Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 147 of 189
Found at i:44583464 original size:14 final size:14
Alignment explanation
Indices: 44583446--44583487 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
44583436 AACCCTTAAA
44583446 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
44583460 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
44583475 CCATACTCCCTAA
1 CCATAATCCCTAA
44583488 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:44583484 original size:15 final size:15
Alignment explanation
Indices: 44583442--44583488 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
44583432 TCCCAACCCT
44583442 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
44583456 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
44583470 TAAATCCATACTCCC
1 TAAATCCATAATCCC
44583485 TAAA
1 TAAA
44583489 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:44583935 original size:40 final size:40
Alignment explanation
Indices: 44583846--44583953 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
44583836 TTTTTAGCTG
* *
44583846 CGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCT-AAAGCCCGAGCATTAGCGA
* *
44583887 CGCATTTTCAAAAATGCCGCTAAAGCCCGAGCATTAGCGA
1 CGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTAGCGA
*
44583927 CGCTTTTTCAAAAGCGCCGCTAAAGCC
1 CGCTTTTTCAAAAACGCCGCTAAAGCC
44583954 TCGAAAGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
40 41 0.68
41 19 0.32
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (40 bp):
CGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTAGCGA
Found at i:44586379 original size:77 final size:77
Alignment explanation
Indices: 44586230--44586386 Score: 289
Period size: 77 Copynumber: 2.0 Consensus size: 77
44586220 GTTAAACGAG
44586230 AAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
1 AAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
44586295 TGAAATTTTTTT
66 TGAAATTTTTTT
*
44586307 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACATTAGGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
44586372 TTG-AATTTTTTT
65 TTGAAATTTTTTT
44586384 AAA
1 AAA
44586387 AAGGATATTT
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
77 40 0.51
78 38 0.49
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (77 bp):
AAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
TGAAATTTTTTT
Found at i:44586681 original size:20 final size:20
Alignment explanation
Indices: 44586656--44586704 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
44586646 GTTAAGACAC
44586656 GATCTTTTATTAATTCCCGA
1 GATCTTTTATTAATTCCCGA
*
44586676 GATCTTTTATTAATTCCCGT
1 GATCTTTTATTAATTCCCGA
*
44586696 GATCGTTTA
1 GATCTTTTA
44586705 AAAACTTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (20 bp):
GATCTTTTATTAATTCCCGA
Found at i:44587489 original size:23 final size:22
Alignment explanation
Indices: 44587463--44587505 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
44587453 TTGTTACATA
44587463 AATATAAATAGAAATATATAAAT
1 AATATAAATAGAAATA-ATAAAT
* *
44587486 AATATCAATAGTAATAATAA
1 AATATAAATAGAAATAATAA
44587506 TATTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
AATATAAATAGAAATAATAAAT
Found at i:44588240 original size:11 final size:12
Alignment explanation
Indices: 44588224--44588260 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
44588214 AGAAAACTCA
44588224 AAAAAT-AAAGT
1 AAAAATAAAAGT
*
44588235 AAAAATAAAAAT
1 AAAAATAAAAGT
44588247 AAAAATAAAAGT
1 AAAAATAAAAGT
44588259 AA
1 AA
44588261 GTAAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAAATAAAAGT
Found at i:44588245 original size:6 final size:6
Alignment explanation
Indices: 44588224--44588256 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
44588214 AGAAAACTCA
*
44588224 AAAAAT -AAAGT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
44588257 GTAAGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:44588278 original size:28 final size:23
Alignment explanation
Indices: 44588223--44588278 Score: 58
Period size: 27 Copynumber: 2.3 Consensus size: 23
44588213 AAGAAAACTC
44588223 AAAAAATAAAGTAAAAATAAAAA
1 AAAAAATAAAGTAAAAATAAAAA
*
44588246 TAAAAATAAAAGTAAGTAAATGAAAAA
1 AAAAAAT-AAAGTAA--AAAT-AAAAA
*
44588273 GAAAAA
1 AAAAAA
44588279 GAACTCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 6 0.22
24 7 0.26
26 4 0.15
27 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (23 bp):
AAAAAATAAAGTAAAAATAAAAA
Found at i:44588876 original size:21 final size:21
Alignment explanation
Indices: 44588852--44588912 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
44588842 GAATGATGTT
44588852 AATATCGTAATCGAAATGGGA
1 AATATCGTAATCGAAATGGGA
**
44588873 AATA-C--AAT-G--AT-GTT
1 AATATCGTAATCGAAATGGGA
44588887 AATATCGTAATCGAAATGGGA
1 AATATCGTAATCGAAATGGGA
44588908 AATAT
1 AATAT
44588913 AATCAACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
17 4 0.14
18 4 0.14
20 3 0.10
21 10 0.34
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (21 bp):
AATATCGTAATCGAAATGGGA
Found at i:44588889 original size:35 final size:35
Alignment explanation
Indices: 44588843--44588911 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
44588833 AAAGTGAATG
44588843 AATGATGTTAATATCGTAATCGAAATGGGAAATAC
1 AATGATGTTAATATCGTAATCGAAATGGGAAATAC
44588878 AATGATGTTAATATCGTAATCGAAATGGGAAATA
1 AATGATGTTAATATCGTAATCGAAATGGGAAATA
44588912 TAATCAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.29
Consensus pattern (35 bp):
AATGATGTTAATATCGTAATCGAAATGGGAAATAC
Found at i:44594150 original size:35 final size:35
Alignment explanation
Indices: 44594104--44594176 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
44594094 TTTCGGTAAA
* *
44594104 CATTAGTGTGTTTTGGAGGGATTAGCTCTTATGAG
1 CATTAGTGTGTTTCGGAGGGATTAGCTCTTACGAG
* *
44594139 CATTAGTGTGTTTCGGATGGATTGGCTCTTACGAG
1 CATTAGTGTGTTTCGGAGGGATTAGCTCTTACGAG
44594174 CAT
1 CAT
44594177 CTGGTTTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.38
Consensus pattern (35 bp):
CATTAGTGTGTTTCGGAGGGATTAGCTCTTACGAG
Found at i:44597695 original size:10 final size:10
Alignment explanation
Indices: 44597669--44597701 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
44597659 TTAAACAAAC
44597669 CACTTTAAAA
1 CACTTTAAAA
44597679 CAC--TAAAA
1 CACTTTAAAA
44597687 CACTTTAAAA
1 CACTTTAAAA
44597697 CACTT
1 CACTT
44597702 CTTTATGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (10 bp):
CACTTTAAAA
Found at i:44608875 original size:18 final size:18
Alignment explanation
Indices: 44608849--44608888 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44608839 TCACGAATCG
44608849 CAGTCTTACTA-TAGTTTT
1 CAGTCTTACTACT-GTTTT
*
44608867 CAGTTTTACTACTGTTTT
1 CAGTCTTACTACTGTTTT
44608885 CAGT
1 CAGT
44608889 ATATAGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.50
Consensus pattern (18 bp):
CAGTCTTACTACTGTTTT
Found at i:44614932 original size:38 final size:36
Alignment explanation
Indices: 44614881--44614972 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 36
44614871 CACCACTTCG
* * *
44614881 TCCACCCTGCACACCACATTAAGGCTACAGTAGGCCAA
1 TCCACCCTGCACACCACA-TAAGACCACAATAGGCC-A
* *
44614919 TCCACCCTGCACACCGCATAAGACCATAATAGGCCA
1 TCCACCCTGCACACCACATAAGACCACAATAGGCCA
* *
44614955 TTCACCCTACACACCACA
1 TCCACCCTGCACACCACA
44614973 AAAGTGGAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 16 0.35
37 13 0.28
38 17 0.37
ACGTcount: A:0.33, C:0.40, G:0.12, T:0.15
Consensus pattern (36 bp):
TCCACCCTGCACACCACATAAGACCACAATAGGCCA
Found at i:44624333 original size:30 final size:30
Alignment explanation
Indices: 44624299--44624361 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
44624289 ACTTAACAAG
44624299 CAAATG-CTTCTAAAATAATAACAAAATTAA
1 CAAATGTCTT-TAAAATAATAACAAAATTAA
44624329 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
44624359 CAA
1 CAA
44624362 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:44624459 original size:21 final size:21
Alignment explanation
Indices: 44624430--44624470 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44624420 ACACCAAAAC
* *
44624430 AGGCTTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
44624451 AGGCCTTTAGCGGCGCTTTT
1 AGGCCTTTAGCGGCGCTTTT
44624471 AGCACAGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.20, G:0.29, T:0.41
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGCTTTTT
Found at i:44624631 original size:43 final size:43
Alignment explanation
Indices: 44624514--44624700 Score: 164
Period size: 43 Copynumber: 4.4 Consensus size: 43
44624504 AGCACAAAAT
* * * *
44624514 GCCGCTAAAGATCATG-CTCTTTAGCGGCGCTTTTGCCACAAAC
1 GCCGCTAAAAATCATGAC-CTTTAACGACGCTTTTGCTACAAAC
* * * *
44624557 GACGCTAAAGATCATGGCCTTTAACGGCGCTTTTGCTACAAAC
1 GCCGCTAAAAATCATGACCTTTAACGACGCTTTTGCTACAAAC
* * * * **
44624600 GCCGCTAAAAATCATAACCTCTAGCGACGCTTCTATTACAAAC
1 GCCGCTAAAAATCATGACCTTTAACGACGCTTTTGCTACAAAC
** * *
44624643 GCCGCTATAAAAAAATGACTTTTAACGACGCTTTTTC-ACAAAC
1 GCCGCTA-AAAATCATGACCTTTAACGACGCTTTTGCTACAAAC
*
44624686 GCCACTAAAAA-CATG
1 GCCGCTAAAAATCATG
44624701 CTTTTAAAAA
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.03
42 4 0.03
43 90 0.76
44 21 0.18
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAAATCATGACCTTTAACGACGCTTTTGCTACAAAC
Found at i:44625767 original size:47 final size:46
Alignment explanation
Indices: 44625713--44625804 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
44625703 CCCTACATGT
*
44625713 GCCATCATGTCAGATGTAGAAAAGGCTTAATATGTAATGGCAAAAAG
1 GCCATCAT-TCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAAG
**** * *
44625760 GCCATCATTTTTTTGTGGAAAAGGCTTAATATGTCATGACAAAAA
1 GCCATCATTCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAA
44625805 TGGAAGCAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 30 0.79
47 8 0.21
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCATCATTCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAAG
Found at i:44628987 original size:7 final size:7
Alignment explanation
Indices: 44628975--44628999 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44628965 AAAGGGTAAT
44628975 AGGAGAA
1 AGGAGAA
44628982 AGGAGAA
1 AGGAGAA
44628989 AGGAGAA
1 AGGAGAA
44628996 AGGA
1 AGGA
44629000 AAGGGAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (7 bp):
AGGAGAA
Found at i:44629891 original size:132 final size:132
Alignment explanation
Indices: 44629666--44629914 Score: 335
Period size: 132 Copynumber: 1.9 Consensus size: 132
44629656 TATATAAGAA
* *
44629666 CTTAATTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAACCCTAACCTGACCCTGA
1 CTTAATTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCTAACCTAACCCTGA
* *
44629731 AACTCTAAACCTTAAATCATTAATTCTTAACCCCTAAC-CCTAAACCCCTAACTACTACCCCCTA
66 AACTCTAAACCCTAAATCATTAACTCTTAACCCCTAACACCT-AACCCCTAACTACTACCCCCTA
44629795 AAC
130 AAC
* *
44629798 CTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCTATCCTAACACC-G
1 CTTAATTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCTAACCTAAC-CCTG
* * * * *
44629862 AATC-CATAAACCCTAAAT-TTCTAACTCTTAATCTCTAACACCTAACCCTTAAC
65 AAACTC-TAAACCCTAAATCAT-TAACTCTTAACCCCTAACACCTAACCCCTAAC
44629915 CCTTAAATCA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
131 2 0.02
132 95 0.93
133 5 0.05
ACGTcount: A:0.42, C:0.28, G:0.01, T:0.29
Consensus pattern (132 bp):
CTTAATTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCCTAACCTAACCCTGA
AACTCTAAACCCTAAATCATTAACTCTTAACCCCTAACACCTAACCCCTAACTACTACCCCCTAA
AC
Found at i:44629957 original size:14 final size:15
Alignment explanation
Indices: 44629940--44629972 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
44629930 CTTAAACTAG
44629940 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
44629954 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
44629969 AATC
1 AATC
44629973 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:44630043 original size:14 final size:14
Alignment explanation
Indices: 44630024--44630057 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
44630014 CTAAATTAAT
44630024 CATATACCCTAAAA
1 CATATACCCTAAAA
*
44630038 CATATACCTTAAAA
1 CATATACCCTAAAA
44630052 CATATA
1 CATATA
44630058 TATTAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (14 bp):
CATATACCCTAAAA
Found at i:44635098 original size:14 final size:14
Alignment explanation
Indices: 44635063--44635110 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
44635053 TAAGTTATTG
*
44635063 TATAAAATATTTTT
1 TATAAATTATTTTT
*
44635077 TAT-TATTATTTTT
1 TATAAATTATTTTT
*
44635090 TATAAATTAAATTTT
1 TATAAATT-ATTTTT
44635105 TATAAA
1 TATAAA
44635111 AAAACTAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 11 0.39
14 6 0.21
15 11 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATAAATTATTTTT
Found at i:44635810 original size:14 final size:15
Alignment explanation
Indices: 44635791--44635823 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
44635781 CTTAAACCAG
44635791 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
44635805 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
44635820 AATC
1 AATC
44635824 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:44635894 original size:14 final size:14
Alignment explanation
Indices: 44635875--44635908 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
44635865 CTAAATTAAC
44635875 CATATACCCTAAAA
1 CATATACCCTAAAA
*
44635889 CATATACCTTAAAA
1 CATATACCCTAAAA
44635903 CATATA
1 CATATA
44635909 TATTAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (14 bp):
CATATACCCTAAAA
Found at i:44636320 original size:41 final size:41
Alignment explanation
Indices: 44636252--44636445 Score: 277
Period size: 41 Copynumber: 4.8 Consensus size: 41
44636242 TATCAGGCTT
*
44636252 TTAGCGGCGC-TTTTCAAAAACGACGCTAAAAGCCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCA
*
44636292 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAAGCCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCA
* * *
44636333 TTAGTGGCGCTTTTTCAAAAACGCCGCT-AAAGATCTGAGTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CCTGAGCA
* *
44636374 TTAGCGGCGCTTTTTCAAAAATGCCGCT-AAATCTCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGC-CTGAGCA
*
44636415 TTAGAGGCGCTTTTTCAAAAACGCCGCTAAA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
44636446 GAACCAAATG
Statistics
Matches: 137, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
40 14 0.10
41 121 0.88
42 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCA
Found at i:44636557 original size:39 final size:40
Alignment explanation
Indices: 44636513--44636624 Score: 140
Period size: 40 Copynumber: 2.8 Consensus size: 40
44636503 CAAAAAACGT
* * *
44636513 TGCTAATGCT-AATTTTTAGTGGCGCTTTTTTG-GAAGCGCA
1 TGCTAATGCTCGATTTTTAGCGGCG-TTTTTTGTAAAGCG-A
* *
44636553 -GCTAATGCTCGATCTTTAGCGGCGTTTTATGTAAAGCGA
1 TGCTAATGCTCGATTTTTAGCGGCGTTTTTTGTAAAGCGA
44636592 TGCTAATGCTCGATTTTTAGCGGCGTTTTTTGT
1 TGCTAATGCTCGATTTTTAGCGGCGTTTTTTGT
44636625 TCAAACGCCA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 16 0.26
40 46 0.74
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (40 bp):
TGCTAATGCTCGATTTTTAGCGGCGTTTTTTGTAAAGCGA
Found at i:44637426 original size:7 final size:7
Alignment explanation
Indices: 44637404--44637468 Score: 78
Period size: 7 Copynumber: 9.4 Consensus size: 7
44637394 TGTCTCTGCG
44637404 TTAGGG-
1 TTAGGGT
44637410 TTAGGGT
1 TTAGGGT
*
44637417 TTATGGT
1 TTAGGGT
44637424 TTAGGGT
1 TTAGGGT
*
44637431 TTATGGT
1 TTAGGGT
44637438 TTAGGGT
1 TTAGGGT
*
44637445 TTAGGAT
1 TTAGGGT
* *
44637452 TAAGGTT
1 TTAGGGT
44637459 TTAGGGT
1 TTAGGGT
44637466 TTA
1 TTA
44637469 AAGTTTTAGG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
6 6 0.12
7 43 0.88
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:44637474 original size:15 final size:16
Alignment explanation
Indices: 44637451--44637487 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
44637441 GGGTTTAGGA
*
44637451 TTAAGGTTTTA-GGGT
1 TTAAAGTTTTAGGGGT
44637466 TTAAAGTTTTAGGGGT
1 TTAAAGTTTTAGGGGT
44637482 TTAAAG
1 TTAAAG
44637488 GAAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (16 bp):
TTAAAGTTTTAGGGGT
Found at i:44637692 original size:96 final size:95
Alignment explanation
Indices: 44637511--44637812 Score: 419
Period size: 96 Copynumber: 3.1 Consensus size: 95
44637501 AAATAAGGGC
* * * * *
44637511 TAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTT-CAAAATTAGATTAAGGTTTCGTG
1 TAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTG
* *
44637575 TTTATGGTTTTTAAAGAAAAATTAATGAAAT
66 TTTAGGGTTTTTAAGGAAAAATTAAT-AAAT
* * *
44637606 TAGGGTTTAAGGTTACTTGATTAAATTAATTATAAATTTTTAAAAAATCATATTAGGGTTTAGTG
1 TAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTG
* *
44637671 TTAAGGGTTTTTAAGGAAAAATCAAATAAAT
66 TTTAGGGTTTTTAAGGAAAAAT-TAATAAAT
* *
44637702 TAGGGTTTAGGGTTACTTGAATAAATTAATTATAAA-TTTTAAACAATTTAGATTAGGGTTTAGT
1 TAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAA-AAATTAGATTAGGGTTTAGT
44637766 GTTTAGGGTTTTTAAGGAAAAACTTAAATAAAT
65 GTTTAGGGTTTTTAAGGAAAAA-TT-AATAAAT
44637799 TAGGGTTTAGGGTT
1 TAGGGTTTAGGGTT
44637813 TAGGGTTACT
Statistics
Matches: 183, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
95 45 0.25
96 113 0.62
97 25 0.14
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.41
Consensus pattern (95 bp):
TAGGGTTTAGGGTTACTTGATTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTG
TTTAGGGTTTTTAAGGAAAAATTAATAAAT
Found at i:44638082 original size:126 final size:126
Alignment explanation
Indices: 44637857--44638265 Score: 665
Period size: 126 Copynumber: 3.2 Consensus size: 126
44637847 AAAAGATCCT
* * * *
44637857 ACGTGGATGCTTTTTTGCTACAGTATTTACTGAAAAAATAATTTTGAGAAGAGGTTTCTGAGCAA
1 ACGTGGATGCTTTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTTCTGAGCAA
* * * *
44637922 ATGGTGGCAAAAACGCTTTAAGTAGGATGTATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
44637983 ACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTTCTGAGCAA
1 ACGTGGATGCTTTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTTCTGAGCAA
*
44638048 ATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCT
66 ATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
44638109 ACGTGGATGCTTTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAGGACGTTTCTGAGCAA
1 ACGTGGATGCTTTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTTCTGAGCAA
* * *
44638174 ATAGTGTCAATAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
44638235 ACGTGGATGCTTTTTTGCTATAATAGTTCCT
1 ACGTGGATGCTTTTTTGCTACAGTAGTTCCT
44638266 ATTTGGCCTG
Statistics
Matches: 263, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 263 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (126 bp):
ACGTGGATGCTTTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTTCTGAGCAA
ATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:44638548 original size:16 final size:16
Alignment explanation
Indices: 44638527--44638575 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
44638517 TTCGCTATAT
44638527 TGGATTAGAGGTGTAA
1 TGGATTAGAGGTGTAA
*
44638543 TGGATTAGAGGTGTAT
1 TGGATTAGAGGTGTAA
*
44638559 TGGAATAGAGGTGTAA
1 TGGATTAGAGGTGTAA
44638575 T
1 T
44638576 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGGATTAGAGGTGTAA
Found at i:44639074 original size:88 final size:90
Alignment explanation
Indices: 44638980--44639184 Score: 265
Period size: 88 Copynumber: 2.3 Consensus size: 90
44638970 TAATTATAAC
* * * *
44638980 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAA-T-ATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAATAAT
*
44639042 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
* *
44639068 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA-TTAATAAT
*
44639133 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
*
44639159 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
44639185 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
88 46 0.45
89 3 0.03
90 1 0.01
91 33 0.32
92 19 0.18
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (90 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:44639159 original size:47 final size:45
Alignment explanation
Indices: 44639037--44639165 Score: 113
Period size: 47 Copynumber: 2.8 Consensus size: 45
44639027 TACATATAAT
* * *
44639037 ATAATAATATATAATTTCATAAAATTCTTGATAATAAATTTTCTT
1 ATAATGATATATAATTTCATAAAATTCTTAATAATAAATTTTCTA
* * ** *
44639082 AT-ATGAATTTATACAATT--TAAAATAATTAATATTAAATATAATT-TA
1 ATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAAAT-T--TTCTA
44639128 ATAATGATATATAATTTCATAAAATTCTTAATAATAAA
1 ATAATGATATATAATTTCATAAAATTCTTAATAATAAA
44639166 ATGTTCTTAT
Statistics
Matches: 63, Mismatches: 13, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
44 18 0.29
45 12 0.19
46 12 0.19
47 21 0.33
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (45 bp):
ATAATGATATATAATTTCATAAAATTCTTAATAATAAATTTTCTA
Found at i:44642489 original size:19 final size:19
Alignment explanation
Indices: 44642465--44642503 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
44642455 TTAGAAGGAA
44642465 GGAATAGAAGAGGCAAAGG
1 GGAATAGAAGAGGCAAAGG
*
44642484 GGAATAGAAGAGGCAGAGG
1 GGAATAGAAGAGGCAAAGG
44642503 G
1 G
44642504 TAAAATAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.46, T:0.05
Consensus pattern (19 bp):
GGAATAGAAGAGGCAAAGG
Found at i:44651124 original size:28 final size:28
Alignment explanation
Indices: 44651058--44651125 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 28
44651048 ATCCTATTAA
44651058 AAAATGAAAAAAAGAAAAAAATCAGAAGC
1 AAAAT-AAAAAAAGAAAAAAATCAGAAGC
44651087 AAAA-ACAAAAAAGAAAAAAATCA-AAGTC
1 AAAATA-AAAAAAGAAAAAAATCAGAAG-C
44651115 AAAATAAAAAA
1 AAAATAAAAAA
44651126 TATGAAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
27 4 0.11
28 27 0.75
29 5 0.14
ACGTcount: A:0.76, C:0.07, G:0.09, T:0.07
Consensus pattern (28 bp):
AAAATAAAAAAAGAAAAAAATCAGAAGC
Found at i:44652085 original size:17 final size:17
Alignment explanation
Indices: 44652064--44652097 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44652054 GCTTTGAGTC
*
44652064 AAAAAAATAATGAAAAAT
1 AAAAAAA-AAAGAAAAAT
44652082 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
44652098 ATGAGAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAT
Found at i:44653470 original size:87 final size:87
Alignment explanation
Indices: 44653348--44654311 Score: 932
Period size: 87 Copynumber: 11.0 Consensus size: 87
44653338 AATCACAAAT
44653348 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA-CGACA
*
44653413 GCGAAGCAGATCGAAGATACCAG
65 GTGAAGCAGATCGAAGATACCAG
* * * * *
44653436 CCTTGCCTCCCTCGGTGGC-GTGGAGCAGGTTGAAGATAGCAGACCTTGCC-TCC-CTAAGCAGT
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACG-A-C
*
44653498 AGTGGAGCAGATCGAAGATACCAG
64 AGTGAAGCAGATCGAAGATACCAG
* * * * *
44653522 CCTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTCCCT-AAGCAATA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA-CGACA
*
44653586 GTGGAGCAGATCGAAGATACCAG
65 GTGAAGCAGATCGAAGATACCAG
** **
44653609 CCTTGCCTCCCTCGGTTGCAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTAC-GACA
* *
44653674 GTGAAGCAGATCGAAGACACTAG
65 GTGAAGCAGATCGAAGATACCAG
* * * * * *
44653697 CCTTGCCTCCCTGGGTTGCAGCGGAGTAGGTTGAATATAAC-GAATCTTGCC-TCCT-TAAGCAG
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAG-ATCTTGCCTTCCTGTACG-A-
* * *
44653759 TAGTGGAGCAGATCAAAGATACCAG
63 CAGTGAAGCAGATCGAAGATACCAG
* * * * * *
44653784 CCTTGCCTCCCTTGGTTGCAGTGGAACAAGTTGAAGATAGCAGATCTT-CCCTCC-CTA-AACAG
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACGACAG
*
44653846 TAGTAGAGCAGATCAAAGATACCAG
66 T-G-A-AGCAGATCGAAGATACCAG
** * *
44653871 CCTTGCCTCATTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCATACCTTCCTGTACTGACA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTAC-GACA
* *
44653936 GTGAAGCAGATCGAAGACACTAG
65 GTGAAGCAGATCGAAGATACCAG
* * * * * * * *
44653959 CCTTGCCTCTCTGGGTTGCAGCGGAGCAGGTTGAATATAAC-GAATCTTACC-TCC-CTAAGCAG
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAG-ATCTTGCCTTCCTGTACG-A-
* * *
44654021 TAGTGGAGCAAATCGAAGATACCAG
63 CAGTGAAGCAGATCGAAGATACCAG
* * * * **
44654046 CCTTGCCTCCCTCCGTTGTAGCGGAACAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTAC-GACA
* *
44654111 GCGAAGCAGATCGAAGATATCAG
65 GTGAAGCAGATCGAAGATACCAG
* * * *
44654134 CCTTGCCTCCCTGGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTTCTATACTGACA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTAC-GACA
* * * *
44654199 GTAAAGCAGATTGAAGACACTAG
65 GTGAAGCAGATCGAAGATACCAG
* * * * * *
44654222 CCTTACCTCCCTGGGTTGCAGCGGAGCAAGTTGAATATA--ATGAATCTTGCCTTCTTGTACTGA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCA-G-ATCTTGCCTTCCTGTAC-GA
* * * * *
44654285 CGGCGAAGTAGATCAAAGATACTAG
63 CAGTGAAGCAGATCGAAGATACCAG
44654310 CC
1 CC
44654312 CTATCTCTCT
Statistics
Matches: 723, Mismatches: 123, Indels: 60
0.80 0.14 0.07
Matches are distributed among these distances:
84 4 0.01
85 7 0.01
86 52 0.07
87 329 0.46
88 318 0.44
89 6 0.01
90 2 0.00
91 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (87 bp):
CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACGACAG
TGAAGCAGATCGAAGATACCAG
Found at i:44653728 original size:175 final size:173
Alignment explanation
Indices: 44653348--44654311 Score: 1001
Period size: 175 Copynumber: 5.5 Consensus size: 173
44653338 AATCACAAAT
*
44653348 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACA
1 CCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA-CGACA
* *
44653413 GCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTGGC-GTGGAGCAGGTTGAAGATAGCA
65 GTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCA
* *
44653477 GACCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATACCAG
130 GATCTTGCCTCCCTAA-CAGTAGTGAAGCAGATCGAAGATACCAG
* * * * * *
44653522 CCTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTCCCT-AAGCAATA
1 CCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA-CGACA
* ** **
44653586 GTGGAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGCAGAGCAGACTGAAGATAGCA
65 GTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCA
* * * * * *
44653651 GATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAG
130 GATCTTGCCTCCCT-AACAG-TAGTGAAGCAGATCGAAGATACCAG
* * * * *
44653697 CCTTGCCTCCCTGGGTTGCAGCGGAGTAGGTTGAATATAAC-GAATCTTGCC-TCCT-TAAGCAG
1 CCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAG-ATCTTGCCTTCCTGTACG-A-
* * * * * *
44653759 TAGTGGAGCAGATCAAAGATACCAGCCTTGCCTCCCTTGGTTGCAGTGGAACAAGTTGAAGATAG
63 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAG
* *
44653824 CAGATCTTCCCTCCCTAAACAGTAGT-AGAGCAGATCAAAGATACCAG
128 CAGATCTTGCCTCCCT-AACAGTAGTGA-AGCAGATCGAAGATACCAG
** * * *
44653871 CCTTGCCTCATTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCATACCTTCCTGTACTGACA
1 CCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTAC-GACA
* * * * * * *
44653936 GTGAAGCAGATCGAAGACACTAGCCTTGCCTCTCTGGGTTGCAGCGGAGCAGGTTGAATATAAC-
65 GTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCA
* * *
44654000 GAATCTTACCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATACCAG
130 G-ATCTTGCCTCCCTAA-CAGTAGTGAAGCAGATCGAAGATACCAG
* * * **
44654046 CCTTGCCTCCCTCCGTTGTAGCGGAACAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
1 CCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTAC-GACA
* * * *
44654111 GCGAAGCAGATCGAAGATATCAGCCTTGCCTCCCTGGGTTGCAGTGGAGTAGGTTGAAGATAGCA
65 GTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCA
** * * * * * *
44654176 GATCTTGCCTTTCTATACTGACAGTAAAGCAGATTGAAGACACTAG
130 GATCTTGCCTCCCTA-ACAG-TAGTGAAGCAGATCGAAGATACCAG
* * * * *
44654222 CCTTACCTCCCTGGGTTGCAGCGGAGCAAGTTGAATATA--ATGAATCTTGCCTTCTTGTACTGA
1 CCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCA-G-ATCTTGCCTTCCTGTAC-GA
* * * * *
44654285 CGGCGAAGTAGATCAAAGATACTAGCC
63 CAGTGAAGCAGATCGAAGATACCAGCC
44654312 CTATCTCTCT
Statistics
Matches: 654, Mismatches: 117, Indels: 36
0.81 0.14 0.04
Matches are distributed among these distances:
173 44 0.07
174 155 0.24
175 360 0.55
176 94 0.14
177 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (173 bp):
CCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACGACAG
TGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAG
ATCTTGCCTCCCTAACAGTAGTGAAGCAGATCGAAGATACCAG
Found at i:44653819 original size:262 final size:261
Alignment explanation
Indices: 44653348--44654273 Score: 1302
Period size: 262 Copynumber: 3.5 Consensus size: 261
44653338 AATCACAAAT
44653348 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA-TCGAC
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACT-GAC
* * * * * * * *
44653412 AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTGGC-GTGGAGCAGGTTGAAGATAGC
65 AGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAATATAAC
*
44653476 -AGACCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTG
130 GA-ATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTG
** *
44653540 CAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTCCCTAAGCAATAGTGGAGCAGATCGAAGATA
194 CAGTGGAACAAGTTGAAGATAGCAGATCTTGCCTCCCTAA-CAATAGTGGAGCAGATCGAAGATA
44653605 CCAG
258 CCAG
** **
44653609 CCTTGCCTCCCTCGGTTGCAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
*
44653674 GTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGTAGGTTGAATATAACG
66 GTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAATATAACG
* * *
44653739 AATCTTGCCTCCTTAAGCAGTAGTGGAGCAGATCAAAGATACCAGCCTTGCCTCCCTTGGTTGCA
131 AATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCA
* * * *
44653804 GTGGAACAAGTTGAAGATAGCAGATCTTCCCTCCCTAAACAGTAGTAGAGCAGATCAAAGATACC
196 GTGGAACAAGTTGAAGATAGCAGATCTTGCCTCCCT-AACAATAGTGGAGCAGATCGAAGATACC
44653869 AG
260 AG
** * *
44653871 CCTTGCCTCATTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCATACCTTCCTGTACTGACA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
*
44653936 GTGAAGCAGATCGAAGACACTAGCCTTGCCTCTCTGGGTTGCAGCGGAGCAGGTTGAATATAACG
66 GTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAATATAACG
* * * *
44654001 AATCTTACCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATACCAGCCTTGCCTCCCTCCGTTGTA
131 AATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCA
* * * * * * * *
44654066 GCGGAAC-AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATA
196 GTGGAACAAG-TTGAAGATAGCAGATCTTGCCTCCCT-AAC-AATAGTGGAGCAGATCGAAGATA
*
44654130 TCAG
258 CCAG
* * * *
44654134 CCTTGCCTCCCTGGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTTCTATACTGACA
1 CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* * * * *
44654199 GTAAAGCAGATTGAAGACACTAGCCTTACCTCCCTGGGTTGCAGCGGAGCAAGTTGAATATAATG
66 GTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAATATAACG
44654264 AATCTTGCCT
131 AATCTTGCCT
44654274 TCTTGTACTG
Statistics
Matches: 589, Mismatches: 70, Indels: 10
0.88 0.10 0.01
Matches are distributed among these distances:
261 98 0.17
262 344 0.58
263 147 0.25
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (261 bp):
CCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
GTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAATATAACG
AATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGCA
GTGGAACAAGTTGAAGATAGCAGATCTTGCCTCCCTAACAATAGTGGAGCAGATCGAAGATACCA
G
Found at i:44654129 original size:45 final size:45
Alignment explanation
Indices: 44654072--44654215 Score: 139
Period size: 45 Copynumber: 3.2 Consensus size: 45
44654062 TGTAGCGGAA
* *
44654072 CAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAG
1 CAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAG
* * * * *** *
44654117 CAGATCGAAGATATCAG-CCTTGCCTCCCTGGGTTG-CAGTGGAG
1 CAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAG
* * * * *
44654160 TAGGTTGAAGATAGCAGATCTTGCCTTTCTATACTGACAGTAAAG
1 CAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAG
44654205 CAGATTGAAGA
1 CAGATTGAAGA
44654216 CACTAGCCTT
Statistics
Matches: 72, Mismatches: 25, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 19 0.26
44 24 0.33
45 29 0.40
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (45 bp):
CAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAG
Found at i:44654362 original size:44 final size:44
Alignment explanation
Indices: 44654311--44654493 Score: 285
Period size: 44 Copynumber: 4.2 Consensus size: 44
44654301 AGATACTAGC
* **
44654311 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
*
44654355 CCTATCTCCCTGACCAGCAGTGGAATAGGTCGAAGATTACAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
* **
44654399 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGGAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
* *
44654443 CTTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTACAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
44654487 CCTATCT
1 CCTATCT
44654494 ACCCGACATT
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 125 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTACAAGT
Found at i:44654460 original size:88 final size:88
Alignment explanation
Indices: 44654311--44654493 Score: 330
Period size: 88 Copynumber: 2.1 Consensus size: 88
44654301 AGATACTAGC
*
44654311 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGT
44654376 GGAATAGGTCGAAGATTACAAGT
66 GGAATAGGTCGAAGATTACAAGT
* *
44654399 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGGAGATTGTAAGTCTTATCTCCCTGACCAGCAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGT
*
44654464 GGAATAGGTTGAAGATTACAAGT
66 GGAATAGGTCGAAGATTACAAGT
44654487 CCTATCT
1 CCTATCT
44654494 ACCCGACATT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (88 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGT
GGAATAGGTCGAAGATTACAAGT
Found at i:44659936 original size:11 final size:11
Alignment explanation
Indices: 44659911--44659975 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
44659901 AAGAGGAACT
* *
44659911 TGAGAGGAATT
1 TGAGAGAAATA
44659922 TGAGAGAAATA
1 TGAGAGAAATA
44659933 TGAGAG-AATA
1 TGAGAGAAATA
44659943 TTGGAGAGAAATA
1 -T-GAGAGAAATA
* *
44659956 TTAGAG-AATT
1 TGAGAGAAATA
44659966 TGAGAGAAAT
1 TGAGAGAAAT
44659976 GATTTAAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
10 12 0.27
11 23 0.51
12 6 0.13
13 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (11 bp):
TGAGAGAAATA
Found at i:44659953 original size:23 final size:21
Alignment explanation
Indices: 44659911--44659975 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 21
44659901 AAGAGGAACT
44659911 TGAGAGGAATTTGAGAGAAATA
1 TGAGA-GAATTTGAGAGAAATA
44659933 TGAGAGAATATTGGAGAGAAATA
1 TGAGAGAAT-TT-GAGAGAAATA
*
44659956 TTAGAGAATTTGAGAGAAAT
1 TGAGAGAATTTGAGAGAAAT
44659976 GATTTAAGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 13 0.32
22 9 0.22
23 18 0.45
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (21 bp):
TGAGAGAATTTGAGAGAAATA
Found at i:44660502 original size:18 final size:18
Alignment explanation
Indices: 44660472--44660506 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44660462 AAAATATAAA
44660472 ATATTATAGTATATTTTC
1 ATATTATAGTATATTTTC
44660490 ATATATATA-TATATTTT
1 ATAT-TATAGTATATTTT
44660507 AAAGCTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATTATAGTATATTTTC
Found at i:44663112 original size:123 final size:123
Alignment explanation
Indices: 44662893--44663142 Score: 500
Period size: 123 Copynumber: 2.0 Consensus size: 123
44662883 TGCAGGATAA
44662893 GGAATCTGGGCATACCCCAGAATCTTTAACAGTTTTCGTCGACCTCTGCTCTAAACTGTTTTCCA
1 GGAATCTGGGCATACCCCAGAATCTTTAACAGTTTTCGTCGACCTCTGCTCTAAACTGTTTTCCA
44662958 GTTATAGTTTTGTGATGGTCGTATCTTTTAGCCCTTCTTTTTGGTCGTAAGTTTTGAT
66 GTTATAGTTTTGTGATGGTCGTATCTTTTAGCCCTTCTTTTTGGTCGTAAGTTTTGAT
44663016 GGAATCTGGGCATACCCCAGAATCTTTAACAGTTTTCGTCGACCTCTGCTCTAAACTGTTTTCCA
1 GGAATCTGGGCATACCCCAGAATCTTTAACAGTTTTCGTCGACCTCTGCTCTAAACTGTTTTCCA
44663081 GTTATAGTTTTGTGATGGTCGTATCTTTTAGCCCTTCTTTTTGGTCGTAAGTTTTGAT
66 GTTATAGTTTTGTGATGGTCGTATCTTTTAGCCCTTCTTTTTGGTCGTAAGTTTTGAT
44663139 GGAA
1 GGAA
44663143 ACACATACCC
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 127 1.00
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (123 bp):
GGAATCTGGGCATACCCCAGAATCTTTAACAGTTTTCGTCGACCTCTGCTCTAAACTGTTTTCCA
GTTATAGTTTTGTGATGGTCGTATCTTTTAGCCCTTCTTTTTGGTCGTAAGTTTTGAT
Found at i:44669906 original size:68 final size:70
Alignment explanation
Indices: 44669831--44669967 Score: 181
Period size: 68 Copynumber: 2.0 Consensus size: 70
44669821 ATTTTAATAG
* * * **
44669831 TTTAATATTCAATTTAAGTTAATACTTATCTTA-AT-AATATTTTATT-AATTTAATATTAAAGT
1 TTTAATATTAAATTAAAGTTAATACTTATC-AAGATAAATATTACATTAAATTTAATATTAAAGT
44669893 GATTAT
65 GATTAT
* *
44669899 TTTAATATTAAATTAAATTTAATATTTATCAAGATAAATATTACATTAAATTTAATATTAAAGTG
1 TTTAATATTAAATTAAAGTTAATACTTATCAAGATAAATATTACATTAAATTTAATATTAAAGTG
44669964 ATTA
66 ATTA
44669968 AATCTAATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 1 0.02
68 28 0.47
69 9 0.15
70 21 0.36
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (70 bp):
TTTAATATTAAATTAAAGTTAATACTTATCAAGATAAATATTACATTAAATTTAATATTAAAGTG
ATTAT
Found at i:44669921 original size:17 final size:17
Alignment explanation
Indices: 44669899--44669960 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
44669889 AAGTGATTAT
44669899 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
* *
44669916 TTTAATATT-TATCAAGA
1 TTTAATATTAAATTAA-A
* *
44669933 -TAAATATTACATTAAA
1 TTTAATATTAAATTAAA
44669949 TTTAATATTAAA
1 TTTAATATTAAA
44669961 GTGATTAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
16 12 0.34
17 23 0.66
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:44669970 original size:33 final size:33
Alignment explanation
Indices: 44669877--44669970 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 33
44669867 ATATTTTATT
44669877 AATTTAATATTAAAGTGATTATTTTAATATTAAATTA
1 AATTTAATATTAAAGTGATTA----AATATTAAATTA
*
44669914 AATTTAATATTTATCAA--GA-TAAATATTACATTA
1 AATTTAATA-TTA--AAGTGATTAAATATTAAATTA
44669947 AATTTAATATTAAAGTGATTAAAT
1 AATTTAATATTAAAGTGATTAAAT
44669971 CTAATCATAG
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
30 2 0.04
32 5 0.10
33 25 0.50
37 11 0.22
38 5 0.10
40 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (33 bp):
AATTTAATATTAAAGTGATTAAATATTAAATTA
Found at i:44673593 original size:20 final size:20
Alignment explanation
Indices: 44673568--44673616 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
44673558 AAGTTTATGC
* *
44673568 TAAGTAACTATAATGGAAAG
1 TAAGTAAATAGAATGGAAAG
* *
44673588 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATAGAATGGAAAG
44673608 TAAGTAAAT
1 TAAGTAAAT
44673617 GGAGTGGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (20 bp):
TAAGTAAATAGAATGGAAAG
Found at i:44673617 original size:20 final size:20
Alignment explanation
Indices: 44673579--44673624 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
44673569 AAGTAACTAT
*
44673579 AATGGAAAGTAAGTAAATGG
1 AATGGTAAGTAAGTAAATGG
44673599 AATGGTAAGTAAGTAAATGG
1 AATGGTAAGTAAGTAAATGG
*
44673619 AGTGGT
1 AATGGT
44673625 TCATAATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (20 bp):
AATGGTAAGTAAGTAAATGG
Found at i:44680869 original size:24 final size:24
Alignment explanation
Indices: 44680798--44680870 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
44680788 AAAATAATAT
* *
44680798 TATTTTAATAGTTTAATATTAAATT
1 TATTTTAATAATTTAATATTAAA-G
* *
44680823 TAATTTAAT-ATTT-ATCTTAAAAG
1 TATTTTAATAATTTAATATT-AAAG
*
44680846 TATTTTTATAATTTAATATTAAAG
1 TATTTTAATAATTTAATATTAAAG
44680870 T
1 T
44680871 GATTATCTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
23 11 0.29
24 15 0.39
25 12 0.32
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (24 bp):
TATTTTAATAATTTAATATTAAAG
Found at i:44686969 original size:126 final size:125
Alignment explanation
Indices: 44686763--44687302 Score: 683
Period size: 125 Copynumber: 4.3 Consensus size: 125
44686753 AGAAGGTTTT
* * * * *
44686763 TGAAGTCACGCCCACGTGTATGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGACTTGA
1 TGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGA
* *
44686828 CGTTTTTGAGTAAATAGTTTAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTG
66 CGTTTTTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTG
* * * *
44686888 TGAAATCATGCCCTCATGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTTGAGTTG
1 TGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTTGACTTG
* * * *
44686953 ACGTTTTTGAGCAAATAGTTTAAAAAAATGCTTCAAGCAGGATGCTTTATAAGAATAATTTG
65 ACGTTTTTGAGCAAATAGTAT-AAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTG
* * * * * * *
44687015 TGAAGTCGCGCCCACGTGGACACACTTTTGC-ACAGTAGGTCCTGAAAAAATAATTTTGAGTTGA
1 TGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGA
* * * **
44687079 CGTTTGTGAGCAAATAGTATAAAACAACGCTGCAAACAGCTTGCTATT-TGAGAAGAATTTG
66 CGTTTTTGAGCAAATAGTATAAAA-AACGCTTCAAGCAGGATGCT-TTATGAGAAGAATTTG
* * * * *
44687140 TGAAATCGCACCCTCGTAGACGCGCTTTTACGACAGTAGGTCCTGGAAAAATAATTTTGACTTGA
1 TGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGA
* * * *
44687205 CGTTTCTGAGTAAATAGTAT-AAAATCGCTTCTAGCAGGATGCTTTATGAGAAGAATTTG
66 CGTTTTTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTG
44687264 TGAAATCACGCCCAT-GTGGACGCGCTTTTGCTACAGTAG
1 TGAAATCACGCCC-TCGTGGACGCGCTTTTGCTACAGTAG
44687303 CATGTTTAGG
Statistics
Matches: 355, Mismatches: 53, Indels: 15
0.84 0.13 0.04
Matches are distributed among these distances:
123 2 0.01
124 63 0.18
125 130 0.37
126 99 0.28
127 61 0.17
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (125 bp):
TGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGACTTGA
CGTTTTTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTG
Found at i:44690514 original size:22 final size:21
Alignment explanation
Indices: 44690470--44691075 Score: 562
Period size: 22 Copynumber: 28.0 Consensus size: 21
44690460 TCAAATTATA
* *
44690470 TTTAAGTTAAGGGTTAGGATT
1 TTTAAGTTAAGGTTTAGGGTT
*
44690491 TTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTT
* * **
44690513 TTAAAGTTAAGGGTTAAAGTT
1 TTTAAGTTAAGGTTTAGGGTT
44690534 TTTAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTT
*
44690555 TTTATGTTAAGGGTTTATGGG-T
1 TTTAAGTTAA-GGTTTA-GGGTT
*
44690577 TTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTT
*
44690599 TTTAATTTAAAGGTTTAGGGTT
1 TTTAAGTT-AAGGTTTAGGGTT
* * *
44690621 TTAAAGTTAAGGGTTATGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
44690642 TTTAAGTTTAGAGTTTAGAGTT
1 TTTAAGTTAAG-GTTTAGGGTT
* *
44690664 TTTGAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
44690685 TTTAATTTAAAGAG-TTAGGGTT
1 TTTAAGTT-AAG-GTTTAGGGTT
44690707 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
44690729 TTTAAGTTAAAGG-TTAGGGTT
1 TTTAAGTT-AAGGTTTAGGGTT
*
44690750 TTTAAGTTAATGGGTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
44690772 TTTAAGTTAATGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* **
44690794 TTTAAATTAAGAGTTTAAAGTT
1 TTTAAGTTAAG-GTTTAGGGTT
* *
44690816 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
44690837 TTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAA-GGTTTA-GGGTT
44690859 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
44690881 TTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTT
* * *
44690903 TTAAAGTTAAGGGTTATGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
44690924 TTTAAATTAAGGGTTTATGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
44690946 TTAAAGTTAATGG-TTAGGG-T
1 TTTAAGTTAA-GGTTTAGGGTT
* * *
44690966 TTTAGGTTAAGGGGTTAAGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
44690988 TTTAAGTTAAGGGTTTAGAGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
44691010 TTTAGGTTAAAGGTTTAGGGTT
1 TTTAAGTT-AAGGTTTAGGGTT
* *
44691032 TTT-AGTTTAAGGGTTAGAGTT
1 TTTAAG-TTAAGGTTTAGGGTT
* *
44691053 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
44691075 T
1 T
44691076 GTCAATTAAA
Statistics
Matches: 485, Mismatches: 72, Indels: 55
0.79 0.12 0.09
Matches are distributed among these distances:
20 13 0.03
21 167 0.34
22 291 0.60
23 14 0.03
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TTTAAGTTAAGGTTTAGGGTT
Found at i:44690536 original size:43 final size:43
Alignment explanation
Indices: 44690470--44691075 Score: 618
Period size: 43 Copynumber: 14.0 Consensus size: 43
44690460 TCAAATTATA
* *
44690470 TTTAAGTTAAGGGTTAGGATTTTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* **
44690513 TTAAAGTTAAGGGTTAAAGTTTTTAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* *
44690555 TTTATGTTAAGGGTTTATGGG-TTTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGG-TTA-GGGTTTTTAAGTTAAGAGTTTAGGGTT
* * * * *
44690599 TTTAATTTAAAGGTTTAGGGTTTTAAAGTTAAG-GGTTATGGTT
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* * * * *
44690642 TTTAAGTTTAGAGTTTAGAGTTTTTGAGTTAAG-GGTTAGGGTT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* * *
44690685 TTTAATTTAAAGAGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* *
44690729 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAATG-GGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GAGTTTAGGGTT
* * **
44690772 TTTAAGTTAATGGTTTAGGGTTTTTAAATTAAGAGTTTAAAGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* * *
44690816 TTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTA-GGGTT
*
44690859 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* * * * *
44690903 TTAAAGTTAAGGGTTATGGTTTTTAAATTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* * * * * *
44690946 TTAAAGTTAATGGTTAGGG-TTTTAGGTTAAGGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
* *
44690988 TTTAAGTTAAGGGTTTAGAGTTTTTAGGTTAA-AGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGA-GTTTAGGGTT
* * * *
44691032 TTT-AGTTTAAGGGTTAGAGTTTTTAGGTTAAGGGTTTAAGGTT
1 TTTAAG-TTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
44691075 T
1 T
44691076 GTCAATTAAA
Statistics
Matches: 474, Mismatches: 70, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
42 51 0.11
43 273 0.58
44 146 0.31
45 4 0.01
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
Found at i:44691085 original size:65 final size:64
Alignment explanation
Indices: 44690470--44691075 Score: 538
Period size: 65 Copynumber: 9.4 Consensus size: 64
44690460 TCAAATTATA
* * * *
44690470 TTTAAGTTAAGGG-TTAGGATTTTTAA-TTTAAGAGTTTAGGGTTTTAAAGTTAAGGGTTAAAGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAG-GTTTAGGGTTTT-TAGTTAAGGGTTAGAGT
44690533 T
64 T
* * * * * * *
44690534 TTTAAGTTAAGAG-TTAGGGTTTTTATGTTAAGGGTTTATGGGTTTTAATTTAAGAGTTTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTA-GGGTTTTTAGTTAAG-GGTTAGAGT
44690598 T
64 T
* * * * * * *
44690599 TTTAATTTAAAGGTTTAGGGTTTTAAAGTT-AAGGGTTATGGTTTTTAAGTTTAGAGTTTAGAGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTT-AGTTAAG-GGTTAGAGT
44690663 T
64 T
* * *
44690664 TTTGAGTTAAGGG-TTAGGGTTTTTAATTTAAAGAG-TTAGGGTTTTTAAGTTAAGGGTTTAGGG
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAG-GTTTAGGGTTTTT-AGTTAAGGG-TTAGAG
44690727 TT
63 TT
* * * * *
44690729 TTTAAGTTAAAGG-TTAGGGTTTTTAAGTTAATGGGTTAGGGTTTTTAAGTTAATGGTTTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTT-AGTTAA-GGGTTAGAGT
44690793 T
64 T
* * ** * *
44690794 TTTAAATTAAGAGTTTAAAGTTTTAAAGTT-AAGGGTTAGGGTTTTTAGGTTAAGGGTTTATG-G
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTA-GTTAAGGG-TTA-GAG
*
44690857 GT
63 TT
* *
44690859 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGAGTTTAGGGTTTTAAAGTTAAGGGTTATG-G
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAG-GTTTAGGGTTTT-TAGTTAAGGGTTA-GAG
44690922 TT
63 TT
* * * *
44690924 TTTAAATTAAGGGTTTATGGTTTTAAAGTTAATGG-TTAGGG-TTTTAGGTTAAGGGGTTA-AGG
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTA-GTTAA-GGGTTAGA-G
44690986 TT
63 TT
* *
44690988 TTTAAGTTAAGGGTTTAGAGTTTTTAGGTTAAAGGTTTAGGGTTTTTAGTTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAG-TTAAGGGTTAGAGTT
* *
44691053 TTTAGGTTAAGGGTTTAAGGTTT
1 TTTAAGTTAAGGGTTTAGGGTTT
44691076 GTCAATTAAA
Statistics
Matches: 449, Mismatches: 67, Indels: 51
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.00
63 8 0.02
64 106 0.24
65 269 0.60
66 64 0.14
67 1 0.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (64 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAGTTAAGGGTTAGAGTT
Found at i:44691646 original size:18 final size:18
Alignment explanation
Indices: 44691620--44691662 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
44691610 GACTCGAAAA
* *
44691620 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
44691638 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
44691656 AGGAAAC
1 AGGAAAC
44691663 GCACATGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:44692497 original size:20 final size:20
Alignment explanation
Indices: 44692460--44692497 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44692450 TTTATTTTTA
*
44692460 AAAATCTACATAATAATTAT
1 AAAATCTACATAAAAATTAT
44692480 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
44692498 TACCTCGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTAT
Found at i:44693489 original size:51 final size:51
Alignment explanation
Indices: 44693434--44693531 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
44693424 AATTATTTAA
* *
44693434 AAATAGGGATTTAAGAGATATTTA-AGAGGAACTTGAGAGTAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
44693485 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
44693532 GAGGAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:44693529 original size:12 final size:11
Alignment explanation
Indices: 44693493--44693571 Score: 63
Period size: 12 Copynumber: 6.9 Consensus size: 11
44693483 ATAAATATGG
44693493 ATTTGAGAGAA
1 ATTTGAGAGAA
*
44693504 ATTTTGA-AGGA
1 A-TTTGAGAGAA
44693515 ATTTGAGAGCAA
1 ATTTGAGAG-AA
44693527 A-TTGAGAGGAA
1 ATTTGAGA-GAA
* *
44693538 ATTTAGAAAAAA
1 ATTT-GAGAGAA
*
44693550 AATTGAGAGGAA
1 ATTTGAGA-GAA
44693562 ATTTGAGAGA
1 ATTTGAGAGA
44693572 GGATTAGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
10 5 0.09
11 21 0.40
12 24 0.45
13 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.27, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:44694396 original size:28 final size:28
Alignment explanation
Indices: 44694365--44694432 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
44694355 CAAAAGGTTT
44694365 AAATTGTAAACCCAAACA-TAAAATCATA
1 AAATTGTAAACCCAAACACT-AAATCATA
* ** *
44694393 AAATTGTAAGCCTTAACACTAAATCTTA
1 AAATTGTAAACCCAAACACTAAATCATA
*
44694421 AAATTTTAAACC
1 AAATTGTAAACC
44694433 TTATTCAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (28 bp):
AAATTGTAAACCCAAACACTAAATCATA
Found at i:44694632 original size:4 final size:4
Alignment explanation
Indices: 44694625--44694655 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
44694615 AGGGAAGGTA
44694625 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
44694656 AGAAGATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:44699982 original size:33 final size:33
Alignment explanation
Indices: 44699940--44700005 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
44699930 GATGCAAAAT
44699940 GAGAAGTTAAAATGAAATTTTAAAAAGTGAAAC
1 GAGAAGTTAAAATGAAATTTTAAAAAGTGAAAC
44699973 GAGAAGTTAAAATGAAATTTTAAAAAGTGAAAC
1 GAGAAGTTAAAATGAAATTTTAAAAAGTGAAAC
44700006 TGTTATGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (33 bp):
GAGAAGTTAAAATGAAATTTTAAAAAGTGAAAC
Found at i:44700453 original size:39 final size:40
Alignment explanation
Indices: 44700391--44700479 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
44700381 TAAAAAGTAT
*
44700391 TTATATTAAAAACATTACCATAAATATAATAAAAGTTTTA
1 TTATATTAAAAACATTACAATAAATATAATAAAAGTTTTA
* *
44700431 TTATATTAAAAA-ATATA-AATAAATATACTAAATGTTTTA
1 TTATATTAAAAACAT-TACAATAAATATAATAAAAGTTTTA
**
44700470 TGGTATTAAA
1 TTATATTAAA
44700480 TATAATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 29 0.67
40 14 0.33
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (40 bp):
TTATATTAAAAACATTACAATAAATATAATAAAAGTTTTA
Found at i:44701110 original size:23 final size:23
Alignment explanation
Indices: 44701090--44701135 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
44701080 TTAAATTTTG
*
44701090 AATTATTTGGTGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
44701113 AATTATTTAGTGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
44701136 GAAAAATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAA
Found at i:44703400 original size:18 final size:17
Alignment explanation
Indices: 44703377--44703410 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44703367 ATCATTGTTA
44703377 TATTTAATAATTAAATTT
1 TATTTAA-AATTAAATTT
*
44703395 TATTTAAAATTTAATT
1 TATTTAAAATTAAATT
44703411 AGGTAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTAAAATTAAATTT
Found at i:44704992 original size:13 final size:14
Alignment explanation
Indices: 44704969--44704998 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
44704959 CTATTAAATG
44704969 AAAATATTTCCTTT
1 AAAATATTTCCTTT
44704983 AAAATA-TTCCTTT
1 AAAATATTTCCTTT
44704996 AAA
1 AAA
44704999 TATAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATATTTCCTTT
Found at i:44712689 original size:9 final size:9
Alignment explanation
Indices: 44712675--44712706 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
44712665 CTATTTGTAT
44712675 TTAAAATTA
1 TTAAAATTA
44712684 TTAAAATTA
1 TTAAAATTA
44712693 TTAAAATTA
1 TTAAAATTA
44712702 TTAAA
1 TTAAA
44712707 CAATTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAAAATTA
Found at i:44712714 original size:18 final size:17
Alignment explanation
Indices: 44712673--44712716 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
44712663 AACTATTTGT
44712673 ATTTAAAATTATTAAAA
1 ATTTAAAATTATTAAAA
*
44712690 TTATTAAAATTATTAAACA
1 AT-TTAAAATTATTAAA-A
44712709 ATTTAAAA
1 ATTTAAAA
44712717 GAAAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAAATTATTAAAA
Found at i:44728089 original size:21 final size:21
Alignment explanation
Indices: 44728065--44728123 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
44728055 GAAGTAACAC
44728065 TTGCTTTCCTTCTTTTCTCTT
1 TTGCTTTCCTTCTTTTCTCTT
*
44728086 TTGCATTCCTTCTTTTCTCTT
1 TTGCTTTCCTTCTTTTCTCTT
*
44728107 TTCCTTTCACTTTCTTT
1 TTGCTTTC-C-TTCTTT
44728124 GATACAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 26 0.79
22 1 0.03
23 6 0.18
ACGTcount: A:0.03, C:0.29, G:0.03, T:0.64
Consensus pattern (21 bp):
TTGCTTTCCTTCTTTTCTCTT
Found at i:44730925 original size:14 final size:15
Alignment explanation
Indices: 44730903--44730935 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44730893 ACTCATTACA
*
44730903 ACAAAAAATTTTGCT
1 ACAAAAATTTTTGCT
44730918 ACAAAAATTTTTGCT
1 ACAAAAATTTTTGCT
44730933 ACA
1 ACA
44730936 GACAGACTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (15 bp):
ACAAAAATTTTTGCT
Found at i:44731993 original size:25 final size:25
Alignment explanation
Indices: 44731965--44732022 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
44731955 GAGACTCACT
44731965 ACAAAGGCAACATACATAATACAAC
1 ACAAAGGCAACATACATAATACAAC
* *
44731990 ACAAAGTCAACATACATAATACACC
1 ACAAAGGCAACATACATAATACAAC
44732015 ACAAAGGC
1 ACAAAGGC
44732023 TTAGTAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.53, C:0.26, G:0.09, T:0.12
Consensus pattern (25 bp):
ACAAAGGCAACATACATAATACAAC
Found at i:44741883 original size:20 final size:20
Alignment explanation
Indices: 44741858--44741938 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
44741848 AAATATGTGT
44741858 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
*
44741878 AACAGAGGCA-TGATTA-TGCA
1 AACAGAGGCACCGA--AGTGCA
* *
44741898 ATCAGAGGCATCGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
* * *
44741918 AATAGAGACACCAAAGTGCA
1 AACAGAGGCACCGAAGTGCA
44741938 A
1 A
44741939 TCCCGTACAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.06
20 43 0.88
21 3 0.06
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:44742361 original size:47 final size:47
Alignment explanation
Indices: 44742292--44742383 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
44742282 TCAAAGTAAG
* *
44742292 CATTTAAAGAGACAATCTATAATTCTTGATCACCAAATATAGTTTAA
1 CATTTAAAGAGACAATATATAATTCCTGATCACCAAATATAGTTTAA
*
44742339 CATTTAATGAGACAATATATAATTCCTGATCACCAAATATAGTTT
1 CATTTAAAGAGACAATATATAATTCCTGATCACCAAATATAGTTT
44742384 CACCAATCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (47 bp):
CATTTAAAGAGACAATATATAATTCCTGATCACCAAATATAGTTTAA
Found at i:44754180 original size:12 final size:12
Alignment explanation
Indices: 44754163--44754193 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44754153 CCTCACTCGC
44754163 CCGTGTGCTAAG
1 CCGTGTGCTAAG
*
44754175 CCGTGTGCTAGG
1 CCGTGTGCTAAG
44754187 CCGTGTG
1 CCGTGTG
44754194 AAAACTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.26, G:0.39, T:0.26
Consensus pattern (12 bp):
CCGTGTGCTAAG
Found at i:44766525 original size:21 final size:21
Alignment explanation
Indices: 44766487--44766526 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44766477 TAAGTTTACC
**
44766487 TGCACCAAAACACTTTCAACT
1 TGCACCAAAACAAATTCAACT
44766508 TGCACCAAAACAAATTCAA
1 TGCACCAAAACAAATTCAA
44766527 ATATTCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.30, G:0.05, T:0.20
Consensus pattern (21 bp):
TGCACCAAAACAAATTCAACT
Found at i:44767651 original size:9 final size:9
Alignment explanation
Indices: 44767637--44767665 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
44767627 ATCTTATCAA
44767637 ATTAATTAT
1 ATTAATTAT
44767646 ATTAATTAT
1 ATTAATTAT
44767655 ATTAATTAT
1 ATTAATTAT
44767664 AT
1 AT
44767666 ATATTCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTAATTAT
Found at i:44768287 original size:2 final size:2
Alignment explanation
Indices: 44768280--44768311 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
44768270 CTTGCCAACT
*
44768280 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44768312 GCCTACTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44769782 original size:25 final size:25
Alignment explanation
Indices: 44769735--44769782 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
44769725 AGCAAAAGGA
*
44769735 CAAAGAGAAAAAGGTGAAGAAATAT
1 CAAAGAGAAAAAGGTGAAAAAATAT
*
44769760 CAAAGAGACAAA-GTGACAAAAAT
1 CAAAGAGAAAAAGGTGA-AAAAAT
44769783 CAATCAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.60, C:0.08, G:0.21, T:0.10
Consensus pattern (25 bp):
CAAAGAGAAAAAGGTGAAAAAATAT
Found at i:44781856 original size:16 final size:16
Alignment explanation
Indices: 44781835--44781865 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44781825 TATAATAAAT
*
44781835 TATAATTAATTTATAG
1 TATAATAAATTTATAG
44781851 TATAATAAATTTATA
1 TATAATAAATTTATA
44781866 AAAAAAGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TATAATAAATTTATAG
Found at i:44782385 original size:28 final size:26
Alignment explanation
Indices: 44782341--44782395 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
44782331 ACCCTTACAA
*
44782341 ATTTTATAACTTCTAATTTTGTGTTT
1 ATTTTATAACTTCTAATTCTGTGTTT
* *
44782367 ATTTTATCGAACTTTTAATTCTGTTTTT
1 ATTTTAT--AACTTCTAATTCTGTGTTT
44782395 A
1 A
44782396 ATGTGAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.29
28 17 0.71
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTTATAACTTCTAATTCTGTGTTT
Found at i:44792058 original size:194 final size:194
Alignment explanation
Indices: 44791729--44792112 Score: 606
Period size: 194 Copynumber: 2.0 Consensus size: 194
44791719 ACACTATGAA
* *
44791729 TGTCACAAGCGAATAAATTCATAAATGGATACAGGATTTATTCTACTTGGATCATGTCCAATGAA
1 TGTCACAAGCGAATAAATCCATAAATGGATACAAGATTTATTCTACTTGGATCATGTCCAATGAA
*
44791794 TTGACAGTCCAAAAAATCAGATCTATGTCTCTATCTAATAAGAGTCATCCAGTCCGAAACACGGT
66 TTGACAGTCCAAAAAATCACATCTATGTCTCTATCTAATAAGAGTCATCCAGTCCGAAACACGGT
* * ** *
44791859 AAAAGTTATCTCACCAATTGGACTTGATAGATGGCATAATAGTTTTTCAATCAATTTCCTTGAT
131 AAAAGTTATCTCACCAATTGGACTTGAGAAACAGCATAATAGTCTTTCAATCAATTTCCTTGAT
* * * *
44791923 TGTCACAAGCGAATAAATCCATAAATGGATACAAGATTTATTTTACTTGGGTCATGTTCAATGTA
1 TGTCACAAGCGAATAAATCCATAAATGGATACAAGATTTATTCTACTTGGATCATGTCCAATGAA
* * * ** *
44791988 TTGTCAGTCCAAACAATCACATCTATGTCTTTATCTTTTAAGAGTCATCTAGTCCGAAACACGGT
66 TTGACAGTCCAAAAAATCACATCTATGTCTCTATCTAATAAGAGTCATCCAGTCCGAAACACGGT
44792053 AAAAGTTATCTCACCAATTGGACTTGAGAAACAGCATAATAGTCTTTCAATCAATTTCCT
131 AAAAGTTATCTCACCAATTGGACTTGAGAAACAGCATAATAGTCTTTCAATCAATTTCCT
44792113 CAATTTTGAT
Statistics
Matches: 172, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
194 172 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (194 bp):
TGTCACAAGCGAATAAATCCATAAATGGATACAAGATTTATTCTACTTGGATCATGTCCAATGAA
TTGACAGTCCAAAAAATCACATCTATGTCTCTATCTAATAAGAGTCATCCAGTCCGAAACACGGT
AAAAGTTATCTCACCAATTGGACTTGAGAAACAGCATAATAGTCTTTCAATCAATTTCCTTGAT
Found at i:44795793 original size:27 final size:27
Alignment explanation
Indices: 44795755--44795843 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
44795745 AGAGGTCAAT
*
44795755 AAATGACTGAATTACCCCCACAGGGTA
1 AAATGACTGAATTACCCCCATAGGGTA
* *
44795782 AAATGACCGAATTACCCCCATAAGGTA
1 AAATGACTGAATTACCCCCATAGGGTA
*
44795809 AAATGACTAAATTACCCCCATAGGGTA
1 AAATGACTGAATTACCCCCATAGGGTA
44795836 AAATGACT
1 AAATGACT
44795844 ATTATACCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACTGAATTACCCCCATAGGGTA
Found at i:44795851 original size:27 final size:26
Alignment explanation
Indices: 44795767--44795853 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 26
44795757 ATGACTGAAT
* *
44795767 TACCCCCACAGGGTAAAATGACCGA-A
1 TACCCCCATAGGGTAAAATGA-CTATA
* *
44795793 TTACCCCCATAAGGTAAAATGACTAAA
1 -TACCCCCATAGGGTAAAATGACTATA
44795820 TTACCCCCATAGGGTAAAATGACTATTA
1 -TACCCCCATAGGGTAAAATGACTA-TA
44795848 TACCCC
1 TACCCC
44795854 TAGGAGATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 2 0.04
27 50 0.94
28 1 0.02
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (26 bp):
TACCCCCATAGGGTAAAATGACTATA
Found at i:44795857 original size:25 final size:26
Alignment explanation
Indices: 44795770--44795875 Score: 74
Period size: 27 Copynumber: 4.0 Consensus size: 26
44795760 ACTGAATTAC
* * *
44795770 CCCCACAGGGTAAAATGACCGAATTA-C
1 CCCCATAGGGTAAAATGA-C-TATTATA
* *
44795797 CCCCATAAGGTAAAATGACTAAATTA-C
1 CCCCATAGGGTAAAATGACT--ATTATA
44795824 CCCCATAGGGTAAAATGACTATTATA
1 CCCCATAGGGTAAAATGACTATTATA
* *
44795850 CCCC-TAGGAGATGAAATGACTGTTAT
1 CCCCATAGG-G-TAAAATGACTATTAT
44795876 GGCCTTATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
25 8 0.12
26 6 0.09
27 53 0.79
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (26 bp):
CCCCATAGGGTAAAATGACTATTATA
Found at i:44796248 original size:28 final size:27
Alignment explanation
Indices: 44796207--44796295 Score: 126
Period size: 28 Copynumber: 3.2 Consensus size: 27
44796197 ACTGTACCGA
44796207 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATT-GGCTAAGGCCCACATTGT
44796235 TACTGTATTAGGCTAAGGCCCACATTGT
1 TACTGTATT-GGCTAAGGCCCACATTGT
* *
44796263 TACTGTATTGGCCTAAGGCCTACACTG-
1 TACTGTATTGG-CTAAGGCCCACATTGT
44796290 TACTGT
1 TACTGT
44796296 TACTGAATGG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 8 0.14
28 49 0.86
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
TACTGTATTGGCTAAGGCCCACATTGT
Found at i:44801760 original size:5 final size:5
Alignment explanation
Indices: 44801750--44801785 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
44801740 TGTTAGGATA
*
44801750 TTATT TTATT TTATT TTATT TTTTT TTAATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TT-ATT TTATT
44801786 CTTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:44805676 original size:20 final size:20
Alignment explanation
Indices: 44805648--44805687 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
44805638 GTTGACTATT
*
44805648 AATT-TTTTTAATTATTTTAA
1 AATTATTTTGAATT-TTTTAA
44805668 AATTATTTTGAATTTTTTAA
1 AATTATTTTGAATTTTTTAA
44805688 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
AATTATTTTGAATTTTTTAA
Found at i:44806025 original size:16 final size:16
Alignment explanation
Indices: 44806006--44806046 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
44805996 TAATTTTTCA
44806006 AAAATTATAAAGAT-AT
1 AAAATTATAAA-ATGAT
44806022 AAAA-TATTAAAATGAT
1 AAAATTA-TAAAATGAT
44806038 AAAATTATA
1 AAAATTATA
44806047 TTTTAACTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.18
16 16 0.73
17 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAATTATAAAATGAT
Found at i:44808641 original size:3 final size:3
Alignment explanation
Indices: 44808633--44808659 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
44808623 CGAAAATCTT
44808633 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
44808660 GTTGCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44809681 original size:2 final size:2
Alignment explanation
Indices: 44809674--44809701 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44809664 AGGGGTCGTT
44809674 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44809702 CCCATGAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44813210 original size:23 final size:22
Alignment explanation
Indices: 44813184--44813234 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
44813174 TGTATAAAAT
44813184 TATAAAATA-TTAAAATAATATAA
1 TATAAAATATTTAAAA-AA-ATAA
44813207 TAT-AAATATTTAAAAAAATAA
1 TATAAAATATTTAAAAAAATAA
*
44813228 TAAAAAA
1 TATAAAA
44813235 ACATATAGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
TATAAAATATTTAAAAAAATAA
Found at i:44817645 original size:13 final size:13
Alignment explanation
Indices: 44817604--44817658 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
44817594 TGCTTTTGAG
*
44817604 AGTGTTTTTGAAA
1 AGTGATTTTGAAA
*
44817617 AATG-TTTTAGAAA
1 AGTGATTTT-GAAA
*
44817630 AGTGATTTTGAGA
1 AGTGATTTTGAAA
44817643 AGT-ACTTTTGAAA
1 AGTGA-TTTTGAAA
44817656 AGT
1 AGT
44817659 TTGGTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 5 0.14
13 26 0.74
14 4 0.11
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (13 bp):
AGTGATTTTGAAA
Found at i:44817934 original size:9 final size:9
Alignment explanation
Indices: 44817922--44817964 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
44817912 TATATAAATT
44817922 ATATTTTAA
1 ATATTTTAA
44817931 ATATTTTAA
1 ATATTTTAA
*
44817940 TATAAGTATTAA
1 -AT-A-TTTTAA
44817952 ATATTTTAA
1 ATATTTTAA
44817961 ATAT
1 ATAT
44817965 AACTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 18 0.62
10 3 0.10
11 3 0.10
12 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
ATATTTTAA
Found at i:44817952 original size:21 final size:22
Alignment explanation
Indices: 44817927--44817972 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
44817917 AAATTATATT
*
44817927 TTAAATATTTT-AATATAAGTA
1 TTAAATATTTTAAATATAACTA
44817948 TTAAATATTTTAAATATAACTA
1 TTAAATATTTTAAATATAACTA
44817970 TTA
1 TTA
44817973 TTTTAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAAATATTTTAAATATAACTA
Found at i:44820650 original size:18 final size:19
Alignment explanation
Indices: 44820600--44820653 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
44820590 TGATGAACAC
*
44820600 ATAAATAAATAAATAAAAG
1 ATAAAAAAATAAATAAAAG
*
44820619 ATAAAAAAAT-AATAACA-
1 ATAAAAAAATAAATAAAAG
*
44820636 ATACAAAAATAAATAAAA
1 ATAAAAAAATAAATAAAA
44820654 TTATAAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 9 0.30
18 12 0.40
19 9 0.30
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.19
Consensus pattern (19 bp):
ATAAAAAAATAAATAAAAG
Found at i:44820661 original size:18 final size:17
Alignment explanation
Indices: 44820606--44820666 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
44820596 ACACATAAAT
*
44820606 AAATAAATAAAAGATAA
1 AAATAAATAAAATATAA
* *
44820623 AAAAATAATAACAATACAA
1 AAATA-AATAA-AATATAA
44820642 AAATAAATAAAATTATAA
1 AAATAAATAAAA-TATAA
*
44820660 AAGTAAA
1 AAATAAA
44820667 AATCTATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 6 0.17
18 20 0.57
19 9 0.26
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAATAAAATATAA
Found at i:44820928 original size:3 final size:3
Alignment explanation
Indices: 44820863--44820910 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
44820853 TAATGGAGAT
* * *
44820863 ATA ATG ATA ATA ACA ATA AT- ATGA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
44820908 ATA
1 ATA
44820911 TATTAGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:44824237 original size:3 final size:3
Alignment explanation
Indices: 44824229--44824320 Score: 150
Period size: 3 Copynumber: 30.7 Consensus size: 3
44824219 AAGTAAATCT
44824229 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
44824277 GAA GGA GAA GAA TG-A GAA GAA GGA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
44824321 CATTAGTACT
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.01
3 81 0.98
4 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:44827222 original size:6 final size:6
Alignment explanation
Indices: 44827207--44827255 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
44827197 TTAGAGATAA
*
44827207 AAAAAT AAAAAG AAAAAG -AAAAG AAAAAAG AAAAAG AAGAAA- AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AA-AAAG AAAAAG
44827255 A
1 A
44827256 GGTATAAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 8 0.21
6 22 0.58
7 8 0.21
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:44827234 original size:18 final size:18
Alignment explanation
Indices: 44827213--44827255 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
44827203 ATAAAAAAAT
44827213 AAAAAGAAAAAGAA-AAGA
1 AAAAAGAAAAAGAAGAA-A
44827231 AAAAAGAAAAAGAAGAAA
1 AAAAAGAAAAAGAAGAAA
44827249 AAAAAGA
1 AAAAAGA
44827256 GGTATAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAGAAA
Found at i:44828031 original size:46 final size:46
Alignment explanation
Indices: 44827974--44828066 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
44827964 TTTTAATTAA
*
44827974 TAACTCTTTTATTTATAAAATCAAATAATAAATATGTAATTATTTT
1 TAACACTTTTATTTATAAAATCAAATAATAAATATGTAATTATTTT
44828020 TAACACTTTTATTTATAAAATCAAATAATAAATATGTAATTATTTT
1 TAACACTTTTATTTATAAAATCAAATAATAAATATGTAATTATTTT
44828066 T
1 T
44828067 CTTTATATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (46 bp):
TAACACTTTTATTTATAAAATCAAATAATAAATATGTAATTATTTT
Found at i:44835943 original size:20 final size:18
Alignment explanation
Indices: 44835893--44835944 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
44835883 CTACAAGATA
44835893 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
44835910 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
44835930 AATATTAAATTAATA
1 AATATTAAATTAATA
44835945 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:44837557 original size:7 final size:7
Alignment explanation
Indices: 44837545--44837572 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
44837535 AAACATAATA
44837545 GTGAAAT
1 GTGAAAT
44837552 GTGAAAT
1 GTGAAAT
44837559 GTGAAAT
1 GTGAAAT
44837566 GTGAAAT
1 GTGAAAT
44837573 TAACTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
GTGAAAT
Found at i:44841685 original size:15 final size:14
Alignment explanation
Indices: 44841665--44841714 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
44841655 AAATTGTTGC
44841665 TTTTCCTTGCTTTTT
1 TTTTCCTTG-TTTTT
*
44841680 TTTTCCTTTTTTTT
1 TTTTCCTTGTTTTT
*
44841694 TATTTTCTTGTTATTT
1 T-TTTCCTTGTT-TTT
44841710 TTTTC
1 TTTTC
44841715 ACTATTTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 6 0.21
15 19 0.66
16 4 0.14
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (14 bp):
TTTTCCTTGTTTTT
Found at i:44845813 original size:43 final size:43
Alignment explanation
Indices: 44845752--44845839 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
44845742 AGAAGATGTG
44845752 TTGATTTATTTGTCTTTAGAGGAAGACCTTTGACAGATTAAGC
1 TTGATTTATTTGTCTTTAGAGGAAGACCTTTGACAGATTAAGC
**
44845795 TTGATTTATTTGTCTTTAGAGGAAGACCTTTGACATTTTAAGC
1 TTGATTTATTTGTCTTTAGAGGAAGACCTTTGACAGATTAAGC
44845838 TT
1 TT
44845840 ACCCGCAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (43 bp):
TTGATTTATTTGTCTTTAGAGGAAGACCTTTGACAGATTAAGC
Found at i:44850062 original size:12 final size:12
Alignment explanation
Indices: 44850045--44850074 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44850035 TGGCTTCAAT
44850045 GATGTTCTTCGA
1 GATGTTCTTCGA
44850057 GATGTTCTTCGA
1 GATGTTCTTCGA
*
44850069 GTTGTT
1 GATGTT
44850075 TTCTTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (12 bp):
GATGTTCTTCGA
Found at i:44851637 original size:14 final size:15
Alignment explanation
Indices: 44851612--44851640 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44851602 CCACACAACT
44851612 TAAAAGACATAAATA
1 TAAAAGACATAAATA
44851627 TAAAA-ACATAAATA
1 TAAAAGACATAAATA
44851641 ATTATTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (15 bp):
TAAAAGACATAAATA
Found at i:44852713 original size:42 final size:43
Alignment explanation
Indices: 44852601--44852766 Score: 126
Period size: 43 Copynumber: 3.9 Consensus size: 43
44852591 AAAGCTCGTA
* * * * *
44852601 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAA--TCAAAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAAT
* * * *
44852642 AACGATGCCACTGTCCCAAACA-GGATCTTACACGAAAT-T-ATAT
1 --CAATGCCAATGTCCCAGACATGG-TCTTACACGAAATCTCAAAT
** * *
44852685 ACGCTGCCAATGTTCCAGACATGTTCTTACACGTAAATCTCAAAT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACG-AAATCTCAAAT
*
44852730 CAATGCCAATGTCCCAGACGTGGTCTTACACGAAATC
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATC
44852767 ATGTATCGGA
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 28 0.29
43 37 0.38
44 29 0.30
45 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAAT
Found at i:44855074 original size:27 final size:30
Alignment explanation
Indices: 44855036--44855099 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 30
44855026 TAAAACAACC
* *
44855036 AATAAAATAATAAAATAAA-AAGT-TCA-A
1 AATAAAAAAATAAAACAAAGAAGTCTCACA
44855063 AATAAAAAAATAAAACAAAGAAGTCTCACA
1 AATAAAAAAATAAAACAAAGAAGTCTCACA
44855093 AATAAAA
1 AATAAAA
44855100 TAAAAATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 17 0.53
28 4 0.12
29 3 0.09
30 8 0.25
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.17
Consensus pattern (30 bp):
AATAAAAAAATAAAACAAAGAAGTCTCACA
Found at i:44864922 original size:45 final size:46
Alignment explanation
Indices: 44864881--44865036 Score: 203
Period size: 45 Copynumber: 3.5 Consensus size: 46
44864871 AAATGATGTT
* ** *
44864881 ATAGTTTCTTTCAACTACAGTCTTATTTATTTCT-GACATGATGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGACATGATGCC
* *
44864926 ATAGTGTCTTTCAACTATGGTCTTATTCATTT-TCGTCATGTTGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGACATGATGCC
44864971 ATAGTGTCTTTCAACTATGGTCTTATTCATTTC-C-ATCATGATGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGA-CATGATGCC
**
44865016 ATAACGTCTTTCAACTATGGT
1 ATAGTGTCTTTCAACTATGGT
44865037 TTTACTCGTG
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.01
45 97 0.99
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (46 bp):
ATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGACATGATGCC
Found at i:44894588 original size:19 final size:19
Alignment explanation
Indices: 44894564--44894604 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
44894554 TATTTAGTAA
44894564 AAACTCAATTTAAAAATAT
1 AAACTCAATTTAAAAATAT
44894583 AAACTCAATTTAAAAATAT
1 AAACTCAATTTAAAAATAT
44894602 AAA
1 AAA
44894605 AAATCTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAACTCAATTTAAAAATAT
Found at i:44895052 original size:56 final size:55
Alignment explanation
Indices: 44894985--44895093 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 55
44894975 TGTATCCATT
*
44894985 AGATGATAAATCATCACTTTTAATTTGAAT-GATGCTTATGAATAATTAAATTTGTA
1 AGATGATAAATCATCACTTTTAATTTGAATAG-TGCTCATGAATAATT-AATTTGTA
44895041 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
44895094 CAATCTATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
55 6 0.12
56 44 0.86
57 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (55 bp):
AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTA
Found at i:44897337 original size:56 final size:55
Alignment explanation
Indices: 44897266--44897372 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 55
44897256 TATCCATTGG
* *
44897266 ATGATAAATCGTCACTTTTAATTTGAATAATCCTTATGAATAATTAAATTTGTAAA
1 ATGATAAATCATCACTTTTAATTTGAATAATCCTCATGAATAATT-AATTTGTAAA
* *
44897322 ATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 ATGATAAATCATCACTTTTAATTTGAATAATCCTCATGAATAATTAATTTG
44897373 CAATCTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 6 0.13
56 41 0.87
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.41
Consensus pattern (55 bp):
ATGATAAATCATCACTTTTAATTTGAATAATCCTCATGAATAATTAATTTGTAAA
Found at i:44899974 original size:16 final size:16
Alignment explanation
Indices: 44899953--44899984 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44899943 TAATACTTCA
44899953 CAATAAAATTGGCTTG
1 CAATAAAATTGGCTTG
44899969 CAATAAAATTGGCTTG
1 CAATAAAATTGGCTTG
44899985 TATATGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
CAATAAAATTGGCTTG
Found at i:44901052 original size:13 final size:13
Alignment explanation
Indices: 44901034--44901067 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
44901024 GAGCATGCAT
44901034 AAAACATATCTTG
1 AAAACATATCTTG
44901047 AAAACATATCTTG
1 AAAACATATCTTG
*
44901060 AAAGCATA
1 AAAACATA
44901068 GTATTAGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAACATATCTTG
Found at i:44902907 original size:15 final size:15
Alignment explanation
Indices: 44902889--44902919 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44902879 TGGTTTAAAT
44902889 TTATATATTATCATC
1 TTATATATTATCATC
*
44902904 TTATATATTATTATC
1 TTATATATTATCATC
44902919 T
1 T
44902920 ATGTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:44903870 original size:107 final size:107
Alignment explanation
Indices: 44903679--44904085 Score: 629
Period size: 107 Copynumber: 3.8 Consensus size: 107
44903669 TTTTCTAAAC
*
44903679 AAGGCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
* *
44903744 ATTCGACCAAATAGTCAAATATCCTTTTTAAACTTTTAAAAT
66 GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAAT
*
44903786 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
44903851 GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAAT
66 GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAAT
* * * *
44903893 AAGGCAATATTTCGCGTTTGGAAAATCGAGCAAACGTACCCTAACGTGTTGGGTTTCGACTTCTC
1 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
* * *
44903958 GTTTGACCAAATAGCCAAATATCC-TTTTAAACTTTCAAAGT
66 GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAAT
* * * * * * *
44903999 AAGGCAATATTT-GCGTTTGGAAATTTGAGAGAATGTGTCCTAACGTGCTGGGTCTCAATTTCTC
1 AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
*
44904063 GTTTGACCAAATAGCCAAATATC
66 GTTCGACCAAATAGCCAAATATC
44904086 TTCTTAACTT
Statistics
Matches: 277, Mismatches: 23, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
105 64 0.23
106 27 0.10
107 186 0.67
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (107 bp):
AAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAAT
Done.