Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 293 of 378
Found at i:88573827 original size:32 final size:32
Alignment explanation
Indices: 88573786--88573849 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
88573776 CACATATACA
88573786 TACACTTTCACATTCACCACATCGGCCATTAG
1 TACACTTTCACATTCACCACATCGGCCATTAG
88573818 TACACTTTCACATTCACCACATCGGCCATTAG
1 TACACTTTCACATTCACCACATCGGCCATTAG
88573850 GCCTTATCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.34, G:0.09, T:0.28
Consensus pattern (32 bp):
TACACTTTCACATTCACCACATCGGCCATTAG
Found at i:88573874 original size:49 final size:49
Alignment explanation
Indices: 88573818--88574011 Score: 316
Period size: 49 Copynumber: 4.0 Consensus size: 49
88573808 CGGCCATTAG
88573818 TACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACACATACA
1 TACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACACATACA
* *
88573867 TACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACA
1 TACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACACATACA
*
88573916 TACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACA
1 TACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACACATACA
* * * * *
88573965 TCCACTTTCACATTCATCGCATTGGCCATTCGGCCTTATCACACATA
1 TACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACACATA
88574012 TATGTATATC
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 136 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (49 bp):
TACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACACATACA
Found at i:88575698 original size:34 final size:34
Alignment explanation
Indices: 88575655--88575727 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
88575645 TTCCTTCAAA
*
88575655 TTTTCGACCAAAAGATGAATCAAAGGATGAACAT
1 TTTTTGACCAAAAGATGAATCAAAGGATGAACAT
88575689 TTTTTGACCAAAAGATGAATCAAAGGATGAACAT
1 TTTTTGACCAAAAGATGAATCAAAGGATGAACAT
88575723 TTTTT
1 TTTTT
88575728 TTTTCTTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (34 bp):
TTTTTGACCAAAAGATGAATCAAAGGATGAACAT
Found at i:88581358 original size:40 final size:40
Alignment explanation
Indices: 88581310--88581505 Score: 306
Period size: 40 Copynumber: 4.9 Consensus size: 40
88581300 GGACTAAGAT
*
88581310 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
88581350 CTGAAGGCATTTGTGCTAGTGATTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
88581390 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
88581430 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
88581470 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAA
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
88581506 ATTCCTAAGG
Statistics
Matches: 146, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:88587339 original size:26 final size:26
Alignment explanation
Indices: 88587310--88587415 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
88587300 TGGTACAAAT
*
88587310 TGATAGTGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88587336 TGATAAT--ATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88587360 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88587386 TGATAATGGTTTAGGTAAATGTTCGA
1 TGATAATGGGTTAGGTAAATGTTCCA
88587412 TGAT
1 TGAT
88587416 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
24 22 0.31
26 49 0.69
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88587370 original size:50 final size:51
Alignment explanation
Indices: 88587310--88587415 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 51
88587300 TGGTACAAAT
*
88587310 TGATAGTGGGTTAGGTAAATGTTCCATGATAAT-ATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATATTCCA
* * *
88587360 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCGA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAT-GATTAGGTAAATATTCCA
88587412 TGAT
1 TGAT
88587416 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 32 0.64
52 18 0.36
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATATTCCA
Found at i:88593321 original size:40 final size:40
Alignment explanation
Indices: 88593159--88593360 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
88593149 CGAATGATGT
*
88593159 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
88593199 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
88593238 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
88593276 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
88593317 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
88593357 CCGG
1 CCGG
88593361 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:88593323 original size:78 final size:79
Alignment explanation
Indices: 88593158--88593309 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
88593148 TCGAATGATG
* * *
88593158 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
88593223 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
88593238 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
88593301 GTGCAAGTC
65 GTGCAAGTC
88593310 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:88600543 original size:23 final size:22
Alignment explanation
Indices: 88600507--88600556 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
88600497 TGGCCTACAG
* * *
88600507 CACGGGTGTGTCT-TAGGGTCA
1 CACGGGCGTGTCTCTTGGATCA
88600528 CACGGGCGTGTCTCTTGGATCA
1 CACGGGCGTGTCTCTTGGATCA
88600550 CACGGGC
1 CACGGGC
88600557 ATGTGAGCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (22 bp):
CACGGGCGTGTCTCTTGGATCA
Found at i:88600826 original size:20 final size:19
Alignment explanation
Indices: 88600798--88600837 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
88600788 GTTTTACATA
88600798 TATTGTATAAACTTACTAAG
1 TATTGTATAAACTTAC-AAG
* *
88600818 TATTTTATAGACTTACAAG
1 TATTGTATAAACTTACAAG
88600837 T
1 T
88600838 GTTACTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (19 bp):
TATTGTATAAACTTACAAG
Found at i:88608483 original size:16 final size:18
Alignment explanation
Indices: 88608464--88608496 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
88608454 CATACTAGAT
88608464 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
88608480 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
88608497 GTGATGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:88609036 original size:45 final size:45
Alignment explanation
Indices: 88608971--88609147 Score: 302
Period size: 45 Copynumber: 4.0 Consensus size: 45
88608961 TTTTATCAAA
* * *
88608971 TCACCGGCAT-TTAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
88609015 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
88609060 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCAAATACTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
88609105 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
88609148 CTGTACAATA
Statistics
Matches: 125, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 10 0.08
45 115 0.92
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
Found at i:88614656 original size:49 final size:47
Alignment explanation
Indices: 88614591--88614717 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
88614581 TGTGAGAGCT
* * * *
88614591 AGTGTAAGACCATGTCTGGGACATGGTGTCAGCCTCGATTTTGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGTATC-GACTCGA--TGGATGAATC
* * *
88614640 AGTGTAAGGCCATGTCTGGGACATCGTATCGACTTGATGGATGAATC
1 AGTGTAAGACCATGTCTGGGACATGGTATCGACTCGATGGATGAATC
*
88614687 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGTATCG
88614718 GCATTACACC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 4 0.06
47 31 0.46
48 5 0.07
49 27 0.40
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGTATCGACTCGATGGATGAATC
Found at i:88614700 original size:47 final size:48
Alignment explanation
Indices: 88614591--88614710 Score: 145
Period size: 49 Copynumber: 2.5 Consensus size: 48
88614581 TGTGAGAGCT
* * * * *
88614591 AGTGTAAGACCATGTCTGGGACATGGTGTCAGCCTCGATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATCGTATCAGACTCGA-TTGGATAATC
* *
88614640 AGTGTAAGGCCATGTCTGGGACATCGTATC-GACTTGA-TGGATGAATC
1 AGTGTAAGACCATGTCTGGGACATCGTATCAGACTCGATTGGAT-AATC
88614687 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGACCATGTCTGGGACAT
88614711 GGCATCGGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 4 0.06
47 26 0.42
48 5 0.08
49 27 0.44
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATCGTATCAGACTCGATTGGATAATC
Found at i:88620335 original size:32 final size:32
Alignment explanation
Indices: 88620294--88620357 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
88620284 TGGAAATAAC
*
88620294 ATTGGATATTCTGTATCTTGCACACTAATGGG
1 ATTGAATATTCTGTATCTTGCACACTAATGGG
88620326 ATTGAATATTCTGTATCTTGCACACTAATGGG
1 ATTGAATATTCTGTATCTTGCACACTAATGGG
88620358 CTTATATGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (32 bp):
ATTGAATATTCTGTATCTTGCACACTAATGGG
Found at i:88620916 original size:46 final size:46
Alignment explanation
Indices: 88620790--88620926 Score: 154
Period size: 46 Copynumber: 2.9 Consensus size: 46
88620780 AAGCTCCTCT
* * * *
88620790 TGAGCTGATAAACAGTAAGCTC-TATTGAGCTGAAAACAATAAGCTCTAT
1 TGAGCTG--AAACAGTAAGCTCTTA-TGAGCTG-AATCAGTAAGCTCCAA
* *
88620839 TGAGTTG-AACAGTAAGTTCTT-TCGAGCTGAATCAGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTTAT-GAGCTGAATCAGTAAGCTCCAA
88620884 TGAGCTGAAACAGTAAGCTCTTATGAGCTGAATCAGTAAGCTC
1 TGAGCTGAAACAGTAAGCTCTTATGAGCTGAATCAGTAAGCTC
88620927 ATACGAGCTG
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
45 19 0.25
46 49 0.64
47 2 0.03
49 6 0.08
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (46 bp):
TGAGCTGAAACAGTAAGCTCTTATGAGCTGAATCAGTAAGCTCCAA
Found at i:88620924 original size:23 final size:22
Alignment explanation
Indices: 88620786--88620936 Score: 135
Period size: 23 Copynumber: 6.5 Consensus size: 22
88620776 CGGTAAGCTC
88620786 CTCT-TGAGCTGATAAACAGTAAG
1 CTCTATGAGCTG--AAACAGTAAG
*
88620809 CTCTATTGAGCTGAAAACAATAAG
1 CTCTA-TGAGCTG-AAACAGTAAG
*
88620833 CTCTATTGAGTTG-AACAGTAAG
1 CTCTA-TGAGCTGAAACAGTAAG
* * *
88620855 TTCTTTCGAGCTGAATCAGTAAG
1 CTCTAT-GAGCTGAAACAGTAAG
*
88620878 CTCCAATGAGCTGAAACAGTAAG
1 CT-CTATGAGCTGAAACAGTAAG
*
88620901 CTCTTATGAGCTGAATCAGTAAG
1 CTC-TATGAGCTGAAACAGTAAG
*
88620924 CTCATACGAGCTG
1 CTC-TATGAGCTG
88620937 TGGTGAGTCC
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.01
22 17 0.16
23 58 0.55
24 23 0.22
25 7 0.07
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (22 bp):
CTCTATGAGCTGAAACAGTAAG
Found at i:88620934 original size:69 final size:69
Alignment explanation
Indices: 88620802--88620936 Score: 175
Period size: 69 Copynumber: 2.0 Consensus size: 69
88620792 AGCTGATAAA
* * * * * *
88620802 CAGTAAGCTCTATTGAGCTGAAAACAATAAGCTCTATTGAGTTGAACAGTAAGTTCTTTCGAGCT
1 CAGTAAGCTCCAATGAGCTGAAAACAATAAGCTCTATTGAGCTGAACAGTAAGCTCATACGAGCT
88620867 GAAT
66 GAAT
*
88620871 CAGTAAGCTCCAATGAGCTG-AAACAGTAAGCTCT-TATGAGCTGAATCAGTAAGCTCATACGAG
1 CAGTAAGCTCCAATGAGCTGAAAACAATAAGCTCTAT-TGAGCTGAA-CAGTAAGCTCATACGAG
88620934 CTG
64 CTG
88620937 TGGTGAGTCC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 1 0.02
68 21 0.37
69 35 0.61
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (69 bp):
CAGTAAGCTCCAATGAGCTGAAAACAATAAGCTCTATTGAGCTGAACAGTAAGCTCATACGAGCT
GAAT
Found at i:88623357 original size:28 final size:28
Alignment explanation
Indices: 88623310--88623406 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
88623300 ATTTAAACCC
*
88623310 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
88623337 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
88623365 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
88623393 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
88623407 TGATCTACGC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.14
28 56 0.86
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:88624057 original size:27 final size:27
Alignment explanation
Indices: 88624027--88624088 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
88624017 GGGCAAAATG
88624027 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
88624054 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
88624081 GTAATTTT
1 GTAATTTT
88624089 TCAAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:88624102 original size:54 final size:54
Alignment explanation
Indices: 88624044--88624194 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
88624034 TACCCCACAA
** * * * *
88624044 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAATCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
88624098 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
88624152 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
88624195 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 82 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:88624160 original size:81 final size:81
Alignment explanation
Indices: 88624042--88624194 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
88624032 TTTACCCCAC
** * *
88624042 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAATCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
88624106 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
88624123 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
88624187 TGGTAATT
65 TGGTAATT
88624195 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:88624201 original size:27 final size:27
Alignment explanation
Indices: 88624071--88624194 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
88624061 TACCCTACAG
* * *
88624071 GGGTATTTTAGTAATTTT-TCAAATCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
88624098 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
88624125 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
88624152 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
88624179 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
88624195 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:88624210 original size:54 final size:54
Alignment explanation
Indices: 88624071--88624194 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
88624061 TACCCTACAG
* * *
88624071 GGGTATTTTAGTAATTTTTCAAATCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
88624125 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
88624179 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
88624195 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:88624220 original size:27 final size:27
Alignment explanation
Indices: 88624190--88624283 Score: 120
Period size: 27 Copynumber: 3.5 Consensus size: 27
88624180 GGTATTTTGG
*
88624190 TAATTCTGTAAATT-GAGGGTAAAACGA
1 TAATTATGTAAATTAG-GGGTAAAACGA
* *
88624217 TAATTATGTAAATCAGGGGTAAAACGG
1 TAATTATGTAAATTAGGGGTAAAACGA
88624244 TAATTATGTAAATTAGGGGTAAAAC-A
1 TAATTATGTAAATTAGGGGTAAAACGA
*
88624270 GTAATTCTGTAAAT
1 -TAATTATGTAAAT
88624284 CGGGGGTACT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.31
Consensus pattern (27 bp):
TAATTATGTAAATTAGGGGTAAAACGA
Found at i:88624237 original size:54 final size:54
Alignment explanation
Indices: 88624179--88624302 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
88624169 TATAAACCAA
* *
88624179 GGGTATTTTGGTAATTCTGTAAATT-GAGGGTAAAAC-GATAATTATGTAAATCAG
1 GGGTAATTTGGTAATTATGTAAATTAG-GGGTAAAACAG-TAATTATGTAAATCAG
*** * *
88624233 GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACAGTAATTCTGTAAATCGG
1 GGGTAATTTGGTAATTATGTAAATTAGGGGTAAAACAGTAATTATGTAAATCAG
*
88624287 GGGTACTTTGGTAATT
1 GGGTAATTTGGTAATT
88624303 TTACAAGTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
54 55 0.96
55 2 0.04
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (54 bp):
GGGTAATTTGGTAATTATGTAAATTAGGGGTAAAACAGTAATTATGTAAATCAG
Found at i:88624318 original size:27 final size:27
Alignment explanation
Indices: 88624288--88624354 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
88624278 GTAAATCGGG
* *
88624288 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAAATTTACAAATCGAA
*
88624315 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAAATTTACAAATCGAA
*
88624342 GGTATTTCAGTAA
1 GGTATTTCGGTAA
88624355 TTGGTAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAAATTTACAAATCGAA
Found at i:88632086 original size:40 final size:40
Alignment explanation
Indices: 88632031--88632205 Score: 275
Period size: 40 Copynumber: 4.4 Consensus size: 40
88632021 TGGATGGTAA
* *
88632031 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
88632071 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
88632111 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
88632151 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
88632191 CC-GGCTAAATCCCGA
1 CCGGGCTAAGTCCCGA
88632206 CGGTACTTGG
Statistics
Matches: 129, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
39 14 0.11
40 114 0.88
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:88639947 original size:39 final size:40
Alignment explanation
Indices: 88639850--88640026 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
88639840 CGGATGGTAA
* *
88639850 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
88639890 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
88639930 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
88639969 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
88640009 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
88640027 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
39 56 0.43
40 73 0.56
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:88639984 original size:79 final size:79
Alignment explanation
Indices: 88639853--88640026 Score: 280
Period size: 79 Copynumber: 2.2 Consensus size: 79
88639843 ATGGTAACCG
* *
88639853 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGC
88639918 GAGTTA-CTATATCC
66 GAG-TAGCTATATCC
*
88639932 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGAG
88639996 CGAGTAGCTATATCC
65 CGAGTAGCTATATCC
*
88640011 GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
88640027 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
78 4 0.04
79 85 0.96
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGC
GAGTAGCTATATCC
Found at i:88642321 original size:40 final size:40
Alignment explanation
Indices: 88642276--88642442 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
88642266 CGGAATATAA
88642276 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
88642316 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
88642356 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
88642396 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
88642435 CCGGATAT
1 CCGGATAT
88642443 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88650338 original size:40 final size:40
Alignment explanation
Indices: 88650293--88650460 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
88650283 CGGAATATAA
88650293 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
88650333 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
88650373 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
88650413 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
88650453 CCGGATAT
1 CCGGATAT
88650461 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88657121 original size:20 final size:20
Alignment explanation
Indices: 88657096--88657141 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
88657086 AGGGACTAAA
*
88657096 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTATAAAATTTG
* *
88657116 ATGAAAAATTTATAAAATTTT
1 ATG-AAAAGTTATAAAATTTG
88657137 ATGAA
1 ATGAA
88657142 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGAAAAGTTATAAAATTTG
Found at i:88659312 original size:48 final size:47
Alignment explanation
Indices: 88659241--88659551 Score: 193
Period size: 48 Copynumber: 6.6 Consensus size: 47
88659231 AACTCCCGTA
* * *
88659241 TAAGACCATATCTCGGATATGGC-TTCGACAGTGACATGTGATCCCATG
1 TAAGACCATGTCTGGGACATGGCATT-GACA-TGACATGTGATCCCATG
* * ** *
88659289 TAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGTGATCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGACA-TGACATGTGATCCCATG
* * * * * * ** *
88659337 TATGACCATGTTTGGGACATGGCATTGGCATCATAATGAGATGTCGTG
1 TAAGACCATGTCTGGGACATGGCATTGACATGA-CATGTGATCCCATG
* ** *
88659385 TAAGGCCATAG-CTGGGTTATCGGC-TTCGATATG---TGTGATCCCATG
1 TAAGACCAT-GTCTGGGACAT-GGCATT-GACATGACATGTGATCCCATG
* * * * *
88659430 TAAGACCATGTCTGGGACATGACATTGGCATCATCATGTGGTCCCCTG
1 TAAGACCATGTCTGGGACATGGCATTGACATGA-CATGTGATCCCATG
* * * * * *
88659478 TAAGACCATGTCTAGGACACGACATTGGCATCATCATGTGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGACATGA-CATGTGATCCCATG
* *
88659526 TAAGACCATATCTGGGATATGGCATT
1 TAAGACCATGTCTGGGACATGGCATT
88659552 AGCACCCTAT
Statistics
Matches: 206, Mismatches: 46, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
44 6 0.03
45 25 0.12
47 1 0.00
48 165 0.80
49 9 0.04
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATTGACATGACATGTGATCCCATG
Found at i:88659535 original size:141 final size:141
Alignment explanation
Indices: 88659277--88659541 Score: 341
Period size: 141 Copynumber: 1.9 Consensus size: 141
88659267 GACAGTGACA
* * ** * * *
88659277 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGTGATCTCATGTATGA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATCATGTGATCCCATGTAAGA
* * * * ** * *
88659342 CCATGTTTGGGACATGGCATTGGCATCATAATGAGATGTCGTGTAAGGCCATAGCTGGGTTATCG
66 CCATGTCTAGGACACGACATTGGCATCATAATGAGATCCCATGTAAGACCATAGCTGGGTTATCG
88659407 GCTTCGATATG
131 GCTTCGATATG
* *
88659418 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATCATGTGGTCCCCTGTAAGA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATCATGTGATCCCATGTAAGA
* * * *
88659483 CCATGTCTAGGACACGACATTGGCATCATCATGTGGTCCCATGTAAGACCATATCTGGG
66 CCATGTCTAGGACACGACATTGGCATCATAATGAGATCCCATGTAAGACCATAGCTGGG
88659542 ATATGGCATT
Statistics
Matches: 103, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
141 103 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (141 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATCATGTGATCCCATGTAAGA
CCATGTCTAGGACACGACATTGGCATCATAATGAGATCCCATGTAAGACCATAGCTGGGTTATCG
GCTTCGATATG
Found at i:88661947 original size:6 final size:6
Alignment explanation
Indices: 88661926--88661965 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
88661916 GTTTAAAAAC
* *
88661926 TTTTTA TTTATTA TTTTTA TTTTCA TTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
88661966 ATCTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:88668917 original size:93 final size:93
Alignment explanation
Indices: 88668805--88668977 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
88668795 CGCCCATAAG
* * *
88668805 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAGCTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88668870 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ATGAGTTCGGATGCCTAGTTACATCTCA
* *
88668898 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88668963 ATGAGTTCGGATGCC
66 ATGAGTTCGGATGCC
88668978 CAAATATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ATGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88668973 original size:46 final size:46
Alignment explanation
Indices: 88668798--88668973 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
88668788 TGTAACCCGC
* * * *
88668798 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
88668844 CCATAAGTGAACTCGGACTCAGCTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
88668894 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
88668937 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88668974 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:88668992 original size:46 final size:47
Alignment explanation
Indices: 88668842--88668992 Score: 127
Period size: 46 Copynumber: 3.2 Consensus size: 47
88668832 GGGCGTTCGC
* * *
88668842 ATCCATAAGTGAACTCGGACTCAGCTCAATGAGTTCGGATGCCTAGTT
1 ATCC-TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAATT
* * * *
88668890 A-CATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTT
1 ATC--CTAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAATT
*
88668933 GCATCCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAAT
1 --ATCC-TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAATT
88668983 ATCCT-AGTGA
1 ATCCTAAGTGA
88668993 CATGTCACTT
Statistics
Matches: 81, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 3 0.04
46 34 0.42
47 29 0.36
48 7 0.09
49 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (47 bp):
ATCCTAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAATT
Found at i:88670883 original size:15 final size:15
Alignment explanation
Indices: 88670863--88670904 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
88670853 ATAGAGAAAC
88670863 CCAGAATAAAGAGAT
1 CCAGAATAAAGAGAT
88670878 CCAGAATAAAGAGAT
1 CCAGAATAAAGAGAT
*
88670893 CCAGGATAAAGA
1 CCAGAATAAAGA
88670905 AACCCAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.52, C:0.14, G:0.21, T:0.12
Consensus pattern (15 bp):
CCAGAATAAAGAGAT
Found at i:88670915 original size:15 final size:15
Alignment explanation
Indices: 88670840--88670915 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 15
88670830 AAAACCGAAG
88670840 AAAGAAATCCAAGAT
1 AAAGAAATCCAAGAT
* *
88670855 AGAGAAA-CCCAGAAT
1 AAAGAAATCCAAG-AT
*
88670870 AAAGAGATCC-AGAAT
1 AAAGAAATCCAAG-AT
* *
88670885 AAAGAGATCCAGGAT
1 AAAGAAATCCAAGAT
*
88670900 AAAGAAACCCAAGAT
1 AAAGAAATCCAAGAT
88670915 A
1 A
88670916 CGATATTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.16, G:0.18, T:0.11
Consensus pattern (15 bp):
AAAGAAATCCAAGAT
Found at i:88673956 original size:25 final size:25
Alignment explanation
Indices: 88673927--88673977 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
88673917 AGTTCGGATG
88673927 CCTAGTTACATCTCACGAACTCGGA
1 CCTAGTTACATCTCACGAACTCGGA
88673952 CCTAGTTACATCTCACGAACTCGGA
1 CCTAGTTACATCTCACGAACTCGGA
88673977 C
1 C
88673978 TCAACTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (25 bp):
CCTAGTTACATCTCACGAACTCGGA
Found at i:88675909 original size:15 final size:15
Alignment explanation
Indices: 88675887--88675963 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
88675877 AAGAAACCGA
88675887 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
88675902 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
88675916 AATAAAG-AATCC-AG
1 -ATAAAGAAATCCAAG
* *
88675930 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
88675946 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
88675961 ATA
1 ATA
88675964 CGATATATGC
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 15 0.30
15 34 0.68
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:88675944 original size:29 final size:29
Alignment explanation
Indices: 88675877--88675963 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
88675867 CAAAGATAAC
88675877 AAGAAA-CC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAG-AATCCAAGATA
*
88675905 GAGAAACCCAGAATAAAGAATCC-AGAATA
1 AAGAAACCCAGAATAAAGAATCCAAG-ATA
* * * *
88675934 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAACCCAGAATAAAG-AATCCAAGATA
88675964 CGATATATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 7 0.15
29 24 0.50
30 15 0.31
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCAGAATAAAGAATCCAAGATA
Found at i:88677268 original size:87 final size:88
Alignment explanation
Indices: 88677163--88677334 Score: 328
Period size: 87 Copynumber: 2.0 Consensus size: 88
88677153 CATTCATCAA
88677163 CATTAGACGTCCAAATCAAGACAAGGACATTTTCATTCGTATCAT-ATATTATGACTTTTATTCA
1 CATTAGACGTCCAAATCAAGACAAGGACATTTTCATTCGTATCATAATATTATGACTTTTATTCA
88677227 TACCTCTACTACTTTCTATTATC
66 TACCTCTACTACTTTCTATTATC
*
88677250 CATTCGACGTCCAAATCAAGACAAGGACATTTTCATTCGTATCATAATATTATGACTTTTATTCA
1 CATTAGACGTCCAAATCAAGACAAGGACATTTTCATTCGTATCATAATATTATGACTTTTATTCA
88677315 TACCTCTACTACTTTCTATT
66 TACCTCTACTACTTTCTATT
88677335 TATTCCGTTC
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 44 0.53
88 39 0.47
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (88 bp):
CATTAGACGTCCAAATCAAGACAAGGACATTTTCATTCGTATCATAATATTATGACTTTTATTCA
TACCTCTACTACTTTCTATTATC
Found at i:88679082 original size:46 final size:45
Alignment explanation
Indices: 88678925--88679099 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
88678915 ATGTAACCCC
* * * *
88678925 CCATAAGTGAACTCGGACTCAATTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTC-CAT
* *
88678971 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCC-A--T
* *** *
88679017 ACATCTCTCGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTC-CAT
*
88679063 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88679100 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 6 0.06
46 85 0.81
47 5 0.05
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCCAT
Found at i:88679099 original size:92 final size:93
Alignment explanation
Indices: 88678933--88679103 Score: 263
Period size: 92 Copynumber: 1.8 Consensus size: 93
88678923 CCCCATAAGT
* * * * *
88678933 GAACTCGGACTCAATTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
88678998 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
88679026 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
88679090 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
88679104 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 64 0.91
93 6 0.09
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88679118 original size:46 final size:44
Alignment explanation
Indices: 88678930--88679118 Score: 100
Period size: 46 Copynumber: 4.1 Consensus size: 44
88678920 ACCCCCCATA
* * * ** ** *
88678930 AGTGAACTCGGACTCAATTCAATGAGCTCGGGCGTTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* * *
88678975 AAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
88679025 --CGAACTC-GACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
88679067 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
88679114 AGTGA
1 AGTGA
88679119 CATGTCACTT
Statistics
Matches: 109, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
44 4 0.04
45 6 0.06
46 76 0.70
47 6 0.06
48 7 0.06
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:88681510 original size:15 final size:15
Alignment explanation
Indices: 88681466--88681535 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
88681456 TAAGAAAATC
88681466 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
88681481 -AA-AAGAGAAACCCA
1 GAATAA-AGAAATCCA
88681495 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
88681510 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
88681525 GCATAAAGAAA
1 GAATAAAGAAA
88681536 CCCAAGATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
13 2 0.04
14 10 0.21
15 33 0.70
16 2 0.04
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:88684429 original size:46 final size:45
Alignment explanation
Indices: 88684266--88684441 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 45
88684256 ATGTAACCCC
* * * *
88684266 CCATAAGTGAACTCGGACTCAATTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTC-CAT
* * *
88684312 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGG--ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCC-A--T
* *** * *
88684358 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTC-CAT
*
88684405 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88684442 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.64
47 29 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCCAT
Found at i:88684441 original size:93 final size:93
Alignment explanation
Indices: 88684274--88684445 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
88684264 CCCCATAAGT
* * * * * *
88684274 GAACTCGGACTCAATTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
88684339 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
88684367 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
88684432 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
88684446 CAAATATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88686488 original size:22 final size:23
Alignment explanation
Indices: 88686463--88686505 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
88686453 TATCCCCACA
*
88686463 TGGAGTGTAG-GGCTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
88686485 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
88686506 GTAGGACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.02, G:0.53, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:88690527 original size:13 final size:13
Alignment explanation
Indices: 88690495--88690521 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88690485 TTAACTAATA
88690495 GAGACTTACTTTT
1 GAGACTTACTTTT
88690508 GAGACTTACTTTT
1 GAGACTTACTTTT
88690521 G
1 G
88690522 TAACTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (13 bp):
GAGACTTACTTTT
Found at i:88699745 original size:32 final size:32
Alignment explanation
Indices: 88699704--88699768 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
88699694 ACTAGCACCA
88699704 AGGAAGGTTTAATCATTTTTATCTTTACACTT
1 AGGAAGGTTTAATCATTTTTATCTTTACACTT
88699736 AGGAAGGTTTAATCATTTTTATCTTTACACTT
1 AGGAAGGTTTAATCATTTTTATCTTTACACTT
88699768 A
1 A
88699769 CATTAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (32 bp):
AGGAAGGTTTAATCATTTTTATCTTTACACTT
Found at i:88704293 original size:42 final size:42
Alignment explanation
Indices: 88704246--88704329 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
88704236 TCAGAGGAAG
*
88704246 ATTAAAATCAACCACAAATAGGAAAATATCTTATGTCGATAT
1 ATTAAAATCAACCACAAATAGGAAAACATCTTATGTCGATAT
* * *
88704288 ATTAAAATTAGCCTCAAATAGGAAAACATCTTATGTCGATAT
1 ATTAAAATCAACCACAAATAGGAAAACATCTTATGTCGATAT
88704330 GAAAAAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (42 bp):
ATTAAAATCAACCACAAATAGGAAAACATCTTATGTCGATAT
Found at i:88707231 original size:20 final size:20
Alignment explanation
Indices: 88707188--88707228 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
88707178 ATTATCATAA
*
88707188 TTAAACTTGATTAATTTAAG
1 TTAAACTAGATTAATTTAAG
88707208 TTAAACTAGATTAA-TTAAG
1 TTAAACTAGATTAATTTAAG
88707227 TT
1 TT
88707229 TAATTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TTAAACTAGATTAATTTAAG
Found at i:88708126 original size:2 final size:2
Alignment explanation
Indices: 88708119--88708149 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88708109 AATGCGAAAT
88708119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88708150 GAATTGGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88710311 original size:57 final size:58
Alignment explanation
Indices: 88710191--88710315 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 58
88710181 TTTTACAGAA
* * * * *
88710191 AGGATTTAGCCTAGACTGGTAATCCTAATATAAGCCCTCTTGAGTATATGTTATGAAT
1 AGGATTTAGCCCAGACGGGTAATCCTAATATAAGCCCTCTTGAGCATATGTTAGGAAC
* * *
88710249 AGGATTTAGCCCAGACGGGTAATCTTGAT-TAAGCTCT-TATGAGCATATGTT-GGAAAC
1 AGGATTTAGCCCAGACGGGTAATCCTAATATAAGCCCTCT-TGAGCATATGTTAGG-AAC
88710306 AGGATTTAGC
1 AGGATTTAGC
88710316 TTGGACAAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
56 2 0.04
57 30 0.53
58 25 0.44
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (58 bp):
AGGATTTAGCCCAGACGGGTAATCCTAATATAAGCCCTCTTGAGCATATGTTAGGAAC
Found at i:88711485 original size:21 final size:21
Alignment explanation
Indices: 88711445--88711490 Score: 51
Period size: 21 Copynumber: 2.1 Consensus size: 21
88711435 TGGCCTACAG
88711445 CACAGGCATGTCTTAGGGT-CA
1 CACAGGCATGTCTTA-GGTCCA
88711466 CACAGGCATGTCCCTT-GGTCCA
1 CACAGGCATGT--CTTAGGTCCA
88711488 CAC
1 CAC
88711491 GGGCGTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 14 0.64
22 5 0.23
23 3 0.14
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.22
Consensus pattern (21 bp):
CACAGGCATGTCTTAGGTCCA
Found at i:88724981 original size:31 final size:30
Alignment explanation
Indices: 88724927--88724985 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
88724917 AAGTCACCAG
* *
88724927 ATATAGATATTGTGGCTAGGCCACCAGAAC
1 ATATAGATATTGTGGCGAAGCCACCAGAAC
*
88724957 ATATATATATATGTGGCGAAGCCACCAGA
1 ATATAGATAT-TGTGGCGAAGCCACCAGA
88724986 TTGCAGCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (30 bp):
ATATAGATATTGTGGCGAAGCCACCAGAAC
Found at i:88725179 original size:23 final size:23
Alignment explanation
Indices: 88725153--88725199 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
88725143 AACAGAACAT
88725153 CATGCTTTTTAGAAAAAAATAAC
1 CATGCTTTTTAGAAAAAAATAAC
88725176 CATGCTTTTTAGAAAAAAATAAC
1 CATGCTTTTTAGAAAAAAATAAC
88725199 C
1 C
88725200 CTAGGGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.30
Consensus pattern (23 bp):
CATGCTTTTTAGAAAAAAATAAC
Found at i:88732819 original size:38 final size:39
Alignment explanation
Indices: 88732718--88732939 Score: 265
Period size: 40 Copynumber: 5.7 Consensus size: 39
88732708 TCGAATGATG
* *
88732718 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
88732758 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
88732797 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
88732836 T--GGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* **
88732874 TCCGGGTTAAGTCCCGAAGGCATTTACGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
88732914 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88732940 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
37 7 0.04
38 52 0.32
39 15 0.09
40 81 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:88733261 original size:28 final size:27
Alignment explanation
Indices: 88733226--88733278 Score: 97
Period size: 28 Copynumber: 1.9 Consensus size: 27
88733216 ATGAATGCTA
88733226 TACTTCTGATGTGCTTAAATTGCTTTAC
1 TACTTCTGATGTGCTTAAATT-CTTTAC
88733254 TACTTCTGATGTGCTTAAATTCTTT
1 TACTTCTGATGTGCTTAAATTCTTT
88733279 GCTCAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (27 bp):
TACTTCTGATGTGCTTAAATTCTTTAC
Found at i:88741080 original size:80 final size:79
Alignment explanation
Indices: 88740876--88741095 Score: 277
Period size: 80 Copynumber: 2.8 Consensus size: 79
88740866 TCGAATGATG
* * * *
88740876 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
88740939 TTGTGCGAGTTACTAA
64 TTATGCGAGTTACTAA
*
88740955 TCCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCAT
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCAT
88741018 TTATGCGAGTTACTAAA
64 TTATGCGAGTTACT-AA
* ** *
88741035 TCCGGGTTAAGTCCCGAAGGCATTTACGCGAGTTACTATAACCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGC
88741096 GTTTGAACGA
Statistics
Matches: 123, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.46
80 62 0.50
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
ATGCGAGTTACTAA
Found at i:88741107 original size:40 final size:39
Alignment explanation
Indices: 88740877--88741107 Score: 229
Period size: 40 Copynumber: 5.8 Consensus size: 39
88740867 CGAATGATGT
* * * *
88740877 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTA-AA
* * *
88740917 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATC
1 CCGGGCTAAG-TCCCGAAGGCATTTGAGCGAGTTACTAA-A
*
88740957 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
*
88740995 TCCGGGTTAAGTCCCGAAGGCATTT-ATGCGAGTTACTAAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTAAA
*
88741035 TCCGGGTTAAGTCCCGAAGGCATTT-ACGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTA-AA
* * *
88741076 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
88741108 AGCTATATCC
Statistics
Matches: 169, Mismatches: 13, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
39 36 0.21
40 122 0.72
41 11 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
Found at i:88741119 original size:80 final size:79
Alignment explanation
Indices: 88740910--88741095 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 79
88740900 GTGCTAAGTG
* * * * *
88740910 ACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AATCCCGGGCTAAGCCCGAA
1 ACTAAATCCGGGCTAAG-TCCCGAAGGCATTTATACGAGTTACTAAAT-CCGGGTTAAGCCCGAA
**
88740973 GGCATTTGTGCGAGTT
64 GGCATTTACGCGAGTT
* *
88740989 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGCTAAGTCCCGAAGGCATTTATACGAGTTACTAAATCCGGGTTAAG-CCCGAAG
88741054 GCATTTACGCGAGTT
65 GCATTTACGCGAGTT
*
88741069 ACTATAA-CCGGGCTATGTCCCGAAGGC
1 ACTA-AATCCGGGCTAAGTCCCGAAGGC
88741096 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 46 0.49
80 45 0.48
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGCTAAGTCCCGAAGGCATTTATACGAGTTACTAAATCCGGGTTAAGCCCGAAGG
CATTTACGCGAGTT
Found at i:88741122 original size:119 final size:119
Alignment explanation
Indices: 88740876--88741123 Score: 281
Period size: 119 Copynumber: 2.1 Consensus size: 119
88740866 TCGAATGATG
* * *
88740876 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTATGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
** * **
88740941 GTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 ACGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * **
88740995 TCCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTATGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
88741058 TTACGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGCTATA
64 TTACGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
88741115 TCC-GGTTAA
1 TCCGGGTTAA
88741124 ATGCTGAAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.70
120 30 0.28
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTATGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
ACGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:88744776 original size:35 final size:35
Alignment explanation
Indices: 88744732--88744852 Score: 109
Period size: 35 Copynumber: 3.5 Consensus size: 35
88744722 CAAAGTTCAT
*
88744732 TATATCATCACATATGGCCGAATATACAAGTTAGA
1 TATAACATCACATATGGCCGAATATACAAGTTAGA
* * * * * * *
88744767 GAGAACATCACATGTAGCCAAATTTACAAATTCA-A
1 TATAACATCACATATGGCCGAATATACAAGTT-AGA
* ** * *
88744802 TATATCATCACATATGGTTGAAAATAAAAGTTAGA
1 TATAACATCACATATGGCCGAATATACAAGTTAGA
88744837 TATAACATCACATATG
1 TATAACATCACATATG
88744853 TACATACCTA
Statistics
Matches: 63, Mismatches: 21, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
34 1 0.02
35 61 0.97
36 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (35 bp):
TATAACATCACATATGGCCGAATATACAAGTTAGA
Found at i:88751627 original size:13 final size:13
Alignment explanation
Indices: 88751609--88751635 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88751599 AACAATGCCA
88751609 GACACGGCCGTGT
1 GACACGGCCGTGT
88751622 GACACGGCCGTGT
1 GACACGGCCGTGT
88751635 G
1 G
88751636 CACCCTCACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.41, T:0.15
Consensus pattern (13 bp):
GACACGGCCGTGT
Found at i:88758376 original size:2 final size:2
Alignment explanation
Indices: 88758369--88758399 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
88758359 CATAAGCATC
*
88758369 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88758400 CACTTTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:88759446 original size:35 final size:35
Alignment explanation
Indices: 88759303--88759447 Score: 123
Period size: 35 Copynumber: 4.1 Consensus size: 35
88759293 TACTTACATG
* *
88759303 TATGGCCAAATATACAAGGTTCATTATATCATCACA
1 TATGGCCAAATATACAA-GTTCAATATAACATCACA
* ** *
88759339 TATGGACGGATATACAAGTT-AGATAGAACATCACA
1 TATGGCCAAATATACAAGTTCA-ATATAACATCACA
*** * * * *
88759374 TGCAGCTAAATTTACAAATTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATAACATCACA
*
88759409 TATGGCCGAATATACAAGTT-AGATATAACATCACA
1 TATGGCCAAATATACAAGTTCA-ATATAACATCACA
88759444 TATG
1 TATG
88759448 TACATACCTA
Statistics
Matches: 81, Mismatches: 25, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
34 2 0.02
35 64 0.79
36 15 0.19
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATAACATCACA
Found at i:88763051 original size:2 final size:2
Alignment explanation
Indices: 88763044--88763072 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
88763034 AGATCATCTC
88763044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88763073 CACAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88764110 original size:59 final size:61
Alignment explanation
Indices: 88764039--88764155 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
88764029 ATAATTTTAA
* * * * **
88764039 TATTAAATTAATATAATATTTA-T-CGAGATAAATATTTGATTAAATTTAATATTAAATCG
1 TATTAAAATAATAGAATATTTACTACAAGATAAAAATTAAATTAAATTTAATATTAAATCG
88764098 TATTAAAATAATAGAATATTTATCTACAAGATAAAAATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAAAATTAAATTAAATTTAATATTAA
88764156 GATAATCATT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
61 1 0.02
62 28 0.57
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAAAATTAAATTAAATTTAATATTAAATCG
Found at i:88764181 original size:20 final size:18
Alignment explanation
Indices: 88764134--88764182 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
88764124 CAAGATAAAA
88764134 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
88764151 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
88764171 ATTAAATTAATA
1 ATTAAATTAATA
88764183 AAATATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:88766456 original size:40 final size:39
Alignment explanation
Indices: 88766390--88766540 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
88766380 AAATTGAATG
* * *
88766390 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
88766429 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
88766469 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
88766509 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
88766541 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:88766554 original size:40 final size:39
Alignment explanation
Indices: 88766427--88766556 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
88766417 ATGCTGGAAA
* *
88766427 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
88766467 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
88766507 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
88766547 TTATATCCGG
1 TTATATCCGG
88766557 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:88771479 original size:93 final size:93
Alignment explanation
Indices: 88771367--88771537 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
88771357 GCCCATAAGT
* *
88771367 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88771432 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
88771460 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88771525 CGAGTTCGGATGC
66 CGAGTTCGGATGC
88771538 AAACCATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88771534 original size:46 final size:46
Alignment explanation
Indices: 88771359--88771534 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
88771349 TGTAACCCGC
* * *
88771359 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
88771405 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
88771455 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
88771498 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
88771535 TGCAAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:88773951 original size:15 final size:15
Alignment explanation
Indices: 88773903--88773972 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
88773893 CAAAGATAAC
*
88773903 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
88773917 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
88773932 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
88773947 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
88773962 AAGAGATCCAG
1 AAGAAATCCAG
88773973 GAAAGAAACC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
14 9 0.19
15 37 0.79
16 1 0.02
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:88777049 original size:93 final size:93
Alignment explanation
Indices: 88776937--88777107 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
88776927 GCCCATAAGT
* *
88776937 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88777002 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
88777030 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88777095 CGAGTTCGGATGC
66 CGAGTTCGGATGC
88777108 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88777123 original size:46 final size:46
Alignment explanation
Indices: 88776929--88777109 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
88776919 TGTAACCCGC
* * *
88776929 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
88776975 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
88777025 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
88777068 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
88777110 AACCATCCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:88782856 original size:25 final size:25
Alignment explanation
Indices: 88782828--88782889 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
88782818 CAGCTCTTAT
*
88782828 GAGCTTTCCGTTATTTAGCTTAGAG
1 GAGCTTTCCGTTATTTAACTTAGAG
*
88782853 GAGCTTAT-CGTTATTTAACTTGGAG
1 GAGCTT-TCCGTTATTTAACTTAGAG
*
88782878 GAGCTTACCGTT
1 GAGCTTTCCGTT
88782890 TATAGCTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (25 bp):
GAGCTTTCCGTTATTTAACTTAGAG
Found at i:88784086 original size:30 final size:30
Alignment explanation
Indices: 88784047--88784118 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
88784037 GCATATGTCT
*
88784047 CAGCCGTGTGTCACACACGGCTAAGTGACA
1 CAGCCGTGTGTCACACACGGCCAAGTGACA
* * * *
88784077 CAGCTGTGTGTGACATACGGCCAGGTGACA
1 CAGCCGTGTGTCACACACGGCCAAGTGACA
* *
88784107 CGGTCGTGTGTC
1 CAGCCGTGTGTC
88784119 CCCTATATCT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (30 bp):
CAGCCGTGTGTCACACACGGCCAAGTGACA
Found at i:88794852 original size:18 final size:19
Alignment explanation
Indices: 88794829--88794866 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
88794819 TCAAATTGAG
*
88794829 TTATTTGAGT-TACTCGAA
1 TTATTTGAGTCAACTCGAA
88794847 TTATTTGAGTCAACTCGAA
1 TTATTTGAGTCAACTCGAA
88794866 T
1 T
88794867 AAGAAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (19 bp):
TTATTTGAGTCAACTCGAA
Found at i:88795039 original size:20 final size:20
Alignment explanation
Indices: 88795016--88795058 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
88795006 AAAAATTACA
*
88795016 AAAAAATCAAAGTAATTTTT
1 AAAAAATCAAAATAATTTTT
** *
88795036 AAAATTTGAAAATAATTTTT
1 AAAAAATCAAAATAATTTTT
88795056 AAA
1 AAA
88795059 TTCAAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTT
Found at i:88795712 original size:31 final size:31
Alignment explanation
Indices: 88795689--88795759 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 31
88795679 TATTGAATTC
88795689 TTTTT-ATATGT-TTTTTAATATTATTAAAA
1 TTTTTAATATGTGTTTTTAATATTATTAAAA
* *
88795718 TTTTTAATATGTGTTTTTATAAATTTATTTAAA
1 TTTTTAATATGTGTTTTTA-ATA-TTATTAAAA
88795751 TATTTTAAT
1 T-TTTTAAT
88795760 TAACTAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 5 0.14
30 6 0.17
31 6 0.17
32 2 0.06
33 9 0.26
34 7 0.20
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (31 bp):
TTTTTAATATGTGTTTTTAATATTATTAAAA
Found at i:88797630 original size:26 final size:26
Alignment explanation
Indices: 88797589--88797646 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
88797579 TATTTTCTTG
*
88797589 AAATTTGACCAGGGGTAAAATCGTCA
1 AAATTTGACCAAGGGTAAAATCGTCA
88797615 AAGATTT-ACCAAGGGTAAAATCGTCA
1 AA-ATTTGACCAAGGGTAAAATCGTCA
88797641 AAATTT
1 AAATTT
88797647 TGATAGGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 4 0.13
26 22 0.73
27 4 0.13
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (26 bp):
AAATTTGACCAAGGGTAAAATCGTCA
Found at i:88800146 original size:15 final size:15
Alignment explanation
Indices: 88800113--88800146 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
88800103 CTTATTAATT
* *
88800113 TTAATTAAATTTTAC
1 TTAATTAAATGTTAA
88800128 TTAATTAAATGTTAA
1 TTAATTAAATGTTAA
88800143 TTAA
1 TTAA
88800147 ATAATTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAATTAAATGTTAA
Found at i:88800621 original size:19 final size:18
Alignment explanation
Indices: 88800582--88800621 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
88800572 AGAATGATGT
*
88800582 AATTGAGATCAATTTTAA
1 AATTGAGATCAAATTTAA
*
88800600 AATTGAAGATCAAATTTGA
1 AATTG-AGATCAAATTTAA
88800619 AAT
1 AAT
88800622 ATATGACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (18 bp):
AATTGAGATCAAATTTAA
Found at i:88801326 original size:19 final size:19
Alignment explanation
Indices: 88801283--88801331 Score: 63
Period size: 14 Copynumber: 2.8 Consensus size: 19
88801273 TGATATAATC
88801283 GCATACTTACAAAACAATT
1 GCATACTTACAAAACAATT
88801302 G----C-TACAAAACAATT
1 GCATACTTACAAAACAATT
88801316 GCATACTTACAAAACA
1 GCATACTTACAAAACA
88801332 TGATAGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
14 13 0.52
15 1 0.04
18 1 0.04
19 10 0.40
ACGTcount: A:0.49, C:0.22, G:0.06, T:0.22
Consensus pattern (19 bp):
GCATACTTACAAAACAATT
Found at i:88805946 original size:20 final size:20
Alignment explanation
Indices: 88805903--88805940 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
88805893 AGGGCATAAA
88805903 TACTGTTTATATGGATGAAG
1 TACTGTTTATATGGATGAAG
*
88805923 TACTGTTTATGTGGATGA
1 TACTGTTTATATGGATGA
88805941 GCTACTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (20 bp):
TACTGTTTATATGGATGAAG
Found at i:88821647 original size:53 final size:54
Alignment explanation
Indices: 88821579--88821786 Score: 222
Period size: 53 Copynumber: 3.9 Consensus size: 54
88821569 TTTCCTTTTT
* * ** * *
88821579 GAACTTACCATTGCCATATCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
88821632 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* ** * * *
88821686 GTAACTCATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTTCCTTGTA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
88821741 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
88821787 ATCTTACCAA
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.33
54 41 0.32
55 42 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:88821715 original size:55 final size:54
Alignment explanation
Indices: 88821598--88821778 Score: 215
Period size: 55 Copynumber: 3.4 Consensus size: 54
88821588 ATTGCCATAT
* *
88821598 CTTGACATGGTCTTACGTGGTATCC-TTGCCTTAT-GAACTCACCAATGCCATGC
1 CTTGACATGGTCTTACATGGTA-CCTTTGCCTTATAGAACTCATCAATGCCATGC
* * *
88821651 CTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGT
1 CTTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAATGCCATGC
* * * * *
88821706 ATTGACATGGTCTTACATGATTTCCTTT-CCTTGTAGAACTTATCAATGCCATGC
1 CTTGACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCATCAATGCCATGC
*
88821760 CTTGGCATGGTCTTACATG
1 CTTGACATGGTCTTACATG
88821779 ATATCCTTAT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 28 0.26
54 34 0.31
55 40 0.37
56 5 0.05
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (54 bp):
CTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATGCCATGC
Found at i:88821769 original size:54 final size:54
Alignment explanation
Indices: 88821569--88821786 Score: 224
Period size: 54 Copynumber: 4.0 Consensus size: 54
88821559 CTCGGAACCT
* * * * ** * *
88821569 TTTCCTTTTTGAACTTACCATTGCCATATCTTGACATGGTCTTACGTGGTATCC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* * **
88821623 TTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* ** *
88821675 TTTGCCTTATAGTAACTCATCAATGCCATGTATTGACATGGTCTTACATGATTTCC
1 TTT-CCTTATAG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* * * *
88821731 TTTCCTTGTAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
88821785 TT
1 TT
88821787 ATCTTACCAA
Statistics
Matches: 137, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 40 0.29
54 48 0.35
55 40 0.29
56 5 0.04
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC
Found at i:88821914 original size:33 final size:33
Alignment explanation
Indices: 88821852--88821914 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
88821842 GCCAATGCCA
** *
88821852 CATCTTGATGTGGTCTTACATGGAGTCCTTAAT
1 CATCTTGACATGGTCTTACAGGGAGTCCTTAAT
88821885 CATCTTGACATGGTCTTACACGGGA-TCCTT
1 CATCTTGACATGGTCTTACA-GGGAGTCCTT
88821915 GCCTTACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (33 bp):
CATCTTGACATGGTCTTACAGGGAGTCCTTAAT
Found at i:88821945 original size:78 final size:79
Alignment explanation
Indices: 88821811--88821961 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 79
88821801 CATGTTCCAA
* * **
88821811 ACATGGTTGTACACGGTATCCTTGTCTTAGTGCCAATGCCACATCTTGATGTGGTCTTACATGG-
1 ACATGGTTGTACACGGGATCCTTGCCTTA--GCCAATGCCACATCTTGACATGGTCTTACATGGT
88821875 AGTCCTTAATCATCTTG
64 A-TCCTTAATCATCTTG
**
88821892 ACATGGTCT-TACACGGGATCCTTGCCTTA-CCAATGCCATGTCTTGACATGGTCTTACATGGTA
1 ACATGGT-TGTACACGGGATCCTTGCCTTAGCCAATGCCACATCTTGACATGGTCTTACATGGTA
88821955 TCCTTAA
65 TCCTTAA
88821962 CTGTCAATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
78 35 0.56
79 1 0.02
81 25 0.40
82 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (79 bp):
ACATGGTTGTACACGGGATCCTTGCCTTAGCCAATGCCACATCTTGACATGGTCTTACATGGTAT
CCTTAATCATCTTG
Found at i:88822632 original size:30 final size:31
Alignment explanation
Indices: 88822589--88822646 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
88822579 CTAACCCAAA
88822589 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
* *
88822620 CTTT-GCAGAATTACAATTTTTCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
88822647 GGCTCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:88828386 original size:24 final size:25
Alignment explanation
Indices: 88828355--88828401 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
88828345 TTATAATATG
* *
88828355 AAAATGACCGTT-TTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
88828379 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
88828402 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:88828470 original size:20 final size:20
Alignment explanation
Indices: 88828445--88828503 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
88828435 TAAATATGGT
88828445 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
88828465 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
88828485 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
88828504 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:88828581 original size:24 final size:24
Alignment explanation
Indices: 88828554--88828696 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
88828544 GAGGAAGTGA
88828554 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
88828578 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
88828602 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
88828625 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
88828649 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATC
*
88828673 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
88828697 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 24 0.22
24 76 0.68
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:88828647 original size:47 final size:47
Alignment explanation
Indices: 88828554--88828696 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 47
88828544 GAGGAAGTGA
88828554 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
88828602 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
88828649 GAAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTAT-GCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
88828697 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 1 0.01
47 42 0.48
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:88828670 original size:71 final size:72
Alignment explanation
Indices: 88828554--88828697 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
88828544 GAGGAAGTGA
*
88828554 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
88828617 CCAGTTAT
65 CCAGTTAT
** *
88828625 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAT-GCCCCAGTTATCAAAAGAGGCTAGGCCT
88828689 CCAGTTAT
65 CCAGTTAT
88828697 A
1 A
88828698 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
70 1 0.02
71 53 0.80
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:88828923 original size:31 final size:31
Alignment explanation
Indices: 88828888--88828951 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
88828878 TGTTTACAGT
88828888 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
88828919 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
88828950 AA
1 AA
88828952 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:88832288 original size:53 final size:53
Alignment explanation
Indices: 88832219--88832427 Score: 186
Period size: 53 Copynumber: 3.9 Consensus size: 53
88832209 TTTTCCTTTT
* * * * * *
88832219 TGAACTTACCATTGCCATGTCTTGATATGGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* * **
88832272 TGAACTCACCAATGCCAAGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTA
* ** * * *
88832325 TTGTAACTCATCAATGCCATGTATTGACGTGGGCTTACATGATTTCCTTGCCTTA
1 -TG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* * * * *
88832380 TATAACTTATCATTGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 T-GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
88832428 ATCTTACCAA
Statistics
Matches: 124, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.34
54 40 0.32
55 38 0.31
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
Found at i:88833279 original size:30 final size:29
Alignment explanation
Indices: 88833240--88833299 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
88833230 TCCCTAACTC
*
88833240 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACCTTTGCAAAATTAC-ATTTTGCCCCT
88833270 AAACCTTTGCAAAATTACATTTTGCCCCT
1 AAACCTTTGCAAAATTACATTTTGCCCCT
88833299 A
1 A
88833300 GGCTCGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (29 bp):
AAACCTTTGCAAAATTACATTTTGCCCCT
Found at i:88839411 original size:30 final size:30
Alignment explanation
Indices: 88839377--88839437 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
88839367 TCCTTAACTC
88839377 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
88839407 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
88839437 A
1 A
88839438 GGCTTGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:88840636 original size:6 final size:6
Alignment explanation
Indices: 88840625--88840649 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
88840615 TAAGGCCCAC
88840625 ACTGAT ACTGAT ACTGAT ACTGAT A
1 ACTGAT ACTGAT ACTGAT ACTGAT A
88840650 TTGTAATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (6 bp):
ACTGAT
Found at i:88841314 original size:15 final size:15
Alignment explanation
Indices: 88841294--88841325 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
88841284 AGAGCCAAGT
88841294 TGTAAAATTCAGCTG
1 TGTAAAATTCAGCTG
*
88841309 TGTAAAATTCGGCTG
1 TGTAAAATTCAGCTG
88841324 TG
1 TG
88841326 GATTTGGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (15 bp):
TGTAAAATTCAGCTG
Found at i:88843874 original size:30 final size:30
Alignment explanation
Indices: 88843834--88843902 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
88843824 ATTAGAGATT
88843834 CAAA-GTTTTCTGGGTTTGGCAGGGTATTA
1 CAAACGTTTTCTGGGTTTGGCAGGGTATTA
*
88843863 TAAACGTTTTCTGGGTTTGGCAGGGTATTA
1 CAAACGTTTTCTGGGTTTGGCAGGGTATTA
*
88843893 CAGACGTTTT
1 CAAACGTTTT
88843903 GTGGAGGGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (30 bp):
CAAACGTTTTCTGGGTTTGGCAGGGTATTA
Found at i:88847783 original size:40 final size:40
Alignment explanation
Indices: 88847713--88847928 Score: 312
Period size: 40 Copynumber: 5.4 Consensus size: 40
88847703 AAACCAAGTA
* *
88847713 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
88847752 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88847792 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
88847832 CCTTCGGGACTTAGCCCAGATATAGTAACTTGCACTAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
88847872 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
88847912 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
88847929 AGTTACCATC
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 14 0.09
40 150 0.91
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88849337 original size:38 final size:38
Alignment explanation
Indices: 88849285--88849388 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
88849275 TCATGCACTA
*
88849285 GGCCGTAGCCCTTTTCATATTTCATATTTCATAATACTG
1 GGCCGAAG-CCTTTTCATATTTCATATTTCATAATACTG
*
88849324 GGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTG
1 GGCCGAAGCCTTTTCATATTTCATATTTCATAATACTG
88849362 GGCCGAAGCCTTTTCATATTTCATATT
1 GGCCGAAGCCTTTTCATATTTCATATT
88849389 ACTGGGACGA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
38 55 0.89
39 7 0.11
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (38 bp):
GGCCGAAGCCTTTTCATATTTCATATTTCATAATACTG
Found at i:88849346 original size:31 final size:31
Alignment explanation
Indices: 88849304--88849405 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
88849294 CCTTTTCATA
88849304 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
88849341 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
88849373 TTTCATATTTCATATTACTGGGACGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
88849404 TT
1 TT
88849406 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
31 31 0.50
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.45
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:88849642 original size:24 final size:24
Alignment explanation
Indices: 88849596--88849667 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
88849586 GCTTTATCAT
*
88849596 ATAACTGGAGGCC-TAGCCTCTTTTA
1 ATAACTGG-GGCCAAAGCC-CTTTTA
*
88849621 ATAACTGGGGCCAAAGCCCTTTCA
1 ATAACTGGGGCCAAAGCCCTTTTA
88849645 ATAACTGGGG-CATAAGCCCTTTT
1 ATAACTGGGGCCA-AAGCCCTTTT
88849668 TCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.05
24 28 0.67
25 12 0.29
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCCAAAGCCCTTTTA
Found at i:88849743 original size:20 final size:20
Alignment explanation
Indices: 88849718--88849777 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
88849708 TATGATTACC
88849718 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
88849738 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
88849758 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
88849778 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:88857506 original size:38 final size:37
Alignment explanation
Indices: 88857464--88857570 Score: 169
Period size: 38 Copynumber: 2.8 Consensus size: 37
88857454 TCAATCATGC
*
88857464 ACTGGGCCGTAGCCCTTTTCATATTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTCATATTTCATAAT
*
88857502 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCAT-ATTCATATTTCATAAT
88857540 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATA-TTCATATT
88857571 ACTGGGCCGA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
37 9 0.14
38 55 0.86
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (37 bp):
ACTGGGCCGAAGCCTTTTCATATTCATATTTCATAAT
Found at i:88857528 original size:31 final size:31
Alignment explanation
Indices: 88857487--88857587 Score: 130
Period size: 31 Copynumber: 3.0 Consensus size: 31
88857477 CCTTTTCATA
88857487 TTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGT
1 TTCATATTTCATAATACTGGGCCGAAG-C----C-T-T
88857525 TTCATATTTCATAATACTGGGCCGAAGCCTT
1 TTCATATTTCATAATACTGGGCCGAAGCCTT
*
88857556 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAATACTGGGCCGAAGCCTT
88857587 T
1 T
88857588 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
31 32 0.52
32 1 0.02
33 1 0.02
37 1 0.02
38 27 0.44
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTCATATTTCATAATACTGGGCCGAAGCCTT
Found at i:88857824 original size:24 final size:24
Alignment explanation
Indices: 88857778--88857849 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
88857768 GCTTTATCAT
*
88857778 ATAACTGGAGGCC-TAGCCTCTTTTA
1 ATAACTGG-GGCCAAAGCC-CTTTTA
*
88857803 ATAACTGGGGCCAAAGCCCTTTCA
1 ATAACTGGGGCCAAAGCCCTTTTA
88857827 ATAACTGGGG-CATAAGCCCTTTT
1 ATAACTGGGGCCA-AAGCCCTTTT
88857850 TCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.05
24 28 0.67
25 12 0.29
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCCAAAGCCCTTTTA
Found at i:88857933 original size:19 final size:20
Alignment explanation
Indices: 88857900--88857958 Score: 102
Period size: 19 Copynumber: 3.0 Consensus size: 20
88857890 TATGATTACC
88857900 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
88857920 TCATGTGC-TATCATACATT
1 TCATGTGCATATCATACATA
88857939 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
88857959 CCATATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:88858033 original size:25 final size:25
Alignment explanation
Indices: 88858001--88858048 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88857991 ATACATAAAC
* * *
88858001 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
88858026 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
88858049 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:88861262 original size:28 final size:28
Alignment explanation
Indices: 88861230--88861293 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
88861220 CGAGCGTGTG
88861230 GGCCCATTTGGGCCGAGAATAGGCTTTA
1 GGCCCATTTGGGCCGAGAATAGGCTTTA
88861258 GGCCCATTTGGGCCGAGAATAGGCTTTA
1 GGCCCATTTGGGCCGAGAATAGGCTTTA
88861286 GGCCCATT
1 GGCCCATT
88861294 CGTATTGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.25
Consensus pattern (28 bp):
GGCCCATTTGGGCCGAGAATAGGCTTTA
Done.