 1.8 Consensus size: 122
48616217 TATCTCTTAC
* *
48616227 ATATTTCACATTAGTCATTCGGCTTTACCACATAGACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGTCATTCGGCTTTACCACATAGACACATCTCATACATATTCCACATTAGCCA
*
48616292 TTCAGCTTTACCACATATACATATCTCATATATATATATATATATATATATATATAT
66 TTCAGCTTTACCACATATACATATCTCATACATATATATATATATATATATATATAT
* * *
48616349 ATATTTCGCATTAGTCATTCGGCTTTACCACATATACACATCTCATACATATTCCATATTAGCCA
1 ATATTTCACATTAGTCATTCGGCTTTACCACATAGACACATCTCATACATATTCCACATTAGCCA
**
48616414 TTTGGCTTTACCACATATACATATCTCATACATAT
66 TTCAGCTTTACCACATATACATATCTCATACATAT
48616449 TTCACATTAG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
122 92 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (122 bp):
ATATTTCACATTAGTCATTCGGCTTTACCACATAGACACATCTCATACATATTCCACATTAGCCA
TTCAGCTTTACCACATATACATATCTCATACATATATATATATATATATATATATAT
Found at i:48616410 original size:48 final size:48
Alignment explanation
Indices: 48616349--48616535 Score: 311
Period size: 48 Copynumber: 3.9 Consensus size: 48
48616339 ATATATATAT
* * *
48616349 ATATTTCGCATTAGTCATTCGGCTTTACCACATATACACATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
* * *
48616397 ATATTCCATATTAGCCATTTGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
48616445 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
48616493 ATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48616536 TATGCATCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
Found at i:48616415 original size:218 final size:218
Alignment explanation
Indices: 48616139--48616535 Score: 704
Period size: 218 Copynumber: 1.8 Consensus size: 218
48616129 ACATATTTTA
* *
48616139 CATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTT
1 CATTAGCCATTCGACTTTACCACATATACACATCTCATACATATTCCACATTAGCCATTCGACTT
* *
48616204 TACCACATATACATATCTCTTACATATTTCACATTAGTCATTCGGCTTTACCACATAGACATATC
66 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAGACATATC
48616269 TCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATATATA
131 TCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATATATA
48616334 TATATATATATATATATATTTCG
196 TATATATATATATATATATTTCG
* * * * *
48616357 CATTAGTCATTCGGCTTTACCACATATACACATCTCATACATATTCCATATTAGCCATTTGGCTT
1 CATTAGCCATTCGACTTTACCACATATACACATCTCATACATATTCCACATTAGCCATTCGACTT
*
48616422 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
66 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAGACATATC
48616487 TCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
131 TCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
48616536 TATGCATCAA
Statistics
Matches: 169, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
218 169 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.37
Consensus pattern (218 bp):
CATTAGCCATTCGACTTTACCACATATACACATCTCATACATATTCCACATTAGCCATTCGACTT
TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAGACATATC
TCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATATATA
TATATATATATATATATATTTCG
Found at i:48616449 original size:266 final size:261
Alignment explanation
Indices: 48615815--48616535 Score: 1104
Period size: 266 Copynumber: 2.7 Consensus size: 261
48615805 CATCGCCTAC
* * * *
48615815 ATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
48615880 TTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATT-GACCATTCGGCTTTACC
66 TTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTAG-CCATTCGGCTTTACC
*
48615944 ACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
126 ACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--
* *
48616009 ATATATATATTTCACATTAACCATTCACCTTTACCACATATATATATCTCATATATATATATATA
189 A-ATACATATTTCACATTAACCATTCACCTTTACCACATATACATATCTCATATATATATATATA
48616074 TATATATAT
253 TATATATAT
*
48616083 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTTACATTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
48616148 TTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
* * *
48616213 TACATATCTCTTACATATTTCACATTAGTCATTCGGCTTTACCACATAGACATATCTC-ATACAT
131 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATACAT
* *
48616277 ATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATATATATATATATA
196 ATTTCACATTAACCATTCACCTTTACCACATATACATATCTC------ATATATATATATATATA
48616342 TATATAT
255 TATATAT
* * * *
48616349 ATATTTCGCATTAGTCATTCGGCTTTACCACATATACACATCTCATACATATTCCATATTAGCCA
1 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
48616414 TTTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
*
48616479 TACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
131 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48616536 TATGCATCAA
Statistics
Matches: 418, Mismatches: 28, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
260 44 0.11
264 88 0.21
265 1 0.00
266 199 0.48
268 86 0.21
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.37
Consensus pattern (261 bp):
ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATACAT
ATTTCACATTAACCATTCACCTTTACCACATATACATATCTCATATATATATATATATATATATA
T
Found at i:48616461 original size:170 final size:170
Alignment explanation
Indices: 48616179--48616496 Score: 528
Period size: 170 Copynumber: 1.9 Consensus size: 170
48616169 TATCTCATAC
* * * *
48616179 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCTTACATATTTCACATTAGTCA
1 ATATTTCACATTAGCCATTCGACTTTACCACATATACACATCTCATACATATTCCACATTAGCCA
48616244 TTCGGCTTTACCACATAGACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATA
66 TTCGGCTTTACCACATAGACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATA
*
48616309 TACATATCTCATATATATATATATATATATATATATATAT
131 TACATATCTCATACATATATATATATATATATATATATAT
* * * *
48616349 ATATTTCGCATTAGTCATTCGGCTTTACCACATATACACATCTCATACATATTCCATATTAGCCA
1 ATATTTCACATTAGCCATTCGACTTTACCACATATACACATCTCATACATATTCCACATTAGCCA
* * *
48616414 TTTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATAGACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATA
48616479 TACATATCTCATACATAT
131 TACATATCTCATACATAT
48616497 TTCACATTAG
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
170 136 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.38
Consensus pattern (170 bp):
ATATTTCACATTAGCCATTCGACTTTACCACATATACACATCTCATACATATTCCACATTAGCCA
TTCGGCTTTACCACATAGACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATA
TACATATCTCATACATATATATATATATATATATATATAT
Found at i:48620031 original size:40 final size:40
Alignment explanation
Indices: 48619999--48620345 Score: 505
Period size: 40 Copynumber: 8.7 Consensus size: 40
48619989 CCAGCATGAT
* *
48619999 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
48620039 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * * *
48620079 TGCTCTTTGAGACTTAGCCCGGCTATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * *
48620119 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
48620159 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
48620199 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
48620239 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
48620279 TGGTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
48620319 TGCTCTTCGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
48620346 TATAACTCTC
Statistics
Matches: 278, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 278 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
Found at i:48621677 original size:37 final size:37
Alignment explanation
Indices: 48621599--48621741 Score: 236
Period size: 36 Copynumber: 3.9 Consensus size: 37
48621589 GCTCAGATGA
* * * *
48621599 AATCTCCATACGAAGTTATCGGGTCTTA-CCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
48621635 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
48621672 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
48621709 AAT-TCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
48621742 TATATTTCCA
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
36 55 0.54
37 47 0.46
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:48621694 original size:73 final size:73
Alignment explanation
Indices: 48621599--48621741 Score: 234
Period size: 73 Copynumber: 2.0 Consensus size: 73
48621589 GCTCAGATGA
* *
48621599 AATCTCCATACGAAGTTATCGGGTCTTA-CCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAAT-TCCACACGTAGTCATCGGGTCTTA
48621663 CCCGGACAT
65 CCCGGACAT
* *
48621672 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATTCCACACGTAGTCATCGGGTCTTAC
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATTCCACACGTAGTCATCGGGTCTTAC
48621737 CCGGA
66 CCGGA
48621742 TATATTTCCA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
73 55 0.85
74 10 0.15
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (73 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATTCCACACGTAGTCATCGGGTCTTAC
CCGGACAT
Found at i:48621941 original size:48 final size:48
Alignment explanation
Indices: 48621886--48622371 Score: 706
Period size: 48 Copynumber: 9.9 Consensus size: 48
48621876 ACACATCGCC
*
48621886 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
48621934 TACATATTTCACACTAGCCATTAGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
48621984 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
48622032 TACATATTTCACATTAGCCATTCGGCTTTACCACATATAGATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * * *
48622084 TATATATTTCACATTAACCATTCAGCTTTACCACATATGCATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
48622136 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48622184 TACATATTTCACATTAGCCATTCGGCTTTACCATATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48622232 TACATATTTCACATTAGCCATTCGGCTTTACCACATAGACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
48622280 TACATATTTCACATTAGCCATTCGGCTTTACCAC-TATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* **
48622327 TAGATATTTCACATTAGCCATTCATCTTTACCACATATACATATC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
48622372 ATATATATAT
Statistics
Matches: 403, Mismatches: 26, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
47 43 0.11
48 225 0.56
49 2 0.00
50 42 0.10
52 91 0.23
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:48622275 original size:96 final size:96
Alignment explanation
Indices: 48621886--48622577 Score: 931
Period size: 96 Copynumber: 7.0 Consensus size: 96
48621876 ACACATCGCC
* *
48621886 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
48621951 CCATTAGGCTTTACCACATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTC--A
* *
48621984 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
*
48622048 GCCATTCGGCTTTACCACATATAGATATCTCATATA
65 GCCATTCGGCTTTACCACATATACATATCTC----A
* * * * * *
48622084 TATATATTTCACATTAACCATTCAGCTTTACCACATATGCATATCTCATATATATATATTTCGCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
48622149 TTAGCCATTCGGCTTTACCACATATACATATCTCA
62 TTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48622184 TACATATTTCACATTAGCCATTCGGCTTTACCATATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
48622249 CCATTCGGCTTTACCACATAGACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
*
48622280 TACATATTTCACATTAGCCATTCGGCTTTACCAC-TATACATATCTCATAGATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
** *
48622344 CCATTCATCTTTACCACATATACATATCATATATATATATATATA
66 CCATTCGGCTTTACCACATATACATATC-------------T-CA
* * * *
48622389 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACACATCTCATACATA-TTCATATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
48622453 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
48622484 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
48622549 CCATTCAGCTTTACCACATATACATATCT
66 CCATTCGGCTTTACCACATATACATATCT
48622578 TATGCATCAA
Statistics
Matches: 532, Mismatches: 38, Indels: 50
0.86 0.06 0.08
Matches are distributed among these distances:
95 106 0.20
96 117 0.22
97 1 0.00
98 87 0.16
100 90 0.17
104 45 0.08
108 1 0.00
109 68 0.13
110 17 0.03
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:48622379 original size:2 final size:2
Alignment explanation
Indices: 48622361--48622395 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
48622351 TCTTTACCAC
*
48622361 AT AT AC AT AT CAT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
48622396 TTCGCATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:48622416 original size:157 final size:158
Alignment explanation
Indices: 48622216--48622528 Score: 513
Period size: 157 Copynumber: 2.0 Consensus size: 158
48622206 CGGCTTTACC
* *
48622216 ATATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAGACATATCTCAT
1 ATATATACATATATCATACATATTTCACATTAGCCATTCGGCTTTACCACATAGACACATCTCAT
*
48622281 ACATATTTCACATTAGCCATTCGGCTTTACCAC-TATACATATCTCATAGATATTTCACATTAGC
66 ACATA-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
*
48622345 CATTCATCTTTACCACATATACATATCAT
130 CATTCAGCTTTACCACATATACATATCAT
* * * *
48622374 ATATATATATATAT-ATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACACATCTCAT
1 ATATATACATATATCATACATATTTCACATTAGCCATTCGGCTTTACCACATAGACACATCTCAT
*
48622438 ACATATTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
66 ACATATTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
*
48622503 ATTCGGCTTTACCACATATACATATC
131 ATTCAGCTTTACCACATATACATATC
48622529 TCATACATAT
Statistics
Matches: 144, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
156 26 0.18
157 106 0.74
158 12 0.08
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (158 bp):
ATATATACATATATCATACATATTTCACATTAGCCATTCGGCTTTACCACATAGACACATCTCAT
ACATATTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
ATTCAGCTTTACCACATATACATATCAT
Found at i:48622474 original size:109 final size:96
Alignment explanation
Indices: 48622392--48622577 Score: 329
Period size: 95 Copynumber: 1.9 Consensus size: 96
48622382 ATATATATAT
* * *
48622392 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACACATCTCATACATA-TTCATATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
48622456 TTCGGCTTTACCACATATACATATCTCATAC
66 TTCAGCTTTACCACATATACATATCTCATAC
48622487 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
48622552 TTCAGCTTTACCACATATACATATCT
66 TTCAGCTTTACCACATATACATATCT
48622578 TATGCATCAA
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 49 0.57
96 37 0.43
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCAGCTTTACCACATATACATATCTCATAC
Found at i:48622519 original size:48 final size:48
Alignment explanation
Indices: 48622392--48622577 Score: 329
Period size: 48 Copynumber: 3.9 Consensus size: 48
48622382 ATATATATAT
* *
48622392 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACACATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
48622440 ATA-TTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
48622487 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
48622535 ATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48622578 TATGCATCAA
Statistics
Matches: 132, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 44 0.33
48 88 0.67
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
Found at i:48626072 original size:40 final size:40
Alignment explanation
Indices: 48626040--48626384 Score: 514
Period size: 40 Copynumber: 8.7 Consensus size: 40
48626030 CCAGCATGAT
* *
48626040 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
48626080 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
48626120 TGCTCTTTGAGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
48626160 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
48626200 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
48626240 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
48626280 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
48626320 TG-TCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
48626359 TGCTCTTCGGGACTTAG-CCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
48626385 TAACTCTCGA
Statistics
Matches: 281, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 45 0.16
40 236 0.84
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
Found at i:48627723 original size:22 final size:23
Alignment explanation
Indices: 48627685--48627729 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
48627675 AAATCTCCAC
48627685 ACGTAGTCATCGGGTCTTACCCG
1 ACGTAGTCATCGGGTCTTACCCG
48627708 ACGTAGTCA-CGGGTCTTACCCG
1 ACGTAGTCATCGGGTCTTACCCG
48627730 GACATAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.24
Consensus pattern (23 bp):
ACGTAGTCATCGGGTCTTACCCG
Found at i:48627970 original size:48 final size:48
Alignment explanation
Indices: 48627915--48628452 Score: 821
Period size: 48 Copynumber: 11.0 Consensus size: 48
48627905 ACACATCGCC
*
48627915 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48627963 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
48628013 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
48628061 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48628109 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
48628157 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
48628205 TACATATTTCACATTAGCCATTC-GCTTTACCACATATACATATCTCATATATATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC------------A
* * *
48628264 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACACATC-CA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
48628311 TACATATTCCATATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
48628359 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48628407 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48628453 TATGCATCAA
Statistics
Matches: 454, Mismatches: 18, Indels: 36
0.89 0.04 0.07
Matches are distributed among these distances:
47 64 0.14
48 302 0.67
49 2 0.00
50 43 0.09
59 23 0.05
60 20 0.04
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:48628300 original size:60 final size:59
Alignment explanation
Indices: 48628190--48628317 Score: 177
Period size: 60 Copynumber: 2.2 Consensus size: 59
48628180 GGCTTTACCA
* * *
48628190 CATATACATATCTCATACATATTTCACATTAGCCATTCGCTTTACCACATATACATATC
1 CATATATATATATCATACATATTTCACATTAGCCATTCGCTTTACCACATATACACATC
* *
48628249 TCATATATATATAT-ATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACACATC
1 -CATATATATATATCATACATATTTCACATTAGCCATTC-GCTTTACCACATATACACATC
*
48628309 CATACATAT
1 CATATATAT
48628318 TCCATATTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 30 0.49
60 31 0.51
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (59 bp):
CATATATATATATCATACATATTTCACATTAGCCATTCGCTTTACCACATATACACATC
Found at i:48628365 original size:202 final size:204
Alignment explanation
Indices: 48628064--48628452 Score: 719
Period size: 202 Copynumber: 1.9 Consensus size: 204
48628054 TATCTCATAC
* *
48628064 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTCCACATTAGCCA
*
48628129 TTCGGCTTTACCACATATACATATCTCTTACATATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
48628194 TACATATCTCATACATATTTCACATTAGCCATTC-GCTTTACCACATATACATATCTCATATATA
131 TACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATATA
48628258 TATATATAT
196 TATATATAT
* *
48628267 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACACATC-CATACATATTCCATATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTCCACATTAGCCA
48628331 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
48628396 TACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
131 TACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
48628453 TATGCATCAA
Statistics
Matches: 180, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
202 118 0.66
203 62 0.34
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (204 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTCCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
TACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATATA
TATATATAT
Found at i:48628382 original size:250 final size:242
Alignment explanation
Indices: 48627915--48628452 Score: 882
Period size: 250 Copynumber: 2.2 Consensus size: 242
48627905 ACACATCGCC
*
48627915 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
48627980 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACC
* * *
48628045 ACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
131 ACATATACACATCTCATACATATTCCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
*
48628110 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCT
196 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48628157 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
* *
48628222 CCATTC-GCTTTACCACATATACATATCTCATATATATATATATATATATTTCGCATTAGCCATT
66 CCATTCGGCTTTACCACATATACATATCTCATATATATAT-T-T-CACA-TT-G----A-CCATT
*
48628286 CGGCTTTACCACATATACACATC-CATACATATTCCATATTAGCCATTCGGCTTTACCACATATA
121 CGGCTTTACCACATATACACATCTCATACATATTCCACATTAGCCATTCGGCTTTACCACATATA
48628350 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
186 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48628407 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48628453 TATGCATCAA
Statistics
Matches: 276, Mismatches: 10, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
241 33 0.12
242 70 0.25
243 1 0.00
244 2 0.01
245 2 0.01
246 1 0.00
250 141 0.51
251 26 0.09
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (242 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACC
ACATATACACATCTCATACATATTCCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:48631621 original size:22 final size:22
Alignment explanation
Indices: 48631586--48631646 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
48631576 TGGTCACGAC
** * *
48631586 GGTGGTCCGGCGGTTGTCTGGT
1 GGTGGTCCAACGGTGGTCAGGT
*
48631608 GGTGGTCCAACGGTGGTGAGGT
1 GGTGGTCCAACGGTGGTCAGGT
*
48631630 GGTGGTGCAACGGTGGT
1 GGTGGTCCAACGGTGGT
48631647 GTGGTTAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.08, C:0.15, G:0.51, T:0.26
Consensus pattern (22 bp):
GGTGGTCCAACGGTGGTCAGGT
Found at i:48631647 original size:22 final size:22
Alignment explanation
Indices: 48631605--48631647 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
48631595 GCGGTTGTCT
48631605 GGTGGTGGTCCAACGGTGGTGA
1 GGTGGTGGTCCAACGGTGGTGA
*
48631627 GGTGGTGGTGCAACGGTGGTG
1 GGTGGTGGTCCAACGGTGGTG
48631648 TGGTTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.53, T:0.23
Consensus pattern (22 bp):
GGTGGTGGTCCAACGGTGGTGA
Found at i:48633995 original size:29 final size:29
Alignment explanation
Indices: 48633953--48634009 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
48633943 TCTATATATG
48633953 TCCATTTTTGTCCATGAAAACCTAATGGC
1 TCCATTTTTGTCCATGAAAACCTAATGGC
*
48633982 TCCATTTTTTTCCATGAAAACCTAATGG
1 TCCATTTTTGTCCATGAAAACCTAATGG
48634010 TCTAATTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (29 bp):
TCCATTTTTGTCCATGAAAACCTAATGGC
Found at i:48635086 original size:23 final size:23
Alignment explanation
Indices: 48635058--48635104 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
48635048 GAAGTTAAAG
48635058 CTTTTGCTATTACATTTAAAGTA
1 CTTTTGCTATTACATTTAAAGTA
48635081 CTTTTGCTATTACATTTAAAGTA
1 CTTTTGCTATTACATTTAAAGTA
48635104 C
1 C
48635105 GCCTACTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (23 bp):
CTTTTGCTATTACATTTAAAGTA
Found at i:48637235 original size:93 final size:93
Alignment explanation
Indices: 48637126--48637297 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
48637116 GCCCATAAGT
* * *
48637126 GAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48637191 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
48637219 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
48637284 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
48637298 ATCCTAGTGA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:48637293 original size:46 final size:46
Alignment explanation
Indices: 48637118--48637293 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48637108 TGTAACCCGC
* *
48637118 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
48637164 CTATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
48637214 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
48637257 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48637294 TGCCATCCTA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48640267 original size:50 final size:50
Alignment explanation
Indices: 48640154--48640436 Score: 209
Period size: 50 Copynumber: 5.6 Consensus size: 50
48640144 AGCTATCTGG
* * ** * * *
48640154 TACACATAGTAGCCTGCACTTAGAACTA-ACATGCAACC-AACAATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATATGA
*
48640202 TACACGTAGTAGCCTGCACTTA-TGACTACACACGTGACCTAACCATATGA
1 TACACATAGTAGCCTGCACTTAGT-ACTACACACGTGACCTAACCATATGA
* * * ** ** *
48640252 TACACGTAGTAGCCTGCACTTAATACTACACACGTGA-TTGAA-GTTGCCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACCAT--ATGA
** * * * * *
48640303 TAGGCATAGTAGCCTGCACTTAATACTACACATGCGACCTAACTATCAGGA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-ATGA
* * *
48640354 -ACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATATGA
* *
48640405 AACACATAGTAGCCTGCACATAGTACTACACA
1 TACACATAGTAGCCTGCACTTAGTACTACACA
48640437 TGTGTTCTCA
Statistics
Matches: 187, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
48 25 0.13
49 9 0.05
50 77 0.41
51 40 0.21
52 36 0.19
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATATGA
Found at i:48640331 original size:101 final size:101
Alignment explanation
Indices: 48640208--48640389 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 101
48640198 CTGGTACACG
* *
48640208 TAGTAGCCTGCACTTATGACTACACACGTGACCTAACCAT-ATGATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTATGACTACACACGCGACCTAACCATCAGGA-ACACGTAGTAGCCTGCACT
48640272 TAATACTACACACGTGATTGAAGTTGCCGGGTAGGCA
65 TAATACTACACACGTGATTGAAGTTGCCGGGTAGGCA
* *
48640309 TAGTAGCCTGCACTTAAT-ACTACACATGCGACCTAACTATCAGGAACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTT-ATGACTACACACGCGACCTAACCATCAGGAACACGTAGTAGCCTGCACT
*
48640373 TAGTACTACACACGTGA
65 TAATACTACACACGTGA
48640390 CCTAAAACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
101 69 0.93
102 5 0.07
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (101 bp):
TAGTAGCCTGCACTTATGACTACACACGCGACCTAACCATCAGGAACACGTAGTAGCCTGCACTT
AATACTACACACGTGATTGAAGTTGCCGGGTAGGCA
Found at i:48640386 original size:151 final size:150
Alignment explanation
Indices: 48640158--48640436 Score: 402
Period size: 151 Copynumber: 1.8 Consensus size: 150
48640148 ATCTGGTACA
* *
48640158 CATAGTAGCCTGCACTTAGAACTAACATGCAACCAACAATCTGGTACACGTAGTAGCCTGCACTT
1 CATAGTAGCCTGCACTTAGAACTAACATGCAACCAACAATCAGGAACACGTAGTAGCCTGCACTT
* * *
48640223 ATGACTACACACGTGACCT-AACCATATGATACACGTAGTAGCCTGCACTTAATACTACACACGT
66 ATGACTACACACGTGACCTAAACCATATGAAACACATAGTAGCCTGCACATAATACTACACACGT
48640287 GATTGAAGTTGCCGGGTAGG
131 GATTGAAGTTGCCGGGTAGG
* *
48640307 CATAGTAGCCTGCACTTA-ATACTACACATGCGACCTAACTATCAGGAACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGA-ACTA-ACATGCAACC-AACAATCAGGAACACGTAGTAGCCTGCA
* * *
48640371 CTTA-GTACTACACACGTGACCTAAAACCATTTTAAACACATAGTAGCCTGCACATAGTACTACA
63 CTTATG-ACTACACACGTGACCT-AAACCATATGAAACACATAGTAGCCTGCACATAATACTACA
48640435 CA
126 CA
48640437 TGTGTTCTCA
Statistics
Matches: 114, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
148 1 0.01
149 22 0.19
150 10 0.09
151 45 0.39
153 36 0.32
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (150 bp):
CATAGTAGCCTGCACTTAGAACTAACATGCAACCAACAATCAGGAACACGTAGTAGCCTGCACTT
ATGACTACACACGTGACCTAAACCATATGAAACACATAGTAGCCTGCACATAATACTACACACGT
GATTGAAGTTGCCGGGTAGG
Found at i:48644297 original size:171 final size:171
Alignment explanation
Indices: 48644012--48644348 Score: 629
Period size: 171 Copynumber: 2.0 Consensus size: 171
48644002 ATTATGGCTG
48644012 CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
1 CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
*
48644077 CCACATTGGTAAGGTTACATATTCATACATCATAAGTATAGACCTATAATCACAAGGTCATAACA
66 CCACATTGGTAAGGTTACATATTCATAAATCATAAGTATAGACCTATAATCACAAGGTCATAACA
*
48644142 AAATCATTCTCATAAGCCTGAATTACCTATTTACATATTTT
131 AAATCATTCTCATAAGCATGAATTACCTATTTACATATTTT
48644183 CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
1 CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
* *
48644248 CCACATTGGTAAGGTTACATATTCATAAATCATAAGTATAGACCTATAATCACAAGTTCATCACA
66 CCACATTGGTAAGGTTACATATTCATAAATCATAAGTATAGACCTATAATCACAAGGTCATAACA
*
48644313 AAATCATTCTCATAAGCATGAATTGCCTATTTACAT
131 AAATCATTCTCATAAGCATGAATTACCTATTTACAT
48644349 CTTCACTAAA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 161 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (171 bp):
CTGTCCAAAACTGTTTGTGTAAATTAACGATACTAAGTTTATCACACCATATTAATTCATTTTCA
CCACATTGGTAAGGTTACATATTCATAAATCATAAGTATAGACCTATAATCACAAGGTCATAACA
AAATCATTCTCATAAGCATGAATTACCTATTTACATATTTT
Found at i:48644731 original size:49 final size:50
Alignment explanation
Indices: 48644663--48644790 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 50
48644653 CAAGTCGATT
*
48644663 CCATGTCCCAGACATGGTCTTACACTAACTATTGA-A-A-TCGAGGCCGACG
1 CCATGTCCCAGACATGGTCTTACACTAACTA-TCACATATTCG-GGCCGACG
* * * *
48644712 CCATGTCCCAAACAGGGTCTTACACTAACTATCACATATTCGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAACTATCACATATTCGGGCCGACG
48644762 CCATGTCCCAGACATGGTCTTACACTAAC
1 CCATGTCCCAGACATGGTCTTACACTAAC
48644791 ACATCTCATA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 2 0.03
49 30 0.43
50 34 0.49
51 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTAACTATCACATATTCGGGCCGACG
Found at i:48644781 original size:50 final size:49
Alignment explanation
Indices: 48644611--48644790 Score: 174
Period size: 49 Copynumber: 3.7 Consensus size: 49
48644601 GGTATAATCT
** * * *
48644611 CGATGCCATGTCCCAGACATGGT-TTCACACTGGCTCA-TC-CATC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTT-ACACTAACT-ATTCAAATCGAGGC
* *
48644658 CGATTCCATGTCCCAGACATGGTCTTACACTAACTATTGAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATTCAAATCGAGGC
* * * *
48644707 CGACGCCATGTCCCAAACAGGGTCTTACACTAACTA-TCACATATTCG-TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATTCA-A-A-TCGAGGC
48644757 CGATGCCATGTCCCAGACATGGTCTTACACTAAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAAC
48644791 ACATCTCATA
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
46 1 0.01
47 30 0.27
48 7 0.06
49 35 0.32
50 34 0.31
51 3 0.03
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTATTCAAATCGAGGC
Found at i:48647190 original size:15 final size:14
Alignment explanation
Indices: 48647144--48647190 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
48647134 AATATAGATA
*
48647144 ATAAGAAAACCAAG
1 ATAAGAAATCCAAG
*
48647158 ATTAAGAAGTCCAAG
1 A-TAAGAAATCCAAG
48647173 ATAGAGAAATCCAAG
1 ATA-AGAAATCCAAG
48647188 ATA
1 ATA
48647191 CAATATCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (14 bp):
ATAAGAAATCCAAG
Found at i:48647353 original size:2 final size:2
Alignment explanation
Indices: 48647346--48647371 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48647336 ACATACATAC
48647346 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
48647372 CGAATAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48649963 original size:52 final size:50
Alignment explanation
Indices: 48649700--48649982 Score: 223
Period size: 50 Copynumber: 5.6 Consensus size: 50
48649690 TTTGGTACGT
* * *
48649700 ATAGTAGCCTGCACTTAGTACCACACATGCGACC-AACAAT-TCGAAACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCT-GAAACAC
* * * ** * * * *
48649749 GTAGTAGCATGTACTTAGTAAAACACACGTGACTTAA-TCATCTGATACGC
1 ATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACT-ATCTGAAACAC
* * * * * * ** *
48649799 GTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTACGC
1 ATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CTATCTGAAACAC
* * **
48649850 ATCGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGAAACAC
* * *
48649900 GTAGTAGCCTGCACTTAGTACTACAGATGTGACCTAAAACTATCTTAAACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACTATCTGAAACAC
*
48649952 ATAGTAGCCTGCACATAGTACTACACATGTG
1 ATAGTAGCCTGCACTTAGTACTACACATGTG
48649983 CTCTCACAAT
Statistics
Matches: 188, Mismatches: 37, Indels: 15
0.78 0.15 0.06
Matches are distributed among these distances:
49 28 0.15
50 79 0.42
51 39 0.21
52 42 0.22
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (50 bp):
ATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGAAACAC
Found at i:48652181 original size:42 final size:43
Alignment explanation
Indices: 48652125--48652239 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 43
48652115 GTGCTACCGA
*
48652125 GATTCCGTGTAAGACCATATCTGGGATATGGAATCGGTATG-T
1 GATTTCGTGTAAGACCATATCTGGGATATGGAATCGGTATGAT
* * * *
48652167 GATTTCGTATAAGACCATGT-TAGGGACATGGCATCGGTATGAT
1 GATTTCGTGTAAGACCATATCT-GGGATATGGAATCGGTATGAT
* * *
48652210 G-TTTCATGTAAGACCATATCCGGGGTATGG
1 GATTTCGTGTAAGACCATATCTGGGATATGG
48652240 CATTGATACG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 56 0.95
43 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATATCTGGGATATGGAATCGGTATGAT
Found at i:48662355 original size:43 final size:43
Alignment explanation
Indices: 48662210--48662359 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
48662200 TATCCCAGAT
** * * *
48662210 ATGGTCTTACATGTTATAACAT-ATGATGCCGATAG-CCC-AAC
1 ATGGTCTTACACATAATCACATAATGATGCCAAT-GTCCCAAAC
* * * *
48662251 TATGGTCTTACACGA-AATCAAATAACGATGCCAATGTCCTAGAC
1 -ATGGTCTTACAC-ATAATCACATAATGATGCCAATGTCCCAAAC
*
48662295 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAAAC
48662338 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
48662360 CTTGTTAATC
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 17 0.19
43 69 0.78
44 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAAAC
Found at i:48665886 original size:40 final size:39
Alignment explanation
Indices: 48665842--48666023 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
48665832 GTTCAAAACA
* * ** * *
48665842 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGGTATCATAACTCGCACAATTG
* * *
48665882 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGGTATCATAACTCGCACAATTG
*
48665922 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGGTATCATAACTCGCACAATTG
*
48665961 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGGTATCATAACTCGCACAATTG
*
48666000 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGGTATCA
48666024 CTCGAACATT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGGTATCATAACTCGCACAATTG
Found at i:48665953 original size:39 final size:39
Alignment explanation
Indices: 48665872--48666023 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
48665862 TATGGTAACC
* * * *
48665872 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
48665912 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
48665951 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
48665990 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
48666024 CTCGAACATT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:48672630 original size:122 final size:121
Alignment explanation
Indices: 48672414--48672632 Score: 271
Period size: 122 Copynumber: 1.8 Consensus size: 121
48672404 ATTATGTGAG
** ** * * **
48672414 ATGAAATATGGATGTGTATGATTATTGATTATGTGTGTATGAGTATTTGAATTCTACCCGGGCTA
1 ATGAAATATGGATGTCAATGATTATTGATTATGTGTACATGAGAAATTGAATGATACCCGGGCTA
* * **
48672479 AGTCCCGAAGGCGAATATGCTTGTGATTATATTGCGTTTGAGCCTTAGTAACGAAA
66 AGTCCCGAAGACGAATATGCTGGAAATTATATTGCGTTTGAGCCTTAGTAACGAAA
* *
48672535 ATGAAATATGTATGTCCAATGATTATTGATGTATGTGTACATGAGAAATTGAATGATATCCGGGC
1 ATGAAATATGGATGT-CAATGATTATTGAT-TATGTGTACATGAGAAATTGAATGATACCCGGGC
48672600 TAAG-CCCGAAGAC-AATTATGCTGGAAATTATAT
64 TAAGTCCCGAAGACGAA-TATGCTGGAAATTATAT
48672633 CCGGGTTAAG
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
121 16 0.20
122 34 0.42
123 31 0.38
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (121 bp):
ATGAAATATGGATGTCAATGATTATTGATTATGTGTACATGAGAAATTGAATGATACCCGGGCTA
AGTCCCGAAGACGAATATGCTGGAAATTATATTGCGTTTGAGCCTTAGTAACGAAA
Done.