Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 317 of 427
Found at i:92241978 original size:33 final size:33
Alignment explanation
Indices: 92241932--92241996 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
92241922 AGTAGAAGAC
* * *
92241932 GTTGATATCTGTGGTTTCGAGAAAATGAGTTAT
1 GTTGATATATGTGGTTCCGAGAAAACGAGTTAT
*
92241965 GTTGATATATGTGGTTCCGAGAGAACGAGTTA
1 GTTGATATATGTGGTTCCGAGAAAACGAGTTA
92241997 CCTGAGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.29, T:0.35
Consensus pattern (33 bp):
GTTGATATATGTGGTTCCGAGAAAACGAGTTAT
Found at i:92247487 original size:42 final size:43
Alignment explanation
Indices: 92247423--92247525 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
92247413 ATCGATTTGA
*
92247423 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TACTT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGTGGCATCGATACTT
* * * *
92247466 GATTTCGTGTAAGACCCTGTCTGGGATAGTGGTATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATACTT
* *
92247509 GATTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
92247526 CATCTGTAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 28 0.55
43 23 0.45
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATACTT
Found at i:92247512 original size:43 final size:43
Alignment explanation
Indices: 92247374--92247524 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 43
92247364 AGAATTTTTT
* *
92247374 ATATTTGATTTCATTTAAGACCAC-ATCTGGGAT-GTTGGCATCG
1 ATATTTGATTTCATGTAAGACC-CTGTCTGGGATAG-TGGCATCG
* * * * *
92247417 AT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG
1 ATATT-TGATTT-CATGTAAGACCCTGTCTGGGATAGTGGCATCG
* * *
92247461 -TACTTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGTATCG
1 ATATTTGATTTCATGTAAGACCCTGTCTGGGATAGTGGCATCG
*
92247503 ATATTTGATTACATGTAAGACC
1 ATATTTGATTTCATGTAAGACC
92247525 ACATCTGTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
42 30 0.35
43 31 0.36
44 25 0.29
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
ATATTTGATTTCATGTAAGACCCTGTCTGGGATAGTGGCATCG
Found at i:92252267 original size:55 final size:56
Alignment explanation
Indices: 92252139--92252274 Score: 154
Period size: 55 Copynumber: 2.5 Consensus size: 56
92252129 CCTTCCACAC
* * *
92252139 CCGTGTTGTTTTGGCAGGTT-TGCCCACGGTTTCTTGGCACAGGCGTGTCGCACGC
1 CCGTGTTGTTTTGGCAGGTTCAGCCCACGGTTTCTAGGCACAGGCGTGTCGCACGA
** * *
92252194 CCGTGTTAATTTGACAGGTTCAG-CCACGGTTTCTAGGCACGGGCGTGTCGCAC-A
1 CCGTGTTGTTTTGGCAGGTTCAGCCCACGGTTTCTAGGCACAGGCGTGTCGCACGA
* *
92252248 CTGATTTTGTTTTGGCAGGTTCA-CCCA
1 CCG-TGTTGTTTTGGCAGGTTCAGCCCA
92252275 AGGCCATGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
54 2 0.03
55 63 0.95
56 1 0.02
ACGTcount: A:0.14, C:0.26, G:0.29, T:0.31
Consensus pattern (56 bp):
CCGTGTTGTTTTGGCAGGTTCAGCCCACGGTTTCTAGGCACAGGCGTGTCGCACGA
Found at i:92258686 original size:22 final size:22
Alignment explanation
Indices: 92258658--92258701 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
92258648 TAGACTTTTT
92258658 CTTGATTAAGCTCAGAATTGTG
1 CTTGATTAAGCTCAGAATTGTG
92258680 CTTGATTAAGCTCAGAATTGTG
1 CTTGATTAAGCTCAGAATTGTG
92258702 GCATGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (22 bp):
CTTGATTAAGCTCAGAATTGTG
Found at i:92263010 original size:17 final size:17
Alignment explanation
Indices: 92262990--92263036 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
92262980 AATGGGTTCA
* *
92262990 CATATAGCATAGGTTTG
1 CATATAACATAAGTTTG
*
92263007 CATAACAACATAAGTTTG
1 CAT-ATAACATAAGTTTG
92263025 CATATAACATAA
1 CATATAACATAA
92263037 AAAAGACCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (17 bp):
CATATAACATAAGTTTG
Found at i:92264626 original size:43 final size:45
Alignment explanation
Indices: 92264578--92264688 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 45
92264568 CATTGACTTA
*
92264578 TGATTTACGTGTAAGACCACAT-T-TGGAACATTGGCATC-ATATT
1 TGATTTACGTGTAAGACCAC-TGTCTGGAACAGTGGCATCGATATT
* *
92264621 TGATTT-TGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCACTGTCTGGAACAGTGGCATCGATATT
*
92264664 TGA-TTACATGTTAAGACCAC-GTCTG
1 TGATTTACGTG-TAAGACCACTGTCTG
92264689 AGACGTTGGC
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
40 1 0.02
41 2 0.04
42 25 0.44
43 16 0.28
44 12 0.21
45 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (45 bp):
TGATTTACGTGTAAGACCACTGTCTGGAACAGTGGCATCGATATT
Found at i:92264699 original size:44 final size:42
Alignment explanation
Indices: 92264528--92264700 Score: 122
Period size: 44 Copynumber: 4.0 Consensus size: 42
92264518 CATAGGATTC
* *
92264528 CGATATGTG-TTATCATGTAAGACCATGTCTTGGACGTTGGCAT
1 CGATATTTGATTA-CATGTAAGACCACGTC-TGGACGTTGGCAT
* * * * * *
92264571 TGACT-TATGATTTACGTGTAAGACCACATTTGGAACATTGGCAT
1 CGA-TATTTGA-TTACATGTAAGACCACGTCTGG-ACGTTGGCAT
***
92264615 C-ATATTTGATTTTGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCAC-GTCT-GGAC-GTTGGCAT
92264657 CGATATTTGATTACATGTTAAGACCACGTCTGAGACGTTGGCAT
1 CGATATTTGATTACATG-TAAGACCACGTCTG-GACGTTGGCAT
92264701 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
41 1 0.01
42 24 0.24
43 29 0.29
44 42 0.42
45 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
CGATATTTGATTACATGTAAGACCACGTCTGGACGTTGGCAT
Found at i:92266776 original size:29 final size:28
Alignment explanation
Indices: 92266685--92266775 Score: 146
Period size: 28 Copynumber: 3.2 Consensus size: 28
92266675 TGTACTAGAG
92266685 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
92266713 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
* * *
92266741 TACCCCATACGTATGCAAAATGACCTTTA
1 TACCCC-TATGTATGCAAAATTACCATTA
92266770 TACCCC
1 TACCCC
92266776 AGGGTTAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
28 34 0.58
29 25 0.42
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:92266940 original size:27 final size:27
Alignment explanation
Indices: 92266882--92266971 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
92266872 AGGAAGCGTC
92266882 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
92266910 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
92266937 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
92266966 CTGGTG
1 CTGGTG
92266972 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:92266990 original size:55 final size:56
Alignment explanation
Indices: 92266882--92266996 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
92266872 AGGAAGCGTC
* *
92266882 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
92266937 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
92266993 CTGG
1 CTGG
92266997 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:92274611 original size:27 final size:27
Alignment explanation
Indices: 92274544--92274630 Score: 140
Period size: 26 Copynumber: 3.2 Consensus size: 27
92274534 TGTACTAGAG
92274544 TACCCCTATGTATGCAAAATTACATTA
1 TACCCCTATGTATGCAAAATTACATTA
92274571 TA-CCCTATGTATGCAAAATTACATTA
1 TACCCCTATGTATGCAAAATTACATTA
* *
92274597 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATTA-CATTA
92274625 TACCCC
1 TACCCC
92274631 AGGGTTAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
26 26 0.46
27 20 0.36
28 10 0.18
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCCTATGTATGCAAAATTACATTA
Found at i:92274794 original size:27 final size:28
Alignment explanation
Indices: 92274736--92274825 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
92274726 AGGAAGCGTC
*
92274736 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
92274764 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
92274791 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
92274820 CTGGTG
1 CTGGTG
92274826 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:92274836 original size:29 final size:28
Alignment explanation
Indices: 92274746--92274836 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
92274736 CTGGTGGCTA
* * *
92274746 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
92274774 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
92274801 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
92274830 TGTCACA
1 TGCCACA
92274837 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:92274844 original size:55 final size:56
Alignment explanation
Indices: 92274736--92274850 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
92274726 AGGAAGCGTC
* * *
92274736 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
92274791 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
92274847 CTGG
1 CTGG
92274851 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:92276448 original size:47 final size:47
Alignment explanation
Indices: 92276368--92276618 Score: 380
Period size: 47 Copynumber: 5.4 Consensus size: 47
92276358 CCCTTCGGGA
* *
92276368 CTTATCACATTTATACACTTTCACA-TCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
92276414 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
92276461 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
92276508 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
92276555 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
92276602 CTT-TCACATATACACAC
1 CTTATCACATATATACAC
92276619 CTTGTACATC
Statistics
Matches: 186, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 36 0.19
47 150 0.81
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:92280405 original size:10 final size:10
Alignment explanation
Indices: 92280365--92280407 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
92280355 TATTTAAAAA
*
92280365 TATGCTTTGG
1 TATGATTTGG
92280375 TATGATTTTGG
1 TATGA-TTTGG
*
92280386 TTTAGATTTGG
1 TAT-GATTTGG
92280397 TATGATTTGG
1 TATGATTTGG
92280407 T
1 T
92280408 TGGTGAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:92281742 original size:30 final size:30
Alignment explanation
Indices: 92281697--92281754 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
92281687 TTTTCAGGAG
*
92281697 TCACATGGGTAGGACACACGCCCATGTGTA
1 TCACACGGGTAGGACACACGCCCATGTGTA
* * *
92281727 TCACACGGGTTGGACACACTCCTATGTG
1 TCACACGGGTAGGACACACGCCCATGTG
92281755 CCAGTCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (30 bp):
TCACACGGGTAGGACACACGCCCATGTGTA
Found at i:92282822 original size:5 final size:5
Alignment explanation
Indices: 92282812--92282845 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
92282802 TAATTTAGCC
92282812 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT TTT
92282846 TACATTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:92285338 original size:26 final size:26
Alignment explanation
Indices: 92285302--92285355 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
92285292 ATTTAAGATT
92285302 GGGTGCAATGTACTACTAGACAAAAC
1 GGGTGCAATGTACTACTAGACAAAAC
92285328 GGGTGCAATGTACTACTAGACAAAAC
1 GGGTGCAATGTACTACTAGACAAAAC
92285354 GG
1 GG
92285356 ATCCATGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (26 bp):
GGGTGCAATGTACTACTAGACAAAAC
Found at i:92287746 original size:30 final size:30
Alignment explanation
Indices: 92287710--92287801 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
92287700 CCTTTTCATA
*
92287710 TTTCATATTTCATAATACTGGGCGAAGCCT
1 TTTCATATTTCATATTACTGGGCGAAGCCT
92287740 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGG-CGAAGCCT
*
92287771 TTTCA-ATTTCATATTACTGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCGAAGCCT
92287800 TT
1 TT
92287802 ACTGTAAACG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
29 10 0.17
30 36 0.61
31 13 0.22
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (30 bp):
TTTCATATTTCATATTACTGGGCGAAGCCT
Found at i:92288048 original size:24 final size:24
Alignment explanation
Indices: 92288007--92288135 Score: 197
Period size: 24 Copynumber: 5.4 Consensus size: 24
92287997 CTAGAGGCCT
* *
92288007 AGCCTCTTGTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
92288032 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
92288056 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
92288079 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
92288103 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
92288127 AGCCCTTTT
1 AGCCCTTTT
92288136 TCACTTCCTC
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
23 23 0.23
24 72 0.73
25 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:92288071 original size:47 final size:48
Alignment explanation
Indices: 92288018--92288134 Score: 200
Period size: 47 Copynumber: 2.5 Consensus size: 48
92288008 GCCTCTTGTA
*
92288018 ATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTG
**
92288065 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTG
92288113 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
92288135 TTCACTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
47 44 0.67
48 22 0.33
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTG
Found at i:92288230 original size:19 final size:20
Alignment explanation
Indices: 92288186--92288244 Score: 102
Period size: 19 Copynumber: 3.0 Consensus size: 20
92288176 TATGATTATC
92288186 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
92288206 TCATGTGCATAGCATACAT-
1 TCATGTGCATATCATACATA
92288225 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
92288245 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:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:92288319 original size:25 final size:25
Alignment explanation
Indices: 92288287--92288334 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
92288277 ATACATAAAC
* * *
92288287 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
92288312 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
92288335 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:92289588 original size:27 final size:27
Alignment explanation
Indices: 92289568--92289988 Score: 484
Period size: 27 Copynumber: 15.8 Consensus size: 27
92289558 AGGGTATTTT
*
92289568 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
92289595 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
92289622 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
92289649 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
92289676 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
92289703 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
92289729 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
92289756 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
92289783 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
92289810 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
92289837 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
92289864 GGTAATTCTATAAATCGAGGGT-AAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
92289889 AGTAATT-TGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
92289915 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
92289942 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
92289969 GGTAATT-T-TACAATCGAGGG
1 AGTAATTCTGTA-AATCGAGGG
92289989 CATTTCAGTA
Statistics
Matches: 348, Mismatches: 33, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
24 12 0.03
25 11 0.03
26 43 0.12
27 279 0.80
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:92292755 original size:30 final size:30
Alignment explanation
Indices: 92292719--92292810 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
92292709 CCTTTTCATA
*
92292719 TTTCATATTTCATAATACTGGGCGAAGCCT
1 TTTCATATTTCATATTACTGGGCGAAGCCT
92292749 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGG-CGAAGCCT
*
92292780 TTTCA-ATTTCATATTACTGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCGAAGCCT
92292809 TT
1 TT
92292811 ACTGTAAACG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
29 10 0.17
30 36 0.61
31 13 0.22
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (30 bp):
TTTCATATTTCATATTACTGGGCGAAGCCT
Found at i:92293053 original size:24 final size:24
Alignment explanation
Indices: 92293002--92293144 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
92292992 GCTTTATCAT
*
92293002 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
92293027 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
92293051 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
92293074 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
92293098 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
92293122 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
92293145 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:92293081 original size:47 final size:48
Alignment explanation
Indices: 92293002--92293143 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
92292992 GCTTTATCAT
* *
92293002 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
92293051 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
92293098 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
92293144 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:92293102 original size:71 final size:72
Alignment explanation
Indices: 92293001--92293144 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
92292991 TGCTTTATCA
*
92293001 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
92293066 GCCCTTT
66 GCCCTTT
* * **
92293073 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
92293136 AGCCCTTT
65 AGCCCTTT
92293144 T
1 T
92293145 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:92293225 original size:11 final size:11
Alignment explanation
Indices: 92293195--92293248 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
92293185 TATGATTATC
92293195 TCATGTGCATA
1 TCATGTGCATA
*
92293206 TCA--TACATA
1 TCATGTGCATA
92293215 TCATGTGCATA
1 TCATGTGCATA
*
92293226 TCA--TACAT-
1 TCATGTGCATA
92293234 TCATGTGCATA
1 TCATGTGCATA
92293245 TCAT
1 TCAT
92293249 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:92293239 original size:19 final size:20
Alignment explanation
Indices: 92293195--92293253 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
92293185 TATGATTATC
92293195 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
92293215 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
92293234 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
92293254 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:92293328 original size:25 final size:25
Alignment explanation
Indices: 92293296--92293343 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
92293286 ATACATAAAC
* * *
92293296 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
92293321 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
92293344 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:92294598 original size:27 final size:27
Alignment explanation
Indices: 92294578--92295003 Score: 500
Period size: 27 Copynumber: 15.8 Consensus size: 27
92294568 AGGGTATTTT
*
92294578 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
92294605 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
92294632 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
92294659 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
92294686 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
92294713 -GATAATTATGTAAATCGTGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
92294740 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
92294767 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
92294794 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
92294821 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
92294848 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
92294875 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
92294902 AGTAATTTTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
92294929 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
92294956 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
92294983 GGTAATTTTACAAATCGAGGG
1 AGTAATTCTGTAAATCGAGGG
92295004 CATTTCAGTA
Statistics
Matches: 350, Mismatches: 41, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 343 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:92305385 original size:32 final size:33
Alignment explanation
Indices: 92305339--92305402 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
92305329 AGTAGCGGGT
92305339 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
92305371 ACTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTTTTCAGATAACAGTA
92305403 TGGCCCGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 17 0.61
34 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:92305752 original size:27 final size:27
Alignment explanation
Indices: 92305724--92305796 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
92305714 TTAACCCTAG
* *
92305724 GGGTATATCAGTAATTTTGCTCCTA-A
1 GGGTATATCAGTAATTTTCCACCTATA
* *
92305750 GGGTAAATCTGTAAATTTTCCACCTATAA
1 GGGTATATCAGT-AATTTTCCACCTAT-A
* *
92305779 AGGTATTTCAGTAATTTT
1 GGGTATATCAGTAATTTT
92305797 ATCAGTTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 10 0.28
27 11 0.31
28 6 0.17
29 9 0.25
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (27 bp):
GGGTATATCAGTAATTTTCCACCTATA
Found at i:92308150 original size:19 final size:18
Alignment explanation
Indices: 92308113--92308156 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
92308103 ATACATACAG
92308113 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
92308130 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
92308149 TACTAATT
1 TAATAATT
92308157 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:92312907 original size:66 final size:67
Alignment explanation
Indices: 92312778--92312917 Score: 196
Period size: 66 Copynumber: 2.1 Consensus size: 67
92312768 AATCTCTATT
* * * *
92312778 TGGTGTGCTAGTTGGATTAGCTCTTATGAACATTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TGGTGTGATAGTTGGATTAGCTCTTATGAACATTGGTGTGATGGATGGATTAGCTCTAATGAGCA
92312843 -C
66 TC
*
92312844 TGGTGTGATAGTTGGATTAGCTCTTAT-AAGCATTGGTGTGATGGATGGATTGGCTC-AAGTGAG
1 TGGTGTGATAGTTGGATTAGCTCTTATGAA-CATTGGTGTGATGGATGGATTAGCTCTAA-TGAG
92312907 CATC
64 CATC
92312911 TGGTGTG
1 TGGTGTG
92312918 TTTGGTTGGA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
65 3 0.05
66 55 0.83
67 8 0.12
ACGTcount: A:0.19, C:0.11, G:0.33, T:0.37
Consensus pattern (67 bp):
TGGTGTGATAGTTGGATTAGCTCTTATGAACATTGGTGTGATGGATGGATTAGCTCTAATGAGCA
TC
Found at i:92312909 original size:33 final size:33
Alignment explanation
Indices: 92312777--92312927 Score: 169
Period size: 33 Copynumber: 4.5 Consensus size: 33
92312767 TAATCTCTAT
* * *
92312777 TTGGTGTGCTAGTTGGATTAGCTCTTATGAACA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
92312810 TTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
92312843 CTGGTGTGATAGTTGGATTAGCTCTTATAAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
92312876 TTGGTGTGATGGATGGATTGGCTC-AAGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTA-TGAGCA
*
92312909 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-ATGGTTGGA
92312928 CTGATAATGT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
32 1 0.01
33 84 0.85
34 7 0.07
35 7 0.07
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.38
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:92313107 original size:28 final size:28
Alignment explanation
Indices: 92313075--92313128 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
92313065 TGGATGATGA
*
92313075 GAAACTTTCATGGTTGTCTATTACTTAG
1 GAAACTTTCATGGTTGTATATTACTTAG
92313103 GAAACTTTCATGGTTGTATATTACTT
1 GAAACTTTCATGGTTGTATATTACTT
92313129 TTTGAATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (28 bp):
GAAACTTTCATGGTTGTATATTACTTAG
Found at i:92315031 original size:51 final size:51
Alignment explanation
Indices: 92314961--92315070 Score: 202
Period size: 51 Copynumber: 2.1 Consensus size: 51
92314951 TATATCTTAG
92314961 TAAGTATGCCCGAGAGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
1 TAAG-ATGCCCGAGAGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
*
92315013 TAAGATGCCCGAGGGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
1 TAAGATGCCCGAGAGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
92315064 TAAGATG
1 TAAGATG
92315071 GCATGAATGA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 53 0.93
52 4 0.07
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (51 bp):
TAAGATGCCCGAGAGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
Found at i:92317731 original size:17 final size:16
Alignment explanation
Indices: 92317677--92317733 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
92317667 AAAATAAATC
*
92317677 ATTTTTGTTAGATGTACA
1 ATTTTTG-TAAATGT-CA
* *
92317695 AGTTTTGTAAA-GTGA
1 ATTTTTGTAAATGTCA
92317710 ATTTTTGTAAAATGTCA
1 ATTTTTGT-AAATGTCA
92317727 ATTTTTG
1 ATTTTTG
92317734 GATTAAATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.25
16 5 0.16
17 13 0.41
18 6 0.19
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.49
Consensus pattern (16 bp):
ATTTTTGTAAATGTCA
Found at i:92318351 original size:24 final size:23
Alignment explanation
Indices: 92318318--92318406 Score: 90
Period size: 23 Copynumber: 3.7 Consensus size: 23
92318308 GATATATCAT
92318318 CTCGTAAGAGCTTACTGTTTTCAG
1 CTCGT-AGAGCTTACTGTTTTCAG
92318342 CTCGTCAGAGCTTACTG-TTTCAG
1 CTCGT-AGAGCTTACTGTTTTCAG
* *
92318365 CTCAATAGAGCTTACTGTCTATCAG
1 CTC-GTAGAGCTTACTGT-TTTCAG
*
92318390 CTCAGGAGGAGCTTACT
1 CTC-GTA-GAGCTTACT
92318407 AATCATAGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
23 20 0.36
24 17 0.30
25 10 0.18
26 9 0.16
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (23 bp):
CTCGTAGAGCTTACTGTTTTCAG
Found at i:92320850 original size:29 final size:29
Alignment explanation
Indices: 92320813--92320870 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
92320803 ACAAACGGTT
92320813 TTCCCTAAAACAAAAGGGGTTTTTCCTAA
1 TTCCCTAAAACAAAAGGGGTTTTTCCTAA
*
92320842 TTCCTTAAAACAAAAGGGGTTTTTCCTAA
1 TTCCCTAAAACAAAAGGGGTTTTTCCTAA
92320871 AATGGACGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (29 bp):
TTCCCTAAAACAAAAGGGGTTTTTCCTAA
Found at i:92327191 original size:30 final size:30
Alignment explanation
Indices: 92327135--92327192 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
92327125 CACAGTCATT
* *
92327135 ACACACGGGCGTGTAGCCTACCCGTGTGTC
1 ACACACGGGCGTGTAGACTACACGTGTGTC
* *
92327165 ACACACGGGCGTGTGGATTACACGTGTG
1 ACACACGGGCGTGTAGACTACACGTGTG
92327193 GAACTGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.21
Consensus pattern (30 bp):
ACACACGGGCGTGTAGACTACACGTGTGTC
Found at i:92328620 original size:40 final size:40
Alignment explanation
Indices: 92328575--92328741 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
92328565 CGGAATATAA
92328575 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
92328615 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
92328655 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
92328695 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
92328734 CCGGATAT
1 CCGGATAT
92328742 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:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:92328725 original size:80 final size:79
Alignment explanation
Indices: 92328575--92328741 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
92328565 CGGAATATAA
* *
92328575 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
92328640 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
92328655 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
92328717 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
92328734 CCGGATAT
1 CCGGATAT
92328742 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:92329590 original size:17 final size:19
Alignment explanation
Indices: 92329567--92329612 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
92329557 AAGAAGCATG
92329567 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
92329585 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
92329603 AATCATGCTC
1 AATCATGCTC
92329613 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:92333120 original size:40 final size:40
Alignment explanation
Indices: 92333075--92333240 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
92333065 CGGAATATAA
92333075 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
92333115 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
92333155 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
92333194 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
92333233 CCGGATAT
1 CCGGATAT
92333241 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:92333197 original size:39 final size:38
Alignment explanation
Indices: 92333091--92333202 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
92333081 ATAATCACGT
* * *
92333091 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
92333131 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
92333170 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
92333203 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:92333224 original size:79 final size:78
Alignment explanation
Indices: 92333091--92333240 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
92333081 ATAATCACGT
*
92333091 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
92333156 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
92333170 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
92333233 CCGGATAT
64 CCGGATAT
92333241 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:92334088 original size:17 final size:19
Alignment explanation
Indices: 92334065--92334110 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
92334055 AAGAAGCATG
92334065 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
92334083 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
92334101 AATCATGCTC
1 AATCATGCTC
92334111 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:92341121 original size:40 final size:40
Alignment explanation
Indices: 92341076--92341242 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
92341066 CGGAATATAA
92341076 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
92341116 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
92341156 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
92341196 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
92341235 CCGGATAT
1 CCGGATAT
92341243 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:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:92341226 original size:80 final size:79
Alignment explanation
Indices: 92341076--92341242 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
92341066 CGGAATATAA
* *
92341076 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
92341141 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
92341156 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
92341218 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
92341235 CCGGATAT
1 CCGGATAT
92341243 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:92342090 original size:17 final size:19
Alignment explanation
Indices: 92342067--92342112 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
92342057 AAGAAGCATG
92342067 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
92342085 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
92342103 AATCATGCTC
1 AATCATGCTC
92342113 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:92343978 original size:26 final size:23
Alignment explanation
Indices: 92343948--92344040 Score: 62
Period size: 24 Copynumber: 3.8 Consensus size: 23
92343938 GACTCACAAT
*
92343948 AGCTCGTATGAGCTTATTGATATATC
1 AGCTCGTA-GAGCTTACTG-T-TATC
* *
92343974 AGCTCATAAGAGCTTACTGTTTTC
1 AGCTCGT-AGAGCTTACTGTTATC
**
92343998 AGCTCGTCAGAGCTTACCATT-TC
1 AGCTCGT-AGAGCTTACTGTTATC
* *
92344021 AACTCAATAGAGCTTACTGT
1 AGCTC-GTAGAGCTTACTGT
92344041 CCATAAGCTC
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
23 16 0.30
24 21 0.39
25 1 0.02
26 15 0.28
27 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (23 bp):
AGCTCGTAGAGCTTACTGTTATC
Found at i:92345998 original size:33 final size:33
Alignment explanation
Indices: 92345950--92346126 Score: 255
Period size: 33 Copynumber: 5.4 Consensus size: 33
92345940 TACTCTCTAT
* * *
92345950 TTGGTGTGCTAGTTGGATTAGTTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
92345983 TTGGTGTGATGGTTGGTTTGGCTCTTATGAACA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* *
92346016 TTAGTGTGATGGTTCGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
92346049 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* *
92346082 TTGGTGTGATGGTTGGATTAGCTCTTATAAACA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
92346115 TTGGTGTAATGG
1 TTGGTGTGATGG
92346127 ATGAATTGGC
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 128 1.00
ACGTcount: A:0.19, C:0.09, G:0.31, T:0.41
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:92346146 original size:99 final size:99
Alignment explanation
Indices: 92345950--92346149 Score: 269
Period size: 99 Copynumber: 2.0 Consensus size: 99
92345940 TACTCTCTAT
* * * * *
92345950 TTGGTGTGCTAGTTGGATTAGTTCTTATGAGCATTGGTGTGATGGTTGGTTTGGCTCTTATGAAC
1 TTGGTGTGATAGTTGGATTAGCTCTTATGAGCATTGGTGTGATGGTTGGATTAGCTCTTATAAAC
* * *
92346015 ATTAGTGTGATGGTTCGATTAGCTCTTATGAGCA
66 ATTAGTGTAATGGATCGATTAGCTCTGATGAGCA
*
92346049 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCATTGGTGTGATGGTTGGATTAGCTCTTATAAAC
1 TTGGTGTGATAGTTGGATTAGCTCTTATGAGCATTGGTGTGATGGTTGGATTAGCTCTTATAAAC
* *
92346114 ATTGGTGTAATGGAT-GAATTGGCT-TGAGTGAGCA
66 ATTAGTGTAATGGATCG-ATTAGCTCTGA-TGAGCA
92346148 TT
1 TT
92346150 TGATATGTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
98 3 0.03
99 85 0.97
ACGTcount: A:0.20, C:0.09, G:0.31, T:0.40
Consensus pattern (99 bp):
TTGGTGTGATAGTTGGATTAGCTCTTATGAGCATTGGTGTGATGGTTGGATTAGCTCTTATAAAC
ATTAGTGTAATGGATCGATTAGCTCTGATGAGCA
Found at i:92349587 original size:47 final size:48
Alignment explanation
Indices: 92349407--92349599 Score: 151
Period size: 47 Copynumber: 4.0 Consensus size: 48
92349397 TTACACGGAT
* * * *
92349407 CACAT-ATCACTCTGATGCCATATCCTAGATATGATCTTACACAGAAG
1 CACATCATCACTCCGATGCCATATCCCAGATATGATCTTATACGGAAG
* * * *
92349454 CACATAAATCA-T-TGATGCTATATCCCAGAAATGATCTTATACGGAAG
1 CACAT-CATCACTCCGATGCCATATCCCAGATATGATCTTATACGGAAG
* * * * * *
92349501 CACATAATCCCATCACACCGATGCCATAGCCCAGCTATGGTCTTATATGGGAG
1 CAC---AT--CATCACTCCGATGCCATATCCCAGATATGATCTTATACGGAAG
* * *
92349554 CACAT-ATCACTCCGATGCCATATCCTAGATATGGTTTTATACGGAA
1 CACATCATCACTCCGATGCCATATCCCAGATATGATCTTATACGGAA
92349600 ATCACATATC
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
47 72 0.63
48 1 0.01
49 4 0.03
50 4 0.03
51 4 0.03
53 30 0.26
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (48 bp):
CACATCATCACTCCGATGCCATATCCCAGATATGATCTTATACGGAAG
Found at i:92358692 original size:46 final size:44
Alignment explanation
Indices: 92358595--92358757 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 44
92358585 AACTGTGCCA
* * * *
92358595 ATGCATGTCCTAAACATGTCTTACACTAGC-ACATCTCGTAGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCG-AGGCG
* * * *
92358639 ACGCATGTCCTAGACATGTCTAACATTGGCTAACATCTCGAGGTCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGAGG-CG
* * *
92358685 ATGCATGTCCCAGACATGTCTTACACTGGCTCACATATTGTGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGAGGC-G
92358731 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
92358758 AGCCCTCGTC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
44 25 0.25
45 3 0.03
46 73 0.72
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCGAGGCG
Found at i:92365292 original size:26 final size:27
Alignment explanation
Indices: 92365235--92365296 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
92365225 AAATTAATTA
*
92365235 AATGACTGTTATGCCCCTATGAGGTAG
1 AATGACTGTTATGCCCCTATGAGATAG
*
92365262 AATGACTGTTATGCCCTTATGAGAT-G
1 AATGACTGTTATGCCCCTATGAGATAG
*
92365288 TATGACTGT
1 AATGACTGT
92365297 ATTCGAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (27 bp):
AATGACTGTTATGCCCCTATGAGATAG
Found at i:92369363 original size:93 final size:96
Alignment explanation
Indices: 92369244--92369478 Score: 235
Period size: 100 Copynumber: 2.4 Consensus size: 96
92369234 ACACCGAAGC
* * * * * *
92369244 CATAGCCCAGACATGGTCTTACACGG-ATCACATATCAC-T-CTGATGCCATATCCCAGATATTG
1 CATATCCCAGATATGGTCTTATACGGAATCACATATCACATACCGATGCCATAGCCCAGATATGG
*
92369306 TCTTACACAAAAGCACATAT-ATCACTGATGT
66 TCTTACACAAAAGCACATATCA-CACAGATGT
* * *
92369337 CATATCCCAGATATAGTCTTATACGGAAGCACATAATCACATCACACCGATGCCATAGCCCAGCT
1 CATATCCCAGATATGGTCTTATACGGAATCACAT-ATCACAT---ACCGATGCCATAGCCCAGAT
* ****
92369402 ATGGTCTTATATGGGAGCACATATCACACAGATGT
62 ATGGTCTTACACAAAAGCACATATCACACAGATGT
* *
92369437 CATATCCTAGGTATGGTCTTATACGGAAATCACATATCACAT
1 CATATCCCAGATATGGTCTTATACGG-AATCACATATCACAT
92369479 GTTGCCATAG
Statistics
Matches: 114, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
93 22 0.19
94 6 0.05
95 5 0.04
96 1 0.01
100 72 0.63
101 8 0.07
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (96 bp):
CATATCCCAGATATGGTCTTATACGGAATCACATATCACATACCGATGCCATAGCCCAGATATGG
TCTTACACAAAAGCACATATCACACAGATGT
Found at i:92369399 original size:100 final size:100
Alignment explanation
Indices: 92369285--92369478 Score: 239
Period size: 100 Copynumber: 1.9 Consensus size: 100
92369275 ATATCACTCT
* * *
92369285 GATGCCATATCCCAGATATTGTCTTACACAAAAGCACATAT-ATCACTGATGTCATATCCCAGAT
1 GATGCCATAGCCCAGATATGGTCTTACACAAAAGCACATATCA-CACAGATGTCATATCCCAGAT
92369349 ATAGTCTTATACGG-AAGCACATAATCACATCACACC
65 ATAGTCTTATACGGAAAGCACAT-ATCACATCACACC
* * **** * *
92369385 GATGCCATAGCCCAGCTATGGTCTTATATGGGAGCACATATCACACAGATGTCATATCCTAGGTA
1 GATGCCATAGCCCAGATATGGTCTTACACAAAAGCACATATCACACAGATGTCATATCCCAGATA
* *
92369450 TGGTCTTATACGGAAATCACATATCACAT
66 TAGTCTTATACGGAAAGCACATATCACAT
92369479 GTTGCCATAG
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
100 71 0.90
101 8 0.10
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (100 bp):
GATGCCATAGCCCAGATATGGTCTTACACAAAAGCACATATCACACAGATGTCATATCCCAGATA
TAGTCTTATACGGAAAGCACATATCACATCACACC
Found at i:92369452 original size:47 final size:48
Alignment explanation
Indices: 92369244--92369475 Score: 193
Period size: 47 Copynumber: 4.8 Consensus size: 48
92369234 ACACCGAAGC
* * * * * * *
92369244 CATAGCCCAGACATGGTCTTACACGG-ATCACATATCA-CTCTGATGC
1 CATATCCCAGATATGGTCTTATACGGAAGCACATATCATCACAGATGT
* * ** *
92369290 CATATCCCAGATATTGTCTTACACAAAAGCACATAT-ATCACTGATGT
1 CATATCCCAGATATGGTCTTATACGGAAGCACATATCATCACAGATGT
* *
92369337 CATATCCCAGATATAGTCTTATACGGAAGCACATAATCACATCACACCGATGC
1 CATATCCCAGATATGGTCTTATACGGAAGCACAT-AT--CATCACA--GATGT
* * * *
92369390 CATAGCCCAGCTATGGTCTTATATGGGAGCACATATCA-CACAGATGT
1 CATATCCCAGATATGGTCTTATACGGAAGCACATATCATCACAGATGT
* * *
92369437 CATATCCTAGGTATGGTCTTATACGGAAATCACATATCA
1 CATATCCCAGATATGGTCTTATACGG-AAGCACATATCA
92369476 CATGTTGCCA
Statistics
Matches: 151, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
46 22 0.15
47 71 0.47
48 12 0.08
49 4 0.03
50 2 0.01
51 5 0.03
52 2 0.01
53 33 0.22
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTATACGGAAGCACATATCATCACAGATGT
Found at i:92375005 original size:23 final size:22
Alignment explanation
Indices: 92374978--92375029 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
92374968 GTTTATCAAA
92374978 TTAATTT-ATGCAATATAAAAAAT
1 TTAATTTAATG-AATA-AAAAAAT
92375001 TTAATTTAATGAATAAAAAAAT
1 TTAATTTAATGAATAAAAAAAT
*
92375023 TAAATTT
1 TTAATTT
92375030 TTATAACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.48
23 11 0.41
24 3 0.11
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
TTAATTTAATGAATAAAAAAAT
Found at i:92375029 original size:22 final size:22
Alignment explanation
Indices: 92374975--92375025 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
92374965 AACGTTTATC
92374975 AAATTAATTTATGCAATATAAA
1 AAATTAATTTATGCAATATAAA
92374997 AAATTTAATTTAATG-AATA-AAA
1 AAA-TTAATTT-ATGCAATATAAA
92375019 AAATTAA
1 AAATTAA
92375026 ATTTTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.15
22 9 0.33
23 11 0.41
24 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATTAATTTATGCAATATAAA
Found at i:92375722 original size:42 final size:42
Alignment explanation
Indices: 92375663--92375744 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
92375653 AGTCTCAATT
*
92375663 CCTTAATTTTTATTTTAAATCAACATTTTCCCCTAATTTTGC
1 CCTTAATTTTTACTTTAAATCAACATTTTCCCCTAATTTTGC
*
92375705 CCTTAATTTTTACTTTAAATCAACATTTTCCCTTAATTTT
1 CCTTAATTTTTACTTTAAATCAACATTTTCCCCTAATTTT
92375745 TCCGAACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.21, G:0.01, T:0.51
Consensus pattern (42 bp):
CCTTAATTTTTACTTTAAATCAACATTTTCCCCTAATTTTGC
Found at i:92376121 original size:7 final size:7
Alignment explanation
Indices: 92376109--92376133 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
92376099 AATAAAAGTA
92376109 TAAAATC
1 TAAAATC
92376116 TAAAATC
1 TAAAATC
92376123 TAAAATC
1 TAAAATC
92376130 TAAA
1 TAAA
92376134 TTTATTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAATC
Found at i:92376631 original size:18 final size:18
Alignment explanation
Indices: 92376610--92376646 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
92376600 TCTTCCCCAC
* *
92376610 CCTCTTCGCCTTCTCTCT
1 CCTCTTCCCCTTCCCTCT
92376628 CCTCTTCCCCTTCCCTCT
1 CCTCTTCCCCTTCCCTCT
92376646 C
1 C
92376647 TTCCTCTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.57, G:0.03, T:0.41
Consensus pattern (18 bp):
CCTCTTCCCCTTCCCTCT
Found at i:92377115 original size:8 final size:8
Alignment explanation
Indices: 92377102--92377131 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
92377092 GATACTACTT
92377102 TTTTTTTC
1 TTTTTTTC
92377110 TTTTTTTC
1 TTTTTTTC
92377118 TTTTTTTC
1 TTTTTTTC
92377126 TTTTTT
1 TTTTTT
92377132 AAATTTGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:92378918 original size:14 final size:14
Alignment explanation
Indices: 92378899--92378926 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92378889 TAAACCAATA
92378899 GTTAAAGTTGCTTT
1 GTTAAAGTTGCTTT
92378913 GTTAAAGTTGCTTT
1 GTTAAAGTTGCTTT
92378927 TAACTTCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
GTTAAAGTTGCTTT
Found at i:92381509 original size:19 final size:19
Alignment explanation
Indices: 92381485--92381524 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
92381475 ACTGAAGGTA
92381485 TCCCAGGAAATCGTGGCTT
1 TCCCAGGAAATCGTGGCTT
92381504 TCCCAGGAAATCGTGGCTT
1 TCCCAGGAAATCGTGGCTT
92381523 TC
1 TC
92381525 TCTTAGGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.28
Consensus pattern (19 bp):
TCCCAGGAAATCGTGGCTT
Found at i:92383091 original size:13 final size:13
Alignment explanation
Indices: 92383073--92383099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92383063 GCCATCAACA
92383073 CCGTGATTCCAGG
1 CCGTGATTCCAGG
92383086 CCGTGATTCCAGG
1 CCGTGATTCCAGG
92383099 C
1 C
92383100 TTCGAATCAT
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:0.33, G:0.30, T:0.22
Consensus pattern (13 bp):
CCGTGATTCCAGG
Found at i:92388352 original size:14 final size:14
Alignment explanation
Indices: 92388333--92388362 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92388323 AAGATATTCT
92388333 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
92388347 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
92388361 TT
1 TT
92388363 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:92388401 original size:14 final size:16
Alignment explanation
Indices: 92388382--92388414 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
92388372 TCGATATTCT
92388382 TTTTCA-TTCAT-GCA
1 TTTTCATTTCATAGCA
92388396 TTTTCATTTCATAGCA
1 TTTTCATTTCATAGCA
92388412 TTT
1 TTT
92388415 CATCGCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 5 0.29
16 6 0.35
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTTCATTTCATAGCA
Found at i:92396488 original size:44 final size:44
Alignment explanation
Indices: 92396437--92396615 Score: 161
Period size: 44 Copynumber: 4.1 Consensus size: 44
92396427 GGGACAATGT
*
92396437 AGATCAAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGC-AGATTTGGCATCCCTGTGTTTATAGGGAAC
* * * * * * * *
92396481 AGATCAAAGATAGCAGATCTGACATTCTTGTGCTTACAGCGAAGT
1 AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-C
** *
92396526 AGATCAAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAT
1 AGATCAAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC
**
92396569 A-AGTTGAAGATAGCAGATTTGGCAT-CCTGTGTTTATAGGGAAC
1 AGA-TCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
92396612 AGAT
1 AGAT
92396616 TGAAAATAAC
Statistics
Matches: 106, Mismatches: 22, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
42 2 0.02
43 30 0.28
44 57 0.54
45 16 0.15
46 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATCAAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
Found at i:92396697 original size:131 final size:131
Alignment explanation
Indices: 92396451--92396730 Score: 402
Period size: 131 Copynumber: 2.1 Consensus size: 131
92396441 CAAAGAAACA
* * *
92396451 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCTTGTGCTT
1 AGATTTGGCAT-CCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACACTCCTGTGCTT
* *
92396516 ACAGCGAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAATAAGTTGAAGATA
65 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
92396581 GC-
130 -CT
*
92396583 AGATTTGGCATCCTGTGTTTATAGGGAACAGATTGAAA-ATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCTGTGTTTATAGGGAACAGA-TCAAAGATAACAGATCTGACACTCCTGTGCTT
** * * *
92396647 ACAGCGAAGCAGATTGATGATTTTAGCATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
65 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
92396712 CT
130 CT
*
92396714 AGATTTTGCATCTCTGT
1 AGATTTGGCATC-CTGT
92396731 ATTAGCGGAG
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
130 1 0.01
131 113 0.85
132 19 0.14
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (131 bp):
AGATTTGGCATCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACACTCCTGTGCTTA
CAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAC
T
Found at i:92397098 original size:205 final size:205
Alignment explanation
Indices: 92396740--92397249 Score: 720
Period size: 205 Copynumber: 2.5 Consensus size: 205
92396730 TATTAGCGGA
*
92396740 GAGCAAATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * * *
92396805 TTGGCATCTTTGTTTTTTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGA
* * * * * *
92396870 CACATAGTAGATCCAAACTTCAGAT-GTCTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTT
131 CACATAGCAGATCCAAACTTCAGATGGT-TATACTGAAGCAGATCCAACACGATTTGACATCCTT
*
92396934 GTGCTTATAAG
195 GTGCTTACAAG
* *
92396945 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTCGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
92397010 TTGGTATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAATGG-GGAGCAG
66 TTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGAGG-GCAG
* * * *
92397074 ATACGTAGCAGATCTC-ACCTTCAGATGGTTATACTGAAGCAGATCCAACACGATTTTACATCCT
130 ACACATAGCAGATC-CAAACTTCAGATGGTTATACTGAAGCAGATCCAACACGATTTGACATCCT
92397138 TGTGCTTACAAG
194 TGTGCTTACAAG
* *
92397150 GAGCAAATCGAAGACACAGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * * *
92397215 TTGGCAACTCTGCATTGGCGGAGAGCAGATCGAAG
66 TTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAG
92397250 ATACCAGATT
Statistics
Matches: 271, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
204 2 0.01
205 266 0.98
206 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGA
CACATAGCAGATCCAAACTTCAGATGGTTATACTGAAGCAGATCCAACACGATTTGACATCCTTG
TGCTTACAAG
Found at i:92399174 original size:20 final size:22
Alignment explanation
Indices: 92399151--92399193 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
92399141 ATTAATTATT
92399151 TATATACATT-ATT-TTTTACA
1 TATATACATTCATTATTTTACA
*
92399171 TATATACTTTCATTATTTTACA
1 TATATACATTCATTATTTTACA
92399193 T
1 T
92399194 TATGCCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATACATTCATTATTTTACA
Found at i:92399274 original size:25 final size:24
Alignment explanation
Indices: 92399210--92399293 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 24
92399200 ATTTTTATGC
*
92399210 TATTATATTTCTTATTTCCTATACATT
1 TATTATATTT-TTATTT-ATA-ACATT
**
92399237 TAAAATATATTTTATTATATAACATT
1 TATTATAT-TTTTATT-TATAACATT
**
92399263 TATTATATTTTTATTCTATATTATT
1 TATTATATTTTTATT-TATAACATT
92399288 TATTAT
1 TATTAT
92399294 TTATTATAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
25 20 0.43
26 11 0.23
27 13 0.28
28 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTATATTTTTATTTATAACATT
Found at i:92400299 original size:25 final size:26
Alignment explanation
Indices: 92400271--92400328 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
92400261 CCAATTTTTC
92400271 TTTTAAAAAAGGATTA-ATC-AAAAT
1 TTTTAAAAAAGGATTACATCTAAAAT
*
92400295 ATTTT-AAAGAGGATTACATCTTAAAAT
1 -TTTTAAAAAAGGATTACATC-TAAAAT
92400322 TTTTAAA
1 TTTTAAA
92400329 TTTTCGACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 10 0.36
25 7 0.25
26 4 0.14
27 7 0.25
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (26 bp):
TTTTAAAAAAGGATTACATCTAAAAT
Found at i:92415910 original size:93 final size:93
Alignment explanation
Indices: 92415803--92415974 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
92415793 CGCCCATAAG
* * * *
92415803 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGATTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
92415868 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
92415896 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
92415961 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
92415975 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:92415971 original size:46 final size:46
Alignment explanation
Indices: 92415796--92415971 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
92415786 TGTAACCCGC
* * *
92415796 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
92415842 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
92415892 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
92415935 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
92415972 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:92429254 original size:45 final size:45
Alignment explanation
Indices: 92429150--92429297 Score: 214
Period size: 45 Copynumber: 3.4 Consensus size: 45
92429140 TCGAATTCAT
* * *
92429150 TCACTGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
92429192 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* *
92429237 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
92429282 TCACCGGCATTATAGC
1 TCACCGGCATTATAGC
92429298 TTACACATAA
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
42 10 0.10
43 17 0.18
44 5 0.05
45 63 0.66
46 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
Found at i:92429404 original size:37 final size:37
Alignment explanation
Indices: 92429354--92429429 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
92429344 AAATTAGGTA
*
92429354 CAAGCATCATTCGAATATATCATCCTACATTTTTATT
1 CAAGCATCATTCGAATAGATCATCCTACATTTTTATT
92429391 CAAGCATCATTCGAATAGATCATCCTACATTTTTATT
1 CAAGCATCATTCGAATAGATCATCCTACATTTTTATT
92429428 CA
1 CA
92429430 CTTTTATTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (37 bp):
CAAGCATCATTCGAATAGATCATCCTACATTTTTATT
Found at i:92434618 original size:23 final size:23
Alignment explanation
Indices: 92434591--92434649 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
92434581 TAGCTCATTG
92434591 GAGCTTACCAT-TTCAGCTCGTATA
1 GAGCTTACC-TGTTCAGCTCG-ATA
92434615 -AGCTTA-CTGTTCAGCTCGATA
1 GAGCTTACCTGTTCAGCTCGATA
92434636 GAGCTTA-CTGTTCA
1 GAGCTTACCTGTTCA
92434650 TCAGCTCAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.12
22 23 0.70
23 6 0.18
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (23 bp):
GAGCTTACCTGTTCAGCTCGATA
Found at i:92434630 original size:22 final size:22
Alignment explanation
Indices: 92434602--92434649 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
92434592 AGCTTACCAT
92434602 TTCAGCTCGTATA-AGCTTACTG
1 TTCAGCTCG-ATAGAGCTTACTG
92434624 TTCAGCTCGATAGAGCTTACTG
1 TTCAGCTCGATAGAGCTTACTG
92434646 TTCA
1 TTCA
92434650 TCAGCTCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (22 bp):
TTCAGCTCGATAGAGCTTACTG
Found at i:92434640 original size:45 final size:45
Alignment explanation
Indices: 92434537--92434643 Score: 109
Period size: 45 Copynumber: 2.4 Consensus size: 45
92434527 GACTCACCAC
92434537 AGCTC-TTATGAGCTTACCGATATATCAGCTCGTAAGAGCTTATTT
1 AGCTCATTA-GAGCTTACCGATATATCAGCTCGTAAGAGCTTATTT
*
92434582 AGCTCATTGGAGCTTACC-AT-T-TCAGCTCGTATA-AGCTTACTGTT
1 AGCTCATTAGAGCTTACCGATATATCAGCTCGTA-AGAGCTTA-T-TT
92434626 CAGCTCGA-TAGAGCTTAC
1 -AGCTC-ATTAGAGCTTAC
92434644 TGTTCATCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
42 16 0.30
43 3 0.06
44 4 0.07
45 28 0.52
46 3 0.06
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (45 bp):
AGCTCATTAGAGCTTACCGATATATCAGCTCGTAAGAGCTTATTT
Found at i:92438271 original size:41 final size:41
Alignment explanation
Indices: 92438226--92438343 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
92438216 TGAAAGATAA
92438226 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
92438267 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92438297 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92438338 ATGTAG
1 ATGTAG
92438344 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:92438282 original size:71 final size:71
Alignment explanation
Indices: 92438194--92438357 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
92438184 GAGATGTATC
92438194 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92438259 AGGACA
66 AGGACA
92438265 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92438330 AGGACA
66 AGGACA
92438336 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
92438358 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:92439192 original size:18 final size:19
Alignment explanation
Indices: 92439149--92439192 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
92439139 GTAACTCGAG
92439149 TTATGATTTATTTAGTGAA
1 TTATGATTTATTTAGTGAA
92439168 TTATGATTTATTTAGTGAA
1 TTATGATTTATTTAGTGAA
92439187 -TATGAT
1 TTATGAT
92439193 GCAGCAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (19 bp):
TTATGATTTATTTAGTGAA
Found at i:92439937 original size:33 final size:34
Alignment explanation
Indices: 92439893--92439964 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
92439883 AACAGTGCAT
* *
92439893 ACAGTAACAGTCTGGGCCTGAGCCCTATTCAATA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATACAATA
* *
92439927 ACAGT-ACAGTCTGGGCTTAAGCCCTATACAGTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATACAATA
92439960 ACAGT
1 ACAGT
92439965 GTAGGCCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.85
34 5 0.15
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTAAGCCCTATACAATA
Found at i:92447359 original size:49 final size:48
Alignment explanation
Indices: 92447286--92447473 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 48
92447276 TAGCCGAAGC
*
92447286 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* *
92447334 TAATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAA
1 T-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
* * * * *
92447385 TTTTTGGGTACGCACAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
** *
92447434 TTATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
92447474 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 72 0.62
50 6 0.05
51 38 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:92447405 original size:100 final size:101
Alignment explanation
Indices: 92447291--92447487 Score: 324
Period size: 100 Copynumber: 2.0 Consensus size: 101
92447281 GAAGCTATCT
* * **
92447291 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACATAGTAGCC
1 GGTACGCACAGTAGCCTGCACATAGTACTACACATGCGACCAATAATCCAGTACACATAGTAGCC
92447356 TGCACTTAGTACTACACACGTGA-TCACAATTTTTG
66 TGCACTTAGTACTACACACGTGACTCACAATTTTTG
* *
92447391 GGTACGCACAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCC
1 GGTACGCACAGTAGCCTGCACATAGTACTACACATGCGACCAATAATCCAGTACACATAGTAGCC
92447456 TGCACTTAGTACTACACACGTGACCTCACAAT
66 TGCACTTAGTACTACACACGTGA-CTCACAAT
92447488 AGTTCATTTG
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 82 0.92
102 7 0.08
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
GGTACGCACAGTAGCCTGCACATAGTACTACACATGCGACCAATAATCCAGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGACTCACAATTTTTG
Found at i:92449493 original size:14 final size:14
Alignment explanation
Indices: 92449474--92449543 Score: 52
Period size: 15 Copynumber: 4.8 Consensus size: 14
92449464 TAAAGATAAC
*
92449474 AAGAAAACCAAATA
1 AAGAAACCCAAATA
* *
92449488 AAGAAATCCAAGACA
1 AAGAAACCCAA-ATA
92449503 GAA-AAACCCAGAATA
1 -AAGAAACCCA-AATA
* *
92449518 AATAAATCCAGAATA
1 AAGAAACCCA-AATA
92449533 AAGAAACCCAA
1 AAGAAACCCAA
92449544 GATACGATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
14 13 0.29
15 29 0.64
16 3 0.07
ACGTcount: A:0.63, C:0.19, G:0.10, T:0.09
Consensus pattern (14 bp):
AAGAAACCCAAATA
Found at i:92452581 original size:49 final size:51
Alignment explanation
Indices: 92452509--92452648 Score: 203
Period size: 49 Copynumber: 2.8 Consensus size: 51
92452499 AGCCGAAGCT
*
92452509 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATA
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATA
* * * *
92452558 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATA
* *
92452609 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACG
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACG
92452649 TGACCTCACA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 40 0.49
50 1 0.01
51 40 0.49
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATA
Found at i:92452638 original size:51 final size:49
Alignment explanation
Indices: 92452513--92452653 Score: 201
Period size: 51 Copynumber: 2.8 Consensus size: 49
92452503 GAAGCTATCT
* * *
92452513 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCG
* * **
92452562 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATAATCG
92452613 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
92452654 TCACAATAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
49 37 0.45
50 2 0.02
51 43 0.52
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCG
Found at i:92458050 original size:28 final size:28
Alignment explanation
Indices: 92458018--92458072 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
92458008 GGTATATTGG
*
92458018 TAATTTTGCTATTTAGGGGTAATTTCGA
1 TAATTTTACTATTTAGGGGTAATTTCGA
*
92458046 TAATTTTACTCTTTAGGGGTAATTTCG
1 TAATTTTACTATTTAGGGGTAATTTCG
92458073 TGATCTACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (28 bp):
TAATTTTACTATTTAGGGGTAATTTCGA
Found at i:92459785 original size:41 final size:41
Alignment explanation
Indices: 92459740--92459857 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
92459730 TGAAAGATAA
92459740 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
92459781 ATGTAGAC-AAG-AG-A-GC-T-A---C-A-TGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92459811 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92459852 ATGTAG
1 ATGTAG
92459858 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 8 0.15
32 2 0.04
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 2 0.04
40 8 0.15
41 14 0.26
42 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:92459796 original size:71 final size:71
Alignment explanation
Indices: 92459708--92459871 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
92459698 GAGATGTATC
92459708 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92459773 AGGACA
66 AGGACA
*
92459779 CCATGTAGACAAGAGAGCTACATGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92459844 AGGACA
66 AGGACA
92459850 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
92459872 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:92467306 original size:28 final size:28
Alignment explanation
Indices: 92467264--92467318 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
92467254 GGTATATTGG
*
92467264 TAATTTTGCTATTTAGGGGTAATTTCGA
1 TAATTTTACTATTTAGGGGTAATTTCGA
*
92467292 TAATTTTACTCTTTAGGGGTAATTTCG
1 TAATTTTACTATTTAGGGGTAATTTCG
92467319 TGATCTACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (28 bp):
TAATTTTACTATTTAGGGGTAATTTCGA
Found at i:92469030 original size:41 final size:41
Alignment explanation
Indices: 92468985--92469102 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
92468975 TGAAAGATAA
92468985 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
92469026 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92469056 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92469097 ATGTAG
1 ATGTAG
92469103 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:92469041 original size:71 final size:71
Alignment explanation
Indices: 92468953--92469116 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
92468943 GAGATGTATC
92468953 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92469018 AGGACA
66 AGGACA
92469024 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92469089 AGGACA
66 AGGACA
92469095 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
92469117 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:92476598 original size:41 final size:41
Alignment explanation
Indices: 92476553--92476670 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
92476543 TGAAAGATAA
92476553 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
92476594 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92476624 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92476665 ATGTAG
1 ATGTAG
92476671 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:92476609 original size:71 final size:71
Alignment explanation
Indices: 92476521--92476684 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
92476511 GAGATGTATC
92476521 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92476586 AGGACA
66 AGGACA
92476592 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92476657 AGGACA
66 AGGACA
92476663 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
92476685 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:92486134 original size:62 final size:62
Alignment explanation
Indices: 92486066--92486190 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
92486056 GCAAGGCGTT
92486066 CTTCAAATGGGCATATTGTCAAATCTATGCAATACGCCACCCAAACTTATAAAGAAGTTCAC
1 CTTCAAATGGGCATATTGTCAAATCTATGCAATACGCCACCCAAACTTATAAAGAAGTTCAC
*
92486128 CTTCAAATGGGCATATTGTCAAATCTATGCAATATGCCACCCAAACTTATAAAGAAGTTCAC
1 CTTCAAATGGGCATATTGTCAAATCTATGCAATACGCCACCCAAACTTATAAAGAAGTTCAC
92486190 C
1 C
92486191 GATCTCACAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (62 bp):
CTTCAAATGGGCATATTGTCAAATCTATGCAATACGCCACCCAAACTTATAAAGAAGTTCAC
Found at i:92487825 original size:17 final size:17
Alignment explanation
Indices: 92487805--92487854 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 17
92487795 AATAACTAAG
92487805 ATAAATAAAATAGAACA
1 ATAAATAAAATAGAACA
*
92487822 ATAAATTAAATATTAGAATA
1 ATAAA-TAAA-A-TAGAACA
92487842 ATAAA-AAAA-AGAA
1 ATAAATAAAATAGAA
92487855 ACTAAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 4 0.14
17 6 0.21
18 7 0.24
19 1 0.03
20 11 0.38
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (17 bp):
ATAAATAAAATAGAACA
Found at i:92498649 original size:12 final size:12
Alignment explanation
Indices: 92498616--92498649 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
92498606 TATTTTTTAA
92498616 TTTCATTTAATT
1 TTTCATTTAATT
92498628 TTT-ATTTAATT
1 TTTCATTTAATT
*
92498639 TTTCATATAAT
1 TTTCATTTAAT
92498650 ATTATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTCATTTAATT
Found at i:92498887 original size:92 final size:92
Alignment explanation
Indices: 92498730--92498901 Score: 238
Period size: 92 Copynumber: 1.9 Consensus size: 92
92498720 TGCATGTACT
* * * * * *
92498730 ATAATAAAAAATCTATTGATAATTCAGGTATTATATTGGACATTTTCAAAGTATAAATACCACAT
1 ATAATAAAAAATCTATTAATAATCCAAGTATTACATTGAACATTTTCAAAGTACAAATACCACAT
*
92498795 TGAATATTTTATGAATGTATATGAACC
66 TGAACATTTTATGAATGTATATGAACC
* *
92498822 ATAATAAAACA-CATATTAATAATCCAAGTATTACATTGAACATTTTCAAAGTACAAATATCACA
1 ATAATAAAAAATC-TATTAATAATCCAAGTATTACATTGAACATTTTCAAAGTACAAATACCACA
*
92498886 TTGGACATTTTATGAA
65 TTGAACATTTTATGAA
92498902 AATATAGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
91 1 0.01
92 68 0.99
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (92 bp):
ATAATAAAAAATCTATTAATAATCCAAGTATTACATTGAACATTTTCAAAGTACAAATACCACAT
TGAACATTTTATGAATGTATATGAACC
Found at i:92499745 original size:154 final size:156
Alignment explanation
Indices: 92499561--92499871 Score: 511
Period size: 155 Copynumber: 2.0 Consensus size: 156
92499551 ACATTTTAAG
* *
92499561 AAATTTATTTAATCTCGATCATTTGATATTTGTTAA-TATTTTAAAAAAATCGATAAATCTAAAA
1 AAATTTATTTAATCTCGATCATATGATATTTGCTAATTATTTTAAAAAAATCGATAAATCTAAAA
*
92499625 TAATACATCAAAACAAATTAATATTAATATATCAATTCC-AAAAAAAATGGTACACTCATCCATG
66 TAATACATCAAAACAAATTAATACTAATATATCAATTCCAAAAAAAAATGGTACACTCATCCATG
*
92499689 TGGTATTGATTATATTATTTTTACAT
131 TAGTATTGATTATATTATTTTTACAT
* * *
92499715 AAATTTATTTAATCTC-ATTCATATGATATTTGCTAATTTTTTTAAAAAAATTGATAAATCTAGA
1 AAATTTATTTAATCTCGA-TCATATGATATTTGCTAATTATTTTAAAAAAATCGATAAATCTAAA
*
92499779 ATAATATATCAAAACAAATTAATACTAATATATCAATTCCAAAAAAAAATGGTACACTCATCCAT
65 ATAATACATCAAAACAAATTAATACTAATATATCAATTCCAAAAAAAAATGGTACACTCATCCAT
*
92499844 GTAGTATTGATTATCTTATTTTTACAT
130 GTAGTATTGATTATATTATTTTTACAT
92499871 A
1 A
92499872 TACCAATAAA
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
153 1 0.01
154 32 0.22
155 62 0.43
156 50 0.34
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.39
Consensus pattern (156 bp):
AAATTTATTTAATCTCGATCATATGATATTTGCTAATTATTTTAAAAAAATCGATAAATCTAAAA
TAATACATCAAAACAAATTAATACTAATATATCAATTCCAAAAAAAAATGGTACACTCATCCATG
TAGTATTGATTATATTATTTTTACAT
Found at i:92503760 original size:44 final size:44
Alignment explanation
Indices: 92503696--92504178 Score: 204
Period size: 44 Copynumber: 10.7 Consensus size: 44
92503686 TCATCATGGC
***
92503696 AAATCTTATCTCCCTGAAGTTGCAGCAAAGTAGATTGAAGCCACT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA-T
* * * *
92503741 -AATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTAAAACCAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAT
* * * *
92503784 AAACCTTATCTCCCTTAAGTTGCAGTGGAGTAGGTTGAAGTCAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAT
* * * * * * ** *
92503828 GAATCTCATCTCCCTGAAGTTACAGTGTAGCATATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA-T
* * ** *
92503873 AAATCTCATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTGCAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC--C-A-T
* * * * * *
92503921 CACAAATCCTATAC-CTCT-AGAGTTGTAGTAG-GTCGGATTAGCTCTA-CCAT
1 ---AAATCTTAT-CTCCCTGA-AGTTGCAGTGGAGT-AGATT-G---AAGCCAT
* *
92503971 GACGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCACT
1 -A--AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA-T
* ** * * *
92504019 -AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAACCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAT
* * * * * ** *** *
92504062 AAACCTTATCTCCCTAAAATTGCAGTAGAGCAGGCTGAAATTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAT
* * * * * **
92504106 AAATCTCATCTCCCTAAAGTTCCAGTGGAGCAAATTGAAGATAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAT
* * *
92504150 GAATCTTATTTCCGTGAAGTTGCAGTGGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGA
92504179 ACATATTGTA
Statistics
Matches: 327, Mismatches: 88, Indels: 47
0.71 0.19 0.10
Matches are distributed among these distances:
43 1 0.00
44 230 0.70
45 33 0.10
46 1 0.00
47 3 0.01
48 4 0.01
49 2 0.01
50 24 0.07
51 26 0.08
52 1 0.00
54 1 0.00
55 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAT
Found at i:92506133 original size:49 final size:49
Alignment explanation
Indices: 92505947--92506136 Score: 131
Period size: 49 Copynumber: 3.8 Consensus size: 49
92505937 TATATATATA
* * *
92505947 TATTATTTATTTTAAACTA-TTATACATATTATTTATTTT-GATT-TTTTT
1 TATTATTTA-TTTAAACTATTTTTA-TTATTATTTATTTTAAATTCTTTTT
* * *
92505995 TA-TATTTTATTTCAAACTATTTTATATATATTAGTTATTTTAAAATTCTTATA
1 TATTA-TTTATTT-AAACTATTTT-TAT-TATTATTTATTTT-AAATTCTTTTT
* * * * * * **
92506048 TGTTATTTAGTTATACTGCTTTCTA-TGTTAACTATTTTAAATTCTTTTT
1 TATTATTTATTTAAACT-ATTTTTATTATTATTTATTTTAAATTCTTTTT
92506097 TATTATTTATTGTAAACT-TTTTTATTATTATTTATTTTAA
1 TATTATTTATT-TAAACTATTTTTATTATTATTTATTTTAA
92506137 GATTTCATAT
Statistics
Matches: 107, Mismatches: 23, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
47 5 0.05
48 17 0.16
49 32 0.30
50 29 0.27
52 9 0.08
53 13 0.12
54 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (49 bp):
TATTATTTATTTAAACTATTTTTATTATTATTTATTTTAAATTCTTTTT
Found at i:92506264 original size:20 final size:21
Alignment explanation
Indices: 92506221--92506264 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
92506211 TTATTATTTC
*
92506221 TTTTAAACTTTTTATATGTTA
1 TTTTAAACTTTTTATATATTA
92506242 TTTTAAA-TTGTTT-TATATTA
1 TTTTAAACTT-TTTATATATTA
92506262 TTT
1 TTT
92506265 ATTTCATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTAAACTTTTTATATATTA
Found at i:92507583 original size:21 final size:21
Alignment explanation
Indices: 92507538--92507600 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
92507528 AAAATATAAT
* *
92507538 AAATCAAATATAT-TTAAAA-
1 AAATAAAATAAATATTAAAAC
*
92507557 ACATAAAATAAATATTAAAAC
1 AAATAAAATAAATATTAAAAC
*
92507578 AAATAAAA-ATAATACTAAAAC
1 AAATAAAATA-AATATTAAAAC
92507599 AA
1 AA
92507601 TTCTTAAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.28
20 7 0.19
21 19 0.53
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAATAAATATTAAAAC
Found at i:92507677 original size:15 final size:16
Alignment explanation
Indices: 92507647--92507679 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
92507637 AAATAGTTAT
92507647 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
92507664 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
92507679 A
1 A
92507680 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:92509257 original size:30 final size:30
Alignment explanation
Indices: 92509223--92509287 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
92509213 ACTTATTTAA
92509223 TTGTTAATTTTGTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAA-GCAT
92509253 TTGTTAATTTTGTTATTATTTTAGAAGCAT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
92509283 TTGTT
1 TTGTT
92509288 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 32 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAGCAT
Found at i:92509995 original size:23 final size:23
Alignment explanation
Indices: 92509965--92510011 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
92509955 TTTGTTAAAA
92509965 TCTTCCCATAGTTCAGGTGGGTT
1 TCTTCCCATAGTTCAGGTGGGTT
92509988 TCTTCCCATAGTTCAGGTGGGTT
1 TCTTCCCATAGTTCAGGTGGGTT
92510011 T
1 T
92510012 TCGAGTTTAA
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:0.13, C:0.21, G:0.26, T:0.40
Consensus pattern (23 bp):
TCTTCCCATAGTTCAGGTGGGTT
Found at i:92510159 original size:17 final size:17
Alignment explanation
Indices: 92510139--92510176 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
92510129 ATTTATGATA
92510139 TAATTAAATTT-CAAAAT
1 TAATTAAATTTAC-AAAT
*
92510156 TAATTTAATTTACAAAT
1 TAATTAAATTTACAAAT
92510173 TAAT
1 TAAT
92510177 AATCTTACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATTAAATTTACAAAT
Found at i:92512689 original size:8 final size:8
Alignment explanation
Indices: 92512676--92512700 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
92512666 TTTGAGATGA
92512676 TATATATG
1 TATATATG
92512684 TATATATG
1 TATATATG
92512692 TATATATG
1 TATATATG
92512700 T
1 T
92512701 GTATGATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:92520599 original size:11 final size:11
Alignment explanation
Indices: 92520579--92520618 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
92520569 ACATTAGCAA
92520579 CAAAATAATAG
1 CAAAATAATAG
*
92520590 CAATATAATAG
1 CAAAATAATAG
* *
92520601 TAAAATGATAG
1 CAAAATAATAG
92520612 CAAAATA
1 CAAAATA
92520619 GTGACAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (11 bp):
CAAAATAATAG
Done.