Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 143 of 297
Found at i:49330600 original size:27 final size:27
Alignment explanation
Indices: 49330570--49330693 Score: 194
Period size: 27 Copynumber: 4.6 Consensus size: 27
49330560 TTATTAAGTC
* *
49330570 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
49330597 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
49330625 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49330652 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
49330679 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49330694 GCACAATTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 65 0.71
28 26 0.29
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49330654 original size:55 final size:54
Alignment explanation
Indices: 49330570--49330693 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
49330560 TTATTAAGTC
* *
49330570 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCA-ACT
* * *
49330625 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
49330679 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49330694 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
54 17 0.27
55 47 0.73
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:49338646 original size:12 final size:12
Alignment explanation
Indices: 49338629--49338667 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
49338619 AGGAACTCGT
49338629 GGACGAGGCCGC
1 GGACGAGGCCGC
49338641 GGACGAGGCCGC
1 GGACGAGGCCGC
* *
49338653 GGACGTGGTCGC
1 GGACGAGGCCGC
49338665 GGA
1 GGA
49338668 AGGGTGCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.15, C:0.28, G:0.51, T:0.05
Consensus pattern (12 bp):
GGACGAGGCCGC
Found at i:49347047 original size:9 final size:9
Alignment explanation
Indices: 49347020--49347078 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
49347010 AAGCATTAAC
49347020 AAACACATT
1 AAACACATT
*
49347029 AAAACTCATT
1 -AAACACATT
49347039 AAACACATT
1 AAACACATT
49347048 AAACACATT
1 AAACACATT
* *
49347057 AAATACTTT
1 AAACACATT
*
49347066 AAACACATG
1 AAACACATT
49347075 AAAC
1 AAAC
49347079 TTAATTAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
9 34 0.81
10 8 0.19
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (9 bp):
AAACACATT
Found at i:49347078 original size:27 final size:27
Alignment explanation
Indices: 49347020--49347078 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
49347010 AAGCATTAAC
*
49347020 AAACACATTAAAACTCATTAAACACATT
1 AAACACATTAAAACT-ATTAAACACATG
49347048 AAACACATTAAATACT-TTAAACACATG
1 AAACACATTAAA-ACTATTAAACACATG
49347075 AAAC
1 AAAC
49347079 TTAATTAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 14 0.48
28 12 0.41
29 3 0.10
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (27 bp):
AAACACATTAAAACTATTAAACACATG
Found at i:49347204 original size:34 final size:34
Alignment explanation
Indices: 49347121--49347204 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
49347111 TGCAACAATA
*
49347121 AATTATTCCAGCAATTAAATTAACTAAGATAAGT
1 AATTATTCCAGCAACTAAATTAACTAAGATAAGT
* * * *
49347155 AATTATTCTAACAACTCAATTAACTAAGTTGAA-T
1 AATTATTCCAGCAACTAAATTAACTAAGAT-AAGT
49347189 -ATTGATTCCAGCAACT
1 AATT-ATTCCAGCAACT
49347205 TAGTTTAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
33 3 0.07
34 36 0.88
35 2 0.05
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (34 bp):
AATTATTCCAGCAACTAAATTAACTAAGATAAGT
Found at i:49348451 original size:18 final size:18
Alignment explanation
Indices: 49348430--49348484 Score: 110
Period size: 18 Copynumber: 3.1 Consensus size: 18
49348420 TTATATGTAA
49348430 GACCATATTTTGTATTAT
1 GACCATATTTTGTATTAT
49348448 GACCATATTTTGTATTAT
1 GACCATATTTTGTATTAT
49348466 GACCATATTTTGTATTAT
1 GACCATATTTTGTATTAT
49348484 G
1 G
49348485 GCTTTGTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (18 bp):
GACCATATTTTGTATTAT
Found at i:49350762 original size:93 final size:93
Alignment explanation
Indices: 49350647--49350817 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
49350637 GCCCCTAAGT
*
49350647 GAACTCGGACTCAAATCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAAATCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49350711 ACAAGTTCGGATGCCTAGTTACATTTCAC
65 ACAAGTTCGGATGCCTAGTTACATTTCAC
* *
49350740 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
49350805 CGAGTTCGGATGC
66 CAAGTTCGGATGC
49350818 TCAACCATTC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:49350812 original size:46 final size:46
Alignment explanation
Indices: 49350642--49350814 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
49350632 AACCCGCCCC
* * *
49350642 TAAGTGAACTCGGACTCAAATCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* * *
49350688 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
49350736 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
49350781 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49350815 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 57 0.55
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:49353241 original size:15 final size:15
Alignment explanation
Indices: 49353215--49353270 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
49353205 CAAGGAAACC
49353215 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
49353230 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
49353245 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
49353260 GAATAAAGAAA
1 GAATAAAGAAA
49353271 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:49355454 original size:26 final size:26
Alignment explanation
Indices: 49355418--49355468 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
49355408 GTTTCACAAG
*
49355418 GTTTCAAATATCTCATAAAGTATAAT
1 GTTTCAAATATCTAATAAAGTATAAT
49355444 GTTTCAAATATCTAATAAAGTATAA
1 GTTTCAAATATCTAATAAAGTATAA
49355469 CTTATATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (26 bp):
GTTTCAAATATCTAATAAAGTATAAT
Found at i:49358869 original size:64 final size:64
Alignment explanation
Indices: 49358788--49358959 Score: 168
Period size: 67 Copynumber: 2.7 Consensus size: 64
49358778 AGACATTATG
* * *
49358788 ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAACAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAACAGAGCTACGAGATAA
* * * * * * *
49358852 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAACAGAGCTACGAGAT
49358917 AA
63 AA
* * * *
49358919 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
49358960 GTACAAGAGA
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
63 9 0.11
64 20 0.24
65 8 0.09
66 16 0.19
67 30 0.35
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAACAGAGCTACGAGATAA
Found at i:49360002 original size:16 final size:17
Alignment explanation
Indices: 49359981--49360012 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49359971 ACTATGGTAT
49359981 ATGAAAT-AATGATATA
1 ATGAAATAAATGATATA
49359997 ATGAAATAAATGATAT
1 ATGAAATAAATGATAT
49360013 GTGTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (17 bp):
ATGAAATAAATGATATA
Found at i:49361981 original size:49 final size:49
Alignment explanation
Indices: 49361921--49362152 Score: 259
Period size: 49 Copynumber: 4.7 Consensus size: 49
49361911 CTGGCACGCA
* * * *
49361921 TAGTAGACTGCACTTAGTACCACACATGTGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * * *
49361970 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * *
49362020 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCG-GTACACG
* * * *
49362071 TAGTAGCCTGCACTTAGTATTACACATGCGACCAATTATCCGGTAAACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
**
49362120 TAGTAGCCTGCACTTAGTACTATGCACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
49362153 TCACAATAGA
Statistics
Matches: 151, Mismatches: 27, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
49 66 0.44
50 51 0.34
51 34 0.23
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:49362150 original size:100 final size:101
Alignment explanation
Indices: 49361921--49362150 Score: 261
Period size: 100 Copynumber: 2.3 Consensus size: 101
49361911 CTGGCACGCA
* * * * ***
49361921 TAGTAGACTGCACTTAGTACCACACATGTGA-CCAA-TTATCCG-GTACATGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGAGTACGCATAGTAGCCTGCAC
* * * *
49361983 TTAGTACTACACACGTGACCTAACCATCTGATACATG
65 TTAGTACTACACACGCGACCTAACCATCCGATAAACG
49362020 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGAGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGAGTACGCATAGTAGCCTGCACT
* * ** *
49362085 TAGTATTACACATGCGACC-AATTATCCGGTAAACG
66 TAGTACTACACACGCGACCTAACCATCCGATAAACG
**
49362120 TAGTAGCCTGCACTTAGTACTATGCACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
49362151 CCTCACAATA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
99 28 0.25
100 44 0.40
101 38 0.35
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGAGTACGCATAGTAGCCTGCACT
TAGTACTACACACGCGACCTAACCATCCGATAAACG
Found at i:49368635 original size:54 final size:54
Alignment explanation
Indices: 49368571--49368976 Score: 392
Period size: 54 Copynumber: 7.6 Consensus size: 54
49368561 TTTGGTAAGT
* *
49368571 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * *
49368625 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTT-CTATAAGGC
* * * * * *
49368680 AAAGG-TCCCATGTAAGCCCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC
1 -AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *
49368733 AAGGATACCATGTAAGACCATGTTC--GGAACATGGCGTTTGGTAAG----AT-----
1 AAGGATACCATGTAAGACCATG-TCAAGG--CATGGC-ATTGATAAGTTCTATAAGGC
*
49368780 AAGGATATCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * *
49368834 AAGGAAATCATGTAAGACCGTGTCAAGACATAGCATTGATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTT-CTATAAGGC
* * * *
49368889 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *
49368942 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCA
49368977 ATGGCAAGTT
Statistics
Matches: 292, Mismatches: 39, Indels: 43
0.78 0.10 0.11
Matches are distributed among these distances:
45 7 0.02
46 8 0.03
47 21 0.07
48 2 0.01
49 2 0.01
52 12 0.04
53 53 0.18
54 91 0.31
55 88 0.30
56 8 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:49368881 original size:209 final size:208
Alignment explanation
Indices: 49368519--49368964 Score: 793
Period size: 209 Copynumber: 2.1 Consensus size: 208
49368509 GAATTGGCAC
*
49368519 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGTAAGGATATCATGT
1 TAAGACAAGGATACCATGTAAGACCATGTTCGGAACATGGCATTTGGTAAGTAAGGATATCATGT
49368584 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTC
66 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTC
* * * *
49368649 AAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGCCCATGCCAAGGCATGGC
131 AAGACATAGCATTGATAAGTTACTATAAGACAAAGGTCCCATGTAAGACCATGCCAAGGCATGGC
49368714 ATTGGTGAGTTCA
196 ATTGGTGAGTTCA
*
49368727 TAAGACAAGGATACCATGTAAGACCATGTTCGGAACATGGCGTTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTCGGAACATGGCATTTGGTAAG-TAAGGATATCATG
* *
49368792 TAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCGTGT
65 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
49368857 CAAGACATAGCATTGATAAGTTACTATAAGACAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
130 CAAGACATAGCATTGATAAGTTACTATAAGACAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
49368922 CATTGGTGAGTTCA
195 CATTGGTGAGTTCA
* *
49368936 TAAGGCAAGGATACCACGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
49368965 CAAGACATGG
Statistics
Matches: 227, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
208 49 0.22
209 178 0.78
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (208 bp):
TAAGACAAGGATACCATGTAAGACCATGTTCGGAACATGGCATTTGGTAAGTAAGGATATCATGT
AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTC
AAGACATAGCATTGATAAGTTACTATAAGACAAAGGTCCCATGTAAGACCATGCCAAGGCATGGC
ATTGGTGAGTTCA
Found at i:49368922 original size:155 final size:154
Alignment explanation
Indices: 49368625--49368910 Score: 371
Period size: 155 Copynumber: 1.8 Consensus size: 154
49368615 TCTATAAGGC
* **
49368625 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCA
1 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGAACCA
* * * * *
49368690 TGTAAGCCCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACCATG
66 TGTAAGACCATGCCAAGACATAGCATTGATAAGTTCATAAGACAAGGATACCATGTAAGACCATG
*
49368755 TTCGGAACATGGCGTTTGGTAAGAT
131 TCCGG-ACATGGCGTTTGGTAAGAT
* * *
49368780 AAGGATATCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTT-CTATAAGGC-AAGGAAATC
1 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-AACC
* * *
49368843 ATGTAAGACCGTGTCAAGACATAGCATTGATAAGTTACTATAAGACAAAGG-TCCCATGTAAGAC
65 ATGTAAGACCATGCCAAGACATAGCATTGATAAGTT-C-ATAAGAC-AAGGATACCATGTAAGAC
49368907 CATG
127 CATG
49368911 CCAAGGCATG
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
153 4 0.04
154 39 0.35
155 43 0.38
156 23 0.20
157 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (154 bp):
AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGAACCA
TGTAAGACCATGCCAAGACATAGCATTGATAAGTTCATAAGACAAGGATACCATGTAAGACCATG
TCCGGACATGGCGTTTGGTAAGAT
Found at i:49372635 original size:43 final size:43
Alignment explanation
Indices: 49372569--49372840 Score: 295
Period size: 43 Copynumber: 6.4 Consensus size: 43
49372559 GATATGTGAT
*
49372569 ATCGATATGTGATTACGTTTAAGACCCTGTCTGGGACAGTGGC
1 ATCGATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGGC
* * * *
49372612 ATCAATATGTGATTATGTGTAAGACCAC-ATCTGGGACATTGGC
1 ATCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACAGTGGC
* *
49372655 GA-CGATATGTGATTACGTGTAAGACCTTGTCTGGGATAGTGGC
1 -ATCGATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGGC
* * *
49372698 ATCGATTTGTGATTACGTGTAAGACCACAT-T-TGGAACATTGGC
1 ATCGATATGTGATTACGTGTAAGACC-C-TGTCTGGGACAGTGGC
* ***
49372741 ATCGATATGTGATTACGTGTAAGACCATGTCTGGGACACCAGC
1 ATCGATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGGC
* * * *
49372784 ATC-ATATTTGATT-CATGTGAGACCCTATCTGGGACAGTGGC
1 ATCGATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGGC
*
49372825 ACCGATATGTGATTAC
1 ATCGATATGTGATTAC
49372841 ATGTCCGGGA
Statistics
Matches: 187, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
41 24 0.13
42 20 0.11
43 139 0.74
44 3 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
ATCGATATGTGATTACGTGTAAGACCCTGTCTGGGACAGTGGC
Found at i:49372718 original size:86 final size:85
Alignment explanation
Indices: 49372571--49372840 Score: 332
Period size: 86 Copynumber: 3.2 Consensus size: 85
49372561 TATGTGATAT
* * * *
49372571 CGATATGTGATTACGTTTAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTATGTGTAAGA
1 CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCATC-ATTTGTGATTACGTGTAAGA
49372636 CCACATCTGGGACATTGGCGA-
65 CCACATCTGGGACATTGGC-AC
* *
49372657 CGATATGTGATTACGTGTAAGACCTTGTCTGGGATAGTGGCATCGATTTGTGATTACGTGTAAGA
1 CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCATC-ATTTGTGATTACGTGTAAGA
* * *
49372722 CCACATTTGGAACATTGGCAT
65 CCACATCTGGGACATTGGCAC
*** * *
49372743 CGATATGTGATTACGTGTAAGACCATGTCTGGGACACCAGCATCATATT-TGATT-CATGTGAGA
1 CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCATCAT-TTGTGATTACGTGTAAGA
*
49372806 CC-CTATCTGGGACAGTGGCAC
65 CCAC-ATCTGGGACATTGGCAC
49372827 CGATATGTGATTAC
1 CGATATGTGATTAC
49372841 ATGTCCGGGA
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
83 1 0.01
84 36 0.22
85 8 0.05
86 117 0.72
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (85 bp):
CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCATCATTTGTGATTACGTGTAAGAC
CACATCTGGGACATTGGCAC
Found at i:49374176 original size:13 final size:14
Alignment explanation
Indices: 49374148--49374180 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49374138 CATTTCGACC
*
49374148 ATGTTTATATTTAT
1 ATGTTTATATTGAT
49374162 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
49374175 ATGTTT
1 ATGTTT
49374181 GTTTTTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:49378596 original size:93 final size:93
Alignment explanation
Indices: 49378437--49378608 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
49378427 AGGATATTTG
* * *
49378437 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTAGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAGTTGAG
49378502 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
49378530 GGCATCCGAGCTCATTGAGTTGAGTCCGGGTTCATTTATGGATGCGAACGCCCGAGCTCA-TTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACT-AGTTGA
49378594 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
49378609 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:49381804 original size:21 final size:20
Alignment explanation
Indices: 49381773--49381813 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
49381763 AAAAAGAAAT
49381773 GAAAGAAAAAGAGAGTGAGA
1 GAAAGAAAAAGAGAGTGAGA
*
49381793 GAAAGCAAAAAGAGATTGAGA
1 GAAAG-AAAAAGAGAGTGAGA
49381814 TTGAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.59, C:0.02, G:0.32, T:0.07
Consensus pattern (20 bp):
GAAAGAAAAAGAGAGTGAGA
Found at i:49382352 original size:12 final size:12
Alignment explanation
Indices: 49382332--49382361 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49382322 CTGACTTGGC
49382332 CACACGGCCGAG
1 CACACGGCCGAG
*
49382344 CACATGGCCGAG
1 CACACGGCCGAG
49382356 CACACG
1 CACACG
49382362 CTTGTGTGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.40, G:0.30, T:0.03
Consensus pattern (12 bp):
CACACGGCCGAG
Found at i:49382655 original size:15 final size:16
Alignment explanation
Indices: 49382635--49382665 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
49382625 ACATGTAATG
49382635 CCCCAAAAT-CTGAAA
1 CCCCAAAATCCTGAAA
49382650 CCCCAAAATCCTGAAA
1 CCCCAAAATCCTGAAA
49382666 TCTCAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.35, G:0.06, T:0.13
Consensus pattern (16 bp):
CCCCAAAATCCTGAAA
Found at i:49384112 original size:29 final size:29
Alignment explanation
Indices: 49384070--49384181 Score: 147
Period size: 29 Copynumber: 3.9 Consensus size: 29
49384060 ATAATATGAT
*
49384070 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
49384099 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
49384128 CTGGGCC-AGATGGGCCATATGAATGAG-A
1 TTGGGCCTAG-TGGGCCATATGAATGTGAA
*
49384156 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
49384182 TTGCAGGGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
28 23 0.32
29 48 0.68
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:49384152 original size:58 final size:57
Alignment explanation
Indices: 49384062--49384174 Score: 174
Period size: 58 Copynumber: 2.0 Consensus size: 57
49384052 GCATGAGTAT
** *
49384062 AATATGATTTGGGCCTAATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCTAATGGGCCATATGAATGAG-ATTGGGCCTAGTGGGCCATAAG
49384120 AATATGAACTGGGCC-AGATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCTA-ATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
49384175 TGCATGTTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 21 0.41
58 30 0.59
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (57 bp):
AATATGAACTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATAAG
Found at i:49390718 original size:29 final size:28
Alignment explanation
Indices: 49390660--49390732 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
49390650 GCTACACTAG
**
49390660 GACATATTAAAAACTTATTTTAATTTAA
1 GACATATTAAAAACTTATTTTAAGCTAA
*
49390688 GACATATTAATAACATGTA-TTTAAGCTAA
1 GACATATTAAAAAC-T-TATTTTAAGCTAA
* *
49390717 GACACATTAAAGACTT
1 GACATATTAAAAACTT
49390733 GTATAAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 1 0.03
28 14 0.38
29 20 0.54
30 2 0.05
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (28 bp):
GACATATTAAAAACTTATTTTAAGCTAA
Found at i:49392300 original size:29 final size:28
Alignment explanation
Indices: 49392267--49392344 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
49392257 GTCATATTTT
*
49392267 ATACAAGTCTTTAATATGTCTT-AACTTAA
1 ATACATGT-TTTAATATGTCTTAAAC-TAA
*
49392296 ATACATGTTATTAATATCTCTTAAAACTAA
1 ATACATGTT-TTAATATGTCTT-AAACTAA
49392326 A-ACATGTTTTTAATATGTC
1 ATACATG-TTTTAATATGTC
49392345 CTAGTACAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
28 1 0.02
29 32 0.76
30 6 0.14
31 3 0.07
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (28 bp):
ATACATGTTTTAATATGTCTTAAACTAA
Found at i:49403595 original size:26 final size:25
Alignment explanation
Indices: 49403566--49403614 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
49403556 TCCTATGATA
*
49403566 AATTC-ATTTATGCTTGATTATGTTTG
1 AATTCAATTT-TGCTT-ATCATGTTTG
49403592 AATTCAATTTTGCTTATCATGTT
1 AATTCAATTTTGCTTATCATGTT
49403615 AAGTGCTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 10 0.48
27 4 0.19
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.53
Consensus pattern (25 bp):
AATTCAATTTTGCTTATCATGTTTG
Found at i:49412333 original size:49 final size:51
Alignment explanation
Indices: 49412209--49412551 Score: 356
Period size: 49 Copynumber: 6.8 Consensus size: 51
49412199 ACTACGTGGC
* * *
49412209 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGAT
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGAT
* * * * * * *
49412260 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTA-T-TGGT
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGAT
* * *
49412309 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGAT
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGAT
*** * * * * *
49412360 CATGTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTA-T-TGGT
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGAT
* * *
49412409 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGAT
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGAT
*** * * * * *
49412460 CATGTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTA-T-TGGT
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGAT
49412509 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
49412552 GCTTCGGCTA
Statistics
Matches: 228, Mismatches: 60, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
49 114 0.50
50 5 0.02
51 109 0.48
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (51 bp):
CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGAT
Found at i:49412382 original size:100 final size:100
Alignment explanation
Indices: 49412209--49412546 Score: 649
Period size: 100 Copynumber: 3.4 Consensus size: 100
49412199 ACTACGTGGC
*
49412209 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCACGTGTGTAGTAC
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCATGTGTGTAGTAC
*
49412274 TAAGTACAGGCTACTACGTGTACCAGATTATTGGT
66 TAAGTACAGGCTACTAAGTGTACCAGATTATTGGT
49412309 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCATGTGTGTAGTAC
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCATGTGTGTAGTAC
49412374 TAAGTACAGGCTACTAAGTGTACCAGATTATTGGT
66 TAAGTACAGGCTACTAAGTGTACCAGATTATTGGT
49412409 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCATGTGTGTAGTAC
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCATGTGTGTAGTAC
49412474 TAAGTACAGGCTACTAAGTGTACCAGATTATTGGT
66 TAAGTACAGGCTACTAAGTGTACCAGATTATTGGT
*
49412509 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
49412547 AGATAGCTTC
Statistics
Matches: 235, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 235 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (100 bp):
CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCATGTGTGTAGTAC
TAAGTACAGGCTACTAAGTGTACCAGATTATTGGT
Found at i:49414188 original size:32 final size:32
Alignment explanation
Indices: 49414151--49414212 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
49414141 ATAACACGTG
49414151 AGATGAAAGGTCATGTTGTGATAAATATCCTT
1 AGATGAAAGGTCATGTTGTGATAAATATCCTT
49414183 AGATGAAAGGTCATGTTGTGATAAATATCC
1 AGATGAAAGGTCATGTTGTGATAAATATCC
49414213 ATACTTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (32 bp):
AGATGAAAGGTCATGTTGTGATAAATATCCTT
Found at i:49415608 original size:15 final size:15
Alignment explanation
Indices: 49415588--49415652 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
49415578 GTATCTTGGG
49415588 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
49415603 TTTCTTTATTTTGGGC
1 TTTCTTTATTCT-GGA
*
49415619 TTT-TCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
49415633 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
49415647 TTTCTT
1 TTTCTT
49415653 GTTATCTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
14 14 0.36
15 18 0.46
16 7 0.18
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49418244 original size:100 final size:100
Alignment explanation
Indices: 49418071--49419054 Score: 1914
Period size: 100 Copynumber: 9.8 Consensus size: 100
49418061 GTGAGGTCAC
* * ** *
49418071 GTGTGTAGTACTATGTACAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418136 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418171 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418236 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418271 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418336 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418371 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418436 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418471 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418536 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418571 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418636 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418671 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418736 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418771 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418836 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418871 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
49418936 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
49418971 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
*
49419036 GCAGGCTACTATGCGTACC
66 GCAGGCTACTATGCATACC
49419055 AGATAGCTTC
Statistics
Matches: 878, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 878 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTACAGGCTACTAAGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCATACCCGAAAACTGTGATCAT
Found at i:49422098 original size:55 final size:53
Alignment explanation
Indices: 49421968--49422157 Score: 222
Period size: 55 Copynumber: 3.5 Consensus size: 53
49421958 AACTTACCAT
* * *
49421968 TGCCATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGAG-A-CCTTGCCTTATAGAACTCATCAA
* * *
49422021 TTCCATGCCTTGGCATGATCTTACATGAGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGAGACC-TTGCCTTATAG-AACTCATCAA
* ** *
49422076 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGA-GACCTTGCCTTATAGAACTCATCAA
*
49422130 TGCCATGCCTTGGCATGGTCTTACATGA
1 TGCCATGCCTTGACATGGTCTTACATGA
49422158 TATCCTTATC
Statistics
Matches: 117, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 32 0.27
54 37 0.32
55 44 0.38
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGAGACCTTGCCTTATAGAACTCATCAA
Found at i:49422198 original size:47 final size:47
Alignment explanation
Indices: 49422143--49422264 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
49422133 CATGCCTTGG
* * *
49422143 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
49422190 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
49422237 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
49422265 GTTCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
Found at i:49422338 original size:47 final size:45
Alignment explanation
Indices: 49422127--49422399 Score: 144
Period size: 47 Copynumber: 5.9 Consensus size: 45
49422117 TAGAACTTAT
* * * *
49422127 CAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-TTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTA-CAATAC
*** * *
49422172 CAAATGCCATGTTCCAAACATGGTCTTACATG-GTATCCTTGTC-TTAC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGAG-ATCCTT-ACAATAC
*** * * *
49422219 CAAATGCCATGGTCCAAACATGGTCTTACATG-GTATCCTTGTCTTAGTTC
1 C-AATGCCAT-GTCTTGACATGGTCTTACATGAG-ATCCTT-AC--AATAC
** ** *
49422269 CAATGCCACATCTTGATGTGGTCTTACAT-AGAGTCCTTAATCAATGC
1 CAATGCCATGTCTTGACATGGTCTTACATGAGA-TCCTT-A-CAATAC
* * * **
49422316 CGATGCCATGTCTTGACATGGTCTTACATGGGATGCTTACCTTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTACAATAC
49422361 CAATGCCATGTCTTGACATGGTCTTACATG-GTATCCTTA
1 CAATGCCATGTCTTGACATGGTCTTACATGAG-ATCCTTA
49422400 ACCGTCAATT
Statistics
Matches: 183, Mismatches: 32, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 39 0.21
46 10 0.05
47 99 0.54
48 23 0.13
49 8 0.04
50 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (45 bp):
CAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTACAATAC
Found at i:49435146 original size:13 final size:14
Alignment explanation
Indices: 49435115--49435146 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49435105 GATTTAATGT
49435115 TAAAATAATTAAAA
1 TAAAATAATTAAAA
49435129 T-AAATAA-TAAAA
1 TAAAATAATTAAAA
49435141 TAAAAT
1 TAAAAT
49435147 GTTAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 10 0.59
14 1 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAAATAATTAAAA
Found at i:49436054 original size:40 final size:39
Alignment explanation
Indices: 49435986--49436077 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 39
49435976 AGAAGTGTGT
* * *
49435986 CTATTTGCACATCAGTGCTCCTGTTTGTAATTTGGTACCC
1 CTATTTGCACATCAGTGCTCCTGATTGT-ACTCGGTACCC
*
49436026 CTATTTGCATATCAGTGC-CTCTGATTGTACTCGGTACCC
1 CTATTTGCACATCAGTGCTC-CTGATTGTACTCGGTACCC
**
49436065 CTAAATGCACATC
1 CTATTTGCACATC
49436078 TGTACCCCTG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 20 0.45
40 24 0.55
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (39 bp):
CTATTTGCACATCAGTGCTCCTGATTGTACTCGGTACCC
Found at i:49436973 original size:35 final size:35
Alignment explanation
Indices: 49436934--49437012 Score: 131
Period size: 35 Copynumber: 2.2 Consensus size: 35
49436924 TTCACATATG
*
49436934 TATCACATTATACACTTATGATTCAATTCAAATCA
1 TATCACATTATACACTTATGATTAAATTCAAATCA
*
49436969 TATCATATTATACACTTATGATTAAATTCAAATCA
1 TATCACATTATACACTTATGATTAAATTCAAATCA
49437004 TACTCACAT
1 TA-TCACAT
49437013 ATAAATACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 35 0.88
36 5 0.12
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (35 bp):
TATCACATTATACACTTATGATTAAATTCAAATCA
Found at i:49437244 original size:45 final size:45
Alignment explanation
Indices: 49437109--49437278 Score: 181
Period size: 45 Copynumber: 3.9 Consensus size: 45
49437099 TTTTATCAAA
* * * **
49437109 TCACCGGCATT-TAGCCTACTAGGTTTAAAAACCCGAAT--TCA-T
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATT
* * * *
49437151 TCACCAGCATT-TCGCCTGCTAGGCTCGAA-GCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATT
* **
49437194 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAGTGGTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATT
49437239 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
49437279 GTACTGTGCG
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
41 7 0.07
42 24 0.23
43 11 0.10
44 16 0.15
45 48 0.45
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATT
Found at i:49438252 original size:110 final size:110
Alignment explanation
Indices: 49438071--49438291 Score: 415
Period size: 110 Copynumber: 2.0 Consensus size: 110
49438061 TCACTAACTC
* *
49438071 ATTACCTTGCATATCCAAATTTCATTAATTAATATACATACAACTCCAAATATTATATCATGGAA
1 ATTACCTTACATATACAAATTTCATTAATTAATATACATACAACTCCAAATATTATATCATGGAA
49438136 CAAGTGCCGAATTACAAATTATAATAAAATCAAAACATAACTCTT
66 CAAGTGCCGAATTACAAATTATAATAAAATCAAAACATAACTCTT
*
49438181 ATTACCTTACATATACGAATTTCATTAATTAATATACATACAACTCCAAATATTATATCATGGAA
1 ATTACCTTACATATACAAATTTCATTAATTAATATACATACAACTCCAAATATTATATCATGGAA
49438246 CAAGTGCCGAATTACAAATTATAATAAAATCAAAACATAACTCTT
66 CAAGTGCCGAATTACAAATTATAATAAAATCAAAACATAACTCTT
49438291 A
1 A
49438292 CCATGATATA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (110 bp):
ATTACCTTACATATACAAATTTCATTAATTAATATACATACAACTCCAAATATTATATCATGGAA
CAAGTGCCGAATTACAAATTATAATAAAATCAAAACATAACTCTT
Found at i:49442180 original size:16 final size:16
Alignment explanation
Indices: 49442159--49442190 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49442149 ACAATGGCAA
49442159 TTTAACAACCTTAAAT
1 TTTAACAACCTTAAAT
49442175 TTTAACAACCTTAAAT
1 TTTAACAACCTTAAAT
49442191 CCAACTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTAACAACCTTAAAT
Found at i:49443559 original size:27 final size:26
Alignment explanation
Indices: 49443511--49443570 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
49443501 GTGAGGCTGC
*
49443511 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
49443538 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
49443564 CAGATAT
1 CAGATAT
49443571 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:49443657 original size:27 final size:26
Alignment explanation
Indices: 49443609--49443668 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
49443599 GCGAGGCTGC
*
49443609 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
49443636 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
49443662 CAGATAT
1 CAGATAT
49443669 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:49443716 original size:71 final size:67
Alignment explanation
Indices: 49443636--49443777 Score: 176
Period size: 71 Copynumber: 2.1 Consensus size: 67
49443626 TCACCAGATA
* * * *
49443636 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAGATACATATA-GT---GAAGCCACCAGATTGCAGCGA
49443701 GGCTGC
62 GGCTGC
* * * *
49443707 CAGATATTGTGACGAAGTCACCAGAACAGATACATGTAGTGAGGCCACCAGATTGCATCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATACATATAGTGAAGCCACCAGATTGCAGCGAGGCT
49443772 GC
66 GC
49443774 CAGA
1 CAGA
49443778 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 29 0.46
70 2 0.03
71 32 0.51
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATACATATAGTGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:49443758 original size:98 final size:98
Alignment explanation
Indices: 49443495--49443738 Score: 463
Period size: 98 Copynumber: 2.5 Consensus size: 98
49443485 CACCACAGAA
*
49443495 ATTGCAGTGAGGCTGCCAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
49443560 AGAACAGATATATATATGTGGCGAAGCCACCAG
66 AGAACAGATATATATATGTGGCGAAGCCACCAG
49443593 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
49443658 AGAACAGATATATATATGTGGCGAAGCCACCAG
66 AGAACAGATATATATATGTGGCGAAGCCACCAG
*
49443691 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATA
1 ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGATACAGATA
49443739 CATGTAGTGA
Statistics
Matches: 144, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
97 7 0.05
98 137 0.95
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (98 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
AGAACAGATATATATATGTGGCGAAGCCACCAG
Found at i:49451004 original size:27 final size:26
Alignment explanation
Indices: 49450956--49451007 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49450946 GCAAGGCTGC
*
49450956 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
49450982 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
49451008 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49452684 original size:75 final size:75
Alignment explanation
Indices: 49452561--49452711 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
49452551 CAACCAGAAC
49452561 ATACACAAATTTTAAAAAATCACAGAAACACAGAAAACCCGAAAATTAGGGCGTTACATGCAAAT
1 ATACACAAATTTTAAAAAATCACAGAAACACAGAAAACCCGAAAATTAGGGCGTTACATGCAAAT
49452626 CCACTTATTT
66 CCACTTATTT
49452636 ATACACAAATTTTAAAAAATCACAGAAACACAGAAAACCCGAAAATTAGGGCGTTACATGCAAAT
1 ATACACAAATTTTAAAAAATCACAGAAACACAGAAAACCCGAAAATTAGGGCGTTACATGCAAAT
49452701 CCACTTATTT
66 CCACTTATTT
49452711 A
1 A
49452712 CACCATAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.23
Consensus pattern (75 bp):
ATACACAAATTTTAAAAAATCACAGAAACACAGAAAACCCGAAAATTAGGGCGTTACATGCAAAT
CCACTTATTT
Found at i:49470905 original size:27 final size:27
Alignment explanation
Indices: 49470797--49470913 Score: 164
Period size: 27 Copynumber: 4.4 Consensus size: 27
49470787 TGGATAAGTT
* *
49470797 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
49470824 GTAGAATTACCGAAA-ACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
49470850 ATAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
49470877 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
49470904 GTAAAATTAC
1 GTAGAATTAC
49470914 AATTTTCCCC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 23 0.28
27 58 0.72
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:49471653 original size:67 final size:67
Alignment explanation
Indices: 49471545--49471720 Score: 334
Period size: 67 Copynumber: 2.6 Consensus size: 67
49471535 GAGGAAGCGT
*
49471545 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
49471610 TA
66 TA
49471612 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
49471677 TA
66 TA
*
49471679 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATAT
49471721 ATATACATAT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 107 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
TA
Found at i:49479636 original size:27 final size:27
Alignment explanation
Indices: 49479605--49479782 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
49479595 TAAATTGTAC
49479605 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49479632 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49479658 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
49479686 GGCACTAAGTGTACGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49479714 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
49479741 AGCACTAAGTGTGCGAGTCGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49479768 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49479783 GACTCAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49479719 original size:82 final size:81
Alignment explanation
Indices: 49479606--49479756 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
49479596 AAATTGTACA
* * *
49479606 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49479670 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49479687 GCACTAAGTGTACGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTACGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
49479752 TGCGA
65 TGCGA
49479757 GTCGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 14 0.23
82 47 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49479773 original size:82 final size:81
Alignment explanation
Indices: 49479602--49479779 Score: 205
Period size: 82 Copynumber: 2.2 Consensus size: 81
49479592 GATTAAATTG
* * *
49479602 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
49479667 GTGTGCGAATTGACCA
66 GTGTGCGAATCGACCA
* * ** *
49479683 TGCGGCACTAAGTGTACGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTACGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49479747 AAGTGTGCGAGTCGATTA
64 AAGTGTGCGAATCGACCA
* *
49479765 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
49479780 GCGGACTCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.22
82 62 0.78
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATCGACCA
Found at i:49490016 original size:115 final size:115
Alignment explanation
Indices: 49489813--49490047 Score: 400
Period size: 115 Copynumber: 2.1 Consensus size: 115
49489803 ATAAGAGTAG
* *
49489813 ATGGAGATCTGGCTTTAAATAAAGCAAACCATGAAGAGAGTAGGCATACCCTTCTTGGCTGATCC
1 ATGGAGAGCTGGCTTTAAATAAAGCAAACCATGAAGAGAGTAGGCATACCCTTATTGGCTGATCC
*
49489878 CTTTCGCTTTGTGACGTGTTCGTTTGGGTTGGGCGTCAACTAAGAGTGTT
66 CTTTCGCTTTGTGACGTGCTCGTTTGGGTTGGGCGTCAACTAAGAGTGTT
* *
49489928 ATGGAGAGCTGGCTTTAAATAGAGCAAACCATGAGGAGAGTAGGCATACCCTTATTGGCTGATCC
1 ATGGAGAGCTGGCTTTAAATAAAGCAAACCATGAAGAGAGTAGGCATACCCTTATTGGCTGATCC
* *
49489993 CTTTCGTTTTGTGACGTGCTCGTTTGGGTTGGGCGTCAGCTAAGAGTGTT
66 CTTTCGCTTTGTGACGTGCTCGTTTGGGTTGGGCGTCAACTAAGAGTGTT
49490043 -TGGAG
1 ATGGAG
49490048 CGCGGATTAA
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 5 0.04
115 108 0.96
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (115 bp):
ATGGAGAGCTGGCTTTAAATAAAGCAAACCATGAAGAGAGTAGGCATACCCTTATTGGCTGATCC
CTTTCGCTTTGTGACGTGCTCGTTTGGGTTGGGCGTCAACTAAGAGTGTT
Found at i:49490267 original size:54 final size:54
Alignment explanation
Indices: 49490182--49490326 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 54
49490172 GGATAAGTTG
* * *
49490182 TAGAATTACCGAAATATCCC-TGTAAGATAGAATTATCGAAATACCACTGTAGGA
1 TAGAATTACCGAAATA-CCCTTGTAGGGTAGAATTACCGAAATACCACTGTAGGA
* * *
49490236 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCACTGTAGGA
* * *
49490290 TAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACC
49490327 ATTTTGCCCC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 3 0.04
54 77 0.96
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCACTGTAGGA
Found at i:49490317 original size:27 final size:26
Alignment explanation
Indices: 49490181--49490326 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 26
49490171 TGGATAAGTT
*
49490181 GTAGAATTACCGAAATATCCCTGTAAG
1 GTAGAATTACCGAAATA-CCCTGTAGG
* *
49490208 ATAGAATTATCGAAATACCACTGTAGG
1 GTAGAATTACCGAAATACC-CTGTAGG
*
49490235 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCC-TGTAGG
*
49490262 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATA-CCCTGTAGG
* *
49490289 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCC-TGTAGG
*
49490316 GTAAAATTACC
1 GTAGAATTACC
49490327 ATTTTGCCCC
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 6 0.06
27 96 0.91
28 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCTGTAGG
Found at i:49494353 original size:13 final size:13
Alignment explanation
Indices: 49494335--49494366 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
49494325 TGAGTTTGTA
49494335 AATATTATTATTT
1 AATATTATTATTT
49494348 AATATTATTATTT
1 AATATTATTATTT
49494361 AATATT
1 AATATT
49494367 TATGAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATATTATTATTT
Found at i:49495552 original size:16 final size:16
Alignment explanation
Indices: 49495531--49495565 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49495521 CGAGCACCTC
49495531 TAATTAAATATAAA-AA
1 TAATTAAA-ATAAATAA
49495547 TAATTAAAATAAATAA
1 TAATTAAAATAAATAA
49495563 TAA
1 TAA
49495566 AATACAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAAATAAATAA
Found at i:49495870 original size:18 final size:18
Alignment explanation
Indices: 49495833--49495870 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
49495823 TAAATGATGA
49495833 ATTTAAAGTATTAATTGTT
1 ATTTAAAGTATT-ATTGTT
49495852 ATTTAAAAGTATT-TTGTT
1 ATTT-AAAGTATTATTGTT
49495870 A
1 A
49495871 AGTGATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTAAAGTATTATTGTT
Found at i:49496625 original size:39 final size:40
Alignment explanation
Indices: 49496560--49496736 Score: 180
Period size: 39 Copynumber: 4.5 Consensus size: 40
49496550 GAAATGAAGA
* * * * * *
49496560 AGTGCCCCTGTTTGTACTTCAGTACCCCTATTTGCATATT
1 AGTGCCTCTGATTGTACTTCGGTACCCCTGTTTGCACATC
**
49496600 AGT-CCTCTGATTGTACTTCGGTACCCCTGTTTAAACATC
1 AGTGCCTCTGATTGTACTTCGGTACCCCTGTTTGCACATC
* * * *
49496639 AGTGCC-CTGGTTGTACTTTGGCACCCCTGTTTGCACATT
1 AGTGCCTCTGATTGTACTTCGGTACCCCTGTTTGCACATC
* * *
49496678 AGTGTCCT-GGTTTGTACTTCGGTACGCCTGTTTGCACATC
1 AGTG-CCTCTGATTGTACTTCGGTACCCCTGTTTGCACATC
*
49496718 AGTGCCCCTGATTGTACTT
1 AGTGCCTCTGATTGTACTT
49496737 TAGTACCCTT
Statistics
Matches: 110, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 64 0.58
40 46 0.42
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (40 bp):
AGTGCCTCTGATTGTACTTCGGTACCCCTGTTTGCACATC
Found at i:49496727 original size:20 final size:20
Alignment explanation
Indices: 49496564--49496744 Score: 71
Period size: 20 Copynumber: 9.2 Consensus size: 20
49496554 TGAAGAAGTG
*
49496564 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACATCAGTA
* * * *
49496584 CCCCTATTTGCATATTAGT-
1 CCCCTGTTTGTACATCAGTA
* * * *
49496603 CCTCTGATTGTACTTCGGTA
1 CCCCTGTTTGTACATCAGTA
**
49496623 CCCCTGTTTAAACATCAGT-
1 CCCCTGTTTGTACATCAGTA
* * * ** *
49496642 GCCCTGGTTGTACTTTGGCA
1 CCCCTGTTTGTACATCAGTA
* *
49496662 CCCCTGTTTGCACATTAGT-
1 CCCCTGTTTGTACATCAGTA
** * *
49496681 GTCCTGGTTTGTACTTCGGTA
1 CCCCT-GTTTGTACATCAGTA
* * *
49496702 CGCCTGTTTGCACATCAGTG
1 CCCCTGTTTGTACATCAGTA
* * *
49496722 CCCCTGATTGTACTTTAGTA
1 CCCCTGTTTGTACATCAGTA
49496742 CCC
1 CCC
49496745 TTAAATGTAC
Statistics
Matches: 106, Mismatches: 51, Indels: 8
0.64 0.31 0.05
Matches are distributed among these distances:
19 25 0.24
20 78 0.74
21 3 0.03
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGTACATCAGTA
Found at i:49497845 original size:12 final size:12
Alignment explanation
Indices: 49497828--49497856 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
49497818 CTCACATGCT
49497828 CGTGTGCTAGGC
1 CGTGTGCTAGGC
49497840 CGTGTGCTAGGC
1 CGTGTGCTAGGC
49497852 CGTGT
1 CGTGT
49497857 AACAGCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.24, G:0.41, T:0.28
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:49498996 original size:155 final size:156
Alignment explanation
Indices: 49498690--49499082 Score: 475
Period size: 155 Copynumber: 2.5 Consensus size: 156
49498680 TACGACACAA
* * * *
49498690 AAGTGCGACCAGGGGTACCGAAGTACAATAGGAGCATGTAAGTGTGATCAGAGGTA-TCGAAGTA
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCAAGTAAGTGCGATCAGAGGTACT-GAAGTA
** *
49498754 CAACAGGGGCATATAAGTACGATCAAGGGTACCAAAATACAATAGGGGAACGTAGGTGCAATCAG
65 CAACAGGGGCACGTAAGTACGATCAAGGGTACCAAAATACAATAGGGGAACGTAAGTGCAATCAG
* * *
49498819 GGGTACTGAAGTACATCGAGGGCACGT
130 GGATACTGAAGTACAACAAGGGCACGT
* * * * * *
49498846 AAGTGCGATTAGGGGTACCGAATTACAGTAGGGGCACGTAAGTGCAATAAGAGGTACTGAAGTAC
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCAAGTAAGTGCGATCAGAGGTACTGAAGTAC
* * * * * *
49498911 AACAAGGGCACGTAGGTGCGAT-TAGGGTACCAAAATACATTAGGGGCACGTAAGTGCAATCAGG
66 AACAGGGGCACGTAAGTACGATCAAGGGTACCAAAATACAATAGGGGAACGTAAGTGCAATCAGG
*
49498975 GATGCTGAAGTACAACAAGGGCACGT
131 GATACTGAAGTACAACAAGGGCACGT
* * * * * * * * *
49499001 ATGTGCGATCAAGGGTATCGAAGTACAACAGAGGCAAGTAAGTGCGATCAGGGGAACCGGAGTAC
1 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCAAGTAAGTGCGATCAGAGGTACTGAAGTAC
49499066 AACAGGGGCACGTAAGT
66 AACAGGGGCACGTAAGT
49499083 GTGGCTAGGG
Statistics
Matches: 197, Mismatches: 39, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
155 125 0.63
156 71 0.36
157 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.17
Consensus pattern (156 bp):
AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCAAGTAAGTGCGATCAGAGGTACTGAAGTAC
AACAGGGGCACGTAAGTACGATCAAGGGTACCAAAATACAATAGGGGAACGTAAGTGCAATCAGG
GATACTGAAGTACAACAAGGGCACGT
Found at i:49499081 original size:39 final size:39
Alignment explanation
Indices: 49498690--49499083 Score: 351
Period size: 39 Copynumber: 10.1 Consensus size: 39
49498680 TACGACACAA
* * * *
49498690 AAGTGCGACCAGGGGTACCGAAGTACAATAGGAGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * **
49498729 AAGTGTGATCAGAGGTATCGAAGTACAACAGGGGCATAT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * * * *
49498768 AAGTACGATCAAGGGTACCAAAATACAATAGGGGAACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * *
49498807 AGGTGCAATCAGGGGTACTGAAGTACATC-GAGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAG-GGGCACGT
* * **
49498846 AAGTGCGATTAGGGGTACCGAATTACAGTAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * * *
49498885 AAGTGCAATAAGAGGTACTGAAGTACAACAAGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * * **
49498924 AGGTGCGATTA-GGGTACCAAAATACATTAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * * *
49498962 AAGTGCAATCAGGGATGCTGAAGTACAACAAGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * * *
49499001 ATGTGCGATCAAGGGTATCGAAGTACAACAGAGGCAAGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
* *
49499040 AAGTGCGATCAGGGGAACCGGAGTACAACAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
49499079 AAGTG
1 AAGTG
49499084 TGGCTAGGGG
Statistics
Matches: 271, Mismatches: 81, Indels: 6
0.76 0.23 0.02
Matches are distributed among these distances:
38 29 0.11
39 241 0.89
40 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.17
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACGT
Found at i:49509341 original size:15 final size:15
Alignment explanation
Indices: 49509302--49509381 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
49509292 GTCTCTTGGG
*
49509302 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
49509317 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
49509332 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
* *
49509347 TTTCTCTA-TCTTGAA
1 TTTCTTTATTC-TGGA
*
49509362 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
49509376 TTTCTT
1 TTTCTT
49509382 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.18
15 40 0.78
16 2 0.04
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49513533 original size:47 final size:47
Alignment explanation
Indices: 49513482--49513612 Score: 212
Period size: 47 Copynumber: 2.8 Consensus size: 47
49513472 ATGATTGAGC
*
49513482 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
49513529 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
49513576 --CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 ATCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49513613 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
45 2 0.03
46 32 0.40
47 46 0.57
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:49513589 original size:41 final size:42
Alignment explanation
Indices: 49513497--49513612 Score: 108
Period size: 46 Copynumber: 2.5 Consensus size: 42
49513487 AACTCGTTGA
*
49513497 GTTGAGTCCGAGTTCACTTATGGATGCGAATGATCCGAACTCGTTG
1 GTTGAGTCCGAGTTCACTTATGGATGCGAACGA-CCGAACTC---G
*
49513543 AGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTG
1 -GTTGAGTCCGAGTTCACTTATGGATGCGAACGACC-GAACTC---G
*
49513589 AGTTGAGTCCGAGTTCGCTTATGG
1 -GTTGAGTCCGAGTTCACTTATGG
49513613 GCGGGTTACA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
45 2 0.03
46 32 0.49
47 31 0.48
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (42 bp):
GTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCG
Found at i:49524312 original size:27 final size:27
Alignment explanation
Indices: 49524246--49524318 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
49524236 TGGATAAGTT
*
49524246 GTAGAATTACTGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTATAAG
* * *
49524273 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAAG
* *
49524300 GTAGAATTTCCGAGATACC
1 GTAGAATTACCGAAATACC
49524319 TTTGTGGGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTATAAG
Found at i:49528453 original size:30 final size:30
Alignment explanation
Indices: 49528419--49528479 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
49528409 TCCTTAACTC
49528419 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
49528449 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
49528479 A
1 A
49528480 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:49535292 original size:27 final size:27
Alignment explanation
Indices: 49535214--49535301 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
49535204 TAAGTTGTAA
*
49535214 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49535241 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
49535268 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
49535295 AATTACC
1 AATTACC
49535302 ATTTTGCCAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:49535687 original size:19 final size:19
Alignment explanation
Indices: 49535663--49535727 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
49535653 TTTTGGGCTT
49535663 AATGGGCCGAAAACGGGCC
1 AATGGGCCGAAAACGGGCC
*
49535682 AATGGGCCAAAAACGGGCC
1 AATGGGCCGAAAACGGGCC
*
49535701 AATGGGCCGAAAACGGGCT
1 AATGGGCCGAAAACGGGCC
49535720 AATGGGCC
1 AATGGGCC
49535728 AACGGGCCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.32, C:0.25, G:0.35, T:0.08
Consensus pattern (19 bp):
AATGGGCCGAAAACGGGCC
Found at i:49536036 original size:27 final size:26
Alignment explanation
Indices: 49535992--49536043 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49535982 CTCGCTGCAA
*
49535992 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
49536019 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
49536044 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:49536953 original size:18 final size:18
Alignment explanation
Indices: 49536915--49536953 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49536905 ATGTTATCTT
*
49536915 CCCGTGTGGGCCCACATG
1 CCCGTGTGGGCCCACAGG
49536933 CCCGTGT-GGCCCACACGG
1 CCCGTGTGGGCCCACA-GG
49536951 CCC
1 CCC
49536954 AAATTGGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.10, C:0.46, G:0.31, T:0.13
Consensus pattern (18 bp):
CCCGTGTGGGCCCACAGG
Found at i:49545682 original size:29 final size:29
Alignment explanation
Indices: 49545615--49545739 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
49545605 AAGTCTATAT
* * * *
49545615 ACATGCATATGACCCACTATGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
49545643 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
49545672 ATATTCGTATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
49545701 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
49545730 ACATTCATAT
1 ACATTCATAT
49545740 ACATGCTTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 19 0.23
29 65 0.77
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:49549349 original size:27 final size:27
Alignment explanation
Indices: 49549273--49549364 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
49549263 CCCCAATATT
* * *
49549273 GGTAAAATTACCGAAAT-ACCATTATAG
1 GGTAAAATGACCGTAATAACC-CTATAG
* ** *
49549300 TGTAAAATGACCGTAATGGCCCTCTAG
1 GGTAAAATGACCGTAATAACCCTATAG
* *
49549327 GGTAAAATGACTGTAATAACCCTATAT
1 GGTAAAATGACCGTAATAACCCTATAG
*
49549354 GGTAGAATGAC
1 GGTAAAATGAC
49549365 GATTATGCCC
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 49 0.96
28 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (27 bp):
GGTAAAATGACCGTAATAACCCTATAG
Found at i:49555471 original size:39 final size:39
Alignment explanation
Indices: 49555428--49555838 Score: 407
Period size: 39 Copynumber: 10.6 Consensus size: 39
49555418 ATGTAACTAC
* **
49555428 GGCACAAAAGTGCGATTTGGGGTACCGAAGTACAACAGG
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * *
49555467 GGCACGTAAGTGTGATCAGAGGTACCAAAGTACAACA-G
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * *
49555505 GGCACATAAGTGCAATTAGGGGTACCGAAGTACAACAAG
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * * * *
49555544 GGCACGTAGGTACAATCAGGGGTACTGAAGTACATCA-G
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * *
49555582 GGAACGTAACTGCAATCAGGGGTACCGAAGTACAACAGG
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * * *
49555621 GGCACATAGGTGCGATCATGGGTATCGTAGTACATCAGG
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * * *
49555660 GGCACGTAAGTGCAATCAGGGGTACTGAAGTACAACAGA
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* *
49555699 GGCACGTACA-TGCGATCAGGGGTACCGAAGTACAATAGG
1 GGCACATA-AGTGCGATCAGGGGTACCGAAGTACAACAGG
* * *
49555738 GGCACATAAGTGCGATCAGGGGTATCAAAGTACAACAAG
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
* * ** * * *
49555777 AGCACATAGGTGTAATCAAGGGTATCGAAGTACAATAGG
1 GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
*
49555816 GGCAC-TAAGTGCGATCAAGGGTA
1 GGCACATAAGTGCGATCAGGGGTA
49555839 TTATATAATA
Statistics
Matches: 304, Mismatches: 64, Indels: 9
0.81 0.17 0.02
Matches are distributed among these distances:
38 80 0.26
39 223 0.73
40 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.17
Consensus pattern (39 bp):
GGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGG
Found at i:49555695 original size:78 final size:78
Alignment explanation
Indices: 49555428--49555838 Score: 427
Period size: 77 Copynumber: 5.3 Consensus size: 78
49555418 ATGTAACTAC
* * ** * * *
49555428 GGCACAAAAGTGCGATTTGGGGTACCGAAGTACAACAGGGGCACGTAAGTGTGATCAGAGGTACC
1 GGCACATAAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTAGGTGCGATCAGGGGTACC
* *
49555493 AAAGTACAACA-G
66 GAAGTACATCAGG
* * * * *
49555505 GGCACATAAGTGCAATTAGGGGTACCGAAGTACAACAAGGGCACGTAGGTACAATCAGGGGTACT
1 GGCACATAAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTAGGTGCGATCAGGGGTACC
49555570 GAAGTACATCA-G
66 GAAGTACATCAGG
* * * * * *
49555582 GGAACGTAACTGCAATCAGGGGTACCGAAGTACAACAGGGGCACATAGGTGCGATCATGGGTATC
1 GGCACATAAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTAGGTGCGATCAGGGGTACC
*
49555647 GTAGTACATCAGG
66 GAAGTACATCAGG
* * * **
49555660 GGCACGTAAGTGCAATCAGGGGTACTGAAGTACAACAGAGGCACGTACATGCGATCAGGGGTACC
1 GGCACATAAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTAGGTGCGATCAGGGGTACC
49555725 GAAGTACAAT-AGG
66 GAAGTAC-ATCAGG
* * * * * * ** * *
49555738 GGCACATAAGTGCGATCAGGGGTATCAAAGTACAACAAGAGCACATAGGTGTAATCAAGGGTATC
1 GGCACATAAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTAGGTGCGATCAGGGGTACC
49555803 GAAGTACAAT-AGG
66 GAAGTAC-ATCAGG
* *
49555816 GGCAC-TAAGTGCGATCAAGGGTA
1 GGCACATAAGTGCAATCAGGGGTA
49555839 TTATATAATA
Statistics
Matches: 282, Mismatches: 50, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
77 146 0.52
78 134 0.48
79 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.17
Consensus pattern (78 bp):
GGCACATAAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGTAGGTGCGATCAGGGGTACC
GAAGTACATCAGG
Found at i:49555768 original size:20 final size:19
Alignment explanation
Indices: 49555709--49555768 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
49555699 GGCACGTACA
*
49555709 TGCGATCAGGGGTACCGAAG
1 TGCGATCAGGGGTA-CAAAG
* * *
49555729 TACAAT-AGGGGCACATAAG
1 TGCGATCAGGGGTACA-AAG
49555748 TGCGATCAGGGGTATCAAAG
1 TGCGATCAGGGGTA-CAAAG
49555768 T
1 T
49555769 ACAACAAGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
20 14 0.47
21 2 0.07
ACGTcount: A:0.32, C:0.17, G:0.33, T:0.18
Consensus pattern (19 bp):
TGCGATCAGGGGTACAAAG
Found at i:49557524 original size:20 final size:20
Alignment explanation
Indices: 49557499--49557540 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
49557489 ATATATACTT
49557499 AACCAATCTTGGCCAATACC
1 AACCAATCTTGGCCAATACC
49557519 AACCAATCTTGGCCAATACC
1 AACCAATCTTGGCCAATACC
49557539 AA
1 AA
49557541 ATGGTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.19
Consensus pattern (20 bp):
AACCAATCTTGGCCAATACC
Found at i:49558123 original size:43 final size:42
Alignment explanation
Indices: 49558072--49558170 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 42
49558062 TGCAATATCT
* ** *
49558072 CAGATATGGTCTTACATGGGATCTCATATA-TATGCCAATAGCC
1 CAGATATGGTCTTACACGAAATCTCATA-ACGATGCC-ATAGCC
* *
49558115 CAGCTATGGTCTTACACGAAATCTCATAACGATGCCATATCC
1 CAGATATGGTCTTACACGAAATCTCATAACGATGCCATAGCC
49558157 CAGATATGGTCTTA
1 CAGATATGGTCTTA
49558171 AACATAAACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 19 0.40
43 29 0.60
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
CAGATATGGTCTTACACGAAATCTCATAACGATGCCATAGCC
Found at i:49558183 original size:42 final size:43
Alignment explanation
Indices: 49558103--49558186 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
49558093 TCTCATATAT
* * *
49558103 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATAACG
1 ATGCCAATAGCCCAGATATGGTCTTAAACGAAAACTCATAACG
*
49558146 ATGCC-ATATCCCAGATATGGTCTTAAAC-ATAAACTCATAAC
1 ATGCCAATAGCCCAGATATGGTCTTAAACGA-AAACTCATAAC
49558187 CCTAATGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.03
42 30 0.83
43 5 0.14
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (43 bp):
ATGCCAATAGCCCAGATATGGTCTTAAACGAAAACTCATAACG
Found at i:49562176 original size:5 final size:5
Alignment explanation
Indices: 49562166--49562197 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
49562156 GATCTGTAAT
49562166 AAATA AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
49562198 CATTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:49567438 original size:25 final size:25
Alignment explanation
Indices: 49567407--49567474 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
49567397 GTTTCTACCC
* *
49567407 ACAGCTCGTGTAAGCATACTGATTT
1 ACAGCTCGTGTAAGCATACCGATCT
*
49567432 ACAGCTCGTGAAAGCATACCGATCT
1 ACAGCTCGTGTAAGCATACCGATCT
* * *
49567457 ACAACTCGAGTGAGCATA
1 ACAGCTCGTGTAAGCATA
49567475 TCAATTCACA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (25 bp):
ACAGCTCGTGTAAGCATACCGATCT
Found at i:49567682 original size:31 final size:31
Alignment explanation
Indices: 49567647--49567720 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 31
49567637 ACAGGCATAC
* *
49567647 ATATGAATTAATGGAA-ATGTTGTTACATGTT
1 ATATGAATTAATGGAATATGATGATACATG-T
*
49567678 ATATGGAA--AATGGAATTTGATGATACATGT
1 ATAT-GAATTAATGGAATATGATGATACATGT
49567708 ATATGAAATTAAT
1 ATATG-AATTAAT
49567721 CATTTGATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
29 1 0.03
30 14 0.40
31 14 0.40
32 6 0.17
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (31 bp):
ATATGAATTAATGGAATATGATGATACATGT
Found at i:49573604 original size:50 final size:50
Alignment explanation
Indices: 49573526--49573768 Score: 245
Period size: 50 Copynumber: 4.9 Consensus size: 50
49573516 CATTGTGAGA
* * *
49573526 ACATGTGTAGTACTAAGTGCAGGGTACTACATATACCAGATAGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC
* * * * ** * * * * *
49573576 GCATGTGTAGTTCTAAGTGCAGGTTACTATGCCTACCTGACAACTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGTC
* * *
49573627 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC
* * * *
49573677 ACATGTGTAGTACTAACTGCAAGCTACTACGTGTACCAGATTGTT-CGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC
* * **
49573726 GCATGTGTAGTACTAAGTACAGGCTACTATATGTACCAGATAG
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
49573769 CTTCAGTTAC
Statistics
Matches: 153, Mismatches: 39, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
49 39 0.25
50 77 0.50
51 37 0.24
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC
Found at i:49573987 original size:16 final size:15
Alignment explanation
Indices: 49573966--49573995 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
49573956 GAATGTAGCA
49573966 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
49573982 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
49573996 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:49582198 original size:42 final size:42
Alignment explanation
Indices: 49582152--49582236 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
49582142 AAGTCATACA
* * *
49582152 CCCGTGTGCTAGGCCGTGTCTCACACACAACTGAGACACACG
1 CCCGTGTGCGAGGCCATGTCTCACACACAAATGAGACACACG
*
49582194 CCCGTGTGCGAGGCCATGTGTCACACACAAATGAGACACACG
1 CCCGTGTGCGAGGCCATGTCTCACACACAAATGAGACACACG
49582236 C
1 C
49582237 TCTTGCCTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.26, C:0.34, G:0.25, T:0.15
Consensus pattern (42 bp):
CCCGTGTGCGAGGCCATGTCTCACACACAAATGAGACACACG
Found at i:49589533 original size:49 final size:47
Alignment explanation
Indices: 49589413--49589737 Score: 256
Period size: 46 Copynumber: 6.9 Consensus size: 47
49589403 GGGGTAGAAT
* *
49589413 GCCGATGCCATGTCCGAGACATGGTCTTACACTGGCTCATATCTGAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTGAA
* * *
49589460 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCTTCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-ATC-T-GAA
* * * * *
49589509 GCCGACGCCATGTCCCAGGCATGGTCGTACACTAGCTCTCACATATCTG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACT--CATATCTGAA
* * *
49589559 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTC-GTAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTG-AA
* * * ** *
49589606 -CCGATG-CATGTCCCTGACAT-GTCTTACACTGGCTTACGTCTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATC-TGAA
* * *
49589651 GCTGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTC-TCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCAT-ATCTGAA
* *
49589696 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATA
49589738 ACAACCCATA
Statistics
Matches: 219, Mismatches: 39, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
44 14 0.06
45 17 0.08
46 53 0.24
47 49 0.22
48 15 0.07
49 32 0.15
50 31 0.14
51 3 0.01
52 1 0.00
53 2 0.01
54 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTGAA
Found at i:49595924 original size:49 final size:50
Alignment explanation
Indices: 49595804--49595986 Score: 164
Period size: 49 Copynumber: 3.7 Consensus size: 50
49595794 GAGGGTAGAA
* * * * *
49595804 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT-T-AAATCTCAAG
1 TGCCGACGCCATGTCCCAGACATGGTCTTACACTGACTATCACATATC-AG
* * * *
49595853 T--CGATGCCATGTCCCAGCCATGGTCTTACACTGACTATCGTCAT-TGAG
1 TGCCGACGCCATGTCCCAGACATGGTCTTACACTGACTATC-ACATATCAG
* *
49595901 -GCCGACGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCTG
1 TGCCGACGCCATGTCCCAGACATGGTCTTACACTGA-CTATCACATATCAG
* * *
49595950 TGTCGATGCCATGTCTCAGACATGGTCTTACACTGAC
1 TGCCGACGCCATGTCCCAGACATGGTCTTACACTGAC
49595987 ACATCTCATA
Statistics
Matches: 110, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
47 32 0.29
48 7 0.06
49 37 0.34
50 33 0.30
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCGACGCCATGTCCCAGACATGGTCTTACACTGACTATCACATATCAG
Found at i:49595986 original size:99 final size:96
Alignment explanation
Indices: 49595805--49596073 Score: 268
Period size: 96 Copynumber: 2.8 Consensus size: 96
49595795 AGGGTAGAAT
* * *
49595805 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTAAATCTCAAGTCGATGCCATGTCCCAG
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTTAAATCTCAAGTCGATGCCATGTCCCAG
*
49595870 CCATGGTCTTACACTGACTATCGTCATTGAG
66 ACATGGTCTTACACTGACTATCGTCATTGAG
**
49595901 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCT-GTGTCGATGCCATGTC
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT-T-A-A-ATCTCAAGTCGATGCCATGTC
* *
49595965 TCAGACATGGTCTTACACTGACACATC-TCA-T-A-
62 CCAGACATGGTCTTACACTGAC-TATCGTCATTGAG
* * * * * * * * *
49595997 GTCGATG-CATGTCCTAGACAT-GCCTTACACTGGCTTACATCTCGAGGCCGATG-TATGTCCCA
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTTAAATCTC-AAGTCGATGCCATGTCCCA
49596059 GACAT-GTCTTACACT
65 GACATGGTCTTACACT
49596074 ATCACTCTTT
Statistics
Matches: 147, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
90 14 0.10
91 12 0.08
92 7 0.05
93 1 0.01
94 12 0.08
95 13 0.09
96 39 0.27
97 2 0.01
98 2 0.01
99 38 0.26
100 7 0.05
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (96 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTTAAATCTCAAGTCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCGTCATTGAG
Found at i:49596037 original size:46 final size:48
Alignment explanation
Indices: 49595807--49596073 Score: 234
Period size: 46 Copynumber: 5.6 Consensus size: 48
49595797 GGTAGAATGC
* *
49595807 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTTAAATCTCA-AGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGT
* * *
49595854 CGATGCCATGTCCCAGCCATGGTCTTACACTGAC-T--ATCGTCATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATC-TCA-T-A-GT
* * * *
49595903 CGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-TGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTCAT-AGT
* *
49595953 CGATGCCATGTCTCAGACATGGTCTTACACTGAC--ACATCTCATAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGT
* * * *
49595999 CGATG-CATGTCCTAGACAT-GCCTTACACTGGCTTACATCTCGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-ATAGT
*
49596045 CGATG-TATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
49596074 ATCACTCTTT
Statistics
Matches: 180, Mismatches: 26, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
44 14 0.08
45 15 0.08
46 48 0.27
47 33 0.18
48 1 0.01
49 31 0.17
50 31 0.17
51 3 0.02
53 2 0.01
54 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGT
Found at i:49602046 original size:28 final size:29
Alignment explanation
Indices: 49602014--49602127 Score: 121
Period size: 29 Copynumber: 4.0 Consensus size: 29
49602004 ACCTGTATCC
*
49602014 GGCCCATTCA-GCCC-AATCATATTCATAT
1 GGCCCATT-AGGCCCAAATCACATTCATAT
49602042 GGCCCATTAGGCCCAAATCATC-TGT-ATAT
1 GGCCCATTAGGCCCAAATCA-CAT-TCATAT
* *
49602071 GGCCCGTTAGGCCCAAATCACATTTATAT
1 GGCCCATTAGGCCCAAATCACATTCATAT
* *
49602100 GGCCCGTTAGGCCC-AGTCACATTCATAT
1 GGCCCATTAGGCCCAAATCACATTCATAT
49602128 TCTTACTCAC
Statistics
Matches: 76, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.01
28 26 0.34
29 48 0.63
30 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (29 bp):
GGCCCATTAGGCCCAAATCACATTCATAT
Found at i:49602995 original size:22 final size:19
Alignment explanation
Indices: 49602967--49603013 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
49602957 TAAGTGAAAC
49602967 AAAGAAAATTGTGTAGAGAAG
1 AAAGAAAATTG-GTAG-GAAG
49602988 AATAG-AAATTGGTAGGAAG
1 AA-AGAAAATTGGTAGGAAG
49603007 AAAGAAA
1 AAAGAAA
49603014 GAAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.08
19 8 0.33
20 4 0.17
21 8 0.33
22 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (19 bp):
AAAGAAAATTGGTAGGAAG
Found at i:49603008 original size:19 final size:20
Alignment explanation
Indices: 49602967--49603013 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
49602957 TAAGTGAAAC
49602967 AAAGAAAATTGTGTAGAGAAG
1 AAAG-AAATTGTGTAGAGAAG
49602988 AATAGAAATTG-GTAG-GAAG
1 AA-AGAAATTGTGTAGAGAAG
49603007 AAAGAAA
1 AAAGAAA
49603014 GAAAAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.20
19 6 0.24
20 4 0.16
21 8 0.32
22 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (20 bp):
AAAGAAATTGTGTAGAGAAG
Found at i:49604690 original size:140 final size:140
Alignment explanation
Indices: 49604368--49604874 Score: 609
Period size: 126 Copynumber: 3.7 Consensus size: 140
49604358 CTATTTTATG
* *
49604368 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCTATCCC-A-ACGCT
1 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAATACG-T
* * * * *
49604431 AAGGCAAGTGTCTCCCCAAAAGTGTCATCTTAGGACTAGACAAAATCCAAATCTTATTTAA-TAG
65 AA-GAAAGTGTCGCCCCAAAAGTGTCATCTTAGGACTAGAC-AAAGCCAACTCTTATTTAAGGA-
* *
49604495 TTTCCTTAAGCATA
127 TTACCTTAGGCATA
* * *
49604509 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTAGCAAATCTATCCCAATACGTA
1 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAATACGTA
*
49604574 AGAAAGTGTCGCCCCAAAAGTGTCATCTTAGGACTAGACAAAGCCAACTCTTATTTAAGGATTGC
66 AGAAAGTGTCGCCCCAAAAGTGTCATCTTAGGACTAGACAAAGCCAACTCTTATTTAAGGATTAC
49604639 CTTAGGCATA
131 CTTAGGCATA
* *
49604649 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGTGTATGTTGGCAAGTCTATCCCAACAC-T-
1 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAATACGTA
* *
49604712 ---TA--G--G-----AAAGTGTCATCTTAAGACTAGACAAAGCCAACTCTTATTTAAGTG-TTA
66 AGAAAGTGTCGCCCCAAAAGTGTCATCTTAGGACTAGACAAAGCCAACTCTTATTTAAG-GATTA
*
49604764 CCTTAGGCATG
130 CCTTAGGCATA
* * * *
49604775 CATATTCCAACCCTTATACAAAGAGTTGGCCAATGCGTATGTTGGCAAGTCTATCCTAATACTTA
1 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAATACGTA
* * * *
49604840 GGAAAGCGTCGCCCTAAAAGTGTCGTCTTAGGACT
66 AGAAAGTGTCGCCCCAAAAGTGTCATCTTAGGACT
49604875 GTTTTGTTAT
Statistics
Matches: 319, Mismatches: 29, Indels: 37
0.83 0.08 0.10
Matches are distributed among these distances:
126 111 0.35
127 2 0.01
131 2 0.01
133 2 0.01
135 2 0.01
139 1 0.00
140 103 0.32
141 89 0.28
142 4 0.01
143 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (140 bp):
CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAATACGTA
AGAAAGTGTCGCCCCAAAAGTGTCATCTTAGGACTAGACAAAGCCAACTCTTATTTAAGGATTAC
CTTAGGCATA
Found at i:49607520 original size:39 final size:39
Alignment explanation
Indices: 49607402--49607547 Score: 204
Period size: 39 Copynumber: 3.7 Consensus size: 39
49607392 ACTAGCACAA
* * * *
49607402 AGCCTGCGGGACTTTAGGCCCGGATATATTTCCAGCACGT
1 AGCCTGC-GGACCTCAGGTCCGGATATGTTTCCAGCACGT
49607442 AGCCTGCGGACCTCAGGTCCGGAT-TGTTTCCAGCACGT
1 AGCCTGCGGACCTCAGGTCCGGATATGTTTCCAGCACGT
* * *
49607480 AGCCTGTGGACCTCAGGTCCGAATATGTTTCCAACACGT
1 AGCCTGCGGACCTCAGGTCCGGATATGTTTCCAGCACGT
*
49607519 AGCCTGCGGACCTCAAGTCCGGATATGTT
1 AGCCTGCGGACCTCAGGTCCGGATATGTT
49607548 CCTAATATCA
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 35 0.37
39 53 0.56
40 7 0.07
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.25
Consensus pattern (39 bp):
AGCCTGCGGACCTCAGGTCCGGATATGTTTCCAGCACGT
Found at i:49611864 original size:36 final size:36
Alignment explanation
Indices: 49611816--49611888 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
49611806 AGTTTATTTT
* *
49611816 TCCTGCTAACTTTGTTGTGTTAGACTTTGAAGCAGA
1 TCCTGCTAACTTTATTATGTTAGACTTTGAAGCAGA
* *
49611852 TCCTGCTGACTTTATTATGTTAGACTTTTAAGCAGA
1 TCCTGCTAACTTTATTATGTTAGACTTTGAAGCAGA
49611888 T
1 T
49611889 AAGGAAGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (36 bp):
TCCTGCTAACTTTATTATGTTAGACTTTGAAGCAGA
Found at i:49615888 original size:35 final size:34
Alignment explanation
Indices: 49615815--49615889 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
49615805 AAAAGGGATC
*
49615815 AGGCCCAAACTGTCACTGTTACTAAAATGAGCTT
1 AGGCCCAAACTGTCACTGTTACTAAAATGAGCTA
* *
49615849 AGGCCCAGACTG-CGAC-GTTACTGAGAAATGGGCTA
1 AGGCCCAAACTGTC-ACTGTTACT-A-AAATGAGCTA
49615884 AGGCCC
1 AGGCCC
49615890 CTAACTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 7 0.20
34 14 0.40
35 14 0.40
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.20
Consensus pattern (34 bp):
AGGCCCAAACTGTCACTGTTACTAAAATGAGCTA
Found at i:49619946 original size:40 final size:40
Alignment explanation
Indices: 49619888--49620065 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
49619878 TGGATGATAA
* *
49619888 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
49619928 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
49619968 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
49620008 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
49620048 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49620066 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 16 0.13
40 109 0.87
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49622787 original size:44 final size:42
Alignment explanation
Indices: 49622644--49622801 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 42
49622634 AAAGCTCGTA
* ** *
49622644 CAATGCCAACATCCCAGATGTGGTCTTACATGT-AATCAAATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGTAAATC-AA-AT
* *
49622687 CGATGCC-ACTGTCCCAGACAGGGT-TTACACG-AAATCAAAT
1 CAATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT
* * *
49622727 ACAATGTCGATGTCCCAGACATGGTCTTACACGTAAATCATAAGT
1 -CAATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AA-T
*
49622772 CAATGCCAACGTCCCAGACATAGTCTTACA
1 CAATGCCAACGTCCCAGACATGGTCTTACA
49622802 TGATAACACT
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
40 2 0.02
41 20 0.22
42 20 0.22
43 22 0.24
44 28 0.30
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAT
Found at i:49624405 original size:19 final size:20
Alignment explanation
Indices: 49624378--49624418 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
49624368 AAATTTTAAT
49624378 TTCATTTTTAATTT-TTTATG
1 TTCATTTTT-ATTTGTTTATG
49624398 TTCA-TTTTATTTGTTTATG
1 TTCATTTTTATTTGTTTATG
49624417 TT
1 TT
49624419 TAATAAGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (20 bp):
TTCATTTTTATTTGTTTATG
Found at i:49628724 original size:28 final size:28
Alignment explanation
Indices: 49628661--49628783 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
49628651 ATATTAAGTC
**
49628661 CGCACACTCCGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49628688 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
49628716 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49628744 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
49628773 CGCACACTTAG
1 CGCACACTTAG
49628784 CGCCAATCTC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 21 0.24
28 49 0.57
29 16 0.19
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49629950 original size:34 final size:32
Alignment explanation
Indices: 49629912--49629984 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
49629902 AACATCTCTC
*
49629912 ATCAACATTTATTCATC-AAAACATAAAGAAACTA
1 ATCAACATCTATTCATCAAAAAC-TAAAGAAA--A
* *
49629946 ATCAA-ATCTCTTCATTAAAAACTAAAGAAAA
1 ATCAACATCTATTCATCAAAAACTAAAGAAAA
49629977 ATCAACAT
1 ATCAACAT
49629985 ATGGGTTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 6 0.18
32 2 0.06
33 16 0.47
34 10 0.29
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (32 bp):
ATCAACATCTATTCATCAAAAACTAAAGAAAA
Found at i:49630710 original size:94 final size:94
Alignment explanation
Indices: 49630549--49630735 Score: 356
Period size: 94 Copynumber: 2.0 Consensus size: 94
49630539 TCCTATTTAA
*
49630549 TAAAATTCACTTACAATTAACAAAATTCAAGCATGAAATTTTCACACATGCATATATACATATAA
1 TAAAATTCACTTACAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATACATATAA
49630614 TAAGCATCAAATATGATGGCTAATTATTG
66 TAAGCATCAAATATGATGGCTAATTATTG
49630643 TAAAATTCACTTACAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATACATATAA
1 TAAAATTCACTTACAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATACATATAA
*
49630708 TAAGTATCAAATATGATGGCTAATTATT
66 TAAGCATCAAATATGATGGCTAATTATT
49630736 AGTATGACTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (94 bp):
TAAAATTCACTTACAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATACATATAA
TAAGCATCAAATATGATGGCTAATTATTG
Found at i:49634781 original size:37 final size:37
Alignment explanation
Indices: 49634731--49634809 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49634721 TTATTACGAA
* *
49634731 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
49634768 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
49634805 GTCTT
1 GTCTT
49634810 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:49635006 original size:47 final size:47
Alignment explanation
Indices: 49634979--49635485 Score: 951
Period size: 47 Copynumber: 10.8 Consensus size: 47
49634969 CTCGGCCCTG
* *
49634979 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
* *
49635026 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
* * *
49635073 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
49635120 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
49635167 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
49635214 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
49635261 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
49635308 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
49635355 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
49635402 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
49635449 TCACACATATACACTTTCACATTCATCACATCAGCCA
1 TCACACATATACACTTTCACATTCATCACATCAGCCA
49635486 GTCTTGGCTG
Statistics
Matches: 456, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 456 1.00
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.30
Consensus pattern (47 bp):
TCACACATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
Found at i:49644987 original size:26 final size:26
Alignment explanation
Indices: 49644958--49645011 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
49644948 TTGAATTTTT
* *
49644958 TTCGAATTAAGTCGAGT-GAAATGAAA
1 TTCGAATCAAGTCGAATCG-AATGAAA
*
49644984 TTCGAGTCAAGTCGAATCGAATGAAA
1 TTCGAATCAAGTCGAATCGAATGAAA
49645010 TT
1 TT
49645012 GTTTGAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (26 bp):
TTCGAATCAAGTCGAATCGAATGAAA
Found at i:49645250 original size:9 final size:9
Alignment explanation
Indices: 49645236--49645269 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
49645226 TTCTTTATAT
49645236 ATTTTTAGA
1 ATTTTTAGA
*
49645245 ATTTTTTGAA
1 ATTTTTAG-A
49645255 ATTTTTAGA
1 ATTTTTAGA
49645264 ATTTTT
1 ATTTTT
49645270 TAAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (9 bp):
ATTTTTAGA
Found at i:49645250 original size:10 final size:10
Alignment explanation
Indices: 49645237--49645271 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
49645227 TCTTTATATA
49645237 TTTTTAGAAT
1 TTTTTAGAAT
*
49645247 TTTTT-GAAA
1 TTTTTAGAAT
49645256 TTTTTAGAAT
1 TTTTTAGAAT
49645266 TTTTTA
1 TTTTTA
49645272 AAAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:49645558 original size:5 final size:5
Alignment explanation
Indices: 49645550--49645574 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49645540 GAAATTTAAT
49645550 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
49645575 GAGACAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:49649070 original size:20 final size:20
Alignment explanation
Indices: 49649029--49649079 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
49649019 CAAATGGAAA
*
49649029 ATTTATTTAATTAAAGTTTT
1 ATTTATTTAATTAAAGTGTT
*
49649049 ATTTGTTTAATTAAA-TAGTT
1 ATTTATTTAATTAAAGT-GTT
49649069 ATTTATTTAAT
1 ATTTATTTAAT
49649080 GGATAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
ATTTATTTAATTAAAGTGTT
Found at i:49650164 original size:13 final size:14
Alignment explanation
Indices: 49650146--49650177 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49650136 TAGCATAAAC
49650146 ATATTTTA-TATTT
1 ATATTTTATTATTT
49650159 ATATTTTATTATTT
1 ATATTTTATTATTT
49650173 A-ATTT
1 ATATTT
49650178 AAGTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATATTTTATTATTT
Found at i:49654354 original size:98 final size:98
Alignment explanation
Indices: 49654185--49654382 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 98
49654175 TTTGTCTAAA
*
49654185 GATAGAATTATAAGTCTCCCAATGAAGCTTTGGATCCTTTGTTTATAGCATTTCTGAAGAATGAC
1 GATAGAATTATAAGTCTCCCAATGAAACTTTGGATCCTTTGTTTATAGCATTTCTGAAGAATGAC
49654250 CATGAAACAAGTGGCATACTTTATAAGACATGG
66 CATGAAACAAGTGGCATACTTTATAAGACATGG
49654283 GATAGAATTATAAGTCTCCCAATGAAACTTTGGATCCTTTGTTTATAGCATTTCTGAAGAATGAC
1 GATAGAATTATAAGTCTCCCAATGAAACTTTGGATCCTTTGTTTATAGCATTTCTGAAGAATGAC
49654348 CATGAAACAAGTGGCATACTTTATAAGACATGG
66 CATGAAACAAGTGGCATACTTTATAAGACATGG
49654381 GA
1 GA
49654383 GAGATGTGGG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (98 bp):
GATAGAATTATAAGTCTCCCAATGAAACTTTGGATCCTTTGTTTATAGCATTTCTGAAGAATGAC
CATGAAACAAGTGGCATACTTTATAAGACATGG
Found at i:49657009 original size:21 final size:21
Alignment explanation
Indices: 49656985--49657026 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49656975 AATTTTCAAA
49656985 AAACAAAAAAGTATCGATATT
1 AAACAAAAAAGTATCGATATT
**
49657006 AAACAAGCAAGTATCGATATT
1 AAACAAAAAAGTATCGATATT
49657027 TTGGTCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (21 bp):
AAACAAAAAAGTATCGATATT
Found at i:49659820 original size:24 final size:24
Alignment explanation
Indices: 49659793--49659847 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
49659783 TATGTATACC
*
49659793 TTAATTAAGATGTAAT-TAACTTAA
1 TTAATTAAG-TGTAATCCAACTTAA
*
49659817 TTAATCT-AGTTTAATCCAACTTAA
1 TTAAT-TAAGTGTAATCCAACTTAA
49659841 TTAATTA
1 TTAATTA
49659848 TTAAATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.23
24 19 0.73
25 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (24 bp):
TTAATTAAGTGTAATCCAACTTAA
Found at i:49662430 original size:21 final size:20
Alignment explanation
Indices: 49662402--49662441 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
49662392 CAAAACTTGT
49662402 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
49662422 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
49662442 AAAATACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:49665390 original size:38 final size:38
Alignment explanation
Indices: 49665348--49665429 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
49665338 TTAAAGACCA
* *
49665348 GCAGGCTTCGTGCTAGTAAAATATCCGGGTTAAATCCC
1 GCAGGCTTCGTGCTAGTAAAATATCCAGGATAAATCCC
* **
49665386 GCAGGCTTCGTGCTGGTATTATATCCAGGATAAATCCC
1 GCAGGCTTCGTGCTAGTAAAATATCCAGGATAAATCCC
49665424 GCAGGC
1 GCAGGC
49665430 CTAGTGCTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (38 bp):
GCAGGCTTCGTGCTAGTAAAATATCCAGGATAAATCCC
Found at i:49665437 original size:38 final size:38
Alignment explanation
Indices: 49665368--49665443 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
49665358 TGCTAGTAAA
* * * *
49665368 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTATT
49665406 ATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTATT
49665444 GTATTCGGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (38 bp):
ATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTATT
Done.