Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 104 of 276
Found at i:32939517 original size:96 final size:96
Alignment explanation
Indices: 32939323--32940270 Score: 1674
Period size: 96 Copynumber: 9.9 Consensus size: 96
32939313 CTAGGGATAC
* * * ** *
32939323 GAGAGCTAGTGTAAGACCAT-T-TTGTGACATGGCATCGGCCTTGATATGT--GCCAGTGTAAGA
1 GAGAGCTAGTGTAAGACCATGTCTAG-GAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGA
* * * * *
32939384 CCATGTCTGGGACATGGCATTGGAACCAGTT-TAT
65 CCATGTTTGGAACATGGCA-TCG--TCATTTATAT
* * * *
32939418 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACCTCGATATGTGAGCCAGTGTAAGA
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAG-CCTCAATATGTGAGTCAGTGTAAGA
32939482 CCATGTTTGGAACATGGCATCGTCATTTATAT
65 CCATGTTTGGAACATGGCATCGTCATTTATAT
32939514 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
32939579 CATGTTTGGAACATGGCATCGTCATTTATAT
66 CATGTTTGGAACATGGCATCGTCATTTATAT
32939610 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
32939675 CATGTTTGGAACATGGCATCGTCATTTATAT
66 CATGTTTGGAACATGGCATCGTCATTTATAT
32939706 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
32939771 CATGTTTGGAACATGGCATCGTCATTTATAT
66 CATGTTTGGAACATGGCATCGTCATTTATAT
32939802 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
32939867 CATGTTTGGAACATGGCATCGTCATTTATAT
66 CATGTTTGGAACATGGCATCGTCATTTATAT
32939898 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
32939963 CATGTTTGGAACATGGCATCGTCATTTATAT
66 CATGTTTGGAACATGGCATCGTCATTTATAT
32939994 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
32940059 CATGTTTGGAACATGGCATCGTCATTTATAT
66 CATGTTTGGAACATGGCATCGTCATTTATAT
32940090 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
32940155 CATGTTTGGAACATGGCATCGTCATTTATAT
66 CATGTTTGGAACATGGCATCGTCATTTATAT
32940186 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
32940251 CATGTTTGGAACATGGCATC
66 CATGTTTGGAACATGGCATC
32940271 AACACCAATA
Statistics
Matches: 834, Mismatches: 12, Indels: 13
0.97 0.01 0.02
Matches are distributed among these distances:
95 24 0.03
96 776 0.93
97 5 0.01
98 29 0.03
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (96 bp):
GAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCAGCCTCAATATGTGAGTCAGTGTAAGAC
CATGTTTGGAACATGGCATCGTCATTTATAT
Found at i:32942372 original size:40 final size:40
Alignment explanation
Indices: 32942317--32942698 Score: 597
Period size: 40 Copynumber: 9.6 Consensus size: 40
32942307 TATTCGAATG
*
32942317 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
32942357 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
32942397 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
32942437 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
32942477 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
32942517 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
32942557 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
32942597 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
32942637 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
32942677 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
32942699 TACTGGGGTT
Statistics
Matches: 312, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.04
40 296 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:32942450 original size:80 final size:80
Alignment explanation
Indices: 32942317--32942698 Score: 662
Period size: 80 Copynumber: 4.8 Consensus size: 80
32942307 TATTCGAATG
*
32942317 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA
32942382 TTTATGCTATTGACT
66 TTTATGCTATTGACT
32942397 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA
32942462 TTTATGCTATTGACT
66 TTTATGCTATTGACT
32942477 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA
32942542 TTTATGCTATTGACT
66 TTTATGCTATTGACT
32942557 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC-CTGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTC-GAAGGC
* *
32942621 TTTTGTGCTATTGACT
65 ATTTATGCTATTGACT
* * * *
32942637 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCTCGAAGG
32942699 TACTGGGGTT
Statistics
Matches: 293, Mismatches: 6, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
79 14 0.05
80 277 0.95
81 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA
TTTATGCTATTGACT
Found at i:32956730 original size:17 final size:18
Alignment explanation
Indices: 32956697--32956730 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32956687 TATCTCTTAA
32956697 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
32956715 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
32956731 AAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:32958166 original size:33 final size:32
Alignment explanation
Indices: 32958117--32958180 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
32958107 CTCGCTGCAA
* *
32958117 TCTGGTGGCTTTGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
32958150 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
32958181 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:32966063 original size:51 final size:48
Alignment explanation
Indices: 32965997--32966182 Score: 230
Period size: 49 Copynumber: 3.8 Consensus size: 48
32965987 TGAGGTCGCA
*
32965997 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGTGATCACG
* **
32966048 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGA-TGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTGA--TCACG
* * * * *
32966097 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-TGATCACG
32966146 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
32966183 TAGTTTCGGC
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
47 5 0.04
48 2 0.02
49 77 0.65
50 2 0.02
51 33 0.28
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTGATCACG
Found at i:32966077 original size:26 final size:26
Alignment explanation
Indices: 32966048--32966128 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
32966038 TGTGATCACG
32966048 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
32966074 TGTGTATTA-GATGTG-AGG-TCAC-G
1 TGTGTAGTACTAAGTGCAGGCT-ACTA
32966097 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
32966123 CGTGTA
1 TGTGTA
32966129 CCAGACTGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
23 9 0.22
24 9 0.22
25 9 0.22
26 14 0.34
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:32969447 original size:14 final size:14
Alignment explanation
Indices: 32969430--32969480 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
32969420 ATAAAACAGA
32969430 AAACCACAAACTCT
1 AAACCACAAACTCT
* *
32969444 AAACCATAAACCCT
1 AAACCACAAACTCT
*
32969458 AAACCAAAAACTCT
1 AAACCACAAACTCT
32969472 AAACC-CAAA
1 AAACCACAAA
32969481 TAATAAACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 3 0.09
14 29 0.91
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (14 bp):
AAACCACAAACTCT
Found at i:32969454 original size:28 final size:28
Alignment explanation
Indices: 32969423--32969476 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
32969413 CCTAACTATA
* *
32969423 AAACAGAAAACCACAAACTCTAAACCAT
1 AAACACAAAACCAAAAACTCTAAACCAT
* *
32969451 AAACCCTAAACCAAAAACTCTAAACC
1 AAACACAAAACCAAAAACTCTAAACC
32969477 CAAATAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.56, C:0.31, G:0.02, T:0.11
Consensus pattern (28 bp):
AAACACAAAACCAAAAACTCTAAACCAT
Found at i:32969631 original size:14 final size:14
Alignment explanation
Indices: 32969594--32969623 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32969584 AACCCCTATC
32969594 CTATAAACCCTAAA
1 CTATAAACCCTAAA
32969608 CTATAAACCCTAAA
1 CTATAAACCCTAAA
32969622 CT
1 CT
32969624 CTTAACCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (14 bp):
CTATAAACCCTAAA
Found at i:32970122 original size:21 final size:21
Alignment explanation
Indices: 32970098--32970166 Score: 50
Period size: 21 Copynumber: 3.3 Consensus size: 21
32970088 ATCCTAGGCC
32970098 ATAAACCCCAAACCTTAAACT
1 ATAAACCCCAAACCTTAAACT
* * * * *
32970119 AT-AAGCACTAATCTCTAAACC
1 ATAAACCCCAAACCT-TAAACT
* * *
32970140 ATAAACCCTAAACCATAACCT
1 ATAAACCCCAAACCTTAAACT
32970161 ATAAAC
1 ATAAAC
32970167 TAAATTGATT
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
20 8 0.24
21 19 0.58
22 6 0.18
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.20
Consensus pattern (21 bp):
ATAAACCCCAAACCTTAAACT
Found at i:32970152 original size:14 final size:14
Alignment explanation
Indices: 32970042--32970157 Score: 67
Period size: 14 Copynumber: 8.2 Consensus size: 14
32970032 TATTTACCCC
* * *
32970042 TAAACCCCAACCCT
1 TAAACCCTAAACCA
32970056 TAAACCCCTAAACCCA
1 TAAA-CCCTAAA-CCA
*
32970072 -AAACCCTAAATCA
1 TAAACCCTAAACCA
* **
32970085 TAAATCCTAGGCCA
1 TAAACCCTAAACCA
* *
32970099 TAAACCCCAAACCT
1 TAAACCCTAAACCA
*
32970113 TAAA--CTATAAGCA
1 TAAACCCTA-AACCA
* *
32970126 CTAATCTCTAAACCA
1 -TAAACCCTAAACCA
32970141 TAAACCCTAAACCA
1 TAAACCCTAAACCA
32970155 TAA
1 TAA
32970158 CCTATAAACT
Statistics
Matches: 75, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
12 2 0.03
13 5 0.07
14 51 0.68
15 12 0.16
16 5 0.07
ACGTcount: A:0.45, C:0.34, G:0.03, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:32970555 original size:40 final size:39
Alignment explanation
Indices: 32970397--32970565 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 39
32970387 ATTTTTTTGT
* * ** * *
32970397 GGCGATTTTCAGAAAGCGCCGCTAATGGTCGACCTATAGC
1 GGCGTTTTTCA-AAACCGCCGCTAATACTTGATCTATAGC
*
32970437 GGCGTTTTTCAAAAACCGCCGCTAATGCTTGATCTATAGC
1 GGCGTTTTTC-AAAACCGCCGCTAATACTTGATCTATAGC
* ** * *
32970477 GGCGTTTTTCAAGAAGCGTTTG-TGATTCTTGATCTATAGC
1 GGCGTTTTTCAA-AACCG-CCGCTAATACTTGATCTATAGC
* * *
32970517 GGTGTTTTTCAAATACCGCCGCTAATACTAGATTTATAGC
1 GGCGTTTTTCAAA-ACCGCCGCTAATACTTGATCTATAGC
**
32970557 AACGTTTTT
1 GGCGTTTTT
32970566 TGTCCTAGCG
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
39 4 0.04
40 97 0.94
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (39 bp):
GGCGTTTTTCAAAACCGCCGCTAATACTTGATCTATAGC
Found at i:32972954 original size:43 final size:42
Alignment explanation
Indices: 32972905--32973041 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 42
32972895 TCCTAGACGC
* *
32972905 GGTCTTACATGTAATTCAAAATCGATGCCTCTGTCCCAGACA
1 GGTCTTACATGTAAATCAAAATCGATGCCTATGTCCCAGACA
* * *
32972947 GAGTCTTACACG-AAATCAAATAT-GATGACAATGTCCCAGACA
1 G-GTCTTACATGTAAATCAAA-ATCGATGCCTATGTCCCAGACA
* ** * *
32972989 GGGTCTTATATGTAAATCTTAATCGAGGCCTGTGTCCCAGACA
1 -GGTCTTACATGTAAATCAAAATCGATGCCTATGTCCCAGACA
32973032 CGGTCTTACA
1 -GGTCTTACA
32973042 CGATGTCTCA
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
42 34 0.45
43 41 0.55
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGTAAATCAAAATCGATGCCTATGTCCCAGACA
Found at i:32973532 original size:42 final size:42
Alignment explanation
Indices: 32973485--32973568 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
32973475 CGAATTTTCA
* *
32973485 TGGCTTCTATATGAG-CCATACAACATGTTTAATTCATAATTT
1 TGGCTTCTATATAAGACCATACAACAT-TTTAATTCACAATTT
*
32973527 TGGCTTGTATATAAGACCATACAACATTTTAATTCACAATTT
1 TGGCTTCTATATAAGACCATACAACATTTTAATTCACAATTT
32973569 AGTCCTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 27 0.71
43 11 0.29
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (42 bp):
TGGCTTCTATATAAGACCATACAACATTTTAATTCACAATTT
Found at i:32980984 original size:55 final size:55
Alignment explanation
Indices: 32980890--32980994 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 55
32980880 GCTTTTAAAA
* * **
32980890 ATTTTCAATTCCATAGAGGTCATACGCCCGTGTGACAAGGCTTTGTGCCCTACAC
1 ATTTGCAATTCCATAGAGGTCACACGCCCGTGTGACAAGGCCGTGTGCCCTACAC
* *
32980945 ATTTGCAATTCCATAGAGGTCACATGCCCGTGTGGCAAGGCCGTGTGCCC
1 ATTTGCAATTCCATAGAGGTCACACGCCCGTGTGACAAGGCCGTGTGCCC
32980995 CACATGAGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (55 bp):
ATTTGCAATTCCATAGAGGTCACACGCCCGTGTGACAAGGCCGTGTGCCCTACAC
Found at i:32986317 original size:28 final size:29
Alignment explanation
Indices: 32986285--32986383 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
32986275 ATAATAAGCC
*
32986285 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
32986313 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
32986341 CGTACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
32986370 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32986384 CAATCTCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:32989536 original size:48 final size:48
Alignment explanation
Indices: 32989363--32989688 Score: 290
Period size: 48 Copynumber: 6.8 Consensus size: 48
32989353 AGGGATACGA
* *
32989363 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT
* * * *
32989411 --GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-CAGTTTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC-G-ATATGT
* * *
32989459 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT
* * * * * * *
32989507 GAGCCAGTGTAAGACCATGTTTGGAACATGGTATCAGCAT--TTATCGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATAT-GT
* * *
32989554 AGAGCTAGTGTAAGACCATGTCCGGGACATGGCATCAGCCTCAATATGT
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT
* * ** * *
32989603 GAGCTGGTGTAAGACCATGTTTGAAACAT--CATCAGCAC-CGATATACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATAT--GT
*
32989651 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
32989689 ATCTCACCCT
Statistics
Matches: 223, Mismatches: 40, Indels: 28
0.77 0.14 0.10
Matches are distributed among these distances:
46 49 0.22
47 4 0.02
48 125 0.56
49 4 0.02
50 41 0.18
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT
Found at i:32989558 original size:96 final size:96
Alignment explanation
Indices: 32989360--32989688 Score: 393
Period size: 96 Copynumber: 3.4 Consensus size: 96
32989350 ACTAGGGATA
* * *
32989360 CGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGT--GTTAGTGTAAGA
1 CGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCTAGTGTAAGA
* *
32989423 CCATGTCTGGGACATGGCATC-GACACCAGTTTAT
66 CCATGTTTGGAACATGGCATCAG-CA-C--TTTAT
* ** *
32989457 -GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGTGAGCCAGTGTAAGA
1 CGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCTAGTGTAAGA
*
32989521 CCATGTTTGGAACATGGTATCAGCA-TTTAT
66 CCATGTTTGGAACATGGCATCAGCACTTTAT
* * * *
32989551 CGTAGAGCTAGTGTAAGACCATGTCCGGGACATGGCATCAGCCTCAATATGTGAGCTGGTGTAAG
1 CG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCTAGTGTAAG
* **
32989616 ACCATGTTTGAAACAT--CATCAGCACCGATAT
65 ACCATGTTTGGAACATGGCATCAGCA-CTTTAT
32989647 ACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -CGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
32989689 ATCTCACCCT
Statistics
Matches: 199, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
94 12 0.06
95 1 0.01
96 153 0.77
97 2 0.01
98 30 0.15
99 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (96 bp):
CGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCTAGTGTAAGA
CCATGTTTGGAACATGGCATCAGCACTTTAT
Found at i:32997085 original size:53 final size:54
Alignment explanation
Indices: 32997028--32997159 Score: 185
Period size: 53 Copynumber: 2.5 Consensus size: 54
32997018 CCCTGGTGGT
* * *
32997028 GTAAAATGACTATAATGCCTTTGTAGGGTGAAATGACCGTAATA-TCCTATAGG
1 GTAAAATGACCATAATGCCTTTATAGGGTGAAATGACCGTAATACCCCTATAGG
* *
32997081 GTAAAATGACCATAATGCCTTTATAGGGTGAAATGATCGTAATACCCCTATATG
1 GTAAAATGACCATAATGCCTTTATAGGGTGAAATGACCGTAATACCCCTATAGG
* * *
32997135 GTAAAATGACGATTATGCCCTTATA
1 GTAAAATGACCATAATGCCTTTATA
32997160 TTCCGTATGA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 41 0.59
54 29 0.41
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (54 bp):
GTAAAATGACCATAATGCCTTTATAGGGTGAAATGACCGTAATACCCCTATAGG
Found at i:32997160 original size:27 final size:27
Alignment explanation
Indices: 32997028--32997159 Score: 108
Period size: 27 Copynumber: 4.9 Consensus size: 27
32997018 CCCTGGTGGT
* * *
32997028 GTAAAATGACTATAATGCCTTTGTAGG
1 GTAAAATGACGATAATGCCCTTATAGG
* **
32997055 GTGAAATGACCG-TAATATCC-TATAGG
1 GTAAAATGA-CGATAATGCCCTTATAGG
* *
32997081 GTAAAATGACCATAATGCCTTTATAGG
1 GTAAAATGACGATAATGCCCTTATAGG
* * * *
32997108 GTGAAATGATCG-TAATACCCCTATATG
1 GTAAAATGA-CGATAATGCCCTTATAGG
*
32997135 GTAAAATGACGATTATGCCCTTATA
1 GTAAAATGACGATAATGCCCTTATA
32997160 TTCCGTATGA
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
25 1 0.01
26 20 0.25
27 56 0.71
28 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (27 bp):
GTAAAATGACGATAATGCCCTTATAGG
Found at i:32997321 original size:27 final size:26
Alignment explanation
Indices: 32997280--32997338 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
32997270 ATGGAGGAAG
* *
32997280 TACTGTACTGGTGGCTATGCCACAAT
1 TACTGTACTGATGGCTATACCACAAT
* *
32997306 TACTGATACTGATGGCTTTACCACATT
1 TACTG-TACTGATGGCTATACCACAAT
32997333 TACTGT
1 TACTGT
32997339 TTCTGGCAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
TACTGTACTGATGGCTATACCACAAT
Found at i:33017172 original size:12 final size:11
Alignment explanation
Indices: 33017144--33017195 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
33017134 AATAAATGAT
*
33017144 AATAAACTAAA
1 AATAAAATAAA
33017155 AATAAAATAAA
1 AATAAAATAAA
* *
33017166 AATTAAATTAA
1 AATAAAATAAA
*
33017177 AAGAGAAAT-AA
1 AATA-AAATAAA
33017188 AATAAAAT
1 AATAAAAT
33017196 TTATTTGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 4 0.12
11 26 0.76
12 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:33018331 original size:38 final size:38
Alignment explanation
Indices: 33018280--33018374 Score: 113
Period size: 37 Copynumber: 2.5 Consensus size: 38
33018270 TAACACTTTG
* *
33018280 ACCACCCTGCACACCACAATAAGG-CCATGAGAGACTAA
1 ACCACCCTACACACCACAAT-AGGACCATAAGAGACTAA
* * *
33018318 ACCACCCTACACACCAC-ATAGGACCATAATAGGCTTA
1 ACCACCCTACACACCACAATAGGACCATAAGAGACTAA
*
33018355 TCCACCCTACACACCACAAT
1 ACCACCCTACACACCACAAT
33018375 TGTGTAACTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
36 3 0.06
37 28 0.57
38 18 0.37
ACGTcount: A:0.38, C:0.38, G:0.11, T:0.14
Consensus pattern (38 bp):
ACCACCCTACACACCACAATAGGACCATAAGAGACTAA
Found at i:33019172 original size:20 final size:18
Alignment explanation
Indices: 33019125--33019173 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
33019115 TACAGTTTTG
*
33019125 ATAAAATTCTTATAAAAA
1 ATAAAATTTTTATAAAAA
33019143 ATAATTAATTTTTATAAAATA
1 ATAA--AATTTTTATAAAA-A
33019164 ATTAAAATTT
1 A-TAAAATTT
33019174 CACTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.15
20 17 0.65
21 2 0.08
22 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAAAATTTTTATAAAAA
Found at i:33022084 original size:17 final size:17
Alignment explanation
Indices: 33022062--33022104 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
33022052 GGGGCCATGT
33022062 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
33022079 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
33022096 GGGCCCAAT
1 GGGCCCAAT
33022105 TAGATAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.19, C:0.35, G:0.35, T:0.12
Consensus pattern (17 bp):
GGGCCCAATGGGCCTAC
Found at i:33022542 original size:134 final size:133
Alignment explanation
Indices: 33022275--33022646 Score: 453
Period size: 134 Copynumber: 2.8 Consensus size: 133
33022265 TTAGTTTACC
* * * *
33022275 AAATTACTGAAATACCCCTAG-TTGTAAAATTACCAAAGTACCCTCGATTTATAAAATTATCGAA
1 AAATTACCGAAATACCCCCAGTTTATAAAATTACCAAA-TACCCTCGATTTATAAAATTATTGAA
* * * *
33022339 ATACCGTCGATTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATACCCTCGACC
65 ATACCATCGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAACC
33022404 TGTA
130 TGTA
* * *
33022408 AAATTACC-AAAGTACCCCCGGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATTGA
1 AAATTACCGAAA-TACCCCCAGTTTATAAAATTA-CCAAATACCCTCGATTTATAAAATTATTGA
*
33022472 AATACCATCGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAAT
64 AATACCATCGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAAC
*
33022537 TTGTA
129 CTGTA
* ** ** ** *
33022542 AAATTACCGAAATACCCTCAGTTTGCAAAATTATTGAAATACCCTTAATTTATAAAATTACTGAA
1 AAATTACCGAAATACCCCCAGTTTATAAAATTA-CCAAATACCCTCGATTTATAAAATTATTGAA
* * *
33022607 ATACCCTCGACTTGTAAAATTA-TCAAAGTACCCCCGATTT
65 ATACCATCGA-TTGTAAAATTACTGAAA-TACCCTCGATTT
33022647 ACAGAATTAC
Statistics
Matches: 205, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
132 3 0.01
133 14 0.07
134 158 0.77
135 30 0.15
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (133 bp):
AAATTACCGAAATACCCCCAGTTTATAAAATTACCAAATACCCTCGATTTATAAAATTATTGAAA
TACCATCGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCAACCT
GTA
Found at i:33022692 original size:27 final size:27
Alignment explanation
Indices: 33022275--33022693 Score: 395
Period size: 27 Copynumber: 15.6 Consensus size: 27
33022265 TTAGTTTACC
* *
33022275 AAATTACTGAAATACCC-CTAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
33022301 AAATTAC-CAAAGTACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
*
33022328 AAATTA-TCGAAATACCGTCGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
33022354 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
**
33022381 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
33022408 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
33022435 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
33022462 AAATTATTGAAATACCATCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
33022488 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
33022515 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
33022542 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
* ** *
33022569 AAATTATTGAAATACCCTTAATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
33022596 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * **
33022623 AAATTA-TCAAAGTACCCCCGATTTACA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* *** * **
33022650 GAATTACTGTTTTACCCTTGATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
*
33022677 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
33022694 CTGTAGGGTA
Statistics
Matches: 319, Mismatches: 61, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.01
26 65 0.20
27 242 0.76
28 9 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:33022708 original size:27 final size:27
Alignment explanation
Indices: 33022685--33023031 Score: 417
Period size: 27 Copynumber: 12.9 Consensus size: 27
33022675 CAAAATTATT
* *
33022685 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAAATACC
** *
33022712 GAAATACCATTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* *
33022739 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAAATACC
* *
33022766 GATATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* * *
33022793 GAAATACCCCTGTATGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACC
*
33022820 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* * *
33022847 AAAATACCCTTGTAGGGTAAAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
*
33022874 GAAATACCCCTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAAATACC
** * *
33022901 GAAATACCCCTAAAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACC
* *
33022928 GAAATACGCCTGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
*
33022955 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACC
* *
33022982 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAAATACC
** * *
33023009 GGGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTGTAGGGTAGAAAT
33023032 TACCATTTTG
Statistics
Matches: 272, Mismatches: 48, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
26 3 0.01
27 269 0.99
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAAATACC
Found at i:33023045 original size:27 final size:27
Alignment explanation
Indices: 33023015--33023078 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
33023005 TACCGGGATA
*
33023015 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * * *
33023042 CCCTTAG-AGTGTTAAATGACTATTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
33023069 CCCTTGTGGG
1 CCCTTGTGGG
33023079 CAAGTGACTG
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
26 1 0.04
27 26 0.93
28 1 0.04
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:33023516 original size:22 final size:22
Alignment explanation
Indices: 33023464--33023528 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
33023454 TTAAAGCCTT
* *
33023464 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTATGTGCCAAC
*
33023486 CT-ACATATGGCTATGTGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
*
33023508 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTATGTGCCAA
33023529 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:33023867 original size:6 final size:6
Alignment explanation
Indices: 33023858--33023930 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
33023848 TTGCATTCAC
*
33023858 ATTCTG ATTCTG ATTCTG -TTACCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * * *
33023908 GTTCTA ATTCTT ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
33023931 AGTTTTGATA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
5 3 0.06
6 40 0.77
7 6 0.12
8 3 0.06
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:33023885 original size:19 final size:19
Alignment explanation
Indices: 33023861--33023912 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
33023851 CATTCACATT
*
33023861 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTCAC
33023880 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGTCAC
*
33023899 CTGATTCTGGTTCT
1 CTGATTCTGATTCT
33023913 AATTCTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
CTGATTCTGATTCTGTCAC
Found at i:33025436 original size:90 final size:90
Alignment explanation
Indices: 33025272--33025437 Score: 199
Period size: 90 Copynumber: 1.8 Consensus size: 90
33025262 ATGCCAAAGT
* * * * * * * *
33025272 CATGTCCCAGACATGGCCTTACATGGGTCTACATATCGATGTGATATCCCAGATATTGTCTTATA
1 CATGTCCCAGACATGACCTTACACGGGCCTACATATCGATGTCATATCCAAGACATGGTCTTACA
** *
33025337 TGAAGTCTCATGTAGGTGTCGATGC
66 CAAAATCTCATGTAGGTGTCGATGC
* *
33025362 CATGTCCCAGACATGACCTTACACGGGACCTA-ATATCGATGTCATGTCCAATACATGGTCTTAC
1 CATGTCCCAGACATGACCTTACACGGG-CCTACATATCGATGTCATATCCAAGACATGGTCTTAC
33025426 ACAAAATCTCAT
65 ACAAAATCTCAT
33025438 ATCAATGTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
90 59 0.95
91 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (90 bp):
CATGTCCCAGACATGACCTTACACGGGCCTACATATCGATGTCATATCCAAGACATGGTCTTACA
CAAAATCTCATGTAGGTGTCGATGC
Found at i:33025440 original size:42 final size:41
Alignment explanation
Indices: 33025394--33025510 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 41
33025384 ACGGGACCTA
* * *
33025394 ATATCGATGTCATGTCCAATACATGGTCTTACACAAAATCTC
1 ATATCAATGTCATATCCAA-ATATGGTCTTACACAAAATCTC
* **
33025436 ATATCAATGTCATATCCCAGATATGGTCTTACATGAAATCTC
1 ATATCAATGTCATAT-CCAAATATGGTCTTACACAAAATCTC
*
33025478 ATATCAATGCCATATCCCAAATATGGTCTTACA
1 ATATCAATGTCATAT-CCAAATATGGTCTTACA
33025511 TTGGTACACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
42 63 0.95
43 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (41 bp):
ATATCAATGTCATATCCAAATATGGTCTTACACAAAATCTC
Found at i:33025511 original size:42 final size:42
Alignment explanation
Indices: 33025416--33025511 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
33025406 TGTCCAATAC
* * *
33025416 ATGGTCTTACACAAAATCTCATATCAATGTCATATCCCAGAT
1 ATGGTCTTACATAAAATCTCATATCAATGCCATATCCCAAAT
*
33025458 ATGGTCTTACATGAAATCTCATATCAATGCCATATCCCAAAT
1 ATGGTCTTACATAAAATCTCATATCAATGCCATATCCCAAAT
33025500 ATGGTCTTACAT
1 ATGGTCTTACAT
33025512 TGGTACACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (42 bp):
ATGGTCTTACATAAAATCTCATATCAATGCCATATCCCAAAT
Found at i:33029534 original size:44 final size:45
Alignment explanation
Indices: 33029467--33029784 Score: 282
Period size: 47 Copynumber: 6.9 Consensus size: 45
33029457 GACGGTTAAA
*
33029467 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAG
*
33029512 GAT-CCATGCAAGACCATGTCAAGACATGGCATTGGTAA-AGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGA-CAAG
* * * * * *
33029556 GATCCCGTGTAAGACCATGTCAAGACATGGCATCGGCATTGATTAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-AGA-CAAG
** **
33029603 GACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAG
1 GA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGACAAG
*** *
33029651 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAAACAAG
1 GATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGACAAG
** *** *
33029698 GATACCATGTAAGATTATGTTTGGAACATGGCATTTGGTAAGATAAG
1 GATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGACAAG
* * * *
33029745 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
33029785 TTCTATAAGA
Statistics
Matches: 223, Mismatches: 39, Indels: 22
0.79 0.14 0.08
Matches are distributed among these distances:
44 41 0.18
45 40 0.18
46 7 0.03
47 101 0.45
48 21 0.09
49 8 0.04
50 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (45 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAG
Found at i:33029706 original size:95 final size:89
Alignment explanation
Indices: 33029467--33029711 Score: 247
Period size: 95 Copynumber: 2.7 Consensus size: 89
33029457 GACGGTTAAA
** * **
33029467 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCATGCAAGACCATGTC
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAAACAAGGATCCATGTAAGACCACATC
*
33029532 AAGACATGGCATTGGTAAAGCAAG
66 AAGACATGGCATTGGCAAAGCAAG
* * * ** **
33029556 GATCCCGTGTAAGACCATGTCAAGACATGGCATCGGCATTGATTAAGGACTCCATGTAAGACCAC
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGG--TAAAACAAGGA-TCCATGTAAGACCAC
**
33029621 ATCAAGATGTGGCATTGGCACTAAGACAAG
63 ATCAAGACATGGCATTGGCA--AAG-CAAG
***
33029651 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAAACAAGGATACCATGTAAGA
1 GATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAAACAAGGAT-CCATGTAAGA
33029712 TTATGTTTGG
Statistics
Matches: 123, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
89 33 0.27
91 6 0.05
92 29 0.24
94 4 0.03
95 40 0.33
96 8 0.07
97 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (89 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAAACAAGGATCCATGTAAGACCACATC
AAGACATGGCATTGGCAAAGCAAG
Found at i:33029776 original size:142 final size:136
Alignment explanation
Indices: 33029462--33029784 Score: 319
Period size: 142 Copynumber: 2.3 Consensus size: 136
33029452 GAATTGACGG
* *
33029462 TTAAAGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCATGCAAGACC
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCATGCAAGACC
* * *
33029527 ATGTCAAGACATGGCATTGGTAAAGCAAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGG
66 ATGTCAAGACATGGCATTGGTAAAACAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGG
*
33029592 CATTGA
131 CATAGA
** ** *
33029598 TTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTA
1 TTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGACAAGGAT-CCATGCA
*** ** ***
33029662 AGACCATGTTTGGAACATGGCATTTGGTAAAACAAGGATACCATGTAAGATTATGTTTGGAACAT
61 AGACCATGTCAAG-ACATGGCA-TTGGTAAAACAAGGATACCATGTAAGACCATGTCAAG-ACAT
* *
33029727 GGCATTTGGTA-AGA
123 GGCA-TCGGCATAGA
* * * *
33029741 -TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
33029785 TTCTATAAGA
Statistics
Matches: 148, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
136 34 0.23
137 1 0.01
139 15 0.10
140 16 0.11
141 9 0.06
142 59 0.40
143 10 0.07
144 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (136 bp):
TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCATGCAAGACC
ATGTCAAGACATGGCATTGGTAAAACAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGG
CATAGA
Found at i:33029799 original size:54 final size:54
Alignment explanation
Indices: 33029736--33030270 Score: 704
Period size: 54 Copynumber: 10.0 Consensus size: 54
33029726 TGGCATTTGG
33029736 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * *
33029790 TAAGATAAGGATATCATGTAAG-GCTTGCCAAGGCATGGCAATGATAAGTTTTA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
33029843 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * *
33029897 TAAGATAAGGATATCATGTAAG-GCTTGCCAAGGCATGGCAATGATAAGTTTTA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
33029950 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * *
33030004 TAAGATAAGGATATCATGTAAG-GCTTGCCAAGGCATGGCATTGATAAGTTTTA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
33030057 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* ** * * * * * *
33030111 TTAGGCAAGAAAATCATGTAAGACCATGTCAAGACATGGCATTAATGAGTTACTA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
** * * *
33030166 TAAGGCA-AAGG-TCCCATGTAAGACCATGCCAAGGTATGGCATTGGTGAGTTC-A
1 TAA-G-ATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * * * *
33030219 TAAGGTAAGGATACCACGTAAGACCATGTCAAGACAAGGCAATGGTAAGTTC
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
33030271 AAAAAGGAAA
Statistics
Matches: 422, Mismatches: 51, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
52 5 0.01
53 185 0.44
54 191 0.45
55 37 0.09
56 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (54 bp):
TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:33029858 original size:107 final size:107
Alignment explanation
Indices: 33029736--33030240 Score: 755
Period size: 107 Copynumber: 4.7 Consensus size: 107
33029726 TGGCATTTGG
33029736 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAGGA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAGGA
33029801 TATCATGTAAGGCTTGCCAAGGCATGGCAATGATAAGTTTTA
66 TATCATGTAAGGCTTGCCAAGGCATGGCAATGATAAGTTTTA
33029843 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAGGA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAGGA
33029908 TATCATGTAAGGCTTGCCAAGGCATGGCAATGATAAGTTTTA
66 TATCATGTAAGGCTTGCCAAGGCATGGCAATGATAAGTTTTA
33029950 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAGGA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAGGA
*
33030015 TATCATGTAAGGCTTGCCAAGGCATGGCATTGATAAGTTTTA
66 TATCATGTAAGGCTTGCCAAGGCATGGCAATGATAAGTTTTA
* ** *
33030057 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATTAGGCAAGAA
1 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAGGA
* * * * * * * * *
33030122 AATCATGTAAGACCATGTCAAGACATGGCATTAATGAGTTACTA
66 TATCATGTAAG-GCTTGCCAAGGCATGGCAATGATAAGTT-TTA
** * * * *
33030166 TAAGGCA-AAGG-TCCCATGTAAGACCATGCCAAGGTATGGCATTGGTGAGTTC-ATAAGGTAAG
1 TAA-G-ATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAG
* *
33030228 GATACCACGTAAG
64 GATATCATGTAAG
33030241 ACCATGTCAA
Statistics
Matches: 370, Mismatches: 24, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
107 284 0.77
108 39 0.11
109 41 0.11
110 5 0.01
111 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (107 bp):
TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGATAAGGA
TATCATGTAAGGCTTGCCAAGGCATGGCAATGATAAGTTTTA
Found at i:33030192 original size:55 final size:53
Alignment explanation
Indices: 33029750--33030259 Score: 291
Period size: 53 Copynumber: 9.5 Consensus size: 53
33029740 ATAAGGATAT
* * *
33029750 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAA-G-ATAAGGATAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA-AAGG-T-C
* * * * * * *
33029804 CATGTAAG-GCTTGCCAAGGCATGGCAATGATAAGTTTTATAA-G-ATAAGGATAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA-AAGG-T-C
* * *
33029857 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAA-G-ATAAGGATAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA-AAGG-T-C
* * * * * * *
33029911 CATGTAAG-GCTTGCCAAGGCATGGCAATGATAAGTTTTATAA-G-ATAAGGATAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA-AAGG-T-C
* * *
33029964 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAA-G-ATAAGGATAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA-AAGG-T-C
* * * * * *
33030018 CATGTAAG-GCTTGCCAAGGCATGGCATTGATAAGTTTTATAA-G-ATAAGGATAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCA-AAGG-T-C
* * * **
33030071 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATTAGGCAAGAAAAT-
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC-A-AAGGTC
* *
33030125 CATGTAAGACCATGTCAAGACATGGCATTAATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGT-C
** * *
33030180 CATGTAAGACCATGCCAAGGTATGGCATTGGTGAGTTC-ATAAGG-TAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-T-C
* * *
33030233 CACGTAAGACCATGTCAAGACAAGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
33030260 ATGGTAAGTT
Statistics
Matches: 401, Mismatches: 45, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
52 4 0.01
53 181 0.45
54 171 0.43
55 41 0.10
56 1 0.00
57 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
Found at i:33034588 original size:32 final size:33
Alignment explanation
Indices: 33034552--33034619 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
33034542 CATTAGAGAG
33034552 TATGAGGTTAATGATAAAATAAGGTCAATTA-T
1 TATGAGGTTAATGATAAAATAAGGTCAATTACT
*
33034584 TATGAGGTTAATGATAAAATAAGGTCAGTTACT
1 TATGAGGTTAATGATAAAATAAGGTCAATTACT
33034617 TAT
1 TAT
33034620 CAGTAGGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.35
Consensus pattern (33 bp):
TATGAGGTTAATGATAAAATAAGGTCAATTACT
Found at i:33036103 original size:12 final size:12
Alignment explanation
Indices: 33036086--33036112 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33036076 TTATTATGCA
33036086 ATTATTGTTATT
1 ATTATTGTTATT
33036098 ATTATTGTTATT
1 ATTATTGTTATT
33036110 ATT
1 ATT
33036113 GAGTTATGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (12 bp):
ATTATTGTTATT
Found at i:33036455 original size:92 final size:93
Alignment explanation
Indices: 33036281--33036462 Score: 296
Period size: 92 Copynumber: 2.0 Consensus size: 93
33036271 ATGCAAGATG
*
33036281 ATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCCGTGTAAGACCATGTCAAGACATGGAATTA
1 ATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCCGTGTAAGACCATGTCAAGACATGGAATCA
33036346 GCATTGATTAAGGACTCCATGTAAGGCC
66 GCATTGATTAAGGACTCCATGTAAGGCC
* *
33036374 ATGTCAAGACATGGCATCT-GTAAGGCAAGGAT-CCCGTGTGAGACCATGTCAAGACATGGCATC
1 ATGTCAAGACATGGCAT-TGGTAAGGCAAGGATCCCCGTGTAAGACCATGTCAAGACATGGAATC
* *
33036437 GGCATTGATTAAGTACTCCATGTAAG
65 AGCATTGATTAAGGACTCCATGTAAG
33036463 ACTACATCAA
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
92 52 0.63
93 30 0.36
94 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (93 bp):
ATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCCGTGTAAGACCATGTCAAGACATGGAATCA
GCATTGATTAAGGACTCCATGTAAGGCC
Found at i:33036473 original size:92 final size:93
Alignment explanation
Indices: 33036284--33036485 Score: 282
Period size: 92 Copynumber: 2.2 Consensus size: 93
33036274 CAAGATGATG
*
33036284 TCAAGACATGGCATTGGTAAGGCAAGGATCCCCGTGTAAGACCATGTCAAGACATGGAATTAGCA
1 TCAAGACATGGCATTGGTAAGGCAAGGATCCCCGTGTAAGACCATGTCAAGACATGGAATCAGCA
* **
33036349 TTGATTAAGGACTCCATGTAAGGCCATG
66 TTGATTAAGGACTCCATGTAAGACCACA
* * *
33036377 TCAAGACATGGCATCT-GTAAGGCAAGGAT-CCCGTGTGAGACCATGTCAAGACATGGCATCGGC
1 TCAAGACATGGCAT-TGGTAAGGCAAGGATCCCCGTGTAAGACCATGTCAAGACATGGAATCAGC
* *
33036440 ATTGATTAAGTACTCCATGTAAGACTACA
65 ATTGATTAAGGACTCCATGTAAGACCACA
**
33036469 TCAAGATGTGGCATTGG
1 TCAAGACATGGCATTGG
33036486 CACTAAGAAG
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 1 0.01
92 67 0.70
93 27 0.28
94 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (93 bp):
TCAAGACATGGCATTGGTAAGGCAAGGATCCCCGTGTAAGACCATGTCAAGACATGGAATCAGCA
TTGATTAAGGACTCCATGTAAGACCACA
Found at i:33036550 original size:47 final size:47
Alignment explanation
Indices: 33036496--33036704 Score: 337
Period size: 47 Copynumber: 4.4 Consensus size: 47
33036486 CACTAAGAAG
33036496 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
1 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
* * *
33036543 ATGATACCATGTAAAACCATGTTTGGAACATGGCATTTGGTAAGACA
1 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
* * *
33036590 TGGATACCATGTAAGACCATGTTTGGAACGTGGCATTTGGTAAGACA
1 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
*
33036637 AGGATACCATGTAAGACCATGTTTGGAACATGGCGTTTGGTAAGATA
1 AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
* *
33036684 AGGATATCATGTAAGGCCATG
1 AGGATACCATGTAAGACCATG
33036705 CCAAGGCATG
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 149 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (47 bp):
AGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATA
Found at i:33036741 original size:54 final size:54
Alignment explanation
Indices: 33036677--33036998 Score: 394
Period size: 54 Copynumber: 6.0 Consensus size: 54
33036667 TGGCGTTTGG
* *
33036677 TAAGATAAGGATATCATGTAAGGCCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *
33036731 TAAGATAAGGATATCATGTAAGACCATTCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *
33036785 TAAGATAAGGATATCATGTAAGACCATGCCAAGGTATGGCATTGATAAGTTCTA
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * *
33036839 TAAGGCAAGGAAATTATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
* * ** * *
33036894 TAAGGCAAGGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* ** * * * * *
33036947 TAAGGCAAGGATAAGACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
33036999 AAAAAGGAAA
Statistics
Matches: 238, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
53 44 0.18
54 148 0.62
55 46 0.19
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (54 bp):
TAAGACAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:33039611 original size:28 final size:28
Alignment explanation
Indices: 33039579--33039693 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 28
33039569 TACCTGTATC
* *
33039579 TGGCCCACTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCA-ATTCATA
**
33039607 TGGCCCATTAGGCCCAAATCACCTCTATA
1 TGGCCCATTAGGCCCAAATCAATTC-ATA
*
33039636 TGGCCCATTAGGCCCAAATCAAATTTATA
1 TGGCCCATTAGGCCCAAATC-AATTCATA
* *
33039665 TGGTCCATTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCA-ATTCATA
33039693 T
1 T
33039694 TCATGCTCAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.01
28 25 0.34
29 45 0.62
30 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCAATTCATA
Found at i:33039636 original size:29 final size:29
Alignment explanation
Indices: 33039579--33039680 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
33039569 TACCTGTATC
* * *
33039579 TGGCCCACTAAGCCC-AATCATAT-TCATA
1 TGGCCCATTAGGCCCAAATCAAATCT-ATA
**
33039607 TGGCCCATTAGGCCCAAATCACCTCTATA
1 TGGCCCATTAGGCCCAAATCAAATCTATA
*
33039636 TGGCCCATTAGGCCCAAATCAAATTTATA
1 TGGCCCATTAGGCCCAAATCAAATCTATA
*
33039665 TGGTCCATTAGGCCCA
1 TGGCCCATTAGGCCCA
33039681 GTCACATTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.20
29 50 0.78
30 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCAAATCTATA
Found at i:33039673 original size:58 final size:57
Alignment explanation
Indices: 33039570--33039680 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
33039560 AATTTCACAT
* * *
33039570 ACCTGTATCTGGCCCACTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTCTATATGGCCCACTAAGCCCAATCAAATTCATATGGCCCATTAGGCCCAAATC
* * * *
33039627 ACCTCTATATGGCCCATTAGGCCCAAATCAAATTTATATGGTCCATTAGGCCCA
1 ACCTCTATATGGCCCACTAAGCCC-AATCAAATTCATATGGCCCATTAGGCCCA
33039681 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 20 0.43
58 26 0.57
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (57 bp):
ACCTCTATATGGCCCACTAAGCCCAATCAAATTCATATGGCCCATTAGGCCCAAATC
Found at i:33039929 original size:16 final size:16
Alignment explanation
Indices: 33039908--33039946 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
33039898 CCAAACTTTC
*
33039908 GGCTTTTTGGCATTTT
1 GGCTTTTCGGCATTTT
33039924 GGCTTTTCGGCATTTT
1 GGCTTTTCGGCATTTT
33039940 GGCTTTT
1 GGCTTTT
33039947 GTCGATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.05, C:0.15, G:0.26, T:0.54
Consensus pattern (16 bp):
GGCTTTTCGGCATTTT
Found at i:33041234 original size:16 final size:17
Alignment explanation
Indices: 33041203--33041241 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
33041193 ATAAAGAAAG
33041203 TTTGGGATTTCAAGATT
1 TTTGGGATTTCAAGATT
*
33041220 TTTGGG-TTTCGAGATT
1 TTTGGGATTTCAAGATT
33041236 TTTGGG
1 TTTGGG
33041242 GCGTTACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.15, C:0.05, G:0.31, T:0.49
Consensus pattern (17 bp):
TTTGGGATTTCAAGATT
Found at i:33044197 original size:29 final size:29
Alignment explanation
Indices: 33044151--33044254 Score: 124
Period size: 29 Copynumber: 3.7 Consensus size: 29
33044141 GACCCACTAA
* *
33044151 GCCC-AATCATATTCATATGGCCCATTAG
1 GCCCAAATCACATTTATATGGCCCATTAG
* *
33044179 GCCCAAATCA-TTTGTATATGGCCTATTAG
1 GCCCAAATCACATT-TATATGGCCCATTAG
*
33044208 GCCCAAATCACATTTATATGGCCCGTTAG
1 GCCCAAATCACATTTATATGGCCCATTAG
*
33044237 GCCC-AGTCACATTTATAT
1 GCCCAAATCACATTTATAT
33044255 TCATGCTCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
28 19 0.29
29 45 0.68
30 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (29 bp):
GCCCAAATCACATTTATATGGCCCATTAG
Found at i:33050263 original size:30 final size:31
Alignment explanation
Indices: 33050222--33050282 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
33050212 TTTCTGAGCC
*
33050222 TAGGGGAAAAATCATAA-TTTTGCAAAGTTT
1 TAGGGGAAAAATCATAATTTTTCCAAAGTTT
* **
33050252 TAGGGGCAAAATTGTAATTTTTCCAAAGTTT
1 TAGGGGAAAAATCATAATTTTTCCAAAGTTT
33050283 GAGTTAGGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (31 bp):
TAGGGGAAAAATCATAATTTTTCCAAAGTTT
Found at i:33051090 original size:47 final size:47
Alignment explanation
Indices: 33051028--33051149 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
33051018 ATCAAGGCAC
* *
33051028 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACAGGGCATTTGG
* *
33051075 TAAGAAAATGG-TACCATATAAGACCACGTTTGGAACAGGGCATTTGG
1 TAAGAAAA-GGATACCATGTAAGACCATGTTTGGAACAGGGCATTTGG
* * *
33051122 TAAGATAAGGATATCATGTAAGATCATG
1 TAAGAAAAGGATACCATGTAAGACCATG
33051150 CCAAGACATG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 2 0.03
47 60 0.94
48 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGAAAAGGATACCATGTAAGACCATGTTTGGAACAGGGCATTTGG
Found at i:33051198 original size:54 final size:52
Alignment explanation
Indices: 33051128--33051290 Score: 186
Period size: 54 Copynumber: 3.0 Consensus size: 52
33051118 TTGGTAAGAT
* *
33051128 AAGGATATCATGTAAGATCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
1 AAGG-TATCATGTAAGA-CATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
33051182 AAGGTAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT-TAAGGAA
1 AAGGT-ATCATGTAAGA-CATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-C
** * *
33051237 AAGGTCCCATGTAAGACTATGTCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGTATCATGTAAGAC-ATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
33051289 AA
1 AA
33051291 TGATACCACG
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
52 2 0.02
53 8 0.08
54 78 0.82
55 7 0.07
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (52 bp):
AAGGTATCATGTAAGACATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:33052654 original size:34 final size:34
Alignment explanation
Indices: 33052614--33052679 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
33052604 ATGGTTGCGC
*
33052614 GTGTGGCGCGTGGGCACGTGCTGCTCAGTGGCGT
1 GTGTGGCGCGTGGGCACGTACTGCTCAGTGGCGT
33052648 GTGTGGCGCGTGGGCACGTACTGCTCAGTGGC
1 GTGTGGCGCGTGGGCACGTACTGCTCAGTGGC
33052680 CGGAGGCCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.08, C:0.24, G:0.45, T:0.23
Consensus pattern (34 bp):
GTGTGGCGCGTGGGCACGTACTGCTCAGTGGCGT
Found at i:33053271 original size:12 final size:12
Alignment explanation
Indices: 33053254--33053337 Score: 52
Period size: 14 Copynumber: 7.0 Consensus size: 12
33053244 TTTTTCTTTG
33053254 TATATTATTTAT
1 TATATTATTTAT
33053266 TATATTA-TTA-
1 TATATTATTTAT
*
33053276 TAAATTA-TTA-
1 TATATTATTTAT
*
33053286 TATATTATGTTACC
1 TATATTAT-TTA-T
*
33053300 TATATTTTATTAT
1 TATATTAT-TTAT
33053313 ATATATTATTTTAT
1 -TATATTA-TTTAT
*
33053327 T-TATTACTTAT
1 TATATTATTTAT
33053338 CATACTGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
10 15 0.25
11 7 0.12
12 15 0.25
13 1 0.02
14 20 0.34
15 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:33060844 original size:35 final size:34
Alignment explanation
Indices: 33060797--33060864 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
33060787 TAGAGGAAGG
*
33060797 GAAAGAAGTGAAAATTGGCACGCATATTGCCGAA
1 GAAAGAAGTGAAAATCGGCACGCATATTGCCGAA
* *
33060831 GNAAAGAGGTGAAAATCGGTACGCATATTGCCGA
1 G-AAAGAAGTGAAAATCGGCACGCATATTGCCGA
33060865 GGACACAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 1 0.03
35 29 0.97
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.18
Consensus pattern (34 bp):
GAAAGAAGTGAAAATCGGCACGCATATTGCCGAA
Found at i:33065425 original size:220 final size:220
Alignment explanation
Indices: 33065043--33065563 Score: 936
Period size: 220 Copynumber: 2.4 Consensus size: 220
33065033 TGACCTTCAG
*
33065043 GTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAG
33065108 AAACAGATTTGGCATCTCCATATTTAACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCA
66 AAACAGATTTGGCATCTCCATATTTAACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCA
33065173 GATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGTAGATCG
131 GATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGTAGATCG
33065238 AAGACATAGTAGATTTGGCTTTAAC
196 AAGACATAGTAGATTTGGCTTTAAC
* *
33065263 GTGTTTATGCTGAAG-TGAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAA
1 GTGTTTACGCTGAAGCAG-ATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAA
33065327 GAAACAGATTTGGCATCTCCATATTTAACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTC
65 GAAACAGATTTGGCATCTCCATATTTAACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTC
33065392 AGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGTAGATC
130 AGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGTAGATC
*
33065457 GAAGACATAGTAGATTTGGCTTTCAC
195 GAAGACATAGTAGATTTGGCTTTAAC
* * * **
33065483 GTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCCCTATATTGTTAGAGAACAAATTGAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAG
*
33065548 AAACAAATTTGGCATC
66 AAACAGATTTGGCATC
33065564 CTTGCGTTTA
Statistics
Matches: 287, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
219 1 0.00
220 285 0.99
221 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (220 bp):
GTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAG
AAACAGATTTGGCATCTCCATATTTAACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCA
GATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGTAGATCG
AAGACATAGTAGATTTGGCTTTAAC
Found at i:33065593 original size:130 final size:130
Alignment explanation
Indices: 33065424--33065671 Score: 390
Period size: 130 Copynumber: 1.9 Consensus size: 130
33065414 ATCCAAGATG
** *
33065424 ATTTGGCATCCTTGCGTTTACAAGGAGTAGATCGAAGACATAGTAGATTTGGCTTTCACGTGTTT
1 ATTTGGCATCCTTGCGTTTACAAGGAACAGATCGAAGACATAGTAGATTTGGCTTTAACGTGTTT
*
33065489 ACGCTGAAGCAG-ATCTAAGATGATTTGGCATCCCTATATTGTTAGAGAACAAATTGAAGAAACA
66 ACGCTGAAG-AGAATCTAAGATGATTTGGCATCCCTATATTGTCAGAGAACAAATTGAAGAAACA
33065553 A
130 A
*
33065554 ATTTGGCATCCTTGCGTTTACAAGGAACGGATCGAAGACATAGTAGATTTGGCTTTAACGTGTTT
1 ATTTGGCATCCTTGCGTTTACAAGGAACAGATCGAAGACATAGTAGATTTGGCTTTAACGTGTTT
* * * * *
33065619 ATGCTGAAGTGAATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAA
66 ACGCTGAAGAGAATCTAAGATGATTTGGCATCCCTATATTGTCAGAGAACAAA
33065672 GCAAAGAAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
129 1 0.01
130 106 0.99
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (130 bp):
ATTTGGCATCCTTGCGTTTACAAGGAACAGATCGAAGACATAGTAGATTTGGCTTTAACGTGTTT
ACGCTGAAGAGAATCTAAGATGATTTGGCATCCCTATATTGTCAGAGAACAAATTGAAGAAACAA
Found at i:33068378 original size:27 final size:27
Alignment explanation
Indices: 33068344--33068499 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
33068334 AAATTGTACA
*
33068344 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
33068371 GCATTAAGTGTGCGAAGTGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
** *
33068398 GCACTAAGTGTGCGAAATGA-TCATGCG
1 GCACTAAGTGTGCGATTTGACT-ATGTG
* *
33068425 GCACTAAGTGTGCGAGTTTCACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
33068453 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
*
33068480 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGATTTGA
33068500 TTACATAGCA
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 84 0.79
28 21 0.20
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:33068464 original size:82 final size:81
Alignment explanation
Indices: 33068344--33068494 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
33068334 AAATTGTACA
* * * *
33068344 GCACTAAGTGTGCGATTTGACTATGTTGCATTAAGTGTGCGAAGTGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTCACTATGTAGCACTAAGTGTGCGAAGTGAATACG-TGGCACTAAGTG
33068408 TGCGAAATGATCATGCG
65 TGCGAAATGATCATGCG
** *
33068425 GCACTAAGTGTGCGAGTTTCACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTCACTATGTAGCACTAAGTGTGCGAAGTGAATACGTGGCACTAAGTG
33068490 TGCGA
65 TGCGA
33068495 GTTGATTACA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 16 0.26
82 45 0.74
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTCACTATGTAGCACTAAGTGTGCGAAGTGAATACGTGGCACTAAGTGT
GCGAAATGATCATGCG
Found at i:33068500 original size:27 final size:27
Alignment explanation
Indices: 33068343--33068520 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 27
33068333 TAAATTGTAC
* *
33068343 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
33068370 TGCATTAAGTGTGCGAAG-TGAATATG-
1 AGCACTAAGTGTGCG-AGTTGATTATGT
** * *
33068396 ATGCACTAAGTGTGCGAAATGATCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
33068424 GGCACTAAGTGTGCGAGTTTCACTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
* *
33068452 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* **
33068479 GGCACTAAGTGTGCGAGTTGATTACAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
33068506 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33068521 GGCTCAATAT
Statistics
Matches: 120, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.82
28 21 0.17
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:33068511 original size:82 final size:80
Alignment explanation
Indices: 33068342--33068520 Score: 200
Period size: 82 Copynumber: 2.2 Consensus size: 80
33068332 TTAAATTGTA
* * * *
33068342 CAGCACTAAGTGTGCGATTTGACTATGTTGCATTAAGTGTGCGAAGTGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGATTTCACTATGTAGCACTAAGTGTGCGAAGTGAATACGATGCACTAAGT
33068407 GTGCGAAATGATCAT
66 GTGCGAAATGATCAT
* ** *
33068422 GCGGCACTAAGTGTGCGAGTTTCACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTA
1 -CAGCACTAAGTGTGCGA-TTTCACTATGTAGCACTAAGTGTGCGAAGTGAATACGAT-GCACTA
**
33068486 AGTGTGCGAGTTGATTACAT
63 AGTGTGCGAAATGA-T-CAT
*
33068506 -AGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
33068521 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
81 17 0.21
82 61 0.74
83 1 0.01
84 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (80 bp):
CAGCACTAAGTGTGCGATTTCACTATGTAGCACTAAGTGTGCGAAGTGAATACGATGCACTAAGT
GTGCGAAATGATCAT
Found at i:33070766 original size:15 final size:15
Alignment explanation
Indices: 33070746--33070788 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33070736 TTTTCTTTGT
33070746 ATATTATTTATTATA
1 ATATTATTTATTATA
* *
33070761 ATATTATATATTATT
1 ATATTATTTATTATA
33070776 ATA-TATTATATTA
1 ATATTATT-TATTA
33070789 CCTACATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTATTTATTATA
Found at i:33070773 original size:22 final size:22
Alignment explanation
Indices: 33070745--33070833 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 22
33070735 TTTTTCTTTG
33070745 TATATTATT-TATTATAATATTA
1 TATATTATTATA-TATAATATTA
*
33070767 TATATTATTATATATTATATTA
1 TATATTATTATATATAATATTA
* *
33070789 CCTACATTTTATTATATATATTATTTTA
1 --T--ATATTATTATATATA--ATATTA
33070817 TATATTACTTATCATAT
1 TATATTA-TTAT-ATAT
33070834 TGTTTATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
22 18 0.34
23 2 0.04
24 6 0.11
25 4 0.08
26 18 0.34
28 5 0.09
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATTATTATATATAATATTA
Found at i:33070816 original size:17 final size:17
Alignment explanation
Indices: 33070726--33070821 Score: 50
Period size: 15 Copynumber: 6.2 Consensus size: 17
33070716 TATAAAAGTG
*
33070726 TATATATTATTTT-TCTT
1 TATATATTATTTTAT-TA
*
33070743 TGTATATTA-TTTATTA
1 TATATATTATTTTATTA
*
33070759 TA-ATATTA-TATATTA
1 TATATATTATTTTATTA
*
33070774 T-TATA-TATTATA-T-
1 TATATATTATTTTATTA
** *
33070787 TACCTA-CATTTTATTA
1 TATATATTATTTTATTA
33070803 TATATATTATTTTA-TA
1 TATATATTATTTTATTA
33070819 TAT
1 TAT
33070822 TACTTATCAT
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
13 1 0.02
14 10 0.16
15 21 0.34
16 14 0.23
17 15 0.25
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (17 bp):
TATATATTATTTTATTA
Found at i:33070833 original size:14 final size:12
Alignment explanation
Indices: 33070745--33070833 Score: 60
Period size: 12 Copynumber: 7.2 Consensus size: 12
33070735 TTTTTCTTTG
33070745 TATATTATT-TA
1 TATATTATTATA
*
33070756 T-TA-TAATATTA
1 TATATTATTA-TA
33070767 TATATTATTATA
1 TATATTATTATA
33070779 TAT-TATATTACCTA
1 TATAT-TATTA--TA
* *
33070793 CATTTTATTATA
1 TATATTATTATA
*
33070805 TATATTATTTTA
1 TATATTATTATA
33070817 TATATTACTTATCA
1 TATATTA-TTAT-A
33070831 TAT
1 TAT
33070834 TGTTTATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
9 3 0.05
10 2 0.03
11 5 0.08
12 30 0.49
13 7 0.11
14 13 0.21
15 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATTATTATA
Found at i:33072234 original size:41 final size:41
Alignment explanation
Indices: 33072177--33072254 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
33072167 TAAGATCCGT
33072177 AAATTTTCCCTAAAACTAGACTCACATATCTTTCCACCATA
1 AAATTTTCCCTAAAACTAGACTCACATATCTTTCCACCATA
33072218 AAATTTTCCCTAAAACTAGACTCACATATCTTTCCAC
1 AAATTTTCCCTAAAACTAGACTCACATATCTTTCCAC
33072255 TAATTAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.32
Consensus pattern (41 bp):
AAATTTTCCCTAAAACTAGACTCACATATCTTTCCACCATA
Found at i:33076805 original size:43 final size:43
Alignment explanation
Indices: 33076745--33076963 Score: 282
Period size: 43 Copynumber: 5.1 Consensus size: 43
33076735 ATTTATGCAC
*
33076745 AAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTACGTGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACGTGT
*
33076788 AAGACCCTGTCTGGGACAGTGGCATTGATATGTGATTACGTGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACGTGT
* * *
33076831 AAGACCCTGTCTAGGACAGTGGCATCGGTATGTGATTACATGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACGTGT
** * * *
33076874 AAGACTATGTCTGGGACA-TTGCTTCG-TATTTGATTTA-GTGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGA-TTACGTGT
* * * *
33076915 AAGATCCTATCTGGGACAGTGGCATCGATATTTGATTACATGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACGTGT
33076958 AAGACC
1 AAGACC
33076964 ACGTTTGAGA
Statistics
Matches: 151, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
41 23 0.15
42 18 0.12
43 110 0.73
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACGTGT
Found at i:33076865 original size:86 final size:84
Alignment explanation
Indices: 33076745--33076964 Score: 291
Period size: 84 Copynumber: 2.6 Consensus size: 84
33076735 ATTTATGCAC
* * *
33076745 AAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGG
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGACA-TGG
33076810 CATT-GATATGTGA-TTACGTGT
65 C-TTCG-TATGTGATTTA-GTGT
* * * *
33076831 AAGACCCTGTCTAGGACAGTGGCATCGGTATGTGATTACATGTAAGACTATGTCTGGGACATTGC
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGACATGGC
*
33076896 TTCGTATTTGATTTAGTGT
66 TTCGTATGTGATTTAGTGT
* * *
33076915 AAGATCCTATCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCA
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCA
33076965 CGTTTGAGAC
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
84 56 0.47
85 7 0.06
86 55 0.47
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (84 bp):
AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGACATGGC
TTCGTATGTGATTTAGTGT
Found at i:33078672 original size:10 final size:11
Alignment explanation
Indices: 33078640--33078672 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
33078630 CTAATCCAAG
33078640 AACTTTAG-AA
1 AACTTTAGAAA
33078650 AACTTTAGAAA
1 AACTTTAGAAA
33078661 AAC-TTAGAAA
1 AACTTTAGAAA
33078671 AA
1 AA
33078673 TTTTCATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (11 bp):
AACTTTAGAAA
Found at i:33080125 original size:48 final size:47
Alignment explanation
Indices: 33080073--33080197 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 47
33080063 TATCCCGGAA
33080073 ATGGTCTTACATGGAATCACATATCGATGCCAATGCCAAGTCCC-AGAC
1 ATGGTCTTACATGG-ATCACATATCGATGCCAATGCCAAGTCCCTA-AC
** * * *
33080121 ATGGTCTTACATGGGATCGTAGATCGATGCCAATGTCATGTCCCTAAC
1 ATGGTCTTACAT-GGATCACATATCGATGCCAATGCCAAGTCCCTAAC
*
33080169 ATGGTCTTACACAGGATCACATATCGATG
1 ATGGTCTTACA-TGGATCACATATCGATG
33080198 TCGATAGCCC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
48 62 0.95
49 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (47 bp):
ATGGTCTTACATGGATCACATATCGATGCCAATGCCAAGTCCCTAAC
Found at i:33084819 original size:43 final size:43
Alignment explanation
Indices: 33084772--33084926 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
33084762 ATCGAGATAT
* *
33084772 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGAGACATTGGCATCGTATTGA
* * * *
33084815 GATTACGTGTCAGGCCATGTCTGAGACATTGGCATCGTATTGT
1 GATTACATGTAAGACCATGTCTGAGACATTGGCATCGTATTGA
*** * * * *
33084858 GATTTTGTGTAAAACCCTATCT-AGGACAATGGCATCGGTA-TGCA
1 GATTACATGTAAGACCATGTCTGA-GACATTGGCATC-GTATTG-A
* *
33084902 -TTTACATGTAAGACCATATCTGAGA
1 GATTACATGTAAGACCATGTCTGAGA
33084927 TATGGCTTGT
Statistics
Matches: 87, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 1 0.01
43 82 0.94
44 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGAGACATTGGCATCGTATTGA
Found at i:33089179 original size:5 final size:5
Alignment explanation
Indices: 33089162--33089191 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
33089152 GTGTTTAAAC
*
33089162 TTTTA TTTAA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
33089192 GTGTTCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:33089250 original size:15 final size:15
Alignment explanation
Indices: 33089227--33089257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33089217 TGTTACCTTG
*
33089227 TTGATTTTTTTTATT
1 TTGAATTTTTTTATT
33089242 TTGAATTTTTTTATT
1 TTGAATTTTTTTATT
33089257 T
1 T
33089258 ACCTTATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (15 bp):
TTGAATTTTTTTATT
Found at i:33092513 original size:18 final size:18
Alignment explanation
Indices: 33092490--33092525 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33092480 CCGAACAAGA
33092490 AAGCCACAAACGAGAATT
1 AAGCCACAAACGAGAATT
*
33092508 AAGCCACGAACGAGAATT
1 AAGCCACAAACGAGAATT
33092526 TCATGCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.11
Consensus pattern (18 bp):
AAGCCACAAACGAGAATT
Found at i:33107095 original size:12 final size:12
Alignment explanation
Indices: 33107074--33107103 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33107064 GACGAGAAAC
*
33107074 TATATTCATATA
1 TATATACATATA
33107086 TATATACATATA
1 TATATACATATA
33107098 TATATA
1 TATATA
33107104 TGAATACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:33109113 original size:37 final size:37
Alignment explanation
Indices: 33109063--33109214 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
33109053 ACCTTTAGCT
* * *
33109063 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
33109100 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
33109137 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
33109174 CGGACATACTCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
33109211 CGGA
1 CGGA
33109215 ATATATTTCC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:33109429 original size:47 final size:47
Alignment explanation
Indices: 33109377--33109796 Score: 606
Period size: 47 Copynumber: 8.9 Consensus size: 47
33109367 TTTCACACTA
* * *
33109377 GCCATTCGGCTTTACCACATATATGCATGTTCACATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
33109424 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
33109471 GCCATTCGGCCTTATCATATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
33109518 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
33109565 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
33109612 GCCATTCGGCCTTATCACACATATGCAAGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * *
33109659 GTCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * * *
33109706 GCCATTCAGCCTTATCACACATATGCATGCTCACATTTATCAAATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
33109753 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACA
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACA
33109797 AAAAATCCTA
Statistics
Matches: 329, Mismatches: 44, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 329 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:33113056 original size:40 final size:40
Alignment explanation
Indices: 33112979--33113156 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
33112969 CAACCAAGTA
* * *
33112979 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGAACATAG-TAACTCGCACAAATG
33113018 CCTTCGGGACTTAGCCCGAACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAACATAGTAACTCGCACAAATG
* *
33113058 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAACATAGTAACTCGCACAAATG
* * *
33113098 CCTTCGGGACTTAGCCCGGAA-TTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-GAACATAGTAACTCGCACAAATG
*
33113138 CCTTAGGGACTTAGCCCGA
1 CCTTCGGGACTTAGCCCGA
33113157 TTATCATCCG
Statistics
Matches: 126, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.13
40 108 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAACATAGTAACTCGCACAAATG
Found at i:33118380 original size:42 final size:42
Alignment explanation
Indices: 33118304--33118406 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 42
33118294 AATGCCAACG
*
33118304 TCCCAGACGTAGTCTTACATGC-AATCACATATCGATACC-GCTA
1 TCCCAGACGTGGTCTTAC--GCAAATCACATATCGATACCAGC-A
* *
33118347 TTCCAGACAG-GGTCTTACGCAAATCACATATCGATGCCAGCA
1 TCCCAGAC-GTGGTCTTACGCAAATCACATATCGATACCAGCA
33118389 TCCCAGACGTGGTCTTAC
1 TCCCAGACGTGGTCTTAC
33118407 ACTAGAACAC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.06
42 32 0.62
43 16 0.31
44 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACGCAAATCACATATCGATACCAGCA
Found at i:33124498 original size:33 final size:35
Alignment explanation
Indices: 33124461--33124545 Score: 93
Period size: 37 Copynumber: 2.4 Consensus size: 35
33124451 TAGTGAATTT
33124461 GTTATTTTGAG-TA-TGGCATGTATAAGGGACTCG
1 GTTATTTTGAGATATTGGCATGTATAAGGGACTCG
* * *
33124494 GTTATTTTGTGATATGTTGGTATGTATAGGGGACTCG
1 GTTATTTTGAGATA--TTGGCATGTATAAGGGACTCG
* *
33124531 GTCATTTTGTGATAT
1 GTTATTTTGAGATAT
33124546 GTGTCATGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
33 10 0.23
34 2 0.05
35 1 0.02
37 31 0.70
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.42
Consensus pattern (35 bp):
GTTATTTTGAGATATTGGCATGTATAAGGGACTCG
Found at i:33126430 original size:33 final size:33
Alignment explanation
Indices: 33126387--33126462 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
33126377 ACAGTGCATG
* *
33126387 CAGTAACAGTCTGGGCCTGAGCCCTATTCAGTAT
1 CAGT-ACAGTCTGGGCCTGAGCCCTATACAGTAA
* *
33126421 CAGTACAGTCTGGGCCTTAGTCCTATACAGTAA
1 CAGTACAGTCTGGGCCTGAGCCCTATACAGTAA
*
33126454 CAGTGCAGT
1 CAGTACAGT
33126463 GTAATGCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 33 0.89
34 4 0.11
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTGAGCCCTATACAGTAA
Found at i:33126842 original size:27 final size:27
Alignment explanation
Indices: 33126812--33126979 Score: 187
Period size: 27 Copynumber: 6.3 Consensus size: 27
33126802 ATAATCGTTC
* *
33126812 TTTTACCATACAGGGTTATTATGGTCA
1 TTTTACCCTACAGGGTTATTACGGTCA
*
33126839 TTTTACCCTACAGGGTCATTACGGTCA
1 TTTTACCCTACAGGGTTATTACGGTCA
* * *
33126866 TTTTACCCTACAGGGGTATTATGATCA
1 TTTTACCCTACAGGGTTATTACGGTCA
*
33126893 TTTTACCCTATAGGG-TATTACGGTCA
1 TTTTACCCTACAGGGTTATTACGGTCA
* * * *
33126919 TTTTACCCTAAAAGGG-CATTACAGTGA
1 TTTTACCCT-ACAGGGTTATTACGGTCA
* * *
33126946 TTTTACCCTACAGGGGTATTTCGATCA
1 TTTTACCCTACAGGGTTATTACGGTCA
33126973 TTTTACC
1 TTTTACC
33126980 TATTTTAGGG
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.19
27 96 0.81
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TTTTACCCTACAGGGTTATTACGGTCA
Found at i:33126949 original size:53 final size:53
Alignment explanation
Indices: 33126836--33126979 Score: 182
Period size: 53 Copynumber: 2.7 Consensus size: 53
33126826 GTTATTATGG
* * * *
33126836 TCATTTTACCCTACAGGGTCATTACGGTCATTTTACCCTACAGGGGTATTATGA
1 TCATTTTACCCTACAGGGT-ATTACGGTCATTTTACCCTAAAAGGGCATTAAGA
*
33126890 TCATTTTACCCTATAGGGTATTACGGTCATTTTACCCTAAAAGGGCATTACAG-
1 TCATTTTACCCTACAGGGTATTACGGTCATTTTACCCTAAAAGGGCATTA-AGA
* * *
33126943 TGATTTTACCCTACAGGGGTATTTCGATCATTTTACC
1 TCATTTTACCCTACA-GGGTATTACGGTCATTTTACC
33126980 TATTTTAGGG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 41 0.52
54 38 0.48
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (53 bp):
TCATTTTACCCTACAGGGTATTACGGTCATTTTACCCTAAAAGGGCATTAAGA
Found at i:33126949 original size:80 final size:81
Alignment explanation
Indices: 33126812--33126979 Score: 243
Period size: 80 Copynumber: 2.1 Consensus size: 81
33126802 ATAATCGTTC
* * *
33126812 TTTTACCATACAGGGTTATTATGGTCATTTTACCCTACAGGGTCATTACGGTCATTTTACCCTAC
1 TTTTACCATACAGGGTTATTACGGTCATTTTACCCTAAAGGGTCATTACAGTCATTTTACCCTAC
33126877 AGGGGTATTAT-GATCA
66 AGGGGTATT-TCGATCA
* * *
33126893 TTTTACCCTATAGGG-TATTACGGTCATTTTACCCTAAAAGGG-CATTACAGTGATTTTACCCTA
1 TTTTACCATACAGGGTTATTACGGTCATTTTACCCT-AAAGGGTCATTACAGTCATTTTACCCTA
33126956 CAGGGGTATTTCGATCA
65 CAGGGGTATTTCGATCA
33126973 TTTTACC
1 TTTTACC
33126980 TATTTTAGGG
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
79 1 0.01
80 60 0.76
81 18 0.23
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
TTTTACCATACAGGGTTATTACGGTCATTTTACCCTAAAGGGTCATTACAGTCATTTTACCCTAC
AGGGGTATTTCGATCA
Found at i:33127232 original size:17 final size:17
Alignment explanation
Indices: 33127210--33127249 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
33127200 ATCTATGTGG
33127210 GGCCCACGAGCCTATTA
1 GGCCCACGAGCCTATTA
33127227 GGCCCACGAGCCTATTA
1 GGCCCACGAGCCTATTA
33127244 GGCCCA
1 GGCCCA
33127250 AGTCCACGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.38, G:0.25, T:0.15
Consensus pattern (17 bp):
GGCCCACGAGCCTATTA
Found at i:33128464 original size:24 final size:24
Alignment explanation
Indices: 33128419--33128464 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
33128409 CTTAAAATGC
*
33128419 CTCCATGATTTCCTCCCCAATCTT
1 CTCCATGATTTCCTCCACAATCTT
* * *
33128443 CTCCTTGATTTTCTCCATAATC
1 CTCCATGATTTCCTCCACAATC
33128465 CATTCCTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.04, T:0.41
Consensus pattern (24 bp):
CTCCATGATTTCCTCCACAATCTT
Found at i:33129102 original size:30 final size:30
Alignment explanation
Indices: 33129067--33129151 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
33129057 TGGACGGATG
* *
33129067 TGTGGTATGACCGTGTGTGGCACAGGGACA
1 TGTGGTATGACCGTGTGTGGCACACGAACA
* * *
33129097 TGTGGTATGACTGTATGTGGCACACGAACG
1 TGTGGTATGACCGTGTGTGGCACACGAACA
* *
33129127 TGTGGTGTGACCATGTGTGGCACAC
1 TGTGGTATGACCGTGTGTGGCACAC
33129152 CGCCAAGCGA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.26
Consensus pattern (30 bp):
TGTGGTATGACCGTGTGTGGCACACGAACA
Found at i:33131688 original size:144 final size:144
Alignment explanation
Indices: 33131417--33131742 Score: 415
Period size: 144 Copynumber: 2.3 Consensus size: 144
33131407 TTGGGTGATG
* * * *
33131417 TGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAACCACATTATGAGAGCCAGTGTAAGA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACCACATTATGAGAACCAATGTAAGA
* * * * *
33131482 CCATGTTTGGAACATGGCATCGGCAATGTTGTAAGAGCCAGTGTAAGATCATGTCTAGGACATGG
66 CCATGTCTGGAACATGGCATCGACAATGTAGGAAGAGCCAGTGTAAGACCATGTCTAGGACATGG
** *
33131547 CATCAGTGTCGATA
131 CATCAGCCTCGACA
** *
33131561 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACCACATTATGTGAACCAATGTAAGA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACCACATTATGAGAACCAATGTAAGA
* * *
33131626 CTATGTCTGGGACATGGCATCGAC-AT-TAGGACGAGAGCTAGTGTAAGACCATGTCT-GAGACA
66 CCATGTCTGGAACATGGCATCGACAATGTAGGA--AGAGCCAGTGTAAGACCATGTCTAG-GACA
*
33131688 TGGCATCGGCCTCGACA
128 TGGCATCAGCCTCGACA
* *
33131705 TGTGAGCCATTGTAAGACCATGTCTGGGACATGGCATC
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
33131743 GACAATTTGC
Statistics
Matches: 157, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
142 3 0.02
143 3 0.02
144 151 0.96
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (144 bp):
TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACCACATTATGAGAACCAATGTAAGA
CCATGTCTGGAACATGGCATCGACAATGTAGGAAGAGCCAGTGTAAGACCATGTCTAGGACATGG
CATCAGCCTCGACA
Found at i:33131743 original size:48 final size:48
Alignment explanation
Indices: 33131425--33131745 Score: 278
Period size: 48 Copynumber: 6.7 Consensus size: 48
33131415 TGTGTGCGCT
* * * *
33131425 AGTGTAAGACCATGTCTGGGACATGGCGTCAACCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGA-TATGTGAGCC
* * * *
33131473 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT-G-T-TGTAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGATATGT--GAGCC
* * ** *
33131521 AGTGTAAGATCATGTCTAGGACATGGCATC-AGTGTCGATATGTGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCTCGATATGTGAGCC
* * *
33131569 AGTGTAAGACCATGTCTGGGACATGGCATTGACCAC-ATTATGTGAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGA-TATGTGAGCC
* * * * * * * *
33131617 AATGTAAGACTATGTCTGGGACATGGCATCGACAT-TAGGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGA-TATGTGAGCC
* * *
33131665 AGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATATGTGAGCC
*
33131713 ATTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
33131746 AATTTGCCCT
Statistics
Matches: 213, Mismatches: 48, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
46 2 0.01
47 3 0.01
48 202 0.95
49 3 0.01
50 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATATGTGAGCC
Found at i:33135060 original size:19 final size:19
Alignment explanation
Indices: 33135011--33135063 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
33135001 TGAAAAAAAT
33135011 TGAGTGAATAAAAGCAAGG
1 TGAGTGAATAAAAGCAAGG
*
33135030 TGAG-GGATAAAAGCACA-G
1 TGAGTGAATAAAAGCA-AGG
33135048 TGAGTGAATAAAAGCA
1 TGAGTGAATAAAAGCA
33135064 TTGAATGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.47, C:0.08, G:0.30, T:0.15
Consensus pattern (19 bp):
TGAGTGAATAAAAGCAAGG
Found at i:33135090 original size:16 final size:17
Alignment explanation
Indices: 33135058--33135090 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33135048 TGAGTGAATA
33135058 AAAGCATTGAATGAGTGG
1 AAAGCATTG-ATGAGTGG
33135076 AAAGCATTG-TGAGTG
1 AAAGCATTGATGAGTG
33135091 TAAATAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (17 bp):
AAAGCATTGATGAGTGG
Found at i:33136397 original size:18 final size:19
Alignment explanation
Indices: 33136370--33136406 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
33136360 TCTCAGCACA
33136370 CACTCTTTTCTCCCTCTTT
1 CACTCTTTTCTCCCTCTTT
33136389 CACTC-TTTCTCCCTCTTT
1 CACTCTTTTCTCCCTCTTT
33136407 TTCAAGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CACTCTTTTCTCCCTCTTT
Found at i:33141807 original size:264 final size:261
Alignment explanation
Indices: 33141312--33141837 Score: 865
Period size: 264 Copynumber: 2.0 Consensus size: 261
33141302 GCCAGAGTCA
33141312 AGCACGAGGCGTTAACAGACTTAAATTATCACTTAAACAATTTCAAAAAAATTATTTCGCCTTTC
1 AGCACGAGGCGTTAACAGACTTAAATTATCACTTAAACAATTTCAAAAAAATTATTTCGCCTTTC
* *
33141377 GTAATAAACTACCCATTTGTGTCACAGTTGCTAAAAAAATCATATCTCGAGCTAAACTCGAAATT
66 GTAATAAACTACCCATCTGTGTCACAGTTGCTAAAAAAATCATATCTCGAGCGAAACTCGAAATT
* *
33141442 AAAATCCGTAAATTTTCCCTGAAACTAGACTCAGATATCTATTTACTAATTGTTTTCCAGAATTT
131 AAAATCCGTAAATTTTCCCTAAAACTAGACTCAGATATCTATTTACTAATTATTTTCCAGAATTT
* * * *
33141507 TTGGTCGAGCCAATTAGTACAGTTTATTAGTTAAATTTTCCCCTGTTTTGCTGTCTAATAGTTCT
196 TTAGTCAAGCCAATTAGTACAGTTTATTAGTTAAATTTTCCCATGTTTTGCTGCCTAATAGTTCT
33141572 G
261 G
* *
33141573 AGCACGAGGCGTTAACAGACTTAAATTATCACTTAAACAATTTCAAACAATTTATTTCGCCTTTC
1 AGCACGAGGCGTTAACAGACTTAAATTATCACTTAAACAATTTCAAAAAAATTATTTCGCCTTTC
* * *
33141638 GTAATAAACTGCCTATCTGTGTCACAGTTTCTAAAAAAATCATATCTCGAGTTACGAAACTCGAA
66 GTAATAAACTACCCATCTGTGTCACAGTTGCTAAAAAAATCATATCTCGAG---CGAAACTCGAA
*
33141703 ATTAAAATCTGTAAATTTTCCCTAAAACTAGACTC-GTATATCTATTTACTAATTATTTTCCAGA
128 ATTAAAATCCGTAAATTTTCCCTAAAACTAGACTCAG-ATATCTATTTACTAATTATTTTCCAGA
* *
33141767 ATTTTTAGTCAAGCCAATTAGTACAGTTTATTAGTTAAATTTTTCCATGTTTTGCTGCCTAATAT
192 ATTTTTAGTCAAGCCAATTAGTACAGTTTATTAGTTAAATTTTCCCATGTTTTGCTGCCTAATAG
33141832 TTCTG
257 TTCTG
33141837 A
1 A
33141838 CCTCTCTTCA
Statistics
Matches: 245, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
261 110 0.45
263 1 0.00
264 134 0.55
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (261 bp):
AGCACGAGGCGTTAACAGACTTAAATTATCACTTAAACAATTTCAAAAAAATTATTTCGCCTTTC
GTAATAAACTACCCATCTGTGTCACAGTTGCTAAAAAAATCATATCTCGAGCGAAACTCGAAATT
AAAATCCGTAAATTTTCCCTAAAACTAGACTCAGATATCTATTTACTAATTATTTTCCAGAATTT
TTAGTCAAGCCAATTAGTACAGTTTATTAGTTAAATTTTCCCATGTTTTGCTGCCTAATAGTTCT
G
Found at i:33156450 original size:41 final size:36
Alignment explanation
Indices: 33156366--33156438 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
33156356 AAGAATTAAG
*
33156366 TAAAGAGAAAAGCAAAGATGATTTTGAATCTAGAGA
1 TAAAGAGAAAAGAAAAGATGATTTTGAATCTAGAGA
*
33156402 TAAAGAGAAAAGAAAAGCTGATTTTGAATCTAGAGA
1 TAAAGAGAAAAGAAAAGATGATTTTGAATCTAGAGA
33156438 T
1 T
33156439 GCTAAAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.23
Consensus pattern (36 bp):
TAAAGAGAAAAGAAAAGATGATTTTGAATCTAGAGA
Found at i:33167362 original size:16 final size:16
Alignment explanation
Indices: 33167341--33167376 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
33167331 CAGAGTTGGA
33167341 TACAGGCAAGGGGTGT
1 TACAGGCAAGGGGTGT
*
33167357 TACAGGTAAGGGGTGT
1 TACAGGCAAGGGGTGT
33167373 TACA
1 TACA
33167377 AGTACACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.22
Consensus pattern (16 bp):
TACAGGCAAGGGGTGT
Found at i:33169109 original size:26 final size:26
Alignment explanation
Indices: 33169080--33169132 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
33169070 AAGAGGGAAA
33169080 AATGTTCGGCTAGGCTTGGGTAAGGT
1 AATGTTCGGCTAGGCTTGGGTAAGGT
33169106 AATGTTCGGCTAGGCTTGGGTAAGGT
1 AATGTTCGGCTAGGCTTGGGTAAGGT
33169132 A
1 A
33169133 GAAATAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.11, G:0.38, T:0.30
Consensus pattern (26 bp):
AATGTTCGGCTAGGCTTGGGTAAGGT
Found at i:33171251 original size:20 final size:20
Alignment explanation
Indices: 33171222--33171278 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
33171212 ATGATTCGAC
*
33171222 ATGATGTGCACATGATATGT
1 ATGATATGCACATGATATGT
33171242 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
33171262 ATGATATGCACATGATA
1 ATGATATGCACATGATA
33171279 AATTCATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:33171256 original size:11 final size:11
Alignment explanation
Indices: 33171220--33171278 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
33171210 ACATGATTCG
*
33171220 ACATGATGTGC
1 ACATGATATGC
33171231 ACATGATATG-
1 ACATGATATGC
*
33171241 -TATGATATGC
1 ACATGATATGC
33171251 ACATGATATG-
1 ACATGATATGC
*
33171261 -TATGATATGC
1 ACATGATATGC
33171271 ACATGATA
1 ACATGATA
33171279 AATTCATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 16 0.41
11 23 0.59
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:33171360 original size:25 final size:25
Alignment explanation
Indices: 33171326--33171394 Score: 115
Period size: 24 Copynumber: 2.8 Consensus size: 25
33171316 GAGGAAGTGC
33171326 AAAAGGGCTTTGCCCCAGTTTA-CA
1 AAAAGGGCTTTGCCCCAGTTTATCA
33171350 GAAAAGGGCTTTGCCCCA-TTTATCA
1 -AAAAGGGCTTTGCCCCAGTTTATCA
33171375 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
33171395 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:33171407 original size:24 final size:23
Alignment explanation
Indices: 33171325--33171421 Score: 97
Period size: 24 Copynumber: 4.0 Consensus size: 23
33171315 GGAGGAAGTG
33171325 CAAAAGGGCTTTGCCCCAGTT-T
1 CAAAAGGGCTTTGCCCCAGTTAT
*
33171347 ACAGAAAAGGGCTTTGCCCCATTTAT
1 -C--AAAAGGGCTTTGCCCCAGTTAT
33171373 CAAAAAGGGCTTTGCCCCAGTTAT
1 C-AAAAGGGCTTTGCCCCAGTTAT
* **
33171397 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAG-GGCTTTGCC-CCAGTTAT
33171422 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
23 6 0.10
24 28 0.44
25 28 0.44
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (23 bp):
CAAAAGGGCTTTGCCCCAGTTAT
Found at i:33171649 original size:31 final size:31
Alignment explanation
Indices: 33171614--33171697 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
33171604 CATTTACAGT
33171614 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
33171645 AAAGGCTTCGGCCCAGTGACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
33171676 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33171698 CTAAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:33179439 original size:13 final size:13
Alignment explanation
Indices: 33179421--33179449 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33179411 CCACACGGTC
33179421 ACATGGATGTGTG
1 ACATGGATGTGTG
33179434 ACATGGATGTGTG
1 ACATGGATGTGTG
33179447 ACA
1 ACA
33179450 CGGTCACAGG
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:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (13 bp):
ACATGGATGTGTG
Found at i:33182806 original size:25 final size:25
Alignment explanation
Indices: 33182778--33182856 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
33182768 CTAATGGCCG
33182778 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
33182803 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
33182825 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
33182850 ATGTGAT
1 ATGTGAT
33182857 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:33182828 original size:47 final size:47
Alignment explanation
Indices: 33182765--33183002 Score: 359
Period size: 47 Copynumber: 5.0 Consensus size: 47
33182755 ATGATAGTAT
33182765 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
33182812 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
33182859 GGCCTAATGGCCGATCTGATGAATGTGAAAGTTTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAG--TGTATATATGTGATAA
* *
33182908 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * *
33182955 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
33183002 G
1 G
33183003 TCCCGAAGGG
Statistics
Matches: 175, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 131 0.75
49 44 0.25
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:33182932 original size:96 final size:95
Alignment explanation
Indices: 33182765--33183002 Score: 340
Period size: 96 Copynumber: 2.5 Consensus size: 95
33182755 ATGATAGTAT
* *
33182765 GGCCTAATGGCCGATGTGATGAATGTGAAAG-TGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GGCCTAATGGCCGATCTGATGAATGTGAAAGTTATATATATGTGATAAGGCCTAATGGCCGATGT
*
33182829 GATGAATGTGAAAGTGTATATATGTGATAA
66 GATGAATGTGAAAGTGTATATATGTGACAA
*
33182859 GGCCTAATGGCCGATCTGATGAATGTGAAAGTTTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATCTGATGAATGTGAAAG-TTATATATATGTGATAAGGCCTAATGGCCGATG
*
33182924 TGATGAATGTGAAAGTGTATATATGTGACAG
65 TGATGAATGTGAAAGTGTATATATGTGACAA
* * * *
33182955 GGCCGAGTGGCC-AACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GGCCTAATGGCCGATC-TGATGAATGTGAAAGT-TATATATATGTGATAAG
33183003 TCCCGAAGGG
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
94 39 0.30
95 4 0.03
96 87 0.67
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (95 bp):
GGCCTAATGGCCGATCTGATGAATGTGAAAGTTATATATATGTGATAAGGCCTAATGGCCGATGT
GATGAATGTGAAAGTGTATATATGTGACAA
Found at i:33185347 original size:498 final size:498
Alignment explanation
Indices: 33184406--33185402 Score: 1940
Period size: 498 Copynumber: 2.0 Consensus size: 498
33184396 AGCAAGACTA
33184406 AGTGTAAGGTTGTGACATCAACCTCTATGGTCGCAACATCAAGTGGTCGATGGACTAGATTATTG
1 AGTGTAAGGTTGTGACATCAACCTCTATGGTCGCAACATCAAGTGGTCGATGGACTAGATTATTG
*
33184471 TTGATGTCGTGACATCAACTTGTGGGTAACGACATCGAGCCTGACATTGTTATTGTTTGGTTGTG
66 TTGATGTCGTGACATCAACTTATGGGTAACGACATCGAGCCTGACATTGTTATTGTTTGGTTGTG
*
33184536 ACATCAACTTGTGGGTCGCGACATTGAGCCTAACATTAAAGGGTAATCTATAGTCACTTTGGTCA
131 ACATCAACTTGTGGGTCGCGACATCGAGCCTAACATTAAAGGGTAATCTATAGTCACTTTGGTCA
33184601 ACCTTGCCTTAAATGAGTTTATAATGGATGGAAAAAATGTCATTGTTAGGTTAAGTTTAGCTAAA
196 ACCTTGCCTTAAATGAGTTTATAATGGATGGAAAAAATGTCATTGTTAGGTTAAGTTTAGCTAAA
*
33184666 ATATAAGTACTACTTTATAAGTATTTTAAGGGGGTAAAAAGTTTTTAGGTTAATTCTCAGTTTAA
261 ATATAAGTACTACTTTATAAGTATTTTAAGGGAGTAAAAAGTTTTTAGGTTAATTCTCAGTTTAA
33184731 GGTTTTAATTTTTCTAAAGAAATTTCATTTTTCTCTTAGAAAACTACAATGAACTTTTTGTACTC
326 GGTTTTAATTTTTCTAAAGAAATTTCATTTTTCTCTTAGAAAACTACAATGAACTTTTTGTACTC
*
33184796 TAGGTATTTTCTTAAAATTTTCGTTTCTAATTTACCTAATTCTATAATTCAACATTCAGGCTTTC
391 TAGGTATTTTCTTAAAATTTTCGTTTCTAATTTACCTAATTCTACAATTCAACATTCAGGCTTTC
33184861 CATTATTGGTGAATCAAAACACTTTTACTTCATTAATTCAAGG
456 CATTATTGGTGAATCAAAACACTTTTACTTCATTAATTCAAGG
33184904 AGTGTAAGGTTGTGACATCAACCTCTATGGTCGCAACATCAAGTGGTCGATGGACTAGATTATTG
1 AGTGTAAGGTTGTGACATCAACCTCTATGGTCGCAACATCAAGTGGTCGATGGACTAGATTATTG
33184969 TTGATGTCGTGACATCAACTTATGGGTAACGACATCGAGCCTGACATTGTTATTGTTTGGTTGTG
66 TTGATGTCGTGACATCAACTTATGGGTAACGACATCGAGCCTGACATTGTTATTGTTTGGTTGTG
33185034 ACATCAACTTGTGGGTCGCGACATCGAGCCTAACATTAAAGGGTAATCTATAGTCACTTTGGTCA
131 ACATCAACTTGTGGGTCGCGACATCGAGCCTAACATTAAAGGGTAATCTATAGTCACTTTGGTCA
33185099 ACCTTGCCTTAAATGAGTTTATAATGGATGGAAAAAATGTCATTGTTAGGTTAAGTTTAGCTAAA
196 ACCTTGCCTTAAATGAGTTTATAATGGATGGAAAAAATGTCATTGTTAGGTTAAGTTTAGCTAAA
33185164 ATATAAGTACTACTTTATAAGTATTTTAAGGGAGTAAAAAGTTTTTAGGTTAATTCTCAGTTTAA
261 ATATAAGTACTACTTTATAAGTATTTTAAGGGAGTAAAAAGTTTTTAGGTTAATTCTCAGTTTAA
33185229 GGTTTTAATTTTTCTAAAGAAATTTCATTTTTCTCTTAGAAAACTACAATGAACTTTTTGTACTC
326 GGTTTTAATTTTTCTAAAGAAATTTCATTTTTCTCTTAGAAAACTACAATGAACTTTTTGTACTC
*
33185294 TAGGTATTTTCTTAAAATTTTCGTTTCTAATTTACCTAATTCTACACTTCAACATTCAGGCTTTC
391 TAGGTATTTTCTTAAAATTTTCGTTTCTAATTTACCTAATTCTACAATTCAACATTCAGGCTTTC
*
33185359 CATTATTGGTGAATCAGAACACTTTTACTTCATTAATTCAAGG
456 CATTATTGGTGAATCAAAACACTTTTACTTCATTAATTCAAGG
33185402 A
1 A
33185403 TTTCGACAAA
Statistics
Matches: 493, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
498 493 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (498 bp):
AGTGTAAGGTTGTGACATCAACCTCTATGGTCGCAACATCAAGTGGTCGATGGACTAGATTATTG
TTGATGTCGTGACATCAACTTATGGGTAACGACATCGAGCCTGACATTGTTATTGTTTGGTTGTG
ACATCAACTTGTGGGTCGCGACATCGAGCCTAACATTAAAGGGTAATCTATAGTCACTTTGGTCA
ACCTTGCCTTAAATGAGTTTATAATGGATGGAAAAAATGTCATTGTTAGGTTAAGTTTAGCTAAA
ATATAAGTACTACTTTATAAGTATTTTAAGGGAGTAAAAAGTTTTTAGGTTAATTCTCAGTTTAA
GGTTTTAATTTTTCTAAAGAAATTTCATTTTTCTCTTAGAAAACTACAATGAACTTTTTGTACTC
TAGGTATTTTCTTAAAATTTTCGTTTCTAATTTACCTAATTCTACAATTCAACATTCAGGCTTTC
CATTATTGGTGAATCAAAACACTTTTACTTCATTAATTCAAGG
Found at i:33190463 original size:21 final size:21
Alignment explanation
Indices: 33190439--33190478 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33190429 TTAGAGATTA
**
33190439 ATTTAATTTCTTTAAATTATT
1 ATTTAATTGATTTAAATTATT
33190460 ATTTAATTGATTTAAATTA
1 ATTTAATTGATTTAAATTA
33190479 AATAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTAATTGATTTAAATTATT
Found at i:33190753 original size:18 final size:18
Alignment explanation
Indices: 33190732--33190804 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 18
33190722 AGATGAGTGC
*
33190732 AAAATTTTAAAAAAATTA
1 AAAATTATAAAAAAATTA
33190750 AAAATTATAAAATAATTTATTA
1 AAAATTATAAAA-AA---ATTA
* * *
33190772 ACAATTATTAAAAATTATA
1 AAAATTATAAAAAAAT-TA
33190791 AAAATATATAAAAA
1 AAAAT-TATAAAAA
33190805 TTCAAATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
18 12 0.28
19 8 0.19
20 7 0.16
21 2 0.05
22 14 0.33
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTATAAAAAAATTA
Found at i:33190781 original size:10 final size:10
Alignment explanation
Indices: 33190732--33190806 Score: 68
Period size: 10 Copynumber: 7.6 Consensus size: 10
33190722 AGATGAGTGC
33190732 AAAATT-TTA
1 AAAATTATTA
*
33190741 AAAA-AATTA
1 AAAATTATTA
*
33190750 AAAATTATAA
1 AAAATTATTA
33190760 AATAATTTATTA
1 AA-AA-TTATTA
*
33190772 ACAATTATTA
1 AAAATTATTA
33190782 AAAATTA-TA
1 AAAATTATTA
33190791 AAAA-TATATA
1 AAAATTAT-TA
33190801 AAAATT
1 AAAATT
33190807 CAAATGTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
8 2 0.04
9 17 0.32
10 23 0.43
11 5 0.09
12 6 0.11
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:33190816 original size:16 final size:16
Alignment explanation
Indices: 33190792--33190826 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33190782 AAAATTATAA
*
33190792 AAATATATAAAAATTC
1 AAATATATAAAAACTC
*
33190808 AAATGTATAAAAACTC
1 AAATATATAAAAACTC
33190824 AAA
1 AAA
33190827 AAATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATATATAAAAACTC
Found at i:33191932 original size:17 final size:17
Alignment explanation
Indices: 33191912--33191945 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33191902 AAACTATTAC
33191912 TAAATTTTATACTAATT
1 TAAATTTTATACTAATT
*
33191929 TAAATTTTATGCTAATT
1 TAAATTTTATACTAATT
33191946 AACAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (17 bp):
TAAATTTTATACTAATT
Found at i:33207983 original size:51 final size:51
Alignment explanation
Indices: 33207885--33208023 Score: 127
Period size: 51 Copynumber: 2.7 Consensus size: 51
33207875 CTTATAGTCA
* * * * * **
33207885 AAGCTACCTTCTT-CACAAAGTGGCCTTCACATGGTACCACACTTGTGACCC
1 AAGCTATCTT-TTACACATAGTGGCCTACACTTAGTACCACAAATGTGACCC
* *
33207936 AAGCTATCTTTTACACATAGTGGCCTACACTTAGTACCACAAATGTGATCG
1 AAGCTATCTTTTACACATAGTGGCCTACACTTAGTACCACAAATGTGACCC
*** * * *
33207987 AAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTAC
1 AAGCTATCTTTTACACATAGTGGCCTACACTTAGTAC
33208024 TACACATGCG
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 2 0.03
51 70 0.97
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (51 bp):
AAGCTATCTTTTACACATAGTGGCCTACACTTAGTACCACAAATGTGACCC
Found at i:33211957 original size:171 final size:171
Alignment explanation
Indices: 33211672--33212013 Score: 684
Period size: 171 Copynumber: 2.0 Consensus size: 171
33211662 GTGTTACACC
33211672 TTAACTCAAAATATTGGTAGAAATAGGTAAACCGAGCTACGAGGATCTCAAAAATGTAAAGAACA
1 TTAACTCAAAATATTGGTAGAAATAGGTAAACCGAGCTACGAGGATCTCAAAAATGTAAAGAACA
33211737 TTAAAAATGAGGCTAGGATGCACTTACAATCAAGCTTGAAAGCTTGAAAAACCCTAGCTATGTCT
66 TTAAAAATGAGGCTAGGATGCACTTACAATCAAGCTTGAAAGCTTGAAAAACCCTAGCTATGTCT
33211802 TCCTCATGTGAAATTCAGCCAAGGGTTGAAGATGGACAAAA
131 TCCTCATGTGAAATTCAGCCAAGGGTTGAAGATGGACAAAA
33211843 TTAACTCAAAATATTGGTAGAAATAGGTAAACCGAGCTACGAGGATCTCAAAAATGTAAAGAACA
1 TTAACTCAAAATATTGGTAGAAATAGGTAAACCGAGCTACGAGGATCTCAAAAATGTAAAGAACA
33211908 TTAAAAATGAGGCTAGGATGCACTTACAATCAAGCTTGAAAGCTTGAAAAACCCTAGCTATGTCT
66 TTAAAAATGAGGCTAGGATGCACTTACAATCAAGCTTGAAAGCTTGAAAAACCCTAGCTATGTCT
33211973 TCCTCATGTGAAATTCAGCCAAGGGTTGAAGATGGACAAAA
131 TCCTCATGTGAAATTCAGCCAAGGGTTGAAGATGGACAAAA
33212014 ATTGGCTTTT
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 171 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (171 bp):
TTAACTCAAAATATTGGTAGAAATAGGTAAACCGAGCTACGAGGATCTCAAAAATGTAAAGAACA
TTAAAAATGAGGCTAGGATGCACTTACAATCAAGCTTGAAAGCTTGAAAAACCCTAGCTATGTCT
TCCTCATGTGAAATTCAGCCAAGGGTTGAAGATGGACAAAA
Found at i:33225776 original size:21 final size:21
Alignment explanation
Indices: 33225751--33225790 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33225741 AAACCTGGTA
*
33225751 AAAGGTATTGATACTTTTTGT
1 AAAGGTATTAATACTTTTTGT
33225772 AAAGGTATTAATACTTTTT
1 AAAGGTATTAATACTTTTT
33225791 ATGTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (21 bp):
AAAGGTATTAATACTTTTTGT
Found at i:33227485 original size:16 final size:16
Alignment explanation
Indices: 33227464--33227494 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33227454 ATCAGGTTGA
*
33227464 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
33227480 GAAAATTAATTAATT
1 GAAAATTAATTAATT
33227495 TATAATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Done.