Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 39 of 279
Found at i:13133162 original size:36 final size:36
Alignment explanation
Indices: 13133112--13133200 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
13133102 CAATCAATTT
* *
13133112 ATCAGTATCATTCAGTAACAACCAATTATTCAGTAGCA
1 ATCAGT-T-ATTCAGTAACAACCAATCATTCAGTAACA
*
13133150 ATCAGTTATTCAGTAACAATCAATCATTCAGTAACA
1 ATCAGTTATTCAGTAACAACCAATCATTCAGTAACA
* *
13133186 GTCAGTCATTCAGTA
1 ATCAGTTATTCAGTA
13133201 CCTTTATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 39 0.85
37 1 0.02
38 6 0.13
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (36 bp):
ATCAGTTATTCAGTAACAACCAATCATTCAGTAACA
Found at i:13133406 original size:44 final size:44
Alignment explanation
Indices: 13133353--13133444 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
13133343 CCGAAGTAAC
* * *
13133353 AGTAGCAGTACGACACACATGGTGCCTCATTGACTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
* **
13133397 AGTAACAGTATGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
13133441 AGTA
1 AGTA
13133445 TCTCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:13135302 original size:47 final size:48
Alignment explanation
Indices: 13135169--13135426 Score: 164
Period size: 47 Copynumber: 5.4 Consensus size: 48
13135159 TGTCAGACAC
* * **
13135169 GTCTGGGACATGCATCGACCAC-ATTATG-AGAGTCAGTGTAAGACCAT
1 GTCTGGGACATGCATCGGCCTCGAGAATGTA-AGTCAGTGTAAGACCAT
* * * * *
13135216 GTCTGGGACATGACATTGGCATTGAGACAAG--AGTTAGTGTAAGA-CAT
1 GTCTGGGACATG-CATCGGCCTCGAGA-ATGTAAGTCAGTGTAAGACCAT
* *
13135263 GTCTGGGACATGCATCGGCCTCGAGAATGTAAGCCAGTGTAAGA-TAT
1 GTCTGGGACATGCATCGGCCTCGAGAATGTAAGTCAGTGTAAGACCAT
** *
13135310 GTCTGAAACATGCATCGG-CTATGAG-ATGT--GTCAGTGTAAGACCAT
1 GTCTGGGACATGCATCGGCCT-CGAGAATGTAAGTCAGTGTAAGACCAT
* * *
13135355 GTCCGGGACATAGCATTGG-CACG-GATATGTGAGAG-CTAGTGTAAGACCAT
1 GTCTGGGACAT-GCATCGGCCTCGAGA-ATGT-A-AGTC-AGTGTAAGACCAT
* *
13135405 GTTTGGGACATGGCATCAGCCT
1 GTCTGGGACAT-GCATCGGCCT
13135427 TATACCCTAT
Statistics
Matches: 162, Mismatches: 33, Indels: 28
0.73 0.15 0.13
Matches are distributed among these distances:
44 12 0.07
45 13 0.08
46 28 0.17
47 59 0.36
48 17 0.10
49 2 0.01
50 30 0.19
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
GTCTGGGACATGCATCGGCCTCGAGAATGTAAGTCAGTGTAAGACCAT
Found at i:13138499 original size:3 final size:3
Alignment explanation
Indices: 13138484--13138566 Score: 61
Period size: 3 Copynumber: 29.0 Consensus size: 3
13138474 ATATATTAGT
* *
13138484 TAA TAA TAT TAA TAA TAA TACA TTA TAA TAA T-A TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
13138528 TAA T-T TAA TAA T-T TAA T-A TAA -AA TTAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
13138567 ATATCTATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
2 10 0.16
3 48 0.77
4 4 0.06
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:13138511 original size:13 final size:12
Alignment explanation
Indices: 13138484--13138566 Score: 71
Period size: 13 Copynumber: 6.5 Consensus size: 12
13138474 ATATATTAGT
13138484 TAATAAT-ATTAA
1 TAATAATAATT-A
13138496 TAATAATACATTA
1 TAATAATA-ATTA
*
13138509 TAATAATATAATA
1 TAATAATA-ATTA
13138522 TAATAATAATT-
1 TAATAATAATTA
13138533 TAATAATTTAATATA
1 TAATAA--TAAT-TA
*
13138548 AAATTAATAATTA
1 TAA-TAATAATTA
13138561 TAATAA
1 TAATAA
13138567 ATATCTATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.10
12 12 0.20
13 28 0.47
14 8 0.14
15 2 0.03
16 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:13139073 original size:20 final size:19
Alignment explanation
Indices: 13139027--13139073 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
13139017 AATCATTTTT
*
13139027 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
13139047 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
13139067 CCTAATT
1 CCTAATT
13139074 AAACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:13141363 original size:25 final size:25
Alignment explanation
Indices: 13141330--13141382 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
13141320 AAAGAATAAT
*
13141330 TGTTAAGAGTTGAATTTGTAAGAAA
1 TGTTAAGAGTTGAATTTATAAGAAA
* *
13141355 TGTTGAGAGTTGAATTTATAAGTAA
1 TGTTAAGAGTTGAATTTATAAGAAA
13141380 TGT
1 TGT
13141383 AATCAGATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.40
Consensus pattern (25 bp):
TGTTAAGAGTTGAATTTATAAGAAA
Found at i:13147867 original size:68 final size:67
Alignment explanation
Indices: 13147782--13148064 Score: 252
Period size: 68 Copynumber: 4.2 Consensus size: 67
13147772 ATAGATCAAT
* *
13147782 TGTGATATTAAGTCAGCGGACTATAAAATAAAAATGCGATCTTAAATTGACGTGCTATGTAGGTC
1 TGTGATCTTAAATCAGCGGACTATAAAATAAAAA-GCGATCTTAAATTGACGTGCTATGTAGGT-
13147847 T-G-
64 TAGC
* * * ** * ** *
13147849 TCGTGATTTTAAACCAGCGGACTGTAAAATAGATGAGCTATCTTAAATCAATGTGCTATGTAGGT
1 T-GTGATCTTAAATCAGCGGACTATAAAATA-AAAAGCGATCTTAAATTGACGTGCTATGTAGGT
13147914 TAGC
64 TAGC
** * * *
13147918 TGTGATCTTAAATCAAAGGACTATAAGAT-AAAAGCATGATCTTAAATTGGCATGCTATGTAGGT
1 TGTGATCTTAAATCAGCGGACTATAAAATAAAAAGC--GATCTTAAATTGACGTGCTATGTAGGT
13147982 TAGC
64 TAGC
* * * * * *
13147986 TGAGATCTTAAATCAGTGGACTATAAGATAGAAATGCTATCTTAAA-TCAGCGTGCTATGTAGGT
1 TGTGATCTTAAATCAGCGGACTATAAAATA-AAAAGCGATCTTAAATTGA-CGTGCTATGTAGGT
*
13148050 TAGT
64 TAGC
13148054 TGT-ATCTTAAA
1 TGTGATCTTAAA
13148065 GCAACAGACT
Statistics
Matches: 173, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
66 4 0.02
67 11 0.06
68 150 0.87
69 3 0.02
70 5 0.03
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (67 bp):
TGTGATCTTAAATCAGCGGACTATAAAATAAAAAGCGATCTTAAATTGACGTGCTATGTAGGTTA
GC
Found at i:13148150 original size:134 final size:136
Alignment explanation
Indices: 13147885--13148199 Score: 366
Period size: 134 Copynumber: 2.3 Consensus size: 136
13147875 AAATAGATGA
* * *
13147885 GCTATCTTAAATCAATGTGCTATGTAGGTTAGCTGTGATCTTAAATCAAAGGACTATAAGATAAA
1 GCTATCTTAAATCAACGTGCTATGTAGGTTAGCTGTGATCTTAAAGCAAAGGACTAGAAGATAAA
* * * * * * * * * *
13147950 AGCATGATCTTAAATTGGCATGCTATGTAGGTTAGCTGAGATCTTAAATCAGTGGACTATAAGAT
66 AGCATGATCTTAAATCGACATGCCATGCAAGCTAACCGAGATATAAAATCAGTGGACTATAAGAT
*
13148015 AGAAAT
131 AGAAAC
* * *
13148021 GCTATCTTAAATCAGCGTGCTATGTAGGTTAGTTGT-ATCTTAAAGCAACA-GACT-GAAGATAG
1 GCTATCTTAAATCAACGTGCTATGTAGGTTAGCTGTGATCTTAAAGCAA-AGGACTAGAAGATAA
* * * * *
13148083 AAGCGTGATCTTAAATCGACATGCCATGCAAGCTAACCGTGATATAAAATTAGTGGGCTGTAAGA
65 AAGCATGATCTTAAATCGACATGCCATGCAAGCTAACCGAGATATAAAATCAGTGGACTATAAGA
*
13148148 TAGAAGC
130 TAGAAAC
* **
13148155 GCAATCTTAAATCAACGTGCTATGTAGGTTAGCCATGATCTTAAA
1 GCTATCTTAAATCAACGTGCTATGTAGGTTAGCTGTGATCTTAAA
13148200 TTAGTGGACT
Statistics
Matches: 149, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
134 92 0.62
135 23 0.15
136 34 0.23
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (136 bp):
GCTATCTTAAATCAACGTGCTATGTAGGTTAGCTGTGATCTTAAAGCAAAGGACTAGAAGATAAA
AGCATGATCTTAAATCGACATGCCATGCAAGCTAACCGAGATATAAAATCAGTGGACTATAAGAT
AGAAAC
Found at i:13148201 original size:68 final size:68
Alignment explanation
Indices: 13147817--13148301 Score: 330
Period size: 68 Copynumber: 7.2 Consensus size: 68
13147807 AAATAAAAAT
** * * * * *
13147817 GCGATCTTAAATTGACGTGCTATGTAGGTCT-GTCGTGATTTTAAACCAGCGGACTGTAAAATAG
1 GCGATCTTAAATCAACGTGCTATGTAGGT-TAGCCGTGATCTTAAATCAGTGGACTGTAAGATAG
* *
13147881 ATGA
65 AAGC
* * * ** * *
13147885 GCTATCTTAAATCAATGTGCTATGTAGGTTAGCTGTGATCTTAAATCAAAGGACTATAAGATAAA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
13147950 AGC
66 AGC
** *** * * * *
13147953 ATGATCTTAAATTGGCATGCTATGTAGGTTAGCTGAGATCTTAAATCAGTGGACTATAAGATAGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
**
13148018 AAT
66 AGC
* * ** * ***
13148021 GCTATCTTAAATCAGCGTGCTATGTAGGTTAGTTGT-ATCTTAAAGCAACAGACTG-AAGATAGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
13148084 AGC
66 AGC
* * * * * * * * * * * *
13148087 GTGATCTTAAATCGACATGCCATGCAAGCTAACCGTGATATAAAATTAGTGGGCTGTAAGATAGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
13148152 AGC
66 AGC
* * *
13148155 GCAATCTTAAATCAACGTGCTATGTAGGTTAGCCATGATCTTAAATTAGTGGACTGTAAGA-AGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
**
13148219 AAT
66 AGC
** * **** ** *** *
13148222 ATGATCTTAAGTCGGTATGCTATGTAGGTTAGTTGTGATCTTAAATCAACAGATTGTAAGATAGA
1 GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
*
13148287 AGT
66 AGC
*
13148290 GCAATCTTAAAT
1 GCGATCTTAAAT
13148302 AGCTAACTTT
Statistics
Matches: 313, Mismatches: 100, Indels: 8
0.74 0.24 0.02
Matches are distributed among these distances:
66 33 0.11
67 75 0.24
68 205 0.65
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (68 bp):
GCGATCTTAAATCAACGTGCTATGTAGGTTAGCCGTGATCTTAAATCAGTGGACTGTAAGATAGA
AGC
Found at i:13149661 original size:30 final size:30
Alignment explanation
Indices: 13149604--13149661 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
13149594 CACGGGCTGG
* * *
13149604 CACATGGGCTTGTGTCCAGCCCGTGTGGCA
1 CACATAGGCGTGTGTCCAGCCCATGTGGCA
13149634 CACATAGGCGTGTGTCCTA-CCCATGTGG
1 CACATAGGCGTGTGTCC-AGCCCATGTGG
13149662 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (30 bp):
CACATAGGCGTGTGTCCAGCCCATGTGGCA
Found at i:13150763 original size:20 final size:21
Alignment explanation
Indices: 13150738--13150777 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13150728 TCAAGCTAAT
*
13150738 AAGGGC-ACACGCCTGTGTGG
1 AAGGGCAACACGCCCGTGTGG
13150758 AAGGGCAACACGCCCGTGTG
1 AAGGGCAACACGCCCGTGTG
13150778 TCTTCTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AAGGGCAACACGCCCGTGTGG
Found at i:13152070 original size:48 final size:47
Alignment explanation
Indices: 13152018--13152331 Score: 207
Period size: 48 Copynumber: 6.6 Consensus size: 47
13152008 CATGTTCCAA
* *
13152018 ACATGGTTTTACACTGGCTCACATGTCGAGGCCGATGCCATATCCCAG
1 ACATGGTCTTACACTGGCTCACATATC-AGGCCGATGCCATATCCCAG
* * ** * * * *
13152066 ACATGGTCTTACAGTAGCTTTCGTCTCAGTGCCAATGCCATATCTCAG
1 ACATGGTCTTACACTGGCTCACATATCAG-GCCGATGCCATATCCCAG
* * * *
13152114 ACATGGTCTTACACTGGCTCTCATAAT-ATGGCGGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCTCACAT-ATCA-GGCCGATGCCATATCCCAG
* * * * * * *
13152162 ACATGGCCTTACACTAGCGCACATATCAATGCCGATTCCATGTCCTAG
1 ACATGGTCTTACACTGGCTCACATATC-AGGCCGATGCCATATCCCAG
* * * * *** * * *
13152210 ACATGGTATTACACTGGCTCTCACAACATTTTCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCACATATCA-GGCCGATGCCATATCCCAG
* ** * * *
13152258 ACATGGTCTTACACTAGCTCTTATATCGTGGCCGACGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCACATATC-AGGCCGATGCCATATCCCAG
* *
13152306 ACATGGTCTTACACTAGCGCACATAT
1 ACATGGTCTTACACTGGCTCACATAT
13152332 AAGCCAAATG
Statistics
Matches: 203, Mismatches: 56, Indels: 14
0.74 0.21 0.05
Matches are distributed among these distances:
47 5 0.02
48 195 0.96
49 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
ACATGGTCTTACACTGGCTCACATATCAGGCCGATGCCATATCCCAG
Found at i:13152212 original size:96 final size:96
Alignment explanation
Indices: 13152102--13152320 Score: 262
Period size: 96 Copynumber: 2.3 Consensus size: 96
13152092 CAGTGCCAAT
* * * *
13152102 GCCATATCTCAGACATGGTCTTACACTGGCTCTCATAATA-TGGCGGATGCCATGTCCCAAACAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATTGGC-GATGCCATGTCCCAAACAT
*
13152166 GGCCTTACACTAGCGCACATATCAAT-GCCGAT
65 GGCCTTACACTAGCGCACATATC-ATGGCCGAC
* * * ** *
13152198 TCCATGTCCTAGACATGGTATTACACTGGCTCTCACAACATTTTCGATGCCATGTTCCAAACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATTGGCGATGCCATGTCCCAAACATG
* * ** *
13152263 GTCTTACACTAGCTCTTATATCGTGGCCGAC
66 GCCTTACACTAGCGCACATATCATGGCCGAC
13152294 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
13152321 AGCGCACATA
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 1 0.01
96 99 0.97
97 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATTGGCGATGCCATGTCCCAAACATG
GCCTTACACTAGCGCACATATCATGGCCGAC
Found at i:13154358 original size:18 final size:18
Alignment explanation
Indices: 13154335--13154371 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13154325 GAAAGCCGTG
*
13154335 CTAAAATTCAACTTTGTC
1 CTAAAATTCAACTTCGTC
13154353 CTAAAATTCAACTTCGTC
1 CTAAAATTCAACTTCGTC
13154371 C
1 C
13154372 CCAAAGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (18 bp):
CTAAAATTCAACTTCGTC
Found at i:13161301 original size:114 final size:112
Alignment explanation
Indices: 13161082--13161308 Score: 418
Period size: 113 Copynumber: 2.0 Consensus size: 112
13161072 AGCGAAAGAG
*
13161082 GGTAAGAAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCTGGTTCCGTAC
1 GGTAAGAAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCCGGTTCCGTAC
*
13161147 CAGCATTGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
66 CAGCATCGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
13161194 GGTAAGAAAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCCGGTTCCGTA
1 GGTAAG-AAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCCGGTTCCGTA
13161259 CCCAGCATCGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
65 -CCAGCATCGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
13161308 G
1 G
13161309 CAATTACATA
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
112 6 0.05
113 57 0.51
114 48 0.43
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (112 bp):
GGTAAGAAAAAATTGAAAATAGTGACAAATGGGTGCTGAAAGAATATAAACCTCCGGTTCCGTAC
CAGCATCGCATTGATACGCAATTCGGTAAGTTTCTTGAACTTTTTAA
Found at i:13169983 original size:48 final size:48
Alignment explanation
Indices: 13169873--13170095 Score: 243
Period size: 48 Copynumber: 4.6 Consensus size: 48
13169863 GGTGAATTGT
* * * *
13169873 CGATGCCATGTTCCAAAAATGGTCTTACACTGGCTCACATGTCGA-GGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * * * * *
13169921 CAATTCCATATCCCAGACATGGTCTTACACTAGCTTTCATAAT-GTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATCATGGC
* * *
13169969 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAGAACATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
* *
13170017 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTTATATCATGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
* * *
13170065 TGACGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAAACATGGTCTTACACT
13170096 AGCACACAGA
Statistics
Matches: 142, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 140 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
Found at i:13175028 original size:15 final size:15
Alignment explanation
Indices: 13175008--13175040 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
13174998 GCTCCTAATG
13175008 TGGCTGAGTACTGGA
1 TGGCTGAGTACTGGA
13175023 TGGCTGAGTACTGGA
1 TGGCTGAGTACTGGA
13175038 TGG
1 TGG
13175041 AGGCCACGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.42, T:0.27
Consensus pattern (15 bp):
TGGCTGAGTACTGGA
Found at i:13195108 original size:20 final size:20
Alignment explanation
Indices: 13195083--13195123 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
13195073 CTCTATACTT
*
13195083 TTAACAGTATTGCAAATTAG
1 TTAACAATATTGCAAATTAG
13195103 TTAACAATATTGCAAATTAG
1 TTAACAATATTGCAAATTAG
13195123 T
1 T
13195124 CCTGAGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (20 bp):
TTAACAATATTGCAAATTAG
Found at i:13198517 original size:26 final size:26
Alignment explanation
Indices: 13198483--13198584 Score: 186
Period size: 26 Copynumber: 3.9 Consensus size: 26
13198473 TCCCATAATA
13198483 GAACATTTACCTAACCCATTATCATG
1 GAACATTTACCTAACCCATTATCATG
*
13198509 GAATATTTACCTAACCCATTATCATG
1 GAACATTTACCTAACCCATTATCATG
*
13198535 AAACATTTACCTAACCCATTATCATG
1 GAACATTTACCTAACCCATTATCATG
13198561 GAACATTTACCTAACCCATTATCA
1 GAACATTTACCTAACCCATTATCA
13198585 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
GAACATTTACCTAACCCATTATCATG
Found at i:13204812 original size:7 final size:7
Alignment explanation
Indices: 13204800--13204834 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
13204790 GCTGAAGCCT
13204800 TTTCATA
1 TTTCATA
13204807 TTTCATA
1 TTTCATA
13204814 TTTCATA
1 TTTCATA
13204821 TTTCATA
1 TTTCATA
13204828 TTTCATA
1 TTTCATA
13204835 ACATTGGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:13205129 original size:26 final size:26
Alignment explanation
Indices: 13205081--13205433 Score: 519
Period size: 26 Copynumber: 13.6 Consensus size: 26
13205071 TTAATAACCG
* ** *
13205081 GGGCAAAAGCCC-TTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCAATAAACTA
13205106 GGGCATAAGCCCTTTTCAATAAACTA
1 GGGCATAAGCCCTTTTCAATAAACTA
*
13205132 GGGCATAAGCCCTTTTTAATAAACTA
1 GGGCATAAGCCCTTTTCAATAAACTA
** *
13205158 GGGCATAAGCCCTTTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCAATAAACTA
13205184 GGGCATAAGCCCTTTTCAATAAACTA
1 GGGCATAAGCCCTTTTCAATAAACTA
*
13205210 GGGCATAAGCCCTTTTTAATAAACTA
1 GGGCATAAGCCCTTTTCAATAAACTA
** *
13205236 GGGCATAAGCCCTTTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCAATAAACTA
13205262 GGGCATAAGCCCTTTTCAATAAACTA
1 GGGCATAAGCCCTTTTCAATAAACTA
*
13205288 GGGCATAAGCCCTTTTTAATAAACTA
1 GGGCATAAGCCCTTTTCAATAAACTA
** *
13205314 GGGCATAAGCCCTTTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCAATAAACTA
13205340 GGGCATAAGCCCTTTTCAATAAACTA
1 GGGCATAAGCCCTTTTCAATAAACTA
*
13205366 GGGCATAAGCCCTTTTTAATAAACTA
1 GGGCATAAGCCCTTTTCAATAAACTA
** *
13205392 GGGCATAAGCCCTTTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCAATAAACTA
13205418 GGGCATAAGCCCTTTT
1 GGGCATAAGCCCTTTT
13205434 GCTTCCTCCA
Statistics
Matches: 294, Mismatches: 33, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
25 11 0.04
26 283 0.96
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (26 bp):
GGGCATAAGCCCTTTTCAATAAACTA
Found at i:13205196 original size:78 final size:78
Alignment explanation
Indices: 13205081--13205433 Score: 690
Period size: 78 Copynumber: 4.5 Consensus size: 78
13205071 TTAATAACCG
*
13205081 GGGCAAAAGCCC-TTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
13205145 TTTTAATAAACTA
66 TTTTAATAAACTA
13205158 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
13205223 TTTTAATAAACTA
66 TTTTAATAAACTA
13205236 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
13205301 TTTTAATAAACTA
66 TTTTAATAAACTA
13205314 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
13205379 TTTTAATAAACTA
66 TTTTAATAAACTA
13205392 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
13205434 GCTTCCTCCA
Statistics
Matches: 274, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
77 11 0.04
78 263 0.96
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (78 bp):
GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCCT
TTTTAATAAACTA
Found at i:13205512 original size:20 final size:20
Alignment explanation
Indices: 13205481--13205537 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
13205471 TTATGAATAC
13205481 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
13205501 ATCATTTTCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13205521 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
13205538 TCAATATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:13217029 original size:12 final size:12
Alignment explanation
Indices: 13217012--13217053 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
13217002 GCATGGATAC
13217012 ATGAAACACATT
1 ATGAAACACATT
*
13217024 ATG-AA-ACTTT
1 ATGAAACACATT
13217034 CATGAAACACATT
1 -ATGAAACACATT
13217047 ATGAAAC
1 ATGAAAC
13217054 TTTTCTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 4 0.16
11 5 0.20
12 12 0.48
13 4 0.16
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.26
Consensus pattern (12 bp):
ATGAAACACATT
Found at i:13217041 original size:23 final size:23
Alignment explanation
Indices: 13217011--13217056 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
13217001 AGCATGGATA
13217011 CATGAAACACATTATGAAACTTT
1 CATGAAACACATTATGAAACTTT
13217034 CATGAAACACATTATGAAACTTT
1 CATGAAACACATTATGAAACTTT
13217057 TCTAACTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (23 bp):
CATGAAACACATTATGAAACTTT
Found at i:13221607 original size:43 final size:43
Alignment explanation
Indices: 13221553--13221754 Score: 221
Period size: 43 Copynumber: 4.7 Consensus size: 43
13221543 AACATATACA
* *
13221553 ATGCCAATGTCCCAGACGTGGTCTTATATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAACATCG
*
13221596 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAACATCG
* * * * * *
13221639 ATGCCACTGTCCCAAACAG-GGTATTACACGAAATCAGATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAAACATCG
* * * * *
13221681 ATGCCGATGTCCTAGACGTGGTCTTACACGTAAAACAGAA-TTGG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGT-AATCA-AACATCG
*
13221725 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
13221755 AAAAACATAT
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 25 0.19
43 77 0.58
44 30 0.23
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAACATCG
Found at i:13224819 original size:52 final size:50
Alignment explanation
Indices: 13224741--13224874 Score: 173
Period size: 50 Copynumber: 2.6 Consensus size: 50
13224731 ATTGTGAGAA
* *
13224741 CACATGTGTAGTACTATGTGCAGGCTACTATGAGTTTAA-A-ATGGTTTTAATT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGAG--TAACAGATGG--TTAAGT
* *
13224793 CACATGTGTAGTTCTAAGTGCAGGCTACTACGAGTAACAGATGGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGAGTAACAGATGGTTAAGT
*
13224843 CGCATGTGTAGTACTAAGTGCAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
13224875 CGTACCCGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 37 0.51
51 1 0.01
52 35 0.48
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGAGTAACAGATGGTTAAGT
Found at i:13224910 original size:50 final size:49
Alignment explanation
Indices: 13224741--13224924 Score: 131
Period size: 50 Copynumber: 3.6 Consensus size: 49
13224731 ATTGTGAGAA
* * * *
13224741 CACATGTGTAGTACTATGTGCAGGCTACTATGAGTTTAA-A-ATGGTTTTAATT
1 CACATGTGTGGT-CTAAGTGCAGGCTACTATGAG--TAACAGAT-G-CTTAAGT
* * *
13224793 CACATGTGTAGTTCTAAGTGCAGGCTACTACGAGTAACAGATGGTTAAGT
1 CACATGTGT-GGTCTAAGTGCAGGCTACTATGAGTAACAGATGCTTAAGT
* * * * * *
13224843 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTT-CGAT
1 CACATGTGTGGT-CTAAGTGCAGGCTACTATGAGTAACAGAT-GCTTAAG-T
* *
13224894 CACATGTGTGGTCTAAGTGTAGGCCACTATG
1 CACATGTGTGGTCTAAGTGCAGGCTACTATG
13224925 TAACAGCTCA
Statistics
Matches: 107, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
49 1 0.01
50 59 0.55
51 16 0.15
52 30 0.28
53 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
CACATGTGTGGTCTAAGTGCAGGCTACTATGAGTAACAGATGCTTAAGT
Found at i:13232973 original size:23 final size:23
Alignment explanation
Indices: 13232943--13232999 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
13232933 CACTAGCTTG
*
13232943 TTTTGGTATAGATAATAAACTTA
1 TTTTGGTATAAATAATAAACTTA
*
13232966 TTTTGGTATAAATAGTAAACTTA
1 TTTTGGTATAAATAATAAACTTA
13232989 TTTTGGTATAA
1 TTTTGGTATAA
13233000 TGGCATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.46
Consensus pattern (23 bp):
TTTTGGTATAAATAATAAACTTA
Found at i:13235469 original size:45 final size:45
Alignment explanation
Indices: 13235405--13235496 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
13235395 TTGATCCATC
*
13235405 TCAGAAGCCGGATTCATCATCAAGACTAAATATCTCTCCTCAATT
1 TCAGAAGCCGGATTCATCATCAAGACTAAAGATCTCTCCTCAATT
*
13235450 TCAGAAGCCGGATTCATCATCAAGACTGAAGATCTCTCCTCAATT
1 TCAGAAGCCGGATTCATCATCAAGACTAAAGATCTCTCCTCAATT
13235495 TC
1 TC
13235497 CCTTCAGGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (45 bp):
TCAGAAGCCGGATTCATCATCAAGACTAAAGATCTCTCCTCAATT
Found at i:13235675 original size:14 final size:14
Alignment explanation
Indices: 13235656--13235682 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13235646 ATATTTAACT
13235656 TGTTCTTAATTATG
1 TGTTCTTAATTATG
13235670 TGTTCTTAATTAT
1 TGTTCTTAATTAT
13235683 TGCTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:13245083 original size:28 final size:28
Alignment explanation
Indices: 13245043--13245104 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
13245033 ATAATTGTAT
* *
13245043 TGTTGATGATGAAGTTATTAGAGGATAA
1 TGTTGATGATGAAGCTATTACAGGATAA
13245071 TGTTGATGATGAAGCTATTACAGGATAA
1 TGTTGATGATGAAGCTATTACAGGATAA
*
13245099 TATTGA
1 TGTTGA
13245105 ATTTGTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (28 bp):
TGTTGATGATGAAGCTATTACAGGATAA
Found at i:13250078 original size:116 final size:116
Alignment explanation
Indices: 13249926--13250238 Score: 574
Period size: 116 Copynumber: 2.7 Consensus size: 116
13249916 GAAAAAATTA
13249926 AGCACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTGAAAAACGCCAC
1 AGCACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTGAAAAACGCCAC
13249991 TATAGGTCGAGCATTAGCGGAGTTTTTTTAAAAAAACGCAGCTATAGATCG
66 TATAGGTCGAGCATTAGCGGAGTTTTTTTAAAAAAACGCAGCTATAGATCG
13250042 AGCACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTGAAAAACGCCAC
1 AGCACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTGAAAAACGCCAC
13250107 TATAGGTCGAGCATTAGCGGAGTTTTTTTAAAAAAACGCAGCTATAGATCG
66 TATAGGTCGAGCATTAGCGGAGTTTTTTTAAAAAAACGCAGCTATAGATCG
* * *
13250158 AGCACAACGCCGTCGTTTTATGTTGAGCTTCAGTGGCA-TTAGCAGCGCTTTTTGAAAAATGCCG
1 AGCACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGC-GCGCTTTTTGAAAAACGCCA
*
13250222 CTATAGATCGAGCATTA
65 CTATAGGTCGAGCATTA
13250239 ACGGCGCTTT
Statistics
Matches: 192, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
115 5 0.03
116 187 0.97
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (116 bp):
AGCACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTGAAAAACGCCAC
TATAGGTCGAGCATTAGCGGAGTTTTTTTAAAAAAACGCAGCTATAGATCG
Found at i:13250248 original size:40 final size:40
Alignment explanation
Indices: 13250193--13250339 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 40
13250183 AGCTTCAGTG
* *
13250193 GCATTAGCAGCGCTTTTTGAAAAATGCCGCTATAGATCGA
1 GCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATCGA
* * * *
13250233 GCATTAACGGCGCTTTTAAAAAAACACCG-TCATAGATCGA
1 GCATTAGCAGCGCTTTTTAAAAAACGCCGCT-ATAGATCGA
* * * *
13250273 GCAGTAGCGGCGCTTTTTAAAAAACGCAGCTATAGGTCGA
1 GCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATCGA
* *
13250313 CCATTAGCAGCGCTTTTTGAAAAACGC
1 GCATTAGCAGCGCTTTTTAAAAAACGC
13250340 TGCAAAAAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 87 0.98
41 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (40 bp):
GCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATCGA
Found at i:13250256 original size:116 final size:116
Alignment explanation
Indices: 13249867--13250275 Score: 562
Period size: 116 Copynumber: 3.6 Consensus size: 116
13249857 GCGCATTTCA
* * * * * * * * **
13249867 AAAAACGTCGCTATAGGTCGAGCATTAACGGCGCTTTTTGAAAAACAC-C-G-AAAAAATTAAGC
1 AAAAACGCCACTATAGGTCGAGCATTAACGGAGCTTTTTTAAAAAAACGCAGCTATAGATCGAGC
13249929 ACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTG
66 ACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTG
* *
13249980 AAAAACGCCACTATAGGTCGAGCATTAGCGGAGTTTTTTTAAAAAAACGCAGCTATAGATCGAGC
1 AAAAACGCCACTATAGGTCGAGCATTAACGGAGCTTTTTTAAAAAAACGCAGCTATAGATCGAGC
13250045 ACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTG
66 ACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTG
* *
13250096 AAAAACGCCACTATAGGTCGAGCATTAGCGGAGTTTTTTTAAAAAAACGCAGCTATAGATCGAGC
1 AAAAACGCCACTATAGGTCGAGCATTAACGGAGCTTTTTTAAAAAAACGCAGCTATAGATCGAGC
*
13250161 ACAACGCCGTCGTTTTATGTTGAGCTTCAGTGGCA-TTAGCAGCGCTTTTTG
66 ACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGC-GCGCTTTTTG
* * * * * *
13250212 AAAAATGCCGCTATAGATCGAGCATTAACGGCGC--TTTTAAAAAAACACCG-TCATAGATCGAG
1 AAAAACGCCACTATAGGTCGAGCATTAACGGAGCTTTTTTAAAAAAACGCAGCT-ATAGATCGAG
13250274 CA
65 CA
13250276 GTAGCGGCGC
Statistics
Matches: 270, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
113 42 0.16
114 27 0.10
115 6 0.02
116 195 0.72
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (116 bp):
AAAAACGCCACTATAGGTCGAGCATTAACGGAGCTTTTTTAAAAAAACGCAGCTATAGATCGAGC
ACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTG
Found at i:13250525 original size:7 final size:7
Alignment explanation
Indices: 13250515--13250690 Score: 64
Period size: 7 Copynumber: 24.4 Consensus size: 7
13250505 CTTAAATATA
13250515 AAATCCT
1 AAATCCT
13250522 AAATCCT
1 AAATCCT
13250529 AAAT-CT
1 AAATCCT
*
13250535 ATAAACCTT
1 A-AATCC-T
*
13250544 AAACCCT
1 AAATCCT
13250551 AAA-CACT
1 AAATC-CT
13250558 AAA-CCAT
1 AAATCC-T
13250565 AAATCCT
1 AAATCCT
*
13250572 AAACCCT
1 AAATCCT
*
13250579 AAAACTCT
1 AAATC-CT
13250587 AAA--CT
1 AAATCCT
*
13250592 ATAGTCACT
1 A-AATC-CT
*
13250601 AAACTCTT
1 AAA-TCCT
*
13250609 AAACCCTT
1 AAATCC-T
*
13250617 AAAT-AT
1 AAATCCT
13250623 AAAATCCT
1 -AAATCCT
13250631 AAATCCT
1 AAATCCT
13250638 AAAT-CT
1 AAATCCT
*
13250644 ATAAACCTT
1 A-AATCC-T
*
13250653 AAACCCT
1 AAATCCT
13250660 AAA-CACT
1 AAATC-CT
13250667 AAA-CCAT
1 AAATCC-T
13250674 AAATCCT
1 AAATCCT
*
13250681 AAACCCT
1 AAATCCT
13250688 AAA
1 AAA
13250691 ACTCTAAACT
Statistics
Matches: 133, Mismatches: 15, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
5 3 0.02
6 12 0.09
7 80 0.60
8 29 0.22
9 9 0.07
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (7 bp):
AAATCCT
Found at i:13250639 original size:59 final size:57
Alignment explanation
Indices: 13250565--13250807 Score: 254
Period size: 59 Copynumber: 4.3 Consensus size: 57
13250555 ACTAAACCAT
13250565 AAATCCTAAACCCTAAAACTCTAAACTATAGTCACTAAACTCTTAAACCCTTAAATATA
1 AAATCCTAAACCCTAAAACTCTAAACTA-A-TCACTAAACTCTTAAACCCTTAAATATA
* * * * *
13250624 AAATCCTAAATCCT-AAA-TCT--A-TAAAC-CTTAAAC-CCTAAACAC-TAAACCAT-
1 AAATCCTAAACCCTAAAACTCTAAACTAATCAC-TAAACTCTTAAACCCTTAAA-TATA
13250674 AAATCCTAAACCCTAAAACTCTAAACTATAGTCACTAAACTCTTAAACCCTTAAATATA
1 AAATCCTAAACCCTAAAACTCTAAACTA-A-TCACTAAACTCTTAAACCCTTAAATATA
* * * *
13250733 AAATCCTAAAGCCTAAAACTTTAAATCTGAATCACTAAACCCTTAAACCCTTAAATA-C
1 AAATCCTAAACCCTAAAACTCTAAA-CT-AATCACTAAACTCTTAAACCCTTAAATATA
*
13250791 AAATCTTAAACCCTAAA
1 AAATCCTAAACCCTAAA
13250808 CCTTAAATCA
Statistics
Matches: 153, Mismatches: 16, Indels: 31
0.76 0.08 0.16
Matches are distributed among these distances:
50 17 0.11
51 13 0.08
52 9 0.06
53 1 0.01
54 3 0.02
55 3 0.02
56 1 0.01
57 9 0.06
58 28 0.18
59 65 0.42
60 3 0.02
61 1 0.01
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (57 bp):
AAATCCTAAACCCTAAAACTCTAAACTAATCACTAAACTCTTAAACCCTTAAATATA
Found at i:13250711 original size:29 final size:28
Alignment explanation
Indices: 13250526--13250848 Score: 161
Period size: 29 Copynumber: 11.4 Consensus size: 28
13250516 AATCCTAAAT
*
13250526 CCTAAATCTATAAACCTTAAACCCT-AAAC
1 CCTAAA-CTATAATCC-TAAACCCTAAAAC
* *
13250555 ACTAAACCATAAATCCTAAACCCTAAAAC
1 CCTAAACTAT-AATCCTAAACCCTAAAAC
* * * *
13250584 TCTAAACTATAGTCACTAAACTCTTAAAC
1 CCTAAACTATAATC-CTAAACCCTAAAAC
* *
13250613 CCTTAAA-TAT-A----AAATCCT-AAAT
1 CC-TAAACTATAATCCTAAACCCTAAAAC
*
13250635 CCTAAATCTATAAACCTTAAACCCT-AAAC
1 CCTAAA-CTATAATCC-TAAACCCTAAAAC
* *
13250664 ACTAAACCATAAATCCTAAACCCTAAAAC
1 CCTAAACTAT-AATCCTAAACCCTAAAAC
* * * *
13250693 TCTAAACTATAGTCACTAAACTCTTAAAC
1 CCTAAACTATAATC-CTAAACCCTAAAAC
*
13250722 CCTTAAA-TATAAAATCCTAAAGCCTAAAAC
1 CC-TAAACTAT--AATCCTAAACCCTAAAAC
** * *
13250752 TTTAAATCT-GAATCACTAAACCCTTAAAC
1 CCTAAA-CTATAATC-CTAAACCCTAAAAC
* *
13250781 CCTTAAA-TACAAATCTTAAACCCT-AAAC
1 CC-TAAACTA-TAATCCTAAACCCTAAAAC
* *
13250809 CTTAAA-TCATAAATCCTAAACCATAAAAC
1 CCTAAACT-AT-AATCCTAAACCCTAAAAC
13250838 CCTAAACTATA
1 CCTAAACTATA
13250849 GACAGTAAAC
Statistics
Matches: 224, Mismatches: 42, Indels: 57
0.69 0.13 0.18
Matches are distributed among these distances:
21 4 0.02
22 5 0.02
23 8 0.04
24 1 0.00
27 5 0.02
28 51 0.23
29 118 0.53
30 28 0.12
31 4 0.02
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (28 bp):
CCTAAACTATAATCCTAAACCCTAAAAC
Found at i:13250772 original size:109 final size:109
Alignment explanation
Indices: 13250497--13250749 Score: 497
Period size: 109 Copynumber: 2.3 Consensus size: 109
13250487 GGAACAGTCC
13250497 CTTAAACCCTTAAATATAAAATCCTAAATCCTAAATCTATAAACCTTAAACCCTAAACACTAAAC
1 CTTAAACCCTTAAATATAAAATCCTAAATCCTAAATCTATAAACCTTAAACCCTAAACACTAAAC
13250562 CATAAATCCTAAACCCTAAAACTCTAAACTATAGTCACTAAACT
66 CATAAATCCTAAACCCTAAAACTCTAAACTATAGTCACTAAACT
13250606 CTTAAACCCTTAAATATAAAATCCTAAATCCTAAATCTATAAACCTTAAACCCTAAACACTAAAC
1 CTTAAACCCTTAAATATAAAATCCTAAATCCTAAATCTATAAACCTTAAACCCTAAACACTAAAC
13250671 CATAAATCCTAAACCCTAAAACTCTAAACTATAGTCACTAAACT
66 CATAAATCCTAAACCCTAAAACTCTAAACTATAGTCACTAAACT
*
13250715 CTTAAACCCTTAAATATAAAATCCTAAAGCCTAAA
1 CTTAAACCCTTAAATATAAAATCCTAAATCCTAAA
13250750 ACTTTAAATC
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 143 1.00
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (109 bp):
CTTAAACCCTTAAATATAAAATCCTAAATCCTAAATCTATAAACCTTAAACCCTAAACACTAAAC
CATAAATCCTAAACCCTAAAACTCTAAACTATAGTCACTAAACT
Found at i:13250815 original size:21 final size:21
Alignment explanation
Indices: 13250791--13250835 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13250781 CCTTAAATAC
* *
13250791 AAATCTTAAACCCTAAACCTT
1 AAATCATAAACCCTAAACCAT
*
13250812 AAATCATAAATCCTAAACCAT
1 AAATCATAAACCCTAAACCAT
13250833 AAA
1 AAA
13250836 ACCCTAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATCATAAACCCTAAACCAT
Found at i:13250843 original size:15 final size:14
Alignment explanation
Indices: 13250797--13250844 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
13250787 ATACAAATCT
* *
13250797 TAAACCCTAAACCT
1 TAAACCATAAACCC
* *
13250811 TAAATCATAAATCC
1 TAAACCATAAACCC
13250825 TAAACCATAAAACCC
1 TAAACCAT-AAACCC
13250840 TAAAC
1 TAAAC
13250845 TATAGACAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:13250894 original size:29 final size:30
Alignment explanation
Indices: 13250708--13250884 Score: 138
Period size: 29 Copynumber: 6.1 Consensus size: 30
13250698 ACTATAGTCA
* *
13250708 CTAAACTCTTAAACCCTTAAATATAAAATC
1 CTAAACCCTTAAACCCTTAAATACAAAATC
* * * **
13250738 CTAAAGCC-TAAAACTTTAAAT-CTGAATC
1 CTAAACCCTTAAACCCTTAAATACAAAATC
13250766 ACTAAACCCTTAAACCCTTAAATAC-AAATC
1 -CTAAACCCTTAAACCCTTAAATACAAAATC
*
13250796 TTAAACCC-TAAA-CCTTAAAT-CATAAATC
1 CTAAACCCTTAAACCCTTAAATACA-AAATC
* * * *
13250824 CTAAACCATAAAACCC-TAAACTA-TAGA-C
1 CTAAACCCTTAAACCCTTAAA-TACAAAATC
*
13250852 AGTAAACCCTTAAACCCTTAAATACAAAATC
1 -CTAAACCCTTAAACCCTTAAATACAAAATC
13250883 CT
1 CT
13250885 CAATCCTAAA
Statistics
Matches: 111, Mismatches: 23, Indels: 26
0.69 0.14 0.16
Matches are distributed among these distances:
26 1 0.01
27 8 0.07
28 20 0.18
29 49 0.44
30 31 0.28
31 2 0.02
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.25
Consensus pattern (30 bp):
CTAAACCCTTAAACCCTTAAATACAAAATC
Found at i:13251480 original size:113 final size:115
Alignment explanation
Indices: 13251343--13251677 Score: 276
Period size: 114 Copynumber: 2.9 Consensus size: 115
13251333 GCCCGTTTTG
* * * * *
13251343 TAGCTTTGATATTAGTGACGCTTTTTAAAAAACGCCGCAAAA-GTGT-ATTA-CTGGTGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTTTTAAAAAACGCCGCAAAAGGTGTAATTACCT-ATGTTTGC-
*
13251405 T-C-GAAAACGCCACAAAACAACTATTAAGAGATTGCAAAACGACGCTGTTTA
64 TCCAGAAAACGCCA-AAAACAACTATTAACAGATTGCAAAACGACGCTGTTTA
* * *
13251456 TAGCCTTTTTATTAGTGGCGC-TTTT-ATAAATGCCGCAAAAGGTGTGAATTACCTATGTTTGCT
1 TAGCCTTGTTATTAGTGGCGCTTTTTAAAAAACGCCGCAAAAGGTGT-AATTACCTATGTTTGCT
* * * * * * *
13251519 CCAGAAAATGCCATAAATATCTATTAACAGATTGCAAAACGGCGTTGTTTG
65 CCAGAAAACGCCAAAAACAACTATTAACAGATTGCAAAACGACGCTGTTTA
* * * * * * *
13251570 TAGCCTTGTTATTAGTGGTGCTTTAT-AAAAACGCTGCAGAAGATATGAATTACC-ATCGTTTTC
1 TAGCCTTGTTATTAGTGGCGCTTTTTAAAAAACGCCGCAAAAGGTGT-AATTACCTAT-GTTTGC
** * * * *
13251633 ATAAAAAAAACGCCACAAACATCTATTAATAGATTG-AAAACGACG
64 -TCCAGAAAACGCCAAAAACAACTATTAACAGATTGCAAAACGACG
13251678 TCGTTTTTTA
Statistics
Matches: 179, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
111 13 0.07
112 8 0.04
113 18 0.10
114 63 0.35
115 49 0.27
116 28 0.16
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (115 bp):
TAGCCTTGTTATTAGTGGCGCTTTTTAAAAAACGCCGCAAAAGGTGTAATTACCTATGTTTGCTC
CAGAAAACGCCAAAAACAACTATTAACAGATTGCAAAACGACGCTGTTTA
Found at i:13253755 original size:24 final size:24
Alignment explanation
Indices: 13253728--13253774 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
13253718 ATTATTATTG
* *
13253728 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCATCCGTTTTATCAC
*
13253752 AAATATTATCATTCGTTTTATCA
1 AAATATTATCATCCGTTTTATCA
13253775 TTTAAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (24 bp):
AAATATTATCATCCGTTTTATCAC
Found at i:13254025 original size:14 final size:14
Alignment explanation
Indices: 13254006--13254036 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13253996 GTGTTAGTCG
13254006 ATAATGCCATTACC
1 ATAATGCCATTACC
13254020 ATAATGCCATTACC
1 ATAATGCCATTACC
13254034 ATA
1 ATA
13254037 TGAAAACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (14 bp):
ATAATGCCATTACC
Found at i:13254342 original size:15 final size:15
Alignment explanation
Indices: 13254324--13254371 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
13254314 TTAATTTATT
13254324 TAAATATTATTTAAC
1 TAAATATTATTTAAC
* **
13254339 TAAA-ATAATTTATT
1 TAAATATTATTTAAC
*
13254353 TAAATATTATTTAAG
1 TAAATATTATTTAAC
13254368 TAAA
1 TAAA
13254372 ATAAATTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
TAAATATTATTTAAC
Found at i:13254347 original size:29 final size:29
Alignment explanation
Indices: 13254315--13254375 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
13254305 TAATTTGGAT
13254315 TAATTTATTTAAATATTATTTAACTAAAA
1 TAATTTATTTAAATATTATTTAACTAAAA
*
13254344 TAATTTATTTAAATATTATTTAAGTAAAA
1 TAATTTATTTAAATATTATTTAACTAAAA
13254373 TAA
1 TAA
13254376 ATTTTTTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAACTAAAA
Found at i:13254486 original size:195 final size:193
Alignment explanation
Indices: 13254151--13254514 Score: 613
Period size: 195 Copynumber: 1.9 Consensus size: 193
13254141 TAATTTGGAT
* *
13254151 TAATGTATTTAAATATTATTTAATTAAAATAATTTTTTTTCCATATGATTTACCACATCGTCAAA
1 TAATGTATTTAAATATTATTTAAGTAAAATAATATTTTTTCCATATGATTTACCACATCGTCAAA
* *
13254216 TTTTTTTTATTATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGATTTTCAACTTT
66 TTTTTTTTATTATTTCTTTTTCATAGAACAAAGTTGACATTTCATCTTATACGACTTTCAACTTT
13254281 TTATACACAATTTTTAAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAACTAAAA
131 TTATACACAATTTTTAAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAACTAAAA
* * *
13254344 TAATTTATTTAAATATTATTTAAGTAAAATAA-ATTTTTTCCATGTGATTTTTCCACATCGTCAA
1 TAATGTATTTAAATATTATTTAAGTAAAATAATATTTTTTCCATATGA-TTTACCACATCGTCAA
*
13254408 ATTTTATTTTTATTATTTCTTTTTCATAGAACAAAGTTGACATTTCATCTTATACGGCTTTCAAC
65 A-TTT-TTTTTATTATTTCTTTTTCATAGAACAAAGTTGACATTTCATCTTATACGACTTTCAAC
*
13254473 TTTTTATACACAATTTTTTAAATTACATAATTTGGATTAATT
128 TTTTTATACACAATTTTTAAAATTACATAATTTGGATTAATT
13254515 ATGTAATAAC
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
192 13 0.08
193 46 0.29
194 3 0.02
195 97 0.61
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (193 bp):
TAATGTATTTAAATATTATTTAAGTAAAATAATATTTTTTCCATATGATTTACCACATCGTCAAA
TTTTTTTTATTATTTCTTTTTCATAGAACAAAGTTGACATTTCATCTTATACGACTTTCAACTTT
TTATACACAATTTTTAAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAACTAAAA
Found at i:13254534 original size:9 final size:9
Alignment explanation
Indices: 13254520--13254677 Score: 62
Period size: 9 Copynumber: 18.0 Consensus size: 9
13254510 TAATTATGTA
13254520 ATAACTTAC
1 ATAACTTAC
13254529 ATAACTTAC
1 ATAACTTAC
*
13254538 AAAACTTAC
1 ATAACTTAC
13254547 ATAA--TAC
1 ATAACTTAC
* *
13254554 ATAA-ATAT
1 ATAACTTAC
* *
13254562 ATATCATATC
1 ATAACTTA-C
13254572 ATAACTTAC
1 ATAACTTAC
13254581 ATAA--TAC
1 ATAACTTAC
* *
13254588 ATAA-ATAT
1 ATAACTTAC
* **
13254596 ATATCAGATC
1 ATAACTTA-C
*
13254606 ATAACATAC
1 ATAACTTAC
*
13254615 ATACCTTAC
1 ATAACTTAC
*
13254624 ATAAATGT--
1 ATAACT-TAC
* *
13254632 ATATCATATC
1 ATAACTTA-C
13254642 ATAACTTAC
1 ATAACTTAC
13254651 ATAACTTAC
1 ATAACTTAC
* *
13254660 AAAATTTAC
1 ATAACTTAC
*
13254669 TTAACTTAC
1 ATAACTTAC
13254678 GTAATACATA
Statistics
Matches: 112, Mismatches: 27, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
7 15 0.13
8 13 0.12
9 65 0.58
10 19 0.17
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:13254578 original size:34 final size:34
Alignment explanation
Indices: 13254540--13254654 Score: 176
Period size: 34 Copynumber: 3.3 Consensus size: 34
13254530 TAACTTACAA
13254540 AACTTACATAATACATAAATATATATCATATCAT
1 AACTTACATAATACATAAATATATATCATATCAT
*
13254574 AACTTACATAATACATAAATATATATCAGATCAT
1 AACTTACATAATACATAAATATATATCATATCAT
* * *
13254608 AACATACATACCTTACATAAATGTATATCATATCAT
1 AACTTACATA--ATACATAAATATATATCATATCAT
13254644 AACTTACATAA
1 AACTTACATAA
13254655 CTTACAAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 42 0.58
36 30 0.42
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.33
Consensus pattern (34 bp):
AACTTACATAATACATAAATATATATCATATCAT
Found at i:13259810 original size:14 final size:14
Alignment explanation
Indices: 13259786--13259820 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
13259776 TTAAATATTT
13259786 ATAAT-GTTTAATC
1 ATAATGGTTTAATC
*
13259799 ATAATGGTTTAATT
1 ATAATGGTTTAATC
13259813 ATAATGGT
1 ATAATGGT
13259821 ATATTCATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (14 bp):
ATAATGGTTTAATC
Found at i:13260581 original size:43 final size:43
Alignment explanation
Indices: 13260534--13260869 Score: 395
Period size: 43 Copynumber: 7.8 Consensus size: 43
13260524 TGTTTTTAAT
* * * *
13260534 AAAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGTGTTTGTATG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* *
13260577 AAAAGCGCCGCTAAAGGTCACGTTCTTTAACGGCATTTGTATG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* * * * *
13260620 CAAGGCGCCACTAAAGGTCACATTCTTTAGCGGTGTTTGTATG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* * * * * *
13260663 AAAAGCACCGCTAAAGATCAAGTTCTGTAGCGGCATTTTTGA-G
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGT-ATG
* * *
13260706 AAAAGCGCCGCTATAGGTCACGTTCTATAGCGGCGTTTGAATG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* * * *
13260749 AAAAGCGCCACTAAATGTCACGTTCTTTAGCGGCATTTGTCTG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* *
13260792 AAAAGTGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGTG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* * *
13260835 AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCG
13260870 CTTTCTCAAA
Statistics
Matches: 243, Mismatches: 48, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
42 1 0.00
43 241 0.99
44 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
Found at i:13261406 original size:12 final size:12
Alignment explanation
Indices: 13261389--13261413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13261379 GTTATATTTA
13261389 TTAGGTACTTTG
1 TTAGGTACTTTG
13261401 TTAGGTACTTTG
1 TTAGGTACTTTG
13261413 T
1 T
13261414 ATAGTGTTAT
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:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (12 bp):
TTAGGTACTTTG
Found at i:13264847 original size:23 final size:23
Alignment explanation
Indices: 13264817--13264871 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
13264807 ATATGCAATG
13264817 TTGTTGTTATGCTAACAATTGGT
1 TTGTTGTTATGCTAACAATTGGT
13264840 TTGTTGTTATGCTAACAATTGGT
1 TTGTTGTTATGCTAACAATTGGT
**
13264863 AAGTTGTTA
1 TTGTTGTTA
13264872 AAGAAGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (23 bp):
TTGTTGTTATGCTAACAATTGGT
Found at i:13266791 original size:25 final size:23
Alignment explanation
Indices: 13266731--13266793 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 23
13266721 ATCATTTTCC
13266731 GCTCTTTTGAGCTATGAACAGTAA
1 GCTC-TTTGAGCTATGAACAGTAA
13266755 GCTCTTCCTGAGCTGAT-AGACAGTAA
1 GCTCTT--TGAGCT-ATGA-ACAGTAA
13266781 GCTCTATTGAGCT
1 GCTCT-TTGAGCT
13266794 TAAACGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
23 2 0.06
24 4 0.12
25 13 0.38
26 14 0.41
27 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
GCTCTTTGAGCTATGAACAGTAA
Found at i:13266815 original size:23 final size:24
Alignment explanation
Indices: 13266789--13266839 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
13266779 AAGCTCTATT
*
13266789 GAGCTTAAA-CGATAAGCTCAGAC
1 GAGCTTAAATCAATAAGCTCAGAC
*
13266812 GAGC-TAAATCAATAAGCTCATAC
1 GAGCTTAAATCAATAAGCTCAGAC
13266835 GAGCT
1 GAGCT
13266840 GAGAACAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (24 bp):
GAGCTTAAATCAATAAGCTCAGAC
Found at i:13266880 original size:26 final size:25
Alignment explanation
Indices: 13266801--13266890 Score: 96
Period size: 24 Copynumber: 3.7 Consensus size: 25
13266791 GCTTAAACGA
** *
13266801 TAAGCTCAGACGAGCT-A-AATCAA
1 TAAGCTCTTACGAGCTGAGAATCAG
*
13266824 TAAGCTCATACGAGCTGAGAA-CAG
1 TAAGCTCTTACGAGCTGAGAATCAG
*
13266848 TAAGCTCTTACGAGCTGATATATCAG
1 TAAGCTCTTACGAGCTGAGA-ATCAG
*
13266874 TAAGCTCTTATGAGCTG
1 TAAGCTCTTACGAGCTG
13266891 CGGTGAGTCC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.26
24 21 0.36
25 3 0.05
26 19 0.33
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (25 bp):
TAAGCTCTTACGAGCTGAGAATCAG
Found at i:13271462 original size:31 final size:31
Alignment explanation
Indices: 13271424--13271485 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
13271414 CTTTAGTATA
13271424 TTGTTAAATAAGGTAATGCAATTCATGATTT
1 TTGTTAAATAAGGTAATGCAATTCATGATTT
*
13271455 TTGTTAAATAAGGTAATGTAATTCATGATTT
1 TTGTTAAATAAGGTAATGCAATTCATGATTT
13271486 GTGTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (31 bp):
TTGTTAAATAAGGTAATGCAATTCATGATTT
Found at i:13278745 original size:21 final size:22
Alignment explanation
Indices: 13278711--13278753 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
13278701 CGCTATAGGC
*
13278711 ACTACCAATGATAAATCTATGT
1 ACTACCAATGATAAATCCATGT
*
13278733 ACTA-CAATTATAAATCCATGT
1 ACTACCAATGATAAATCCATGT
13278754 TCCATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (22 bp):
ACTACCAATGATAAATCCATGT
Found at i:13280675 original size:110 final size:110
Alignment explanation
Indices: 13280477--13280696 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
13280467 TGCGCAAAAA
13280477 TTCTATATAAGCTTCCTCCTAGAAAAATGCCTCAAATTCGATCAAACCATTAAAATGGTGGAAAT
1 TTCTATATAAGCTTCCTCCTAGAAAAATGCCTCAAATTCGATCAAACCATTAAAATGGTGGAAAT
13280542 AAACACAGTGATCTACATTAAAATTCCAAATCAGAAATTAAAACT
66 AAACACAGTGATCTACATTAAAATTCCAAATCAGAAATTAAAACT
* *
13280587 TTCTGTATAAGCTTCCTCCTAGAAAAATGCCTCAAATTTGATCAAACCATTAAAATGGTGGAAAT
1 TTCTATATAAGCTTCCTCCTAGAAAAATGCCTCAAATTCGATCAAACCATTAAAATGGTGGAAAT
*
13280652 AAACACAGTGATCTACATTAAAATTCCAGATCAGAAATTAAAACT
66 AAACACAGTGATCTACATTAAAATTCCAAATCAGAAATTAAAACT
13280697 ACAAAAACCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.28
Consensus pattern (110 bp):
TTCTATATAAGCTTCCTCCTAGAAAAATGCCTCAAATTCGATCAAACCATTAAAATGGTGGAAAT
AAACACAGTGATCTACATTAAAATTCCAAATCAGAAATTAAAACT
Found at i:13284192 original size:20 final size:19
Alignment explanation
Indices: 13284164--13284217 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
13284154 AAAATTACAA
*
13284164 AAAAATTAAAATATTTTTC
1 AAAATTTAAAATATTTTTC
*
13284183 AAAATTTTAAAATATTTTTT
1 AAAA-TTTAAAATATTTTTC
*
13284203 AAAATTCAAAATATT
1 AAAATTTAAAATATT
13284218 AATAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATTTAAAATATTTTTC
Found at i:13284318 original size:40 final size:40
Alignment explanation
Indices: 13284245--13284323 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
13284235 TATATTGTTA
*
13284245 AAAAAATTATAAAATTTTAATAAATTCTAAAAATATATAAT
1 AAAAAAGTATAAAATTTTAATAAATTCTAAAAATA-ATAAT
13284286 AAAAAAGT-TAAAATTTTAA-AAATTTGCT-AAAATAATAA
1 AAAAAAGTATAAAATTTTAATAAA-TT-CTAAAAATAATAA
13284324 CTTTGGGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
39 7 0.20
40 19 0.54
41 9 0.26
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAAAGTATAAAATTTTAATAAATTCTAAAAATAATAAT
Found at i:13285106 original size:16 final size:16
Alignment explanation
Indices: 13285087--13285138 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
13285077 TTAAATTATA
13285087 ATATTTTTGAATTCAT
1 ATATTTTTGAATTCAT
*
13285103 ATA--TTTAAATT-AT
1 ATATTTTTGAATTCAT
13285116 AATATTTTTGAATTCAT
1 -ATATTTTTGAATTCAT
13285133 ATATTT
1 ATATTT
13285139 AAATGTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
16 16 0.53
17 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (16 bp):
ATATTTTTGAATTCAT
Found at i:13285111 original size:30 final size:30
Alignment explanation
Indices: 13285077--13285148 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
13285067 CCCATTAATG
13285077 TTAAATTATAATATTTTTGAATTCATATAT
1 TTAAATTATAATATTTTTGAATTCATATAT
13285107 TTAAATTATAATATTTTTGAATTCATATAT
1 TTAAATTATAATATTTTTGAATTCATATAT
13285137 TTAAATGTATAA
1 TTAAAT-TATAA
13285149 ACATGTTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 36 0.88
31 5 0.12
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (30 bp):
TTAAATTATAATATTTTTGAATTCATATAT
Found at i:13285113 original size:14 final size:14
Alignment explanation
Indices: 13285096--13285142 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
13285086 AATATTTTTG
13285096 AATTCATATATTTA
1 AATTCATATATTTA
*
13285110 AATT-ATAATATTTTTG
1 AATTCAT-ATA--TTTA
13285126 AATTCATATATTTA
1 AATTCATATATTTA
13285140 AAT
1 AAT
13285143 GTATAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 2 0.07
14 13 0.48
16 10 0.37
17 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (14 bp):
AATTCATATATTTA
Found at i:13293906 original size:93 final size:93
Alignment explanation
Indices: 13293794--13293965 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13293784 CGCCCATAAG
* *
13293794 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13293859 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
13293887 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13293952 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
13293966 TCAATCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:13293962 original size:46 final size:46
Alignment explanation
Indices: 13293787--13293962 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13293777 TGTAACCCGC
* * *
13293787 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
13293833 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
13293883 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13293926 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
13293963 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 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 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13295714 original size:67 final size:67
Alignment explanation
Indices: 13295606--13295738 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 67
13295596 AATGGATGGT
*
13295606 TATTTATAAGTAAACTATCAGAATTCTAATTGGATTCGTTGATGGAGTTTTACTTGATAGTAGAT
1 TATTTATAAGTAAACTATCAGAATTCTAATTGGATTCGTTGATGGAATTTTACTTGATAGTAGAT
13295671 AA
66 AA
* *
13295673 TATTTATAAGTAAACTATCAGAATTCTAATTGGATTTGTTGATGTAATTTTACTTGATAGTAGAT
1 TATTTATAAGTAAACTATCAGAATTCTAATTGGATTCGTTGATGGAATTTTACTTGATAGTAGAT
13295738 A
66 A
13295739 GGTAAGATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (67 bp):
TATTTATAAGTAAACTATCAGAATTCTAATTGGATTCGTTGATGGAATTTTACTTGATAGTAGAT
AA
Found at i:13299572 original size:28 final size:28
Alignment explanation
Indices: 13299540--13299595 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13299530 AAAAAGTTTC
13299540 ATTATAATCATAACTTTAAACTTTTTAA
1 ATTATAATCATAACTTTAAACTTTTTAA
13299568 ATTATAATCATAACTTTAAACTTTTTAA
1 ATTATAATCATAACTTTAAACTTTTTAA
13299596 CTATGCATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTATAATCATAACTTTAAACTTTTTAA
Found at i:13299686 original size:28 final size:28
Alignment explanation
Indices: 13299655--13299709 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
13299645 TTTATTTTCT
13299655 ATTTAAAAGTTT-TAAAAAATTATGTTTA
1 ATTTAAAA-TTTATAAAAAATTATGTTTA
* *
13299683 ATTTATAATTTAATAAAAAGTTATGTT
1 ATTTAAAATTT-ATAAAAAATTATGTT
13299710 AATCTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.13
28 7 0.30
29 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (28 bp):
ATTTAAAATTTATAAAAAATTATGTTTA
Found at i:13300104 original size:14 final size:14
Alignment explanation
Indices: 13300085--13300111 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13300075 TTTTGAAAAA
13300085 TAATAATAAAATTT
1 TAATAATAAAATTT
13300099 TAATAATAAAATT
1 TAATAATAAAATT
13300112 AAATAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAAAATTT
Found at i:13301684 original size:25 final size:25
Alignment explanation
Indices: 13301656--13301703 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
13301646 AAATAGAAGG
*
13301656 TTATTCTTATTAA-ATTTTAATAAGA
1 TTATTCTTA-AAATATTTTAATAAGA
*
13301681 TTATTGTTAAAATATTTTAATAA
1 TTATTCTTAAAATATTTTAATAA
13301704 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (25 bp):
TTATTCTTAAAATATTTTAATAAGA
Found at i:13301744 original size:60 final size:58
Alignment explanation
Indices: 13301680--13301804 Score: 146
Period size: 57 Copynumber: 2.1 Consensus size: 58
13301670 TTTTAATAAG
* * * *
13301680 ATTATTGTTAAA-ATATTTTAATAAAAATAAAAATAAATATTTTAATCATA-TTATAATATA
1 ATTATTATTAAATATAATTTAAT-AAAAT---AATAAATAATTTAATAATATTTATAATATA
* *
13301740 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAATATTTATAATATA
13301798 ATTATTA
1 ATTATTA
13301805 ATAATATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
57 16 0.28
58 16 0.28
60 16 0.28
61 9 0.16
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAATATTTATAATATA
Found at i:13301782 original size:12 final size:11
Alignment explanation
Indices: 13301753--13301838 Score: 67
Period size: 12 Copynumber: 7.8 Consensus size: 11
13301743 ATTATTAAAT
13301753 ATAATTTAATA
1 ATAATTTAATA
13301764 A-AA--TAATA
1 ATAATTTAATA
13301772 TATAATTTAATA
1 -ATAATTTAATA
*
13301784 ATATTTTTAAT-
1 ATA-ATTTAATA
13301795 ATAATTATTAATA
1 ATAA-T-TTAATA
13301808 AT-ATTTAATA
1 ATAATTTAATA
13301818 ATAATTTTAAT-
1 ATAA-TTTAATA
13301829 ATAATATTAA
1 ATAAT-TTAA
13301839 CAATTTATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
8 5 0.08
9 1 0.02
10 13 0.21
11 18 0.29
12 23 0.37
13 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATAATTTAATA
Found at i:13301809 original size:15 final size:15
Alignment explanation
Indices: 13301728--13301811 Score: 54
Period size: 15 Copynumber: 5.8 Consensus size: 15
13301718 ATTTTAATCA
13301728 TATT-ATAATATAAT
1 TATTAATAATATAAT
*
13301742 TATTATTAAATATAA-
1 TATTAAT-AATATAAT
*
13301757 T-TTAATAAAATAA-
1 TATTAATAATATAAT
*
13301770 TA-T-ATAATTTAAT
1 TATTAATAATATAAT
**
13301783 AATATTTTTAATATAAT
1 --TATTAATAATATAAT
13301800 TATTAATAATAT
1 TATTAATAATAT
13301812 TTAATAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
12 7 0.13
13 8 0.15
14 8 0.15
15 14 0.26
16 8 0.15
17 8 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTAATAATATAAT
Found at i:13301832 original size:24 final size:24
Alignment explanation
Indices: 13301767--13301836 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 24
13301757 TTTAATAAAA
*
13301767 TAATATATAA-TTTAATA-ATATTTT
1 TAATA-ATAATTTTAATATA-ATATT
13301791 TAAT-ATAATTATT-A-ATAATATT
1 TAATAATAATT-TTAATATAATATT
13301813 TAATAATAATTTTAATATAATATT
1 TAATAATAATTTTAATATAATATT
13301837 AACAATTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
22 15 0.38
23 10 0.26
24 14 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAATAATTTTAATATAATATT
Found at i:13310041 original size:13 final size:13
Alignment explanation
Indices: 13310015--13310113 Score: 71
Period size: 13 Copynumber: 7.5 Consensus size: 13
13310005 ATTGGGTGAA
* *
13310015 AAATGAATAAATG
1 AAATGATTATATG
13310028 AAATGATTATATG
1 AAATGATTATATG
13310041 -AATCGATTATATGG
1 AAAT-GATTATAT-G
*
13310055 AAGTAGA-TATATG
1 AAAT-GATTATATG
*
13310068 AAATGGTTATATG
1 AAATGATTATATG
*
13310081 -AATCAGTTATATG
1 AAATGA-TTATATG
13310094 AAAATAGA-TATATG
1 -AAAT-GATTATATG
13310108 AAATGA
1 AAATGA
13310114 AACATTGGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
12 9 0.13
13 40 0.58
14 12 0.17
15 7 0.10
16 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.32
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:13310080 original size:40 final size:40
Alignment explanation
Indices: 13310025--13310113 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
13310015 AAATGAATAA
* *
13310025 ATGAAATGATTATATGAATC-GATTATATGGAAGTAGATAT
1 ATGAAATGATTATATGAATCAG-TTATATGAAAATAGATAT
*
13310065 ATGAAATGGTTATATGAATCAGTTATATGAAAATAGATAT
1 ATGAAATGATTATATGAATCAGTTATATGAAAATAGATAT
13310105 ATGAAATGA
1 ATGAAATGA
13310114 AACATTGGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (40 bp):
ATGAAATGATTATATGAATCAGTTATATGAAAATAGATAT
Found at i:13311062 original size:30 final size:30
Alignment explanation
Indices: 13311036--13311098 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13311026 CACATGATCG
13311036 TGTGTCACACACGATTGTTTGGCATGACCA
1 TGTGTCACACACGATTGTTTGGCATGACCA
* * *
13311066 TGTGTCACATACGGTTGTTTGGCACGACCA
1 TGTGTCACACACGATTGTTTGGCATGACCA
13311096 TGT
1 TGT
13311099 AGCTTATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (30 bp):
TGTGTCACACACGATTGTTTGGCATGACCA
Found at i:13311954 original size:15 final size:16
Alignment explanation
Indices: 13311944--13311981 Score: 62
Period size: 14 Copynumber: 2.5 Consensus size: 16
13311934 AAAGTAAGTG
13311944 ATGTTAAAGTAGAGAT
1 ATGTTAAAGTAGAGAT
13311960 ATGTTAAA-TAGA-AT
1 ATGTTAAAGTAGAGAT
13311974 ATGTTAAA
1 ATGTTAAA
13311982 AGAAGGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (16 bp):
ATGTTAAAGTAGAGAT
Found at i:13314890 original size:2 final size:2
Alignment explanation
Indices: 13314883--13314908 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13314873 TTACTTCCAG
13314883 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
13314909 TTTTTCTAAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13320993 original size:15 final size:15
Alignment explanation
Indices: 13320973--13321002 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13320963 AAGATGATTG
13320973 CCTTAACATTTTTAA
1 CCTTAACATTTTTAA
13320988 CCTTAACATTTTTAA
1 CCTTAACATTTTTAA
13321003 ACATTACATT
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:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
CCTTAACATTTTTAA
Found at i:13321011 original size:15 final size:16
Alignment explanation
Indices: 13320975--13321017 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
13320965 GATGATTGCC
*
13320975 TTAACATTTTT-AACC
1 TTAACATTTTTAAACA
13320990 TTAACATTTTTAAACA
1 TTAACATTTTTAAACA
13321006 TT-ACATTGTTTA
1 TTAACATT-TTTA
13321018 TTCATTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAACATTTTTAAACA
Found at i:13323116 original size:74 final size:74
Alignment explanation
Indices: 13322948--13323144 Score: 216
Period size: 74 Copynumber: 2.7 Consensus size: 74
13322938 AGACCCAAAA
* * * * *
13322948 AAATGATATTATTGTAAGAGAGCCACAAACCCTGAATACATTAATTTTCGTAAACCGTAATTCAA
1 AAATGATATTATTGTGAGACAACCACAAACCCTGAAAACATTAATTTTCATAAACCGTAATTCAA
13323013 ACATGAAAG
66 ACATGAAAG
* * * ** * * **
13323022 AAATTACATTGTTG-GTAGACAACCATGAACCCTAAAAACATTAATTTTCATATATTGTAATTCA
1 AAATGATATTATTGTG-AGACAACCACAAACCCTGAAAACATTAATTTTCATAAACCGTAATTCA
*
13323086 GACATGAAAG
65 AACATGAAAG
* * *
13323096 AGATGATATTATTGTGAGACAACCACAAATCCTGAAAACATTAGTTTTC
1 AAATGATATTATTGTGAGACAACCACAAACCCTGAAAACATTAATTTTC
13323145 GTGGACTTTA
Statistics
Matches: 97, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
74 96 0.99
75 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (74 bp):
AAATGATATTATTGTGAGACAACCACAAACCCTGAAAACATTAATTTTCATAAACCGTAATTCAA
ACATGAAAG
Found at i:13323202 original size:63 final size:63
Alignment explanation
Indices: 13323103--13323228 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
13323093 AAGAGATGAT
* * * *
13323103 ATTATTGTGAGACAACCACAAATCCTGAAAACATTAGTTTTCGTGGACTTTAAAATGAATATA
1 ATTATTGTGAAACAACCACAAACCCTGAAAACATTAGTTTCCATGGACTTTAAAATGAATATA
* *
13323166 ATTATTGTGAAACAATCACAAACCCTGAAAACATTAGTTTCCATGGGCTTTAAAATGAATATA
1 ATTATTGTGAAACAACCACAAACCCTGAAAACATTAGTTTCCATGGACTTTAAAATGAATATA
13323229 GAGGAATGGC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (63 bp):
ATTATTGTGAAACAACCACAAACCCTGAAAACATTAGTTTCCATGGACTTTAAAATGAATATA
Found at i:13326241 original size:30 final size:30
Alignment explanation
Indices: 13326175--13326241 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 30
13326165 GTTATTGCTT
13326175 TAATATAAATATATATAATTATTATTTAACA
1 TAATAT-AATATATATAATTATTATTTAACA
*
13326206 T-ATATAATA-ATATAA-TATTTTTTATAACA
1 TAATATAATATATATAATTA-TTATT-TAACA
13326235 TAATATA
1 TAATATA
13326242 TTTGAGTCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 2 0.06
28 10 0.31
29 10 0.31
30 9 0.28
31 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
TAATATAATATATATAATTATTATTTAACA
Found at i:13329639 original size:99 final size:99
Alignment explanation
Indices: 13329468--13329668 Score: 321
Period size: 99 Copynumber: 2.0 Consensus size: 99
13329458 CTCAAATATA
* * *
13329468 AATTACATTATTTTAAATTTTAAATTTATATTTCCCTAGCCCAAACCCATTTAAGCTTTTACTTT
1 AATTACATTATTTTAAAATTTAAATTTATATTACCCAAGCCCAAACCCATTTAAGCTTTTACTTT
*
13329533 ACCTCATTTCCCCCCAAAGCCTGTTTGCCTCACC
66 ACCTCATTTCCCCCCAAAGCCTGTTTGCCCCACC
* * * * *
13329567 AATTATATTATTTTAAAATTTAAATTTATATTACCCAAGCTCAAACGCTTTTAGGCTTTTACTTT
1 AATTACATTATTTTAAAATTTAAATTTATATTACCCAAGCCCAAACCCATTTAAGCTTTTACTTT
13329632 ACCTCATTTCCCCCCAAAGCCTGTTTGCCCCACC
66 ACCTCATTTCCCCCCAAAGCCTGTTTGCCCCACC
13329666 AAT
1 AAT
13329669 CCACTTTCCC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.28, C:0.27, G:0.06, T:0.39
Consensus pattern (99 bp):
AATTACATTATTTTAAAATTTAAATTTATATTACCCAAGCCCAAACCCATTTAAGCTTTTACTTT
ACCTCATTTCCCCCCAAAGCCTGTTTGCCCCACC
Found at i:13329798 original size:38 final size:39
Alignment explanation
Indices: 13329725--13329814 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
13329715 TCATCCATTC
* *
13329725 AATTCAAACCCCAAATCTATTCTTTTTCTTCAAAAAACCTTA
1 AATT-AAACCCCAAATCTA-T-TTTTTCTTAAAAAAACCCTA
*
13329767 AATTAAACCCCAAATCTA-TTTTTCTTAAAAAATCCCTA
1 AATTAAACCCCAAATCTATTTTTTCTTAAAAAAACCCTA
13329805 AATTAAACCC
1 AATTAAACCC
13329815 TCTATTTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 27 0.60
41 14 0.31
42 4 0.09
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (39 bp):
AATTAAACCCCAAATCTATTTTTTCTTAAAAAAACCCTA
Found at i:13332166 original size:56 final size:56
Alignment explanation
Indices: 13332080--13332193 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
13332070 CGAATCAGGT
* *
13332080 ATGTTTCAAGCCCTAGCTAAACAACATGCTTTCGAATTAGTATGGTTGATTGATTA
1 ATGTTTCAAGCCCTAGCTAAACAACATGCTTCCAAATTAGTATGGTTGATTGATTA
13332136 ATGTTTCAAGCCCTAGCTAAACAACATGCTTCCAAATTAGTATGGTTGATTGATTA
1 ATGTTTCAAGCCCTAGCTAAACAACATGCTTCCAAATTAGTATGGTTGATTGATTA
13332192 AT
1 AT
13332194 TGTATGGTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (56 bp):
ATGTTTCAAGCCCTAGCTAAACAACATGCTTCCAAATTAGTATGGTTGATTGATTA
Found at i:13333607 original size:40 final size:39
Alignment explanation
Indices: 13333515--13333609 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
13333505 ACCAACTTTG
* *
13333515 TCCAACCCTACACACC-ATGTAGGGATAAAATCGACTCA
1 TCCAACCCTACACACCAATATAGGGATAAAATCGACCCA
* * *
13333553 -CTCATCCCTGCACACCAAATATGGGGATAAAATCGACCCA
1 TC-CAACCCTACACACC-AATATAGGGATAAAATCGACCCA
*
13333593 TCCAACCATACACACCA
1 TCCAACCCTACACACCA
13333610 TAAAGTATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
37 1 0.02
38 12 0.27
39 1 0.02
40 30 0.67
41 1 0.02
ACGTcount: A:0.37, C:0.35, G:0.12, T:0.17
Consensus pattern (39 bp):
TCCAACCCTACACACCAATATAGGGATAAAATCGACCCA
Found at i:13344111 original size:78 final size:81
Alignment explanation
Indices: 13343960--13344119 Score: 220
Period size: 78 Copynumber: 2.0 Consensus size: 81
13343950 TGTATTTTAT
* * * *
13343960 ACTTTTGCTTATGTTTTTTTATTTATTATAATCTTGTTATGTTGTTGTTGTTGTTTACTTAGACT
1 ACTTTTACTTATGTTTTTTTATTTATTATAATCCTGTTATGTGGTTATTGTTGTTTACTTAGACT
* *
13344025 CGTGTTGTTTACTTGG
66 CATATTGTTTACTTGG
*
13344041 ACTTTTACTTATGTTTTTATTA-TTATTATAATCCTG-T-TG-GGTTATTGTTGTTTACTTGGAC
1 ACTTTTACTTATGTTTTT-TTATTTATTATAATCCTGTTATGTGGTTATTGTTGTTTACTTAGAC
13344102 TCATATTGTTTACTTGG
65 TCATATTGTTTACTTGG
13344119 A
1 A
13344120 TTGATGTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 35 0.49
79 2 0.03
80 1 0.01
81 30 0.42
82 3 0.04
ACGTcount: A:0.17, C:0.09, G:0.16, T:0.57
Consensus pattern (81 bp):
ACTTTTACTTATGTTTTTTTATTTATTATAATCCTGTTATGTGGTTATTGTTGTTTACTTAGACT
CATATTGTTTACTTGG
Found at i:13348867 original size:27 final size:27
Alignment explanation
Indices: 13348814--13348889 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
13348804 GTCATACATA
*
13348814 TCATAGGGGTAT-ATTGTCATTTTACC
1 TCATAGGGGTATAATAGTCATTTTACC
13348840 TCATAGGGGTATAATAGTCATTTTACC
1 TCATAGGGGTATAATAGTCATTTTACC
* * *
13348867 TCATAGAGGTATAACAATCATTT
1 TCATAGGGGTATAATAGTCATTT
13348890 CATCAAATCG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 12 0.27
27 33 0.73
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (27 bp):
TCATAGGGGTATAATAGTCATTTTACC
Found at i:13351563 original size:97 final size:94
Alignment explanation
Indices: 13351396--13351573 Score: 250
Period size: 97 Copynumber: 1.9 Consensus size: 94
13351386 CTATTTGTGT
* * *
13351396 GCTAGTGTAAGACATGTTTGGAACATGCATCGGCCACATTGTGAGAGCTAGTGTAAGACCACGTC
1 GCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATTGTGAGAGATAATGTAAGACCACGTC
13351461 AGGGACATGGCATCGGCATTGAGACAAGA
66 AGGGACATGGCATCGGCATTGAGACAAGA
**
13351490 GCTAGTGTAAGACATGTCTGGGCCATGCAATCGG-CACTAATATGTGAGAGATAATGTAAGACCA
1 GCTAGTGTAAGACATGTCTGGAACATGC-ATCGGCCAC--AT-TGTGAGAGATAATGTAAGACCA
* *
13351554 TGTCTGGGACATGGCATCGG
62 CGTCAGGGACATGGCATCGG
13351574 TCTCGATTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 28 0.38
95 5 0.07
96 2 0.03
97 38 0.52
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATTGTGAGAGATAATGTAAGACCACGTC
AGGGACATGGCATCGGCATTGAGACAAGA
Found at i:13351598 original size:49 final size:48
Alignment explanation
Indices: 13351544--13351670 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 48
13351534 TGAGAGATAA
*
13351544 TGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATTTCAAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTCTCGA--TCAATGAGCCAG
* * * **
13351593 TGTAAGACCATGGCTGGGACATGGCATC-GACTTGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATCAATGAGCCAG
* *
13351640 TGTAAGACCATGTTTGGGACATGGCGTCGGT
1 TGTAAGACCATGTCTGGGACATGGCATCGGT
13351671 ATTATACCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 3 0.05
47 30 0.45
48 6 0.09
49 27 0.41
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATCAATGAGCCAG
Found at i:13353504 original size:35 final size:35
Alignment explanation
Indices: 13353428--13353504 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
13353418 TTATAATCAC
* * * *
13353428 TGTCATATGGTATGAAAACATGCCCATATATTTAT
1 TGTCACATGGAATGAAAACATACCCATATATCTAT
*
13353463 TGTCACATGGAATGAATAACATACCCATATATCTCT
1 TGTCACATGGAATGAA-AACATACCCATATATCTAT
13353499 T-TCACA
1 TGTCACA
13353505 ACAGTCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 19 0.53
36 17 0.47
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (35 bp):
TGTCACATGGAATGAAAACATACCCATATATCTAT
Found at i:13361569 original size:12 final size:13
Alignment explanation
Indices: 13361552--13361581 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
13361542 TGTTGATGCA
13361552 TAATTAAAAT-AT
1 TAATTAAAATAAT
13361564 TAATTAAAATAAT
1 TAATTAAAATAAT
13361577 TAATT
1 TAATT
13361582 TAATAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATTAAAATAAT
Found at i:13361678 original size:19 final size:19
Alignment explanation
Indices: 13361654--13361690 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13361644 CCTATGATCT
13361654 ATTAAATCCCTAATTATCA
1 ATTAAATCCCTAATTATCA
*
13361673 ATTAAATCGCTAATTATC
1 ATTAAATCCCTAATTATC
13361691 CTCAACTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTAAATCCCTAATTATCA
Found at i:13362203 original size:33 final size:33
Alignment explanation
Indices: 13362162--13362224 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
13362152 GATTCTGACT
*
13362162 AAGCGAACATAAGAAAA-ACTAAAA-TAAAACTA
1 AAGCGAACAAAAGAAAACA-TAAAATTAAAACTA
13362194 AAGCAGAACAAAAGAAAACATAAAATTAAAA
1 AAGC-GAACAAAAGAAAACATAAAATTAAAA
13362225 ATATGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 4 0.15
33 17 0.63
34 6 0.22
ACGTcount: A:0.68, C:0.11, G:0.10, T:0.11
Consensus pattern (33 bp):
AAGCGAACAAAAGAAAACATAAAATTAAAACTA
Found at i:13367139 original size:34 final size:33
Alignment explanation
Indices: 13367087--13367184 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 33
13367077 TATGCATTTT
13367087 TGATACTG-TACTGAATTGGGCTAAGGCCCACAA
1 TGATACTGCTACTG-ATTGGGCTAAGGCCCACAA
*
13367120 TGATACTGCTACTGTATTGGGCTAAGGCCCACAC
1 TGATACTGCTACTG-ATTGGGCTAAGGCCCACAA
13367154 TGATA-TCGCTACTGATATGGGCTTAA-GCCCA
1 TGATACT-GCTACTGAT-TGGGC-TAAGGCCCA
13367185 GACTATTCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
33 11 0.19
34 45 0.76
35 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (33 bp):
TGATACTGCTACTGATTGGGCTAAGGCCCACAA
Found at i:13372045 original size:43 final size:43
Alignment explanation
Indices: 13371979--13372121 Score: 120
Period size: 43 Copynumber: 3.3 Consensus size: 43
13371969 AGCTCATACA
13371979 ATGCCAA-TGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACA-GTAATCAAATATCG
** *
13372022 ATGCC-ACTGTCCCAGACAGGGTCTTACACAAAGTCACATA-CG
1 ATGCCAACTGTCCCAGACAGGGTCTTACAGTAA-TCAAATATCG
* * * *
13372064 ATGCCGA-TATCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACA-GT-AATC-AAATATCG
13372108 ATGCCAAC-GTCCCA
1 ATGCCAACTGTCCCA
13372122 AAAATGTTCT
Statistics
Matches: 80, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
42 29 0.36
43 34 0.43
44 17 0.21
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACAGTAATCAAATATCG
Found at i:13372145 original size:86 final size:85
Alignment explanation
Indices: 13371973--13372147 Score: 210
Period size: 86 Copynumber: 2.0 Consensus size: 85
13371963 TCAGAAAGCT
* * * *
13371973 CATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGA
1 CATACAATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAA
* *
13372038 CAGGGTCTTACACAAAGTCA
66 AAGGGTCTTACACAAAATCA
* * *
13372058 CATACGATGCCGATATCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCC
1 CATACAATGCCAATATCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCC
* *
13372121 AAAAATGTTCTTACACAAAATCA
63 AAAAAGGGTCTTACACAAAATCA
13372144 CATA
1 CATA
13372148 TCGGAATCCT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 32 0.42
86 40 0.53
87 4 0.05
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (85 bp):
CATACAATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAA
AAGGGTCTTACACAAAATCA
Found at i:13373631 original size:21 final size:21
Alignment explanation
Indices: 13373607--13373648 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13373597 ATTTAGTGAC
13373607 TTTACAAAACCTCGGCCGAAT
1 TTTACAAAACCTCGGCCGAAT
13373628 TTTACAAAACCTCGGCCGAAT
1 TTTACAAAACCTCGGCCGAAT
13373649 ATAGTAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (21 bp):
TTTACAAAACCTCGGCCGAAT
Found at i:13374400 original size:14 final size:15
Alignment explanation
Indices: 13374381--13374416 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
13374371 TATATATACG
13374381 AAAACCAAATC-ACC
1 AAAACCAAATCAACC
13374395 AAAACCAAATCAACC
1 AAAACCAAATCAACC
13374410 AAAACCA
1 AAAACCA
13374417 TAACCAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAACCAAATCAACC
Found at i:13380299 original size:30 final size:30
Alignment explanation
Indices: 13380263--13380321 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
13380253 CAAACATAAC
*
13380263 CATACTTATATATACGAAAACCAAATCAAA
1 CATACTTATATATACCAAAACCAAATCAAA
13380293 CATACTTATATATACCAAAACCAAATCAA
1 CATACTTATATATACCAAAACCAAATCAA
13380322 CCAAAACCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.24
Consensus pattern (30 bp):
CATACTTATATATACCAAAACCAAATCAAA
Found at i:13383389 original size:10 final size:10
Alignment explanation
Indices: 13383374--13383412 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
13383364 TGCTTTTGTA
13383374 CATGATATGC
1 CATGATATGC
13383384 CATGATATGC
1 CATGATATGC
13383394 ACATGATATGC
1 -CATGATATGC
13383405 CATGATAT
1 CATGATAT
13383413 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:13383398 original size:21 final size:21
Alignment explanation
Indices: 13383373--13383412 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
13383363 CTGCTTTTGT
13383373 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
13383394 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
13383413 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:13391092 original size:10 final size:10
Alignment explanation
Indices: 13391077--13391115 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
13391067 TGCTTTTGTA
13391077 CATGATATGC
1 CATGATATGC
13391087 CATGATATGC
1 CATGATATGC
13391097 ACATGATATGC
1 -CATGATATGC
13391108 CATGATAT
1 CATGATAT
13391116 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:13391101 original size:21 final size:21
Alignment explanation
Indices: 13391076--13391115 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
13391066 CTGCTTTTGT
13391076 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
13391097 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
13391116 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:13392160 original size:30 final size:30
Alignment explanation
Indices: 13392124--13392183 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
13392114 TCAAAACTTC
13392124 AATGTGACACGCCA-GATTCGGTCATAACGT
1 AATGTGACACG-CAGGATTCGGTCATAACGT
13392154 AATGTGACACGCAGGATTCGGTCATAACGT
1 AATGTGACACGCAGGATTCGGTCATAACGT
13392184 CTGGGCCGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (30 bp):
AATGTGACACGCAGGATTCGGTCATAACGT
Found at i:13393178 original size:13 final size:13
Alignment explanation
Indices: 13393160--13393190 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13393150 ATACCTAAAG
*
13393160 CTTTCTTTTCTTT
1 CTTTCTTTTCTTA
13393173 CTTTCTTTTCTTA
1 CTTTCTTTTCTTA
13393186 CTTTC
1 CTTTC
13393191 GGTCAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTCTTTTCTTA
Found at i:13402284 original size:65 final size:65
Alignment explanation
Indices: 13402178--13402305 Score: 202
Period size: 65 Copynumber: 2.0 Consensus size: 65
13402168 CCTATGCATC
* ** *
13402178 AGATAATAATAACATGGCATGCAGTAAATAGTAACTGTCAAACATGCATTCAGGTCAAGCTTATT
1 AGATAATAATAACATGGCATACAGTAAATAGTAACAATCAAACATGCATTCAGGTCAACCTTATT
* *
13402243 AGATAATAATAACATGGCATATAGTAAATAGTAGCAATCAAACATGCATTCAGGTCAACCTTA
1 AGATAATAATAACATGGCATACAGTAAATAGTAACAATCAAACATGCATTCAGGTCAACCTTA
13402306 ACCCTAGGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (65 bp):
AGATAATAATAACATGGCATACAGTAAATAGTAACAATCAAACATGCATTCAGGTCAACCTTATT
Found at i:13405443 original size:55 final size:55
Alignment explanation
Indices: 13405347--13405452 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
13405337 GTAGTCCCAT
* **
13405347 GCCCGTGTTAATCTAACAGGTTTGACCATGGTTACTTGGCACGGACATGTCGCAC
1 GCCCGTGTTAATCTAACAGGTTTGACCACGGTTACAAGGCACGGACATGTCGCAC
* * * *
13405402 GCCCGTGTTAAT-TAGATAGGTTTGGCCACGGTTTCAAGGCACGGGCATGTC
1 GCCCGTGTTAATCTA-ACAGGTTTGACCACGGTTACAAGGCACGGACATGTC
13405453 TCACACTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 2 0.05
55 41 0.95
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (55 bp):
GCCCGTGTTAATCTAACAGGTTTGACCACGGTTACAAGGCACGGACATGTCGCAC
Found at i:13439477 original size:19 final size:19
Alignment explanation
Indices: 13439446--13439483 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
13439436 TTACAATCTA
13439446 AATTTTTATTTTATTTTCT
1 AATTTTTATTTTATTTTCT
13439465 AATTCTTTA-TTTATTTTCT
1 AATT-TTTATTTTATTTTCT
13439484 TCTGACAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:13441324 original size:27 final size:27
Alignment explanation
Indices: 13441294--13441903 Score: 267
Period size: 27 Copynumber: 22.6 Consensus size: 27
13441284 TTAGTTTACC
13441294 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
13441321 AAATTACTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
13441348 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** **
13441375 AAATTACCAAAATACCCTTATTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
13441402 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
13441429 AAATTATCAACATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
13441456 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
13441483 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* ** * **
13441510 AACTTATTAAAATA-CCATCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** * *
13441537 AAATTACCAAAGCA-CCCTCGATT-TA
1 AAATTACCAAAATACCCCTGGTTTGTA
**** * *
13441562 CATAATTACCGTTTTA-CCCTCGATT-TA
1 -A-AATTACCAAAATACCCCTGGTTTGTA
* **** * *
13441589 CAGAATTATCGTTTTA-CCCTCGATTTATA
1 -A-AATTACCAAAATACCCCT-GGTTTGTA
* ** * * **
13441618 GAATTA-CAATTTTACCCTTGATTTACA
1 AAATTACCAA-AATACCCCTGGTTTGTA
***** * **
13441645 AAATTACTGTTTTA-CCCTCGATTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * **
13441672 AAATTACTAAAATA-CCCTTGTATTACA
1 AAATTACCAAAATACCCCTGGT-TTGTA
* * * **
13441699 AAATTATCAAAATA-CCATCGATCAGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * *
13441726 AAATTAGCAAATTA-CCCTGGTCTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
13441752 AAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
13441779 AAATTACCATAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
13441806 AAATTACCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
13441833 AAATTACCAAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * **
13441860 AAATTACCAAAATATCCCTGATTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
13441887 AAATTA-CAGAAATACCC
1 AAATTACCA-AAATACCC
13441904 TTGCCTTTCT
Statistics
Matches: 464, Mismatches: 104, Indels: 30
0.78 0.17 0.05
Matches are distributed among these distances:
25 2 0.00
26 34 0.07
27 416 0.90
28 10 0.02
29 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:13441363 original size:54 final size:54
Alignment explanation
Indices: 13441284--13441500 Score: 301
Period size: 54 Copynumber: 4.0 Consensus size: 54
13441274 TTAGAATACT
**
13441284 TTAGTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* * * *
13441338 TTGGTTTGTAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* * * *
13441392 TTATTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAACATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCC
* * *
13441446 TTAGTTTATAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
13441500 T
1 T
13441501 CGACCTGTAA
Statistics
Matches: 140, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
54 139 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
Found at i:13441510 original size:81 final size:81
Alignment explanation
Indices: 13441284--13441949 Score: 331
Period size: 81 Copynumber: 8.2 Consensus size: 81
13441274 TTAGAATACT
** * * *
13441284 TTAGTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTGTAA
1 TTAGTTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAA
* *
13441349 AATCACCAAAATACCC
66 AATTATCAAAATACCC
* * * * * *
13441365 CTGGTTTGTAAAATTACCAAAATA-CCCTTATTT-TACAAAATTACCAAAATACCC-CTAGTTTG
1 TTAGTTTATAAAATTACCAAAATACCCCTGATTTGT--AAAATTACTAAAATACCCTCGA-TTTG
*
13441427 TAAAATTATCAACATACCC
63 TAAAATTATCAAAATACCC
* * **
13441446 TTAGTTTATAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTGTAA
1 TTAGTTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAA
* *
13441511 ACTTATTAAAATA-CC
66 AATTATCAAAATACCC
* * * * ** ** * ***** **
13441526 ATCGACTTGTAAAATTACCAAAGCA-CCCTCGATTTACATAATTACCGTTTTACCCTCGATTTAC
1 TTAG-TTTATAAAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCTCGATTTGT
* ****
13441590 AGAATTATCGTTTTACCC
64 AAAATTATCAAAATACCC
* * ** * ** **** **
13441608 -TCGATTTATAGAATTA-CAATTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTAC
1 TTAG-TTTATAAAATTACCAA-AATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGT
13441671 AAAATTA-CTAAAATACCC
64 AAAATTATC-AAAATACCC
* * * ** * * *
13441689 TT-GTATTACAAAATTATCAAAATA-CCATCGATCAGTAAAATTAGC-AAATTACCCT-GGTCTG
1 TTAGT-TTATAAAATTACCAAAATACCCCT-GATTTGTAAAATTA-CTAAAATACCCTCGATTTG
13441750 TAAAATTA-CTAAAATACCC
63 TAAAATTATC-AAAATACCC
* * * * * *
13441769 CTGGTTTGTAAAATTACCATAATACCCCT-AGTTTGTAAAATTACCAAAATACCACT-GGTTTGT
1 TTAGTTTATAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACC-CTCGATTTGT
* *
13441832 GAAATTACCAAAATACCC
64 AAAATTATCAAAATACCC
* * * * ** * * *
13441850 TCAATTTGTAAAATTACCAAAATATCCCTGATTTACAAAATTAC-AGAAATACCCTTGCCTTTCT
1 TTAGTTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACTA-AAATACCCTCG-ATTTGT
*
13441914 AAAAATTAT-AGAAATACCA
64 -AAAATTATCA-AAATACCC
13441933 TTAGTTTATAAAATTAC
1 TTAGTTTATAAAATTAC
13441950 TGAAATGCCA
Statistics
Matches: 447, Mismatches: 109, Indels: 56
0.73 0.18 0.09
Matches are distributed among these distances:
79 3 0.01
80 80 0.18
81 309 0.69
82 27 0.06
83 28 0.06
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (81 bp):
TTAGTTTATAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAA
AATTATCAAAATACCC
Found at i:13441782 original size:80 final size:80
Alignment explanation
Indices: 13441671--13441873 Score: 212
Period size: 80 Copynumber: 2.5 Consensus size: 80
13441661 CTCGATTTAC
* ** * * *
13441671 AAAATTACTAAAATACCCTTGTATTACAAAATTATCAAAATACCATCGA-TCAGTAAAATTAGCA
1 AAAATTACTAAAATACCCTAGT-TTGTAAAATTACCAAAATACC-CCGAGTCAGTAAAATTACCA
*
13441735 AATTACC-CTGGTCTGT
64 AAATACCACTGGTCTGT
* * * **
13441751 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCATAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
13441816 AATACCACTGGTTTGT
65 AATACCACTGGTCTGT
* * *
13441832 GAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATA
1 AAAATTACTAAAATACCCT-AGTTTGTAAAATTACCAAAATA
13441874 TCCCTGATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
79 2 0.02
80 54 0.53
81 46 0.45
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAA
ATACCACTGGTCTGT
Found at i:13441954 original size:27 final size:27
Alignment explanation
Indices: 13441671--13441988 Score: 152
Period size: 27 Copynumber: 11.7 Consensus size: 27
13441661 CTCGATTTAC
**
13441671 AAAATTACTAAAATACCCTT-GTATTAC
1 AAAATTACTAAAATACCCTTAGT-TTGT
* * **
13441698 AAAATTA-TCAAAATA-CCATCGATCAGT
1 AAAATTACT-AAAATACCCTTAG-TTTGT
* * *
13441725 AAAATTAGC-AAATTACCC-TGGTCTGT
1 AAAATTA-CTAAAATACCCTTAGTTTGT
* *
13441751 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * *
13441778 AAAATTACCATAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
13441805 AAAATTACCAAAATACCAC-TGGTTTGT
1 AAAATTACTAAAATACC-CTTAGTTTGT
* * * *
13441832 GAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * **
13441859 AAAATTACCAAAATATCCCTGA-TTTAC
1 AAAATTACTAAAATA-CCCTTAGTTTGT
*
13441886 AAAATTAC-AGAAATACCCTT-GCCTTTCT
1 AAAATTACTA-AAATACCCTTAG--TTTGT
* *
13441914 AAAAATTA-TAGAAATACCATTAGTTTAT
1 -AAAATTACTA-AAATACCCTTAGTTTGT
* * * * **
13441942 AAAATTACTGAAATGCCATTGGTTTAC
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
13441969 AAAATTACTGAAACACCCTT
1 AAAATTACTAAAATACCCTT
13441989 GTAGGGTTAA
Statistics
Matches: 237, Mismatches: 35, Indels: 38
0.76 0.11 0.12
Matches are distributed among these distances:
25 1 0.00
26 29 0.12
27 171 0.72
28 17 0.07
29 18 0.08
30 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTAGTTTGT
Found at i:13442084 original size:27 final size:27
Alignment explanation
Indices: 13442007--13442084 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
13441997 AAATGACTAA
* *
13442007 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
13442034 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
13442061 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
13442085 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Done.