Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 99 of 433
Found at i:30193117 original size:10 final size:11
Alignment explanation
Indices: 30193091--30193116 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30193081 TGTTTTTATA
30193091 TTTTTATGTTT
1 TTTTTATGTTT
30193102 TTTTTATGTTT
1 TTTTTATGTTT
30193113 TTTT
1 TTTT
30193117 AACCTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTTATGTTT
Found at i:30194719 original size:42 final size:42
Alignment explanation
Indices: 30194634--30194767 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
30194624 CTTCGTTTAC
** * ** *
30194634 TCAATGTCATAGTTCAACTATGGTCTTACACATCTTCATATA
1 TCAATGTCATAGCCCAACTATGGTCTTACACGTAATCACATA
30194676 TCAATGTCATAGCCCAACTATGGTCTTACACGTAATCACATA
1 TCAATGTCATAGCCCAACTATGGTCTTACACGTAATCACATA
**
30194718 TCACATATCGATGCCATAGCCCAGTTATGGTCTTACACG-AATCACATA
1 T--CA-AT-G-T--CATAGCCCAACTATGGTCTTACACGTAATCACATA
30194766 TC
1 TC
30194768 TCACTGATGC
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
42 37 0.48
44 2 0.03
45 2 0.03
46 2 0.03
47 1 0.01
48 10 0.13
49 23 0.30
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (42 bp):
TCAATGTCATAGCCCAACTATGGTCTTACACGTAATCACATA
Found at i:30194736 original size:49 final size:48
Alignment explanation
Indices: 30194673--30194767 Score: 145
Period size: 49 Copynumber: 2.0 Consensus size: 48
30194663 ACATCTTCAT
*
30194673 ATATCAATGTCATAGCCCAACTATGGTCTTACACGTAATCACATATCAC
1 ATATCAATGCCATAGCCCAACTATGGTCTTACACG-AATCACATATCAC
* **
30194722 ATATCGATGCCATAGCCCAGTTATGGTCTTACACGAATCACATATC
1 ATATCAATGCCATAGCCCAACTATGGTCTTACACGAATCACATATC
30194768 TCACTGATGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 11 0.26
49 31 0.74
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (48 bp):
ATATCAATGCCATAGCCCAACTATGGTCTTACACGAATCACATATCAC
Found at i:30194813 original size:46 final size:47
Alignment explanation
Indices: 30194694--30194851 Score: 169
Period size: 46 Copynumber: 3.4 Consensus size: 47
30194684 ATAGCCCAAC
* * * * *
30194694 TATGGTCTTACAC-GTAATCACATATCACATATCGATGCCATAGCCCAGT
1 TATGGTCTTATACAG-AAGCACATATCACA-CT-GATGCCATATCCCAGA
* * *
30194743 TATGGTCTTACAC-GAATCACATATCTCACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGAAGCACATATCACACTGATGCCATATCCCAGA
* * *
30194789 TAT-GTCTTATACAGTAGCATATATCACACTGATGTCATATCCCAGA
1 TATGGTCTTATACAGAAGCACATATCACACTGATGCCATATCCCAGA
30194835 TATGGTCTTATACAGAA
1 TATGGTCTTATACAGAA
30194852 ATCACTTGTC
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
45 8 0.08
46 48 0.50
47 13 0.14
48 13 0.14
49 14 0.15
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (47 bp):
TATGGTCTTATACAGAAGCACATATCACACTGATGCCATATCCCAGA
Found at i:30194901 original size:31 final size:31
Alignment explanation
Indices: 30194866--30195014 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
30194856 CTTGTCACTT
* *
30194866 GTAGCCGAAGCTACCACTATTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
30194897 GTAGCTGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
30194928 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
30194959 GTAGCAGAAACTACTACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
30194990 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
30195015 TGTCATTTGT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:30195089 original size:50 final size:51
Alignment explanation
Indices: 30194990--30195118 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
30194980 CACTGATCAG
* * *
30194990 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
30195041 GTAGCCGAAGCTATTACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
30195091 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
30195119 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:30195534 original size:77 final size:77
Alignment explanation
Indices: 30195446--30195600 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
30195436 TCATTCATAT
30195446 ATTTTTCCTCATCCTCCTCTCTATCCACATCCTTGGTATAAATAACATACTTGTAAGTAACCTTA
1 ATTTTTCCTCATCCTCCTCTCTATCCACATCCTTGGTATAAATAACATACTTGTAAGTAACCTTA
30195511 TCCATAATTTTC
66 TCCATAATTTTC
30195523 ATTTTTCCTCATCCTCCTCTCTATCCACATCCTTGGTATAAATAACATACTTGTAAGTAACCTTA
1 ATTTTTCCTCATCCTCCTCTCTATCCACATCCTTGGTATAAATAACATACTTGTAAGTAACCTTA
30195588 TCCATAATTTTC
66 TCCATAATTTTC
30195600 A
1 A
30195601 CTAATTACTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.28, C:0.27, G:0.05, T:0.40
Consensus pattern (77 bp):
ATTTTTCCTCATCCTCCTCTCTATCCACATCCTTGGTATAAATAACATACTTGTAAGTAACCTTA
TCCATAATTTTC
Found at i:30208520 original size:84 final size:83
Alignment explanation
Indices: 30208404--30208569 Score: 219
Period size: 84 Copynumber: 2.0 Consensus size: 83
30208394 AATAATTCAT
* * *
30208404 AAATATATCTTTTAATTCATATTTTTAATTAATAACTCTTTTATTTATATAAATAA-AATAATAA
1 AAATATATCTTTTAATTAATATTTTTAATTAATAAATCTTTTATTTATATAAATAATAAAAATAA
30208468 ATATGTAATTATATAATAA
66 AT-TGTAATTATATAATAA
* *
30208487 AAATATATTTTTTATATATAATA-TTTTAATTAATAAATCTTTTATTTATATATATAATAAAAAT
1 AAATATATCTTTTA-AT-TAATATTTTTAATTAATAAATCTTTTATTTATATAAATAATAAAAAT
* * *
30208551 TAATTTTAATTTTATAATA
64 AAATTGTAATTATATAATA
30208570 TTAGAATTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
83 13 0.18
84 47 0.65
85 12 0.17
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (83 bp):
AAATATATCTTTTAATTAATATTTTTAATTAATAAATCTTTTATTTATATAAATAATAAAAATAA
ATTGTAATTATATAATAA
Found at i:30211660 original size:2 final size:2
Alignment explanation
Indices: 30211653--30211677 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30211643 TAATTATCTA
30211653 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 A
30211678 GGTTTGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30211999 original size:22 final size:22
Alignment explanation
Indices: 30211973--30212014 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30211963 TCACTACAGC
30211973 ATACATTCTTGACTCACATAAT
1 ATACATTCTTGACTCACATAAT
* *
30211995 ATACATTCTTGCCTCGCATA
1 ATACATTCTTGACTCACATA
30212015 GTACACTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (22 bp):
ATACATTCTTGACTCACATAAT
Found at i:30212100 original size:22 final size:22
Alignment explanation
Indices: 30212078--30212166 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
30212068 CATGTAGTAT
* * *
30212078 ACATTCTTGAATCGCATAATAT
1 ACATACTTGACTCGCATAATAC
* * * *
30212100 ACATTCTTGCCTCCCATAGTAC
1 ACATACTTGACTCGCATAATAC
*
30212122 ACATACTTGACTTGCATAATAC
1 ACATACTTGACTCGCATAATAC
**
30212144 ACATACTTGACTCATATAATAC
1 ACATACTTGACTCGCATAATAC
30212166 A
1 A
30212167 ATGGTTCGCA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.33
Consensus pattern (22 bp):
ACATACTTGACTCGCATAATAC
Found at i:30212204 original size:125 final size:125
Alignment explanation
Indices: 30211973--30212267 Score: 322
Period size: 125 Copynumber: 2.4 Consensus size: 125
30211963 TCACTACAGC
* * * * * **
30211973 ATACATTCTTGACTCACATAATATACATTCTTGCCTCGCATAGTACACTTACTTGACTTGCATAA
1 ATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATACACATACTTGACTCACATAA
* * *
30212038 TACAGTGGTTTGCATGTAATTTATGACTTGCATGTAGTATACATTCTTGAATCGCATAAT
66 TACAATGGTTCGCATGTAATTTATGACTTGCATGTAATATACATTCTTGAATCGCATAAT
* * * * *
30212098 ATACATTCTTGCCTCCCATAGTACACATACTTGACTTGCATAATACACATACTTGACTCATATAA
1 ATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATACACATACTTGACTCACATAA
* * * * *
30212163 TACAATGGTTCGCATGTAATTTATGACTTGTATAG-AATATACGTTCTTGACTCTCACAAT
66 TACAATGGTTCGCATGTAATTTATGACTTGCAT-GTAATATACATTCTTGAATCGCATAAT
* * * * * * * *
30212223 ACACATGCTTGACTCGCATAACACATATGCCTAACTCGCATAATA
1 ATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATA
30212268 TAGTGGTTCG
Statistics
Matches: 138, Mismatches: 31, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
125 137 0.99
126 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (125 bp):
ATACATTCTTGACTCACATAATACACATACTTGACTCGCATAATACACATACTTGACTCACATAA
TACAATGGTTCGCATGTAATTTATGACTTGCATGTAATATACATTCTTGAATCGCATAAT
Found at i:30212252 original size:22 final size:22
Alignment explanation
Indices: 30212208--30212265 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
30212198 AATATACGTT
* * *
30212208 CTTGACTCTCACAATACACATG
1 CTTGACTCGCATAACACACATG
*
30212230 CTTGACTCGCATAACACATATG
1 CTTGACTCGCATAACACACATG
* *
30212252 CCTAACTCGCATAA
1 CTTGACTCGCATAA
30212266 TATAGTGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (22 bp):
CTTGACTCGCATAACACACATG
Found at i:30212327 original size:103 final size:103
Alignment explanation
Indices: 30212095--30212328 Score: 256
Period size: 103 Copynumber: 2.3 Consensus size: 103
30212085 TGAATCGCAT
* * * * * * * * *
30212095 AATATACATTCTTGCCTCCCATAGTACACATACTTGACTTGCATAATACACATACTTGACTCATA
1 AATATACGTTCTTGACTCTCATAATACACATACTTGACTCGCATAACACACATACCTAACTCACA
* *
30212160 TAATACAATGGTTCGCATGTAATTTATGACTTGTATAG
66 TAATACAATGGTTCGCATGTAATTTATGACTCGCATAG
* * * * *
30212198 AATATACGTTCTTGACTCTCACAATACACATGCTTGACTCGCATAACACATATGCCTAACTCGCA
1 AATATACGTTCTTGACTCTCATAATACACATACTTGACTCGCATAACACACATACCTAACTCACA
* * *
30212263 TAATATAGTGGTTCGTATGTAATTTATGACTCGCAT-G
66 TAATACAATGGTTCGCATGTAATTTATGACTCGCATAG
*
30212300 CAATATATGTTCTTGACT-TGCATAATACA
1 -AATATACGTTCTTGACTCT-CATAATACA
30212329 GTGGTTCACA
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
102 2 0.02
103 106 0.98
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (103 bp):
AATATACGTTCTTGACTCTCATAATACACATACTTGACTCGCATAACACACATACCTAACTCACA
TAATACAATGGTTCGCATGTAATTTATGACTCGCATAG
Found at i:30227966 original size:26 final size:26
Alignment explanation
Indices: 30227930--30228036 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
30227920 TGATACAAAT
30227930 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30227956 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
30227982 TG---ATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
30228005 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30228031 TGATAA
1 TGATAA
30228037 GAATTTCATG
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
23 21 0.28
26 55 0.72
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:30227995 original size:49 final size:49
Alignment explanation
Indices: 30227938--30228034 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
30227928 ATTGATAATA
30227938 GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATG
1 GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATG
* * *
30227987 GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCATGAT
1 GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGAT
30228035 AAGAATTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (49 bp):
GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATG
Found at i:30231266 original size:40 final size:40
Alignment explanation
Indices: 30231211--30231354 Score: 252
Period size: 40 Copynumber: 3.6 Consensus size: 40
30231201 ATGCCTTCGG
*
30231211 GCCTTCAGGACTTAGCCCGGATATAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAAT
*
30231251 GCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAAT
*
30231291 GCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAAT
*
30231331 GCCTTCGGGACTTAACCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
30231355 CATTCGAATA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAAT
Found at i:30239710 original size:40 final size:40
Alignment explanation
Indices: 30239597--30239819 Score: 315
Period size: 40 Copynumber: 5.6 Consensus size: 40
30239587 AACCCAAGTA
* * * *
30239597 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
* * * *
30239636 CCTTCGGGTCTTAGCCCTGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCC-GGATATAATCACTAGCACAAATG
30239677 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
*
30239717 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
*
30239757 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
*
30239797 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30239820 CATTCGAATA
Statistics
Matches: 165, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
39 12 0.07
40 121 0.73
41 31 0.19
42 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:30242225 original size:43 final size:44
Alignment explanation
Indices: 30242116--30242263 Score: 146
Period size: 43 Copynumber: 3.4 Consensus size: 44
30242106 CGGCAACATG
*
30242116 CCAGACATGGTCTTACATGT-AATCAAATATCGATGCCACTGTC
1 CCAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTGTC
* * * * *
30242159 CCAGACAGGGTCTTAGAC-AAAATCAAATA-CGATGCTGA-TTTC
1 CCAGACATGGTCTTACACGTAAATCAAATATCGATGC-CACTGTC
* *
30242201 CCAGACATGGTCTTACACGTAAATCTCAA-ATCAATGCCAAC-GTC
1 CCAGACATGGTCTTACACGTAAATC-AAATATCGATGCC-ACTGTC
*
30242245 CCAGACGTGGTCTTACACG
1 CCAGACATGGTCTTACACG
30242264 AAAACACATA
Statistics
Matches: 84, Mismatches: 14, Indels: 13
0.76 0.13 0.12
Matches are distributed among these distances:
42 25 0.30
43 31 0.37
44 28 0.33
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
CCAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTGTC
Found at i:30242511 original size:7 final size:7
Alignment explanation
Indices: 30242499--30242527 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
30242489 GACTATTCAA
30242499 CGACTTT
1 CGACTTT
30242506 CGACTTT
1 CGACTTT
30242513 CGACTTT
1 CGACTTT
30242520 CGACTTT
1 CGACTTT
30242527 C
1 C
30242528 CCTAATCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.31, G:0.14, T:0.41
Consensus pattern (7 bp):
CGACTTT
Found at i:30247139 original size:29 final size:26
Alignment explanation
Indices: 30247078--30247131 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
30247068 ATTTGAATTG
*
30247078 TGAAATTTGGACTAAATTGTGAAATT
1 TGAAATTTGGACTAAATTGTGAAATA
30247104 TGTAAATTTAGGCACTAAA-TGTGAAATA
1 TG-AAATTT-GG-ACTAAATTGTGAAATA
30247132 AATGAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.08
27 6 0.25
28 10 0.42
29 6 0.25
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.35
Consensus pattern (26 bp):
TGAAATTTGGACTAAATTGTGAAATA
Found at i:30247716 original size:43 final size:43
Alignment explanation
Indices: 30247634--30247772 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
30247624 TGTGTTTTTG
* * * *
30247634 TGTAAGACCA-GTCTGGGACGTTAGCATCG-ACTTATGATTTACC
1 TGTAAGACCACATCTGGGAAGTTGGCATCGTA-TTA-GATTTACA
* *
30247677 TGTAAGACCACATCTGGGATGTTGGCATCGTATTAGATTT-CG
1 TGTAAGACCACATCTGGGAAGTTGGCATCGTATTAGATTTACA
** *
30247719 TGTAAGACCTTATCTGGGACAG-TGGCATCGGTATTTGA-TTACA
1 TGTAAGACCACATCTGGGA-AGTTGGCATC-GTATTAGATTTACA
30247762 TGTAAGACCAC
1 TGTAAGACCAC
30247773 GGCTAAGACG
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
42 27 0.34
43 33 0.41
44 19 0.24
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGAAGTTGGCATCGTATTAGATTTACA
Found at i:30252758 original size:44 final size:42
Alignment explanation
Indices: 30252676--30252770 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
30252666 TCCTAAACAG
* * * *
30252676 GGTCTTACATGAAATTAAATACGATGTCAATGTTCCAGACAT
1 GGTCTTACAGGAAATTAAATACGATGCCAACGTCCCAGACAT
*
30252718 GGTCTTACAGGTAAATCTCAAAT-CGATGCCAACGTCCCAGACGT
1 GGTCTTACAGG-AAAT-T-AAATACGATGCCAACGTCCCAGACAT
30252762 GGTCTTACA
1 GGTCTTACA
30252771 CAAAAACATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 10 0.22
43 4 0.09
44 27 0.60
45 4 0.09
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACAGGAAATTAAATACGATGCCAACGTCCCAGACAT
Found at i:30263670 original size:28 final size:29
Alignment explanation
Indices: 30263636--30263701 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 29
30263626 GGTCAAATGT
30263636 GTAAATTTGC-AAAAAAAGTGAATTATGG
1 GTAAATTTGCAAAAAAAAGTGAATTATGG
30263664 GTAAATTTGCAAAAAAAAAGTGAATTATGG
1 GTAAATTTGC-AAAAAAAAGTGAATTATGG
30263694 GCTAAATT
1 G-TAAATT
30263702 GAATAGATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 10 0.29
30 19 0.54
31 6 0.17
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.29
Consensus pattern (29 bp):
GTAAATTTGCAAAAAAAAGTGAATTATGG
Found at i:30264078 original size:26 final size:24
Alignment explanation
Indices: 30264049--30264148 Score: 91
Period size: 24 Copynumber: 4.2 Consensus size: 24
30264039 GAACTCACCA
*
30264049 CAGCTTGTATGAGCTTATTGATATAT
1 CAGCTTGTATGAGCTTACT-AT-TAT
* *
30264075 CAGCTTGTAAGAGCTTACTATTCT
1 CAGCTTGTATGAGCTTACTATTAT
* *
30264099 CCGCTTGTATGAGCTTACT-GT-T
1 CAGCTTGTATGAGCTTACTATTAT
*
30264121 CAGCTCGTTAT-AGCTTACTATT-T
1 CAGCTTG-TATGAGCTTACTATTAT
30264144 CAGCT
1 CAGCT
30264149 CAATAGAGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
22 14 0.22
23 11 0.17
24 19 0.30
25 2 0.03
26 17 0.27
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (24 bp):
CAGCTTGTATGAGCTTACTATTAT
Found at i:30264158 original size:23 final size:22
Alignment explanation
Indices: 30264109--30264167 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
30264099 CCGCTTGTAT
**
30264109 GAGCTTACTGTTCAGCTCGTTA
1 GAGCTTACTGTTCAGCTCAATA
* *
30264131 TAGCTTACTATTTCAGCTCAATA
1 GAGCTTACT-GTTCAGCTCAATA
30264154 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
30264168 TAGCTCGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:30268728 original size:41 final size:39
Alignment explanation
Indices: 30268579--30268763 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 39
30268569 TCAAATGATG
* * * *
30268579 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* *
30268619 TCCGGACTAAGAT-CCGAAGGCATTCGTGCCAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATT-GTGCGAGTTACTAAA
*
30268659 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
*
30268699 TCCGGGTTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGG-CTAAGTCCCGAAGGCAT-TGTGCGAGTTACTA-AA
* *
30268741 -CCGGGCTACGTCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
30268764 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
39 1 0.01
40 85 0.67
41 39 0.31
42 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:30279119 original size:22 final size:19
Alignment explanation
Indices: 30279088--30279134 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
30279078 AAAAATGATA
30279088 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
30279111 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
30279130 ATTAT
1 ATTAT
30279135 CAATTTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:30279130 original size:16 final size:15
Alignment explanation
Indices: 30279090--30279131 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
30279080 AAATGATAAT
30279090 TATTAATATATAATTA
1 TATTAAT-TATAATTA
30279106 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
30279122 TATTAATTAT
1 TATTAATTAT
30279132 TATCAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:30279259 original size:22 final size:24
Alignment explanation
Indices: 30279214--30279261 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
30279204 TAATCTTTAA
30279214 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
30279238 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
30279260 TA
1 TA
30279262 GCATAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 4 0.17
24 5 0.22
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:30279503 original size:15 final size:16
Alignment explanation
Indices: 30279478--30279507 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30279468 ATTCATCTAT
30279478 CACTCAAAACCCAAAG
1 CACTCAAAACCCAAAG
30279494 CACT-AAAACCCAAA
1 CACTCAAAACCCAAA
30279508 ATGCTGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.37, G:0.03, T:0.07
Consensus pattern (16 bp):
CACTCAAAACCCAAAG
Found at i:30281776 original size:40 final size:39
Alignment explanation
Indices: 30281611--30281794 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
30281601 AAATTGAATG
* * *
30281611 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
30281651 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
30281691 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
30281731 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
30281770 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
30281795 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:30281819 original size:80 final size:81
Alignment explanation
Indices: 30281651--30281839 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
30281641 GCTGGAAATT
* * * *
30281651 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
30281716 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
30281732 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
30281795 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
30281811 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
30281840 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:30286739 original size:34 final size:34
Alignment explanation
Indices: 30286687--30286754 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
30286677 TTTGCAATAT
30286687 AATTCTTAAATAAATAATGAATTAATTATTTAAA
1 AATTCTTAAATAAATAATGAATTAATTATTTAAA
* *
30286721 AATTGTTAAATAACTAATGAATTAATTATTTAAA
1 AATTCTTAAATAAATAATGAATTAATTATTTAAA
30286755 TGGATTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (34 bp):
AATTCTTAAATAAATAATGAATTAATTATTTAAA
Found at i:30288811 original size:24 final size:23
Alignment explanation
Indices: 30288751--30288848 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 23
30288741 CTCACCATAA
*
30288751 CTCGTATGAGCTTACCGATATATCAG
1 CTCGTATGAGCTTACTG-T-T-TCAG
*
30288777 CTCGTAAGAGCTTACTGTTCTCAG
1 CTCGTATGAGCTTACTGTT-TCAG
*
30288801 CTTGTATGAGCTTACTGTTT-AG
1 CTCGTATGAGCTTACTGTTTCAG
30288823 CTCGTCA-GAGCTTACTGTTTCAG
1 CTCGT-ATGAGCTTACTGTTTCAG
30288846 CTC
1 CTC
30288849 AATATAGCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
22 19 0.30
23 7 0.11
24 22 0.34
25 1 0.02
26 15 0.23
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (23 bp):
CTCGTATGAGCTTACTGTTTCAG
Found at i:30290870 original size:5 final size:5
Alignment explanation
Indices: 30290860--30290885 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30290850 TACTTATTTT
30290860 TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA T
30290886 AATTAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:30292173 original size:20 final size:19
Alignment explanation
Indices: 30292148--30292217 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
30292138 TTATAAAAAC
30292148 ATTCAAAATAATTTTCACAA
1 ATTCAAAATAATTTTCA-AA
* *
30292168 ATTCAATATAATTTTTAAA
1 ATTCAAAATAATTTTCAAA
* *
30292187 ATTAAAAAT-ATTTATAAAA
1 ATTCAAAATAATTT-TCAAA
*
30292206 ATT-AAAAAAATT
1 ATTCAAAATAATT
30292218 CTAAAGAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
18 8 0.19
19 19 0.45
20 15 0.36
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTCAAAATAATTTTCAAA
Found at i:30296869 original size:48 final size:48
Alignment explanation
Indices: 30296752--30297230 Score: 564
Period size: 48 Copynumber: 10.0 Consensus size: 48
30296742 AAAGGGCAAG
* * * *
30296752 ATGCTGATCCCATGTTCCAAACATGGTCTTACACTAGTCTCATATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAG-CTCACATATCA
* *
30296801 ATGCCGATGCCATGTTCCAAACATGGTCTTACTCTAGCTCACATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* ** **
30296849 AGGCCGATGCCATGCCCCAAACATGGTCTTACACTAGCT-TTATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * *
30296896 ATACCGATGCCATGTTACAAACATGGTCTGACACTGGCTCACATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * *
30296944 AGGCCGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
**** *
30296992 ATTTTAATGCCATGTTCCAAGCATGGTCTTACACTAGCTCACATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * *
30297040 ATGCCGATGCCTTGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * * *
30297088 ATACCGATGCTATGTTCCAAAAATAGTCTTACACTGGCTCACATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * ** *
30297136 AGGCTGATGCCATGTCCCTGACATGGTCTTACACTAGCTCTCATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
*
30297184 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATC
30297231 CCTAGTATCA
Statistics
Matches: 352, Mismatches: 77, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
47 37 0.11
48 281 0.80
49 34 0.10
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (48 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
Found at i:30297046 original size:96 final size:96
Alignment explanation
Indices: 30296761--30297230 Score: 656
Period size: 96 Copynumber: 4.9 Consensus size: 96
30296751 GATGCTGATC
* * *
30296761 CCATGTTCCAAACATGGTCTTACACTAG-TCTCATATATCGATGCCGATGCCATGTTCCAAACAT
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTC--ATATCAATACCGATGCCATGTTCCAAACAT
*
30296825 GGTCTTACTCTAGCTCACATATCGAGGCCGATG
64 GGTCTTACACTAGCTCACATATCGAGGCCGATG
* * *
30296858 CCATGCCCCAAACATGGTCTTACACTAGCT-TTATATCAATACCGATGCCATGTTACAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAACATGG
* * *
30296922 TCTGACACTGGCTCACATATCGAGGCCGATA
66 TCTTACACTAGCTCACATATCGAGGCCGATG
* **** *
30296953 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATTTTAATGCCATGTTCCAAGCATGG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAACATGG
* *
30297018 TCTTACACTAGCTCACATATCAATGCCGATG
66 TCTTACACTAGCTCACATATCGAGGCCGATG
* * * *
30297049 CCTTGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCTATGTTCCAAAAATAG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAACATGG
* *
30297114 TCTTACACTGGCTCACATATCGAGGCTGATG
66 TCTTACACTAGCTCACATATCGAGGCCGATG
** **
30297145 CCATGTCCCTGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAACATGG
30297210 TCTTACACTAGCTCACATATC
66 TCTTACACTAGCTCACATATC
30297231 CCTAGTATCA
Statistics
Matches: 324, Mismatches: 47, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
95 84 0.26
96 212 0.65
97 27 0.08
98 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (96 bp):
CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTTCCAAACATGG
TCTTACACTAGCTCACATATCGAGGCCGATG
Found at i:30305155 original size:47 final size:47
Alignment explanation
Indices: 30305097--30305715 Score: 991
Period size: 47 Copynumber: 13.3 Consensus size: 47
30305087 ATATGAGATA
* *
30305097 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30305144 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30305191 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30305238 TATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
30305285 TATGTATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30305332 TATATATGTG---A----TAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30305372 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30305419 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
30305466 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
30305513 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
30305560 TATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
30305607 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
30305654 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30305701 TATAAATGTGATAAG
1 TATATATGTGATAAG
30305716 TCCCAAAGGG
Statistics
Matches: 534, Mismatches: 31, Indels: 14
0.92 0.05 0.02
Matches are distributed among these distances:
40 39 0.07
43 1 0.00
44 1 0.00
47 493 0.92
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:30305892 original size:37 final size:37
Alignment explanation
Indices: 30305833--30305915 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
30305823 CCGAGCTCTA
* *
30305833 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
30305870 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
30305907 AAGCCCCGA
1 AAGACCCGA
30305916 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:30308446 original size:49 final size:49
Alignment explanation
Indices: 30308286--30308473 Score: 150
Period size: 49 Copynumber: 3.8 Consensus size: 49
30308276 TCAGTATCCA
* * *
30308286 AATATGA-AGAGCCACTGGTAGGGCATATTAGTTGCAAACCA-AAATGGTAG
1 AATATGATAG-GCCACTGGTAGGGCATGTTAGTTGCTAACCAGATA-GG-AG
* ** ** *
30308336 -ATGT-ACTAGAACACTGGTAGGGCATACTAGTTGCTAACCAGGTAGGAG
1 AATATGA-TAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGATAGGAG
* * *
30308384 AATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGGCG
1 AATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGATAGGAG
** * * * *
30308433 TGTATGTTGGGCCACTGGTAGGACATGTTAGTTGTTAACCA
1 AATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCA
30308474 AGTTATGGCC
Statistics
Matches: 110, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
48 3 0.03
49 103 0.94
50 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (49 bp):
AATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGATAGGAG
Found at i:30308840 original size:48 final size:46
Alignment explanation
Indices: 30308723--30308860 Score: 190
Period size: 44 Copynumber: 3.0 Consensus size: 46
30308713 GAATTATTTA
* *
30308723 AAAAGAGTAAGTTAATATGAATTTGTATGTGATATATGTTATGTATT
1 AAAAGA-TAAGTTAATATGACTCTGTATGTGATATATGTTATGTATT
*
30308770 -AAAG-TAAGTTAATATGACTCTGTACGTGATATATGTTATGTATT
1 AAAAGATAAGTTAATATGACTCTGTATGTGATATATGTTATGTATT
* *
30308814 GAAAAGAATAAGTTAATATGACTCTGTATGTGTTAAATGTTATGTAT
1 -AAAAG-ATAAGTTAATATGACTCTGTATGTGATATATGTTATGTAT
30308861 AATTGCTGAC
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
44 37 0.46
46 8 0.10
48 36 0.44
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.41
Consensus pattern (46 bp):
AAAAGATAAGTTAATATGACTCTGTATGTGATATATGTTATGTATT
Found at i:30311124 original size:29 final size:29
Alignment explanation
Indices: 30311031--30311160 Score: 138
Period size: 29 Copynumber: 4.5 Consensus size: 29
30311021 GACAAGATTG
* * * * *
30311031 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
30311061 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
* *
30311089 GCACTAAGTGTGTGAGGTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
30311118 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
*
30311147 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
30311161 GATTCACTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
27 2 0.02
28 19 0.22
29 48 0.56
30 15 0.17
31 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:30320252 original size:39 final size:39
Alignment explanation
Indices: 30320208--30320440 Score: 403
Period size: 39 Copynumber: 6.0 Consensus size: 39
30320198 ATTATATTAT
* *
30320208 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
30320247 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
30320286 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
30320325 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
30320364 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
30320403 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
30320441 TCAGTGTCTT
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 184 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:30323723 original size:39 final size:39
Alignment explanation
Indices: 30323680--30323758 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
30323670 TAATAATGAG
*
30323680 TATGAATAGAGTGGTAGTAAATTTGTATTTTAATACTAT
1 TATGAATAGAGTGGTAGTAAACTTGTATTTTAATACTAT
30323719 TATGAATAGAGTGGTAGTAAACTTGTATTTTAATACTAT
1 TATGAATAGAGTGGTAGTAAACTTGTATTTTAATACTAT
30323758 T
1 T
30323759 GAACACGTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (39 bp):
TATGAATAGAGTGGTAGTAAACTTGTATTTTAATACTAT
Found at i:30325855 original size:19 final size:19
Alignment explanation
Indices: 30325833--30325877 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
30325823 AATTACAAAA
*
30325833 AAAAAAT-AAAATAATTTTT
1 AAAAAATCAAAAT-ATTTAT
*
30325852 AAAAATTCAAAATATTTAT
1 AAAAAATCAAAATATTTAT
30325871 AAAAAAT
1 AAAAAAT
30325878 TCTAAAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:30325876 original size:21 final size:21
Alignment explanation
Indices: 30325852--30325897 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
30325842 AATAATTTTT
*
30325852 AAAAATTC-AAA-ATATTTATA
1 AAAAATTCTAAAGA-ATATATA
30325872 AAAAATTCTAAAGAATATATA
1 AAAAATTCTAAAGAATATATA
30325893 AAAAA
1 AAAAA
30325898 AAGTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 14 0.61
22 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATTCTAAAGAATATATA
Found at i:30326600 original size:2 final size:2
Alignment explanation
Indices: 30326593--30326635 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
30326583 TCTTTTCTCT
30326593 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30326635 T
1 T
30326636 TCTATATCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30326714 original size:29 final size:30
Alignment explanation
Indices: 30326662--30326718 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30326652 CATATTTTCT
* * *
30326662 ATAATTTAATGTAATTTTATTTTTTAAATA
1 ATAATTAAAAGTAATGTTATTTTTTAAATA
30326692 ATAATTAAAAGTAATGTT-TTTTTTAAA
1 ATAATTAAAAGTAATGTTATTTTTTAAA
30326719 CCCCGGGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
ATAATTAAAAGTAATGTTATTTTTTAAATA
Found at i:30331141 original size:57 final size:57
Alignment explanation
Indices: 30331027--30331140 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 57
30331017 TTTTCAAGTC
* * * *
30331027 ATTTTCATTTTGGAGAAAATCACATTCATTTCTAAATGATTCCATTTCTCTATTTTT
1 ATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTTTT
*
30331084 ATTTTCATTTTGGAAAAAACCATATTCATTTCCAAATG-TTCCTTATTTCTCCATTTT
1 ATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTCC--ATTTCTCCATTTT
30331141 ACCATTTCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 4 0.08
57 34 0.68
58 12 0.24
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (57 bp):
ATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTTTT
Found at i:30343067 original size:71 final size:71
Alignment explanation
Indices: 30342983--30343146 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30342973 CGATTTGTCT
30342983 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30343048 CTTTCA
66 CTTTCA
30343054 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30343119 CTTTCA
66 CTTTCA
30343125 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30343147 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:30343184 original size:71 final size:70
Alignment explanation
Indices: 30342983--30343180 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
30342973 CGATTTGTCT
* * * *
30342983 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30343048 CTTTCA
65 CTTTCA
* * * *
30343054 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30343119 CTTTCA
65 CTTTCA
* *
30343125 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30343181 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:30350303 original size:39 final size:39
Alignment explanation
Indices: 30350224--30350367 Score: 166
Period size: 39 Copynumber: 3.7 Consensus size: 39
30350214 CCGCACCAAG
* * * * *
30350224 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
30350263 GCCTTCGGGTCTTAGCCCGGAT-TAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
* * *
30350302 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAA-T
*
30350342 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
30350368 ATTTCAGCAT
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 49 0.54
40 42 0.46
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAT
Found at i:30350361 original size:40 final size:39
Alignment explanation
Indices: 30350224--30350405 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 39
30350214 CCGCACCAAG
* * * * * *
30350224 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
*
30350263 GCCTTCGGGTCTTAGCCCGGAT-TAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
30350302 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAA-T
* ** *
30350342 GCCTTCGGGTCTTAACCCGGATATAA-ATTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACT-AGCACAA-T
* *
30350382 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
30350406 CATTCAATTT
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 50 0.41
40 71 0.59
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAT
Found at i:30359187 original size:31 final size:31
Alignment explanation
Indices: 30359136--30359215 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
30359126 TCAATCATGC
*
30359136 ACTGGGCCGTAGCCCTTTTCATATTTCATATT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATT
30359168 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
**
30359199 ACTGGATCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
30359216 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 34 0.76
32 11 0.24
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATT
Found at i:30359458 original size:24 final size:24
Alignment explanation
Indices: 30359407--30359573 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
30359397 GCTTTATCAT
* *
30359407 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
30359432 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
30359456 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
30359479 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
30359503 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
30359527 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
30359551 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
30359574 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:30359507 original size:71 final size:71
Alignment explanation
Indices: 30359406--30359573 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
30359396 TGCTTTATCA
*
30359406 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
30359470 AGCCCTTT
64 AGCCCTTT
* * **
30359478 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
30359543 CCCTTT
66 CCCTTT
30359549 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
30359574 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:30359648 original size:20 final size:20
Alignment explanation
Indices: 30359623--30359683 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
30359613 TTATGATTAC
30359623 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
30359643 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
30359663 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
30359683 A
1 A
30359684 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30359758 original size:25 final size:25
Alignment explanation
Indices: 30359726--30359773 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30359716 ATACATAAAC
* * *
30359726 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
30359751 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
30359774 ATATTATAAG
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:30367311 original size:31 final size:31
Alignment explanation
Indices: 30367260--30367339 Score: 142
Period size: 31 Copynumber: 2.5 Consensus size: 31
30367250 TCAATCATGC
*
30367260 ACTGGGCCGTAGCCCTTTTCATATTTCATATT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATT
30367292 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
30367323 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
30367340 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 36 0.77
32 11 0.23
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATT
Found at i:30367581 original size:24 final size:24
Alignment explanation
Indices: 30367530--30367648 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
30367520 GCTTTATCAT
*
30367530 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
30367555 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
30367579 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
30367602 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
30367626 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
30367649 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:30367609 original size:47 final size:48
Alignment explanation
Indices: 30367530--30367648 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
30367520 GCTTTATCAT
*
30367530 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
30367579 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
30367626 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
30367649 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:30367723 original size:20 final size:20
Alignment explanation
Indices: 30367698--30367758 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
30367688 TTATGATTAC
30367698 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
30367718 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
30367738 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
30367758 A
1 A
30367759 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30367833 original size:25 final size:25
Alignment explanation
Indices: 30367801--30367848 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30367791 ATACATAAAC
* * *
30367801 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
30367826 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
30367849 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:30369767 original size:40 final size:40
Alignment explanation
Indices: 30369563--30369767 Score: 254
Period size: 40 Copynumber: 5.1 Consensus size: 40
30369553 CGGAGTTTAA
** *
30369563 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30369603 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30369643 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
30369683 CCGGATTTATTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
30369723 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30369763 CCGGA
1 CCGGA
30369768 CATCATTCGA
Statistics
Matches: 146, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 4 0.03
40 131 0.90
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30371512 original size:2 final size:2
Alignment explanation
Indices: 30371505--30371542 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
30371495 TAACTCACTG
30371505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30371543 CAAGATTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30374745 original size:16 final size:16
Alignment explanation
Indices: 30374724--30374755 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30374714 AATACTTCAT
30374724 AATCTCAATTACTTAC
1 AATCTCAATTACTTAC
30374740 AATCTCAATTACTTAC
1 AATCTCAATTACTTAC
30374756 CATTGCCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (16 bp):
AATCTCAATTACTTAC
Found at i:30374943 original size:54 final size:54
Alignment explanation
Indices: 30374772--30374955 Score: 210
Period size: 54 Copynumber: 3.4 Consensus size: 54
30374762 CATGTATTGA
* * * *
30374772 CATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTAATCAATGCCATGCCTTGG
** * * * * * *
30374825 CATGGTCTTACATGGGA-CCTTTACCTTATAATAACCAATCAATACCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTGCCTTAT-AGAACTAATCAATGCCATGCCTTGG
* *
30374880 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTAATCAATGCCATGCCTTGG
30374934 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGATATCCTT
30374956 ATCTTACCAA
Statistics
Matches: 106, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
52 2 0.02
53 23 0.22
54 40 0.38
55 39 0.37
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTAATCAATGCCATGCCTTGG
Found at i:30374989 original size:47 final size:46
Alignment explanation
Indices: 30374934--30375055 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 46
30374924 CATGCCTTGG
*
30374934 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATG-TATCCTTGTCTTACCAAATGCCATGTTCCAAA
30374981 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACAT-GTATCCTTGTCTTACCAAATGCCATGTTCCAAA
30375028 CATGGTCTTACATTGTATCCTTGTCTTA
1 CATGGTCTTACA-TGTATCCTTGTCTTA
30375056 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
47 70 0.97
48 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (46 bp):
CATGGTCTTACATGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:30375089 original size:142 final size:140
Alignment explanation
Indices: 30374936--30375189 Score: 316
Period size: 142 Copynumber: 1.8 Consensus size: 140
30374926 TGCCTTGGCA
* * *
30374936 TGGTCTTACAT-GATATCCTT-ATC-TTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTA
1 TGGTCTTACATGGA-ATCCTTAATCAATACC-AATGCCATG-TCCAAACATGGTCTTACACGGGA
* *
30374998 TCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATTGTATCCTTGTCTTAGTGCCAA
63 TCCTTGCCTTACC-AATGCCATG-TCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAA
30375063 TGCCACATCTTGATG
126 TGCCACATCTTGATG
* * * ***
30375078 TGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTGACATGGTCTTACACGGGATCC
1 TGGTCTTACATGGAATCCTTAATCAATACCAATGCCATGTCCAAACATGGTCTTACACGGGATCC
***
30375143 TTGCCTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
66 TTGCCTTACCAATGCCATGTCCAAACATGGTCTTACATGGTATCCTT
30375190 AACCGTCAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
140 24 0.25
141 9 0.09
142 46 0.48
143 13 0.14
144 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (140 bp):
TGGTCTTACATGGAATCCTTAATCAATACCAATGCCATGTCCAAACATGGTCTTACACGGGATCC
TTGCCTTACCAATGCCATGTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCA
CATCTTGATG
Found at i:30384200 original size:47 final size:45
Alignment explanation
Indices: 30384096--30384311 Score: 192
Period size: 47 Copynumber: 4.7 Consensus size: 45
30384086 TATGTTTGCT
*
30384096 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTT-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CATCTCTTGAGGCC
* * *
30384140 GATG-AGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCA-TGTCCCAGACATGTCTTACACTAGCCATCTCT-T-GAGGCC
* * * *
30384187 GATGCATGTCCCAGACATGTCTTACGCTAGCCCT-TGTTTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCATCT-CTT-GAGGCC
* *
30384233 GATGCCATGTCCCAGACATGGTCTTACACT-GGC-TCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCATCTC-T--TGAGGCC
*
30384281 GAAGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
30384312 GCACAAATCA
Statistics
Matches: 139, Mismatches: 19, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
43 6 0.04
44 28 0.20
46 23 0.17
47 64 0.46
48 17 0.12
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCATCTCTTGAGGCC
Found at i:30384296 original size:94 final size:92
Alignment explanation
Indices: 30384042--30384311 Score: 300
Period size: 94 Copynumber: 2.9 Consensus size: 92
30384032 TGGGATAAAT
* * *
30384042 TGCCGATGCTATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGTTTGCTGATGCATGTCC
1 TGCCGATGC-ATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATG-TGGCCGATGCATGTCC
30384107 CAGACATGTCTTACACTAGCACAACTCTTA
63 CAGACATGTCTTACACTAGCACAACTCTTA
* * *
30384137 -GCCGATG-AGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGAGGCCGATGCATGTC
1 TGCCGATGCA-TGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GTGGCCGATGCATGTC
* * ***
30384197 CCAGACATGTCTTACGCTAGCCCTTGT-TTGGA
62 CCAGACATGTCTTACACTAGCACAACTCTT--A
*
30384229 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCA
1 TGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
30384294 GACATGTCTTACACTAGC
65 GACATGTCTTACACTAGC
30384312 GCACAAATCA
Statistics
Matches: 147, Mismatches: 16, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
90 2 0.01
91 35 0.24
92 15 0.10
93 23 0.16
94 57 0.39
95 15 0.10
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACAACTCTTA
Found at i:30387847 original size:29 final size:29
Alignment explanation
Indices: 30387813--30387917 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
30387803 TACTCGATTT
* * *
30387813 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
30387842 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
30387871 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
30387900 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
30387918 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:30387918 original size:29 final size:29
Alignment explanation
Indices: 30387872--30387940 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
30387862 CTTCGAGCTC
30387872 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
30387901 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
30387930 GCACACTTAGT
1 GCACACTTAGT
30387941 ACCAATCTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:30395797 original size:29 final size:29
Alignment explanation
Indices: 30395763--30395894 Score: 88
Period size: 29 Copynumber: 4.6 Consensus size: 29
30395753 TACTCGATTT
* * *
30395763 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
30395792 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
30395821 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
30395850 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
30395879 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30395895 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:30395855 original size:58 final size:59
Alignment explanation
Indices: 30395762--30395894 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 59
30395752 ATACTCGATT
* * * *
30395762 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGCA
* * * ** * *
30395820 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGCA
30395879 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
30395895 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 4 0.06
58 57 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGCA
Found at i:30398760 original size:45 final size:45
Alignment explanation
Indices: 30398661--30398764 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
30398651 GTAGTAATAG
* * **
30398661 TAACAGTCACAGTATTCAACACACAAAGTGCTGAATCTGTAACTG
1 TAACAGTAACAGTATTCAACACACAAAGTGCTAAATCTGTAACAA
* *
30398706 TAACGGTAACAGTATTCGACACACAAAGTG-TCAAATC-GATAACAA
1 TAACAGTAACAGTATTCAACACACAAAGTGCT-AAATCTG-TAACAA
30398751 TAACAGTAACAGTA
1 TAACAGTAACAGTA
30398765 ACAGTAGTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 2 0.04
45 48 0.96
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.22
Consensus pattern (45 bp):
TAACAGTAACAGTATTCAACACACAAAGTGCTAAATCTGTAACAA
Found at i:30399014 original size:40 final size:40
Alignment explanation
Indices: 30398970--30399056 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
30398960 AATTCATTAC
* * *
30398970 TTCAGTAATTTCACAGTTCAATGCAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
* ***
30399010 TTCAGTAACTTCACAATTCAATTCAGTATTTAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
30399050 TTCAGTA
1 TTCAGTA
30399057 TTCCATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:30399035 original size:21 final size:21
Alignment explanation
Indices: 30398970--30399037 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
30398960 AATTCATTAC
* *
30398970 TTCAGTAATTTCACAGTTCAA
1 TTCAGTAACTTCACAATTCAA
* * *
30398991 TGCAGTACACATAACAA-T--A
1 TTCAGTA-ACTTCACAATTCAA
30399010 TTCAGTAACTTCACAATTCAA
1 TTCAGTAACTTCACAATTCAA
30399031 TTCAGTA
1 TTCAGTA
30399038 TTTAAAACAA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
21 15 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAGTAACTTCACAATTCAA
Found at i:30400025 original size:25 final size:24
Alignment explanation
Indices: 30399971--30400025 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
30399961 TCGAAAATCT
*
30399971 AATAATTTAATTATTTAATTAATA
1 AATAATTTAATTAATTAATTAATA
* *
30399995 ATATAATTTAATATAATTATTTTATA
1 A-ATAATTTAAT-TAATTAATTAATA
30400021 AATAA
1 AATAA
30400026 ATTATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 14 0.54
26 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATAATTTAATTAATTAATTAATA
Found at i:30400030 original size:16 final size:17
Alignment explanation
Indices: 30400004--30400037 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
30399994 AATATAATTT
30400004 AATATAATTATTTTATA
1 AATATAATTATTTTATA
30400021 AATA-AATTATTTTATA
1 AATATAATTATTTTATA
30400037 A
1 A
30400038 CAAGTGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATAATTATTTTATA
Found at i:30400261 original size:12 final size:12
Alignment explanation
Indices: 30400246--30400270 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30400236 TTTAATTTAT
30400246 TTAATAATAATA
1 TTAATAATAATA
30400258 TTAATAATAATA
1 TTAATAATAATA
30400270 T
1 T
30400271 AAAACCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATAATAATA
Found at i:30400304 original size:20 final size:20
Alignment explanation
Indices: 30400281--30400318 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30400271 AAAACCATCA
30400281 CAATTA-ATAATTATAATAAT
1 CAATTATATAA-TATAATAAT
30400301 CAATTATATAATATAATA
1 CAATTATATAATATAATA
30400319 TATGTAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
CAATTATATAATATAATAAT
Found at i:30401431 original size:9 final size:9
Alignment explanation
Indices: 30401417--30401442 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30401407 CAAAAATCTA
30401417 AGAGAAGTT
1 AGAGAAGTT
30401426 AGAGAAGTT
1 AGAGAAGTT
30401435 AGAGAAGT
1 AGAGAAGT
30401443 AAAACAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (9 bp):
AGAGAAGTT
Found at i:30403055 original size:43 final size:43
Alignment explanation
Indices: 30403006--30403140 Score: 173
Period size: 43 Copynumber: 3.2 Consensus size: 43
30402996 CCAGATATGA
* * * ** *
30403006 TCTTACATGTTATCAAATATCGATGCCATTGTCCCAGCCAGGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAAACATGG
* *
30403049 TCTTACACGAAATCATATA-CGATGCCAATGTCCCAAACATGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAAACATGG
* *
30403091 TCTTACATGTAATCTTAGATCGATGCCAATGTCCCAAACATGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAAACATGG
30403134 TCTTACA
1 TCTTACA
30403141 CCATATCACA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 34 0.43
43 45 0.57
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
TCTTACATGTAATCATATATCGATGCCAATGTCCCAAACATGG
Found at i:30403072 original size:42 final size:42
Alignment explanation
Indices: 30403022--30403141 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 42
30403012 ATGTTATCAA
* ** *
30403022 ATAT-CGATGCCATTGTCCCAGCCAGGGTCTTACACGAAATC
1 ATATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATC
* *
30403063 ATATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATC
1 ATATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATC
* *
30403105 TTAGATCGATGCCAATGTCCCAAACATGGTCTTACAC
1 ATATA-CGATGCCAATGTCCCAAACATGGTCTTACAC
30403142 CATATCACAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 4 0.06
42 34 0.50
43 30 0.44
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
ATATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATC
Found at i:30409520 original size:24 final size:25
Alignment explanation
Indices: 30409461--30409548 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 25
30409451 GCATCCCTGA
30409461 AACAATGGAAAGGA-T-GAAAAGGAT
1 AACAATGGAAA-GACTAGAAAAGGAT
* **
30409485 AATAATAAAAAGACTAGAAAA-GAT
1 AACAATGGAAAGACTAGAAAAGGAT
* *
30409509 AACAATGGAAAG-GTTGAAAAGGAT
1 AACAATGGAAAGACTAGAAAAGGAT
* *
30409533 AGCAATGGAATGACTA
1 AACAATGGAAAGACTA
30409549 TTATATCAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
23 8 0.17
24 34 0.71
25 6 0.12
ACGTcount: A:0.55, C:0.06, G:0.24, T:0.16
Consensus pattern (25 bp):
AACAATGGAAAGACTAGAAAAGGAT
Found at i:30417283 original size:42 final size:42
Alignment explanation
Indices: 30417162--30417283 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
30417152 TACCGTACCA
* *
30417162 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCGTCTCG
1 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCATATCG
* * ** *
30417204 ATGCCAATAGCACAGCTATAGTCTTACATG-AAGTCTCATATCG
1 ATGCC-ATATCCCAAATATGGTCTTACATGTAA-TCTCATATCG
*
30417247 ATGCCATATCCCAAATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCA
30417284 GTAATCCTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACATGTAATCTCATATCG
Found at i:30418114 original size:11 final size:11
Alignment explanation
Indices: 30418098--30418150 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
30418088 TAGAAAAGTC
30418098 TTATTTTATTT
1 TTATTTTATTT
*
30418109 TTATTTT-TAT
1 TTATTTTATTT
30418119 TTACTTTGT-TTT
1 TTA-TTT-TATTT
30418131 TTATTTTATTT
1 TTATTTTATTT
*
30418142 TGATTTTAT
1 TTATTTTAT
30418151 GTTAAATTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.17
11 24 0.67
12 6 0.17
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:30430059 original size:43 final size:43
Alignment explanation
Indices: 30430011--30430100 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
30430001 CCGGCATTAC
30430011 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
30430054 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
30430097 GCCT
1 GCCT
30430101 ATAACACCCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.29, C:0.34, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:30430748 original size:46 final size:47
Alignment explanation
Indices: 30430683--30430889 Score: 253
Period size: 46 Copynumber: 4.5 Consensus size: 47
30430673 TTATCTTTGA
* * * *
30430683 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
*
30430729 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * * * **
30430775 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
* * *
30430821 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
30430867 CATG-TGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
30430890 TTGCCATGGT
Statistics
Matches: 141, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 23 0.16
46 118 0.84
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
Found at i:30430845 original size:92 final size:91
Alignment explanation
Indices: 30430688--30430889 Score: 287
Period size: 92 Copynumber: 2.2 Consensus size: 91
30430678 TTTGACATGA
* * * * *
30430688 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
** *
30430753 CATGGTCTTATTCATTTCATGTCACG
66 CATGGTCTTACACATTTCATATCACG
* *
30430779 CTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAA
1 -TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAA
* *
30430844 CCATGGTCTTACACGTTTCATATCATG
65 CCATGGTCTTACACATTTCATATCACG
30430871 TGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAAC
30430890 TTGCCATGGT
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 19 0.19
92 79 0.81
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.41
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACG
Found at i:30430896 original size:20 final size:20
Alignment explanation
Indices: 30430871--30430909 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
30430861 TCATATCATG
30430871 TGCCATGGTATCTTTCAACT
1 TGCCATGGTATCTTTCAACT
30430891 TGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAAC
30430910 CATGGTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (20 bp):
TGCCATGGTATCTTTCAACT
Found at i:30430914 original size:16 final size:17
Alignment explanation
Indices: 30430873--30430915 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
30430863 ATATCATGTG
30430873 CCATGGTATCTTTCAACTT
1 CCATGGTATCTTTCAA--T
30430892 GCCATGGTATCTTTCAA-
1 -CCATGGTATCTTTCAAT
30430909 CCATGGT
1 CCATGGT
30430916 CTTACACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
20 16 0.70
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (17 bp):
CCATGGTATCTTTCAAT
Found at i:30433118 original size:20 final size:19
Alignment explanation
Indices: 30433079--30433129 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
30433069 TTATACTAAA
30433079 TAATTAATAATAA-AATATC
1 TAATTAA-AATAATAATATC
*
30433098 TCATTAAAATAATATATATC
1 TAATTAAAATAATA-ATATC
30433118 TAATT-AAATAAT
1 TAATTAAAATAAT
30433130 CATAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 9 0.32
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATTAAAATAATAATATC
Found at i:30433643 original size:43 final size:41
Alignment explanation
Indices: 30433582--30433711 Score: 140
Period size: 43 Copynumber: 3.2 Consensus size: 41
30433572 GGGTATTACA
30433582 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACA-AT-ACCAGCACG
* *
30433625 AAGCCTGCTAGGCACGAAGGCCCGAATATAATACCAGCACT
1 AAGCCTGCTAGGCACGAAGGCCCGAATACAATACCAGCACG
* * *** * *
30433666 AGGCCTGC--GGGATTTA-TCCCGAATATAATACCAGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACAATACCAGCACG
30433704 AAGCCTGC
1 AAGCCTGC
30433712 AGGATTTAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 27 0.35
39 4 0.05
41 15 0.19
42 2 0.03
43 29 0.38
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.15
Consensus pattern (41 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACAATACCAGCACG
Found at i:30433673 original size:41 final size:43
Alignment explanation
Indices: 30433582--30433673 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
30433572 GGGTATTACA
30433582 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
* *
30433625 AAGCCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACT
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
*
30433666 AGGCCTGC
1 AAGCCTGC
30433674 GGGATTTATC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 15 0.33
42 2 0.04
43 29 0.63
ACGTcount: A:0.32, C:0.33, G:0.24, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
Found at i:30433696 original size:38 final size:38
Alignment explanation
Indices: 30433645--30433752 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
30433635 GGCACGAAGG
* * *
30433645 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
30433683 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** *
30433721 CCCGGATATTTTACTAGCACGAAGCCTGCGGG
1 CCCGAATATAATACCAGCACGAAGCCTGCGGG
30433753 TCTTTAAGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:30434734 original size:2 final size:2
Alignment explanation
Indices: 30434727--30434762 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30434717 CACTTTCAAA
30434727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30434763 TCAACTTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30445570 original size:40 final size:40
Alignment explanation
Indices: 30445507--30445731 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
30445497 TATTCGGATG
* *
30445507 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
30445547 ATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * *
30445587 ATATCCGGGCGAAGTCTCGAAGGCATTTGTGCGAGTAATTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA---CT
*
30445630 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
30445670 ATATCCGGGCTAAGACCCGAACGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
30445710 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
30445732 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 13 0.08
40 109 0.69
41 2 0.01
43 34 0.22
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:30445661 original size:83 final size:83
Alignment explanation
Indices: 30445551--30445705 Score: 265
Period size: 83 Copynumber: 1.9 Consensus size: 83
30445541 GTGACCATTT
* * * *
30445551 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAACGCATGTG
30445616 TGCGAGTAATTGTTATAC
66 TGCGAGTAATTGTTATAC
*
30445634 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAACGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAACGCATGTG
30445699 TGCGAGT
66 TGCGAGT
30445706 TGCTATATCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGACCCGAACGCATGTG
TGCGAGTAATTGTTATAC
Found at i:30450483 original size:43 final size:43
Alignment explanation
Indices: 30450312--30450484 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
30450302 ACATAGGATT
*
30450312 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * **
30450355 TCGACT-TGAGATTTACGTGTAAGACCATGTCTGGGACATCAGCA
1 TCGA-TATGTGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * *
30450399 TCG-TATTTGATTTCGTGTAAGACC-CTGTTTGGGACAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * *
30450441 TCGATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
30450484 T
1 T
30450485 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 29 0.28
43 43 0.41
44 32 0.31
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:30457093 original size:31 final size:31
Alignment explanation
Indices: 30457057--30457120 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
30457047 TCAAAAAGAA
*
30457057 AAAGAAAAAGAGTTCTTTGGGTTTGGCTAAG
1 AAAGAAAAAGAGTTCTTAGGGTTTGGCTAAG
30457088 AAAGAAAAAGAGTTCTTAGGGTTTGGCTAAG
1 AAAGAAAAAGAGTTCTTAGGGTTTGGCTAAG
30457119 AA
1 AA
30457121 TTTTGGTGAC
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:0.06, G:0.28, T:0.27
Consensus pattern (31 bp):
AAAGAAAAAGAGTTCTTAGGGTTTGGCTAAG
Found at i:30458263 original size:25 final size:25
Alignment explanation
Indices: 30458218--30458265 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
30458208 AATTGAGAAT
30458218 ATTTTGATGGTATATGAGCTATGTG
1 ATTTTGATGGTATATGAGCTATGTG
*
30458243 ATTTATGATGGTATTTG-GCTATG
1 ATTT-TGATGGTATATGAGCTATG
30458266 GAGTATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.46
Consensus pattern (25 bp):
ATTTTGATGGTATATGAGCTATGTG
Found at i:30462618 original size:27 final size:27
Alignment explanation
Indices: 30462564--30462619 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
30462554 GAGAAATGAA
* *
30462564 GATGAGATGAGAAATGAAATATGGAAT
1 GATGAAATGAGAAATGAAATATGAAAT
* * *
30462591 GATGAAATGAGATATGAATTGTGAAAT
1 GATGAAATGAGAAATGAAATATGAAAT
30462618 GA
1 GA
30462620 ATTCAAGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (27 bp):
GATGAAATGAGAAATGAAATATGAAAT
Found at i:30463057 original size:21 final size:20
Alignment explanation
Indices: 30463014--30463057 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
30463004 AGTCTTTGGC
*
30463014 TGATAGTTAGTTTTTTAATG
1 TGATAGTTAGTTTTTTAAAG
30463034 TGAT-GTTAGTTTGGTTTAAAG
1 TGATAGTTAGTTT--TTTAAAG
30463055 TGA
1 TGA
30463058 AATGATGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 4 0.19
21 9 0.43
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (20 bp):
TGATAGTTAGTTTTTTAAAG
Found at i:30465422 original size:24 final size:24
Alignment explanation
Indices: 30465392--30465467 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
30465382 CCAAGCCCCA
30465392 TTTTTATTTTATTTATTTCTTTAT
1 TTTTTATTTTATTTATTTCTTTAT
* ** * * *
30465416 TTTTTATTTTCTGGATTTATATGT
1 TTTTTATTTTATTTATTTCTTTAT
*
30465440 TTTTTCTTTTTATTTATTTCTTTAT
1 TTTTT-ATTTTATTTATTTCTTTAT
30465465 TTT
1 TTT
30465468 CTGATTTATA
Statistics
Matches: 38, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
24 23 0.61
25 15 0.39
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTTATTTTATTTATTTCTTTAT
Found at i:30465476 original size:20 final size:20
Alignment explanation
Indices: 30465418--30465488 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
30465408 TTCTTTATTT
*
30465418 TTTATTTTCTGGATTTATATG
1 TTTATTTTCT-GATTTATATC
* * * *
30465439 TTTTTTCTTTTTATTTATTTC
1 TTTATT-TTCTGATTTATATC
30465460 TTTATTTTCTGATTTATATC
1 TTTATTTTCTGATTTATATC
30465480 TTTTATTTT
1 -TTTATTTT
30465489 ATTTTATTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 11 0.28
21 25 0.64
22 3 0.08
ACGTcount: A:0.15, C:0.07, G:0.06, T:0.72
Consensus pattern (20 bp):
TTTATTTTCTGATTTATATC
Found at i:30482744 original size:2 final size:2
Alignment explanation
Indices: 30482737--30482762 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30482727 CTCCAATGCC
30482737 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
30482763 GGGCTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30487242 original size:20 final size:20
Alignment explanation
Indices: 30487217--30487258 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30487207 ACCTAAAGTT
30487217 AGTTTCTCTTACTTTTGAAG
1 AGTTTCTCTTACTTTTGAAG
30487237 AGTTTCTCTTACTTTTGAAG
1 AGTTTCTCTTACTTTTGAAG
30487257 AG
1 AG
30487259 AGTTATTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (20 bp):
AGTTTCTCTTACTTTTGAAG
Found at i:30503096 original size:15 final size:15
Alignment explanation
Indices: 30503076--30503105 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30503066 TATATAGTAC
30503076 AAGTTTGTACATTAT
1 AAGTTTGTACATTAT
30503091 AAGTTTGTACATTAT
1 AAGTTTGTACATTAT
30503106 GTAATGCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
AAGTTTGTACATTAT
Found at i:30507608 original size:35 final size:34
Alignment explanation
Indices: 30507542--30507608 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
30507532 TGTCCCATGA
* *
30507542 AAATGTATCATTGAATGATAAATTGTCACTTTTT
1 AAATGTATCATTGAATAATAAATTATCACTTTTT
*
30507576 AAATGTATCTATTGAATAATAAATTATGACTTT
1 AAATGTATC-ATTGAATAATAAATTATCACTTT
30507609 CCAAAATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.43
Consensus pattern (34 bp):
AAATGTATCATTGAATAATAAATTATCACTTTTT
Found at i:30510374 original size:113 final size:113
Alignment explanation
Indices: 30510176--30510403 Score: 393
Period size: 113 Copynumber: 2.0 Consensus size: 113
30510166 TTCTCAATGG
*
30510176 TATTCTGTTATGAATATAACATGCAGTCAATAATGCTTCAACCCATGCTTCACCCCATAGAGTAT
1 TATTCTGTTATGAATATAACACGCAGTCAATAATGCTTCAACCCATGCTTCACCCCATAGAGTAT
*
30510241 ATGGAACTTAAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
66 ATAGAACTTAAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
* * *
30510289 TATTCTGTTATGAATATAACACGCAGTCAATAATGCTTCACCCCATGCTTCACCTCATAGATTAT
1 TATTCTGTTATGAATATAACACGCAGTCAATAATGCTTCAACCCATGCTTCACCCCATAGAGTAT
* *
30510354 ATAGAAGTTTAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
66 ATAGAACTTAAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
30510402 TA
1 TA
30510404 CTATTCTTTC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 108 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (113 bp):
TATTCTGTTATGAATATAACACGCAGTCAATAATGCTTCAACCCATGCTTCACCCCATAGAGTAT
ATAGAACTTAAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
Found at i:30520315 original size:31 final size:31
Alignment explanation
Indices: 30520274--30520333 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
30520264 GTAATATGGG
*
30520274 CATTGCCGTTATA-AACTTTTATCATTTTAAC
1 CATTGCCGTTACATAA-TTTTATCATTTTAAC
* *
30520305 CATTGTCGTTACATGATTTTATCATTTTA
1 CATTGCCGTTACATAATTTTATCATTTTA
30520334 GTCACACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (31 bp):
CATTGCCGTTACATAATTTTATCATTTTAAC
Found at i:30521020 original size:19 final size:19
Alignment explanation
Indices: 30520985--30521023 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30520975 CTAAAATTCT
30520985 TAAAAGAAAAAAAATAAAA
1 TAAAAGAAAAAAAATAAAA
*
30521004 TAAAA-AAAAGAAGATAAAA
1 TAAAAGAAAA-AAAATAAAA
30521023 T
1 T
30521024 GAGTGGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (19 bp):
TAAAAGAAAAAAAATAAAA
Found at i:30532291 original size:131 final size:131
Alignment explanation
Indices: 30532058--30532448 Score: 504
Period size: 131 Copynumber: 3.0 Consensus size: 131
30532048 TAACTATTCA
* * ** * * *
30532058 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGGTATTTGGCAATTCGGGAATCGTGTCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
* * * *
30532123 TGCTGGGTTACGATTT-CTCGTTTATTCAAAACAATCGAATATTCCTTTGGGATTTCACTT-ATG
66 TGCTGGGTTGCGATTTCCT-GTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTTCATG
30532186 -C
130 TC
* ** *
30532187 TTTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTGAAAATTCAGGGAATCATGCCCTAT
1 -TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTAT
* * *
30532252 CGTGTTGGGTTGCGATTTCCTATTTGTTCAAAATAATCGAACATTCCTTTGGAATTTCA-TTCAT
64 CGTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTTCAT
30532316 GTC
129 GTC
*
30532319 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATT
1 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATC
* * * *
30532384 GTGCTGGGTTGCGATCTCCTGTTTGTTCCAAATAATCAAATATTCCTTTAGAATTTCAC-TCATG
65 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTTCATG
30532448 T
130 T
30532449 TCTCCAAATT
Statistics
Matches: 225, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
130 40 0.18
131 182 0.81
132 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTTCATGT
C
Found at i:30536942 original size:19 final size:19
Alignment explanation
Indices: 30536918--30536956 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30536908 ATCCTTTAAG
30536918 AGTTAGATTTTCACGAGGT
1 AGTTAGATTTTCACGAGGT
30536937 AGTTAGATTTTCACGAGGT
1 AGTTAGATTTTCACGAGGT
30536956 A
1 A
30536957 TTTGTCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (19 bp):
AGTTAGATTTTCACGAGGT
Found at i:30537943 original size:14 final size:15
Alignment explanation
Indices: 30537924--30537952 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30537914 ATGAATTTTG
30537924 ATTTAACAA-AATAA
1 ATTTAACAATAATAA
30537938 ATTTAACAATAATAA
1 ATTTAACAATAATAA
30537953 CAGTTAGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTTAACAATAATAA
Found at i:30539633 original size:12 final size:12
Alignment explanation
Indices: 30539618--30539643 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30539608 CATTATGATC
30539618 TTATTTATTTGT
1 TTATTTATTTGT
30539630 TTATTTATTTGT
1 TTATTTATTTGT
30539642 TT
1 TT
30539644 TCAGTGGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTATTTATTTGT
Done.