Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 152 of 325
Found at i:48632661 original size:27 final size:27
Alignment explanation
Indices: 48632181--48632644 Score: 517
Period size: 27 Copynumber: 17.2 Consensus size: 27
48632171 GTAATTTCAC
* *
48632181 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48632208 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48632235 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
48632262 AATCAAAGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48632289 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48632316 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
48632343 AA-CTGAGGGTAAAACAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
48632370 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
48632397 AA-CTGAGGGTAAAACAGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
48632424 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48632451 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48632478 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * *
48632505 AATTGAGGGTAATATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48632532 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** * **
48632559 AATCGAGGGTAATATAGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48632586 AATCGAGAGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48632613 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48632640 AATCG
1 AATCG
48632645 GGAGTACTTT
Statistics
Matches: 369, Mismatches: 58, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.01
27 363 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:48638105 original size:41 final size:40
Alignment explanation
Indices: 48638004--48638149 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 40
48637994 CGATGACAAA
* * * * *
48638004 TCAGCTATATGTGGCACTTAGTGTGCGATTCGACATAGTT
1 TCAGCTATATATAGCACTTAGTGTGCGAATCGAGATAGCT
* * *
48638044 TCGGCTATATATGGCGCTTAGTGTGCGAGATCGAGATAGCT
1 TCAGCTATATATAGCACTTAGTGTGCGA-ATCGAGATAGCT
* * * **
48638085 TCAACTATATATAGCACTTAGTGTGTGATTTAAGATAGCT
1 TCAGCTATATATAGCACTTAGTGTGCGAATCGAGATAGCT
* * *
48638125 TCAGCTATGTACAGCACTTAATGTG
1 TCAGCTATATATAGCACTTAGTGTG
48638150 TGAGATATCG
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 55 0.63
41 32 0.37
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (40 bp):
TCAGCTATATATAGCACTTAGTGTGCGAATCGAGATAGCT
Found at i:48638782 original size:42 final size:42
Alignment explanation
Indices: 48638727--48638812 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
48638717 GATTTATGGA
* *
48638727 GTATAAATTCTTGAGAAATGCCTTGATGAGGTATGATTTTAG
1 GTATAAATGCTTGAGAAATGCCTTGATAAGGTATGATTTTAG
48638769 GTATAAATGCTTGAGAAATGCCTTGATAAGGTATGATTTTAG
1 GTATAAATGCTTGAGAAATGCCTTGATAAGGTATGATTTTAG
48638811 GT
1 GT
48638813 GTTATGTGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (42 bp):
GTATAAATGCTTGAGAAATGCCTTGATAAGGTATGATTTTAG
Found at i:48649857 original size:13 final size:13
Alignment explanation
Indices: 48649839--48649864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48649829 CAGTAATCGT
48649839 ACATGGGCGTGTC
1 ACATGGGCGTGTC
48649852 ACATGGGCGTGTC
1 ACATGGGCGTGTC
48649865 CCTGTCGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
ACATGGGCGTGTC
Found at i:48651725 original size:22 final size:22
Alignment explanation
Indices: 48651663--48651731 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
48651653 AGAGGACAGT
* * *
48651663 TTTCAATTCTGGTTTGGGCCGG
1 TTTCATTTCTGGTTTAGGCTGG
* **
48651685 TTTC-TTTTTCATTTCAGGCTGG
1 TTTCATTTCTGGTTT-AGGCTGG
*
48651707 TTTCATTTCTGGTTTAGGCTAG
1 TTTCATTTCTGGTTTAGGCTGG
48651729 TTT
1 TTT
48651732 TTTTTGGAAC
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
21 6 0.17
22 22 0.63
23 7 0.20
ACGTcount: A:0.10, C:0.16, G:0.23, T:0.51
Consensus pattern (22 bp):
TTTCATTTCTGGTTTAGGCTGG
Found at i:48653730 original size:19 final size:18
Alignment explanation
Indices: 48653687--48653730 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
48653677 TATTTTGTAC
48653687 AATATTTTTCTATACAAA
1 AATATTTTTCTATACAAA
48653705 AATATTTTTCTATACAAA
1 AATATTTTTCTATACAAA
48653723 AATCATTT
1 AAT-ATTT
48653731 CCCTTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (18 bp):
AATATTTTTCTATACAAA
Found at i:48654074 original size:59 final size:60
Alignment explanation
Indices: 48653980--48654121 Score: 162
Period size: 59 Copynumber: 2.4 Consensus size: 60
48653970 TTGGGGCTTA
* * * * * ** *
48653980 AACTTAGTAATTCTTTTCACATTGTGGTTTGAACTTTTTTTTGG-CCAAGTTAAGTCTTG
1 AACTTAGTAATTATTCTCACATTGTGGCTTAAACTTTTTTTTGGTCCAAATTAAACCCTG
*
48654039 AACTTAGTAATTATTCTCACATTG-GAGCTTAAACTTTTTTTTGGTCTAAATTAAACCCTG
1 AACTTAGTAATTATTCTCACATTGTG-GCTTAAACTTTTTTTTGGTCCAAATTAAACCCTG
**
48654099 AGTTTAGTAATTATTCTCACATT
1 AACTTAGTAATTATTCTCACATT
48654122 AAGACCTAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 1 0.01
59 38 0.54
60 31 0.44
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (60 bp):
AACTTAGTAATTATTCTCACATTGTGGCTTAAACTTTTTTTTGGTCCAAATTAAACCCTG
Found at i:48658993 original size:21 final size:21
Alignment explanation
Indices: 48658969--48659032 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
48658959 ATGATTTCAA
* *
48658969 TCTCAATTATTGTTTTAGGTG
1 TCTCAAATATTGTTATAGGTG
* *
48658990 TCTCAAATGTTGTTATAGGTA
1 TCTCAAATATTGTTATAGGTG
* * * *
48659011 TTTTAAATGTAGTTATAGGTG
1 TCTCAAATATTGTTATAGGTG
48659032 T
1 T
48659033 ATAATAACCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.48
Consensus pattern (21 bp):
TCTCAAATATTGTTATAGGTG
Found at i:48663148 original size:17 final size:17
Alignment explanation
Indices: 48663123--48663186 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
48663113 AAGATTTAAT
48663123 ATAAT-TAAATAATACA
1 ATAATATAAATAATACA
*
48663139 ATAATATAAATAGTACA
1 ATAATATAAATAATACA
* *
48663156 A-AATGTGAAATTTAATTCA
1 ATAATAT-AAA--TAATACA
48663175 ATAATATAAATA
1 ATAATATAAATA
48663187 GTAGATATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
16 9 0.24
17 16 0.42
19 9 0.24
20 4 0.11
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (17 bp):
ATAATATAAATAATACA
Found at i:48663564 original size:11 final size:12
Alignment explanation
Indices: 48663542--48663574 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
48663532 CGGCCCTCCC
48663542 ATATTAATTTTT
1 ATATTAATTTTT
48663554 ATATT-ATTTTT
1 ATATTAATTTTT
*
48663565 ATATAAATTT
1 ATATTAATTT
48663575 AAAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:48663599 original size:18 final size:18
Alignment explanation
Indices: 48663576--48663615 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
48663566 TATAAATTTA
*
48663576 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
48663594 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
48663612 AAAA
1 AAAA
48663616 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:48663733 original size:30 final size:30
Alignment explanation
Indices: 48663699--48663757 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
48663689 CTTAACAAAC
48663699 AAATATCTCTAAAATAATAACAAAATTAAA
1 AAATATCTCTAAAATAATAACAAAATTAAA
*
48663729 AAATATCTTTAAAATAATAACAAAATTAA
1 AAATATCTCTAAAATAATAACAAAATTAA
48663758 CAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAA
Found at i:48664581 original size:17 final size:16
Alignment explanation
Indices: 48664554--48664609 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 16
48664544 TAGTTTTACA
48664554 TAATATTTTATATAATAT
1 TAATATTTTATA-AA-AT
48664572 TAAT-TTTTATAAAAT
1 TAATATTTTATAAAAT
48664587 TAATA--TTATAAAAT
1 TAATATTTTATAAAAT
*
48664601 TAAAATTTT
1 TAATATTTT
48664610 GTAATTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 13 0.38
15 6 0.18
16 4 0.12
17 7 0.21
18 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATTTTATAAAAT
Found at i:48665857 original size:22 final size:22
Alignment explanation
Indices: 48665831--48665903 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
48665821 CTATATCTCA
48665831 AGACAAACAGACACATGTCTTG
1 AGACAAACAGACACATGTCTTG
** * **
48665853 AGACATTGGGCAGAC-TATGTCTCA
1 AGACA---AACAGACACATGTCTTG
48665877 AGACAAACAGACACATGTCTTG
1 AGACAAACAGACACATGTCTTG
48665899 AGACA
1 AGACA
48665904 TTGGGCCATT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
21 5 0.14
22 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (22 bp):
AGACAAACAGACACATGTCTTG
Found at i:48665882 original size:46 final size:46
Alignment explanation
Indices: 48665815--48665909 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
48665805 TATAGCCGTT
48665815 GGCAGACTATATCTCAAGACAAACAGACACATGTCTTGAGACATTG
1 GGCAGACTATATCTCAAGACAAACAGACACATGTCTTGAGACATTG
*
48665861 GGCAGACTATGTCTCAAGACAAACAGACACATGTCTTGAGACATTG
1 GGCAGACTATATCTCAAGACAAACAGACACATGTCTTGAGACATTG
48665907 GGC
1 GGC
48665910 CATTGTCTCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (46 bp):
GGCAGACTATATCTCAAGACAAACAGACACATGTCTTGAGACATTG
Found at i:48666540 original size:15 final size:16
Alignment explanation
Indices: 48666514--48666543 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48666504 TGACATTATG
48666514 AAAATCACGTATTTAC
1 AAAATCACGTATTTAC
48666530 AAAAT-ACGTATTTA
1 AAAATCACGTATTTA
48666544 GAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (16 bp):
AAAATCACGTATTTAC
Found at i:48666626 original size:18 final size:18
Alignment explanation
Indices: 48666591--48666629 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48666581 TAATCACACA
48666591 TATTTTGTAGAAACCACG
1 TATTTTGTAGAAACCACG
*
48666609 TATTTATGTA-AAATCACG
1 TATTT-TGTAGAAACCACG
48666627 TAT
1 TAT
48666630 GTATATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (18 bp):
TATTTTGTAGAAACCACG
Found at i:48673716 original size:40 final size:40
Alignment explanation
Indices: 48673668--48673778 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
48673658 GGACTAAGAT
* *
48673668 CCGAAGGCATTTGTACTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
48673708 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
48673748 CCGAAGGCATTTGTGCGAGTTGCTATATCCG
1 CCGAAGGCATTTGTGCGAGTTACTATATCCG
48673779 TCTAAATCCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:48676231 original size:46 final size:47
Alignment explanation
Indices: 48676173--48676353 Score: 154
Period size: 46 Copynumber: 3.9 Consensus size: 47
48676163 GCTTAACATT
**
48676173 CCTGTATTCTCGAGTCTACAACATATGCAGGAGCTTGGAAA-CTAAA
1 CCTGTATTCTCGAGTCTACAACATATGCAGGAGCTTCAAAACCTAAA
* ** * * **
48676219 CCTGTATGCTCGAGTCCGCAACATATGTAAGAGC-TCAAAACCTATT
1 CCTGTATTCTCGAGTCTACAACATATGCAGGAGCTTCAAAACCTAAA
** * * **
48676265 CCCATATTCTCGAGTTTACAACATATGCAGGAGC-TCAGAACCTATT
1 CCTGTATTCTCGAGTCTACAACATATGCAGGAGCTTCAAAACCTAAA
* * * **
48676311 CATGTATTCTTGAGTCTGCAACATATGCAAAAGC-TCAAAACCT
1 CCTGTATTCTCGAGTCTACAACATATGCAGGAGCTTCAAAACCT
48676354 GGGCAAAACT
Statistics
Matches: 107, Mismatches: 27, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
45 4 0.04
46 103 0.96
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (47 bp):
CCTGTATTCTCGAGTCTACAACATATGCAGGAGCTTCAAAACCTAAA
Found at i:48676332 original size:92 final size:92
Alignment explanation
Indices: 48676177--48676353 Score: 246
Period size: 92 Copynumber: 1.9 Consensus size: 92
48676167 AACATTCCTG
** *
48676177 TATTCTCGAGTCTACAACATATGCAGGAGCTTGGAAACTAAACCTGTATGCTCGAGTCCGCAACA
1 TATTCTCGAGTCTACAACATATGCAGGAGCTCAGAAACTAAACATGTATGCTCGAGTCCGCAACA
* *
48676242 TATGTAAGAGCTCAAAACCTATTCCCA
66 TATGCAAAAGCTCAAAACCTATTCCCA
* * ** * * *
48676269 TATTCTCGAGTTTACAACATATGCAGGAGCTCAGAACCTATTCATGTATTCTTGAGTCTGCAACA
1 TATTCTCGAGTCTACAACATATGCAGGAGCTCAGAAACTAAACATGTATGCTCGAGTCCGCAACA
48676334 TATGCAAAAGCTCAAAACCT
66 TATGCAAAAGCTCAAAACCT
48676354 GGGCAAAACT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (92 bp):
TATTCTCGAGTCTACAACATATGCAGGAGCTCAGAAACTAAACATGTATGCTCGAGTCCGCAACA
TATGCAAAAGCTCAAAACCTATTCCCA
Found at i:48681838 original size:39 final size:39
Alignment explanation
Indices: 48681783--48682002 Score: 248
Period size: 39 Copynumber: 5.6 Consensus size: 39
48681773 ATGATATTTG
* * *
48681783 AGAATTATATCCGGACTAAAAG-CCTGCAGGCTATACGCG
1 AGAATTATATCCGGACTTAAAGTCC-GCAGGCTATATGCA
* *
48681822 GGAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCA
1 AGAATTATATCCGGACTTAAAGTCCGCAGGCTATATGCA
* * *
48681861 AGAATTATATCCGGACTTAAAGTCCGTAAGCTATATGCG
1 AGAATTATATCCGGACTTAAAGTCCGCAGGCTATATGCA
*
48681900 AGAATTATATTCGGACTTAAAGTCCGCAGGCTATATGCA
1 AGAATTATATCCGGACTTAAAGTCCGCAGGCTATATGCA
* * ** *
48681939 GGAATTATATCCGGACTT-AAGATCCGTAGGCTACGTGCTG
1 AGAATTATATCCGGACTTAAAG-TCCGCAGGCTATATGC-A
* *
48681979 GGAA-TATATCCGGGCTTAAAGTCC
1 AGAATTATATCCGGACTTAAAGTCC
48682003 CGAAGGCTTT
Statistics
Matches: 158, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
38 3 0.02
39 146 0.92
40 9 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (39 bp):
AGAATTATATCCGGACTTAAAGTCCGCAGGCTATATGCA
Found at i:48681915 original size:78 final size:78
Alignment explanation
Indices: 48681783--48682002 Score: 293
Period size: 78 Copynumber: 2.8 Consensus size: 78
48681773 ATGATATTTG
* * *
48681783 AGAATTATATCCGGACTAAAAG-CCTGCAGGCTATACGCGGGAATTATATCCGGACTTAAAGTCC
1 AGAATTATATCCGGACTTAAAGTCC-GTAGGCTATATGCGGGAATTATATCCGGACTTAAAGTCC
*
48681847 GTAGGCTATATGCA
65 GCAGGCTATATGCA
* * *
48681861 AGAATTATATCCGGACTTAAAGTCCGTAAGCTATATGCGAGAATTATATTCGGACTTAAAGTCCG
1 AGAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGGGAATTATATCCGGACTTAAAGTCCG
48681926 CAGGCTATATGCA
66 CAGGCTATATGCA
* ** *
48681939 GGAATTATATCCGGACTT-AAGATCCGTAGGCTACGTGCTGGGAA-TATATCCGGGCTTAAAGTC
1 AGAATTATATCCGGACTTAAAG-TCCGTAGGCTATATGC-GGGAATTATATCCGGACTTAAAGTC
48682002 C
64 C
48682003 CGAAGGCTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
77 3 0.02
78 116 0.93
79 6 0.05
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (78 bp):
AGAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGGGAATTATATCCGGACTTAAAGTCCG
CAGGCTATATGCA
Found at i:48681988 original size:117 final size:117
Alignment explanation
Indices: 48681782--48682002 Score: 313
Period size: 117 Copynumber: 1.9 Consensus size: 117
48681772 CATGATATTT
*
48681782 GAGAATTATATCCGGACTAAAAGCCTGCAGGCTATACGCGGGAATTATATCCGGACTTAAAGTCC
1 GAGAATTATATCCGGACTAAAAGCCTGCAGGCTATACGCAGGAATTATATCCGGACTTAAAGTCC
*
48681847 GTAGGCTATATGCAAGAATTATATCCGGACTTAAAGTCCGTAAGCTATATGC
66 GTAGGCTACATGCAAGAATTATATCCGGACTTAAAGTCCGTAAGCTATATGC
* * *
48681899 GAGAATTATATTCGGACTTAAAGTCC-GCAGGCTATATGCAGGAATTATATCCGGACTT-AAGAT
1 GAGAATTATATCCGGACTAAAAG-CCTGCAGGCTATACGCAGGAATTATATCCGGACTTAAAG-T
* ** *
48681962 CCGTAGGCTACGTGCTGGGAA-TATATCCGGGCTTAAAGTCC
64 CCGTAGGCTACATGC-AAGAATTATATCCGGACTTAAAGTCC
48682003 CGAAGGCTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
116 3 0.03
117 84 0.91
118 5 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (117 bp):
GAGAATTATATCCGGACTAAAAGCCTGCAGGCTATACGCAGGAATTATATCCGGACTTAAAGTCC
GTAGGCTACATGCAAGAATTATATCCGGACTTAAAGTCCGTAAGCTATATGC
Found at i:48684278 original size:48 final size:48
Alignment explanation
Indices: 48684145--48684280 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 48
48684135 CATTAGGGTT
* * *
48684145 ATATGAGATCCAATGTAAGACCATGTCTGGGACATGGCATTGGTATTG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * *
48684193 ATGTGAGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * **** *
48684241 ATATGTGGTTTTGTGTAAGACCATGTCTAGGACATGGCAT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
48684281 CAATATGAGA
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:48686701 original size:29 final size:29
Alignment explanation
Indices: 48686659--48686741 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
48686649 ACGTGGCTTG
*
48686659 GAAT-TGATTCGGGCC-AGATAGGCCATAT
1 GAATGTGATTTGGGCCTA-ATAGGCCATAT
*
48686687 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATAGGCCATAT
* * *
48686716 GAATGAGA-TTGGGCCTAGTGGGCCAT
1 GAATGTGATTTGGGCCTAATAGGCCAT
48686742 GTACATGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.43
29 27 0.55
30 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATAGGCCATAT
Found at i:48686737 original size:28 final size:29
Alignment explanation
Indices: 48686679--48686741 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
48686669 GGGCCAGATA
*
48686679 GGCCATATGAATGTGATTTGGGCCTAATG
1 GGCCATATGAATGAGATTTGGGCCTAATG
*
48686708 GGCCATATGAATGAGA-TTGGGCCTAGTG
1 GGCCATATGAATGAGATTTGGGCCTAATG
48686736 GGCCAT
1 GGCCAT
48686742 GTACATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (29 bp):
GGCCATATGAATGAGATTTGGGCCTAATG
Found at i:48687073 original size:27 final size:27
Alignment explanation
Indices: 48687043--48687137 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
48687033 GTAATAAAGG
48687043 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-AATTTGT
** *
48687070 AAAATTACTGAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
* * * *
48687097 ACAATTATCAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
*
48687124 AAAATTACCGAAAT
1 AAAATTACCAAAAT
48687138 GCCCCTAAGG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCAATTTGT
Found at i:48689548 original size:42 final size:42
Alignment explanation
Indices: 48689465--48689625 Score: 211
Period size: 42 Copynumber: 3.8 Consensus size: 42
48689455 AGGGTTACTA
*
48689465 AGACTACGTGTAAGACCATA-TTGGGATATGGCATC-ACTATG
1 AGACTACTTGTAAGACCATATTTGGGATATGGCATCGA-TATG
*
48689506 AGACTACTTGTAAGACCATATTTGGGATATGACATCGATATG
1 AGACTACTTGTAAGACCATATTTGGGATATGGCATCGATATG
* * *
48689548 AGACT-TTGTGTAAGACCATAGTTGGGCTATTGGCATCGATATG
1 AGACTACT-TGTAAGACCATATTTGGGATA-TGGCATCGATATG
* *
48689591 AGATTACATGTAAGACCATATTTGGGATATGGCAT
1 AGACTACTTGTAAGACCATATTTGGGATATGGCAT
48689626 TGGTATGGTA
Statistics
Matches: 104, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
41 20 0.19
42 48 0.46
43 36 0.35
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
AGACTACTTGTAAGACCATATTTGGGATATGGCATCGATATG
Found at i:48689643 original size:85 final size:83
Alignment explanation
Indices: 48689472--48689644 Score: 224
Period size: 85 Copynumber: 2.1 Consensus size: 83
48689462 CTAAGACTAC
*
48689472 GTGTAAGACCATATTGGGATATGGCATCACTATGAGACTACTTGTAAGACCATATTTGGGATATG
1 GTGTAAGACCATATTGGGATATGGCATCACTATGAGACTACATGTAAGACCATATTTGGGATATG
**
48689537 ACATCGATATGAGACTTT
66 ACATCGATATGAGACCGT
* *
48689555 GTGTAAGACCATAGTTGGGCTATTGGCATCGA-TATGAGATTACATGTAAGACCATATTTGGGAT
1 GTGTAAGACCATA-TTGGGATA-TGGCATC-ACTATGAGACTACATGTAAGACCATATTTGGGAT
* * *
48689619 ATGGCATTGGTATG-GTACCGT
63 ATGACATCGATATGAG-ACCGT
48689640 GTGTA
1 GTGTA
48689645 CAAGATTCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
83 13 0.17
84 8 0.10
85 56 0.72
86 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (83 bp):
GTGTAAGACCATATTGGGATATGGCATCACTATGAGACTACATGTAAGACCATATTTGGGATATG
ACATCGATATGAGACCGT
Found at i:48697902 original size:199 final size:199
Alignment explanation
Indices: 48697557--48697961 Score: 785
Period size: 199 Copynumber: 2.0 Consensus size: 199
48697547 TCATTAAGGG
*
48697557 TATTT-TAGTAATTTGGTAATTAAATGAATTAAAAAGCCAAATTAAAAGCCAATTTTTGTCCATC
1 TATTTCTAGTAATTTGGTAATTAAATGAATTAAAAAGCCAAATTAAAAGCCAATTTCTGTCCATC
48697621 TTCCTCCCATGGCCGAATTTTACAAGAAGAAGCCATGGCTAGGGTTTTTCAAGATTCCAAGCTCG
66 TTCCTCCCATGGCCGAATTTTACAAGAAGAAGCCATGGCTAGGGTTTTTCAAGATTCCAAGCTCG
48697686 ATTGTAAGTCCGTTCTAGGCCATTTTTAATGATTTTTATGTTTTTGAAATCCTTGTAACATGATC
131 ATTGTAAGTCCGTTCTAGGCCATTTTTAATGATTTTTATGTTTTTGAAATCCTTGTAACATGATC
48697751 TACC
196 TACC
48697755 TATTTCTAGTAATTTGGTAATTAAATGAATTAAAAAGCCAAATTAAAAGCCAATTTCTGTCCATC
1 TATTTCTAGTAATTTGGTAATTAAATGAATTAAAAAGCCAAATTAAAAGCCAATTTCTGTCCATC
48697820 TTCCTCCCATGGCCGAATTTTACAAGAAGAAGCCATGGCTAGGGTTTTTCAAGATTCCAAGCTCG
66 TTCCTCCCATGGCCGAATTTTACAAGAAGAAGCCATGGCTAGGGTTTTTCAAGATTCCAAGCTCG
*
48697885 ATTGTAAGTCTGTTCTAGGCCATTTTTAATGATTTTTATGTTTTTGAAATCCTTGTAACATGATC
131 ATTGTAAGTCCGTTCTAGGCCATTTTTAATGATTTTTATGTTTTTGAAATCCTTGTAACATGATC
48697950 TACC
196 TACC
48697954 TATTTCTA
1 TATTTCTA
48697962 CCACTAATTT
Statistics
Matches: 204, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
198 5 0.02
199 199 0.98
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (199 bp):
TATTTCTAGTAATTTGGTAATTAAATGAATTAAAAAGCCAAATTAAAAGCCAATTTCTGTCCATC
TTCCTCCCATGGCCGAATTTTACAAGAAGAAGCCATGGCTAGGGTTTTTCAAGATTCCAAGCTCG
ATTGTAAGTCCGTTCTAGGCCATTTTTAATGATTTTTATGTTTTTGAAATCCTTGTAACATGATC
TACC
Found at i:48698663 original size:42 final size:41
Alignment explanation
Indices: 48698604--48698765 Score: 180
Period size: 42 Copynumber: 3.9 Consensus size: 41
48698594 GGGGTTACTA
*
48698604 AGACTACAAGTAAGACCATATCTGGGATATGGCATCACTATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCA-TATG
* ** *
48698646 AGACTACGTGTAAGACCATATCTGGGATATGATATCAATGTG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATC-ATATG
* * * * * *
48698688 AGACTTCATGTAATATCATAGCTGGGCTATTGGCATCGATACG
1 AGACTACATGTAAGACCATATCTGGGATA-TGGCATC-ATATG
*
48698731 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTACATGTAAGACCATATCTGGGATATGGCAT
48698766 TGGTATGGTA
Statistics
Matches: 96, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (41 bp):
AGACTACATGTAAGACCATATCTGGGATATGGCATCATATG
Found at i:48700599 original size:41 final size:40
Alignment explanation
Indices: 48700554--48700657 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
48700544 TTTGCACGCC
* * **
48700554 AAGTGCCTTATATAGCTGAAGCTATCTCGGTCTCACACACT
1 AAGTGCCTTATATAGCCGAAGCTAT-TCCGAATCACACACT
* *
48700595 AAGTGCCTAATATAGCCGAAGCTATTCCGAATCGCACACT
1 AAGTGCCTTATATAGCCGAAGCTATTCCGAATCACACACT
* *
48700635 AAGTGTCATATATAGCCGAAGCT
1 AAGTGCCTTATATAGCCGAAGCT
48700658 TTCTTGAGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 31 0.57
41 23 0.43
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
AAGTGCCTTATATAGCCGAAGCTATTCCGAATCACACACT
Found at i:48700688 original size:40 final size:39
Alignment explanation
Indices: 48700503--48700688 Score: 124
Period size: 40 Copynumber: 4.6 Consensus size: 39
48700493 ACTCGATATC
* **
48700503 TCGCACACTTAGTGCCAATACATAGCCGAAGCTATT-ATAA
1 TCGCACACTAAGTGCCAAT--ATAGCCGAAGCTATTCCGAA
* * * * * * **
48700543 TTTTGCACGCCAAGTGCCTTATATAGCTGAAGCTATCTCGGTC
1 --TCGCACACTAAGTGCC-AATATAGCCGAAGCTAT-TCCGAA
*
48700586 TCACACACTAAGTGCCTAATATAGCCGAAGCTATTCCGAA
1 TCGCACACTAAGTGCC-AATATAGCCGAAGCTATTCCGAA
* * *
48700626 TCGCACACTAAGTGTCATATATAGCCGAAGCT-TTCTTGAG
1 TCGCACACTAAGTGCCA-ATATAGCCGAAGCTATTC-CGAA
*
48700666 TTGCACACTAAGTGCCACATATA
1 TCGCACACTAAGTGCCA-ATATA
48700689 TATATCTGAA
Statistics
Matches: 113, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
39 4 0.04
40 53 0.47
41 41 0.36
42 13 0.12
43 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (39 bp):
TCGCACACTAAGTGCCAATATAGCCGAAGCTATTCCGAA
Found at i:48706748 original size:47 final size:47
Alignment explanation
Indices: 48706687--48706878 Score: 357
Period size: 47 Copynumber: 4.1 Consensus size: 47
48706677 CAGCCAAGAC
48706687 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48706734 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48706781 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
48706828 AGTGTATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
48706875 AGTG
1 AGTG
48706879 GCCTAATGGC
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 140 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:48706887 original size:32 final size:32
Alignment explanation
Indices: 48706846--48706910 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
48706836 TATGTTATAA
48706846 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
48706878 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
48706910 G
1 G
48706911 TATATGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (32 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:48706891 original size:79 final size:79
Alignment explanation
Indices: 48706799--48706957 Score: 282
Period size: 79 Copynumber: 2.0 Consensus size: 79
48706789 TATGTGATAA
* *
48706799 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTTATAAGGCCTAATGGCCGATGTG
1 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
48706864 ATGAATGTGAAAGT
66 ATGAATGTGAAAGT
* *
48706878 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTG
1 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
48706943 ATGAATGTGAAAGT
66 ATGAATGTGAAAGT
48706957 G
1 G
48706958 TATATGTGTG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (79 bp):
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
ATGAATGTGAAAGT
Found at i:48706938 original size:47 final size:47
Alignment explanation
Indices: 48706878--48707156 Score: 432
Period size: 47 Copynumber: 5.9 Consensus size: 47
48706868 ATGTGAAAGT
*
48706878 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
48706925 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
48706972 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
48707019 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
48707066 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * * *
48707113 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48707157 AAAGTCCCGA
Statistics
Matches: 218, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 218 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:48706994 original size:173 final size:173
Alignment explanation
Indices: 48706705--48707051 Score: 667
Period size: 173 Copynumber: 2.0 Consensus size: 173
48706695 TATGTGATAA
*
48706705 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTG
48706770 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
*
48706835 ATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
131 ATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
48706878 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTG
*
48706943 ATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
48707008 ATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
131 ATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
48707051 G
1 G
48707052 TATATATGTG
Statistics
Matches: 171, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
173 171 1.00
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (173 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:48707069 original size:220 final size:220
Alignment explanation
Indices: 48706687--48707098 Score: 770
Period size: 220 Copynumber: 1.9 Consensus size: 220
48706677 CAGCCAAGAC
*
48706687 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
* *
48706752 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTG
*
48706817 ATGAATGTGAAAGTGTATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGCC
131 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGCC
48706882 TAATGGCCGATGTGATGAATGTGAA
196 TAATGGCCGATGTGATGAATGTGAA
*
48706907 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
*
48706972 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTG
48707037 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
131 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
48707099 TATATATGTG
Statistics
Matches: 186, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
220 186 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (220 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGCC
TAATGGCCGATGTGATGAATGTGAA
Found at i:48707335 original size:37 final size:37
Alignment explanation
Indices: 48707279--48707357 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
48707269 CCGAGCTCTA
* * *
48707279 AAGACCCGATGACTACGTGTGG-GAATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
48707316 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48707353 AAGAC
1 AAGAC
48707358 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48716302 original size:42 final size:43
Alignment explanation
Indices: 48716195--48716354 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
48716185 CTTATACAAT
* * * * * *
48716195 GCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATTGAT
1 GCCAATGTCCTAGACATGGTCTTACACGAAATCAAATATCGAC
* * * *
48716238 GCCACTGTCCAAGACAGGGTCTTACGCGAAATCAAATA-CGAC
1 GCCAATGTCCTAGACATGGTCTTACACGAAATCAAATATCGAC
* * * *
48716280 GCTAATGTCCTAGACATGGTCTTACACGTAAATTATAA-GTCGAT
1 GCCAATGTCCTAGACATGGTCTTACACG-AAATCA-AATATCGAC
* **
48716324 GCCAATGTCCCAGATGTGGTCTTACACGAAA
1 GCCAATGTCCTAGACATGGTCTTACACGAAA
48716355 AAACATATAG
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 25 0.27
43 38 0.41
44 29 0.32
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
GCCAATGTCCTAGACATGGTCTTACACGAAATCAAATATCGAC
Found at i:48720171 original size:53 final size:53
Alignment explanation
Indices: 48719980--48720183 Score: 140
Period size: 53 Copynumber: 3.8 Consensus size: 53
48719970 AGGGTTTAAG
* * * * * * * *
48719980 GATACCAAGTAAGACCATGCGAAGGCATGACATTGGTAAGTTTTACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * * * * *
48720034 GAAATCATGTAAGACCATGTCAAGAAAGGGCATTGATAAACTAAT-ATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGT--TCATAAGGCAAA
* * * * * *
48720089 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGTAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* *
48720142 GATACCACGTAAGATCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
48720184 TAAAAAGGAA
Statistics
Matches: 114, Mismatches: 32, Indels: 9
0.74 0.21 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.39
54 30 0.26
55 38 0.33
56 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:48723994 original size:6 final size:6
Alignment explanation
Indices: 48723958--48724165 Score: 124
Period size: 6 Copynumber: 33.7 Consensus size: 6
48723948 ATCAGAACTT
* * * * *
48723958 GAATCA AAATGA GAATCA AAATCA AAATCA GAATCA G-GTGACA GAATCA
1 GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA GAAT--CA GAATCA
* * * * *
48724007 AAACCA AAATCA GAATCA GAATTA GGTAA-CA GAATCA GAATCA GTATCAA
1 GAATCA GAATCA GAATCA GAATCA -G-AATCA GAATCA GAATCA GAATC-A
*
48724057 GTAA-CA GAATCA GAATCA GTATCA GGTAA-CA GAATCA GAATCA GAA-CTA
1 G-AATCA GAATCA GAATCA GAATCA -G-AATCA GAATCA GAATCA GAATC-A
* * *
48724106 GAATAA GAATTA GGTAA-CA GAATCA GAATCA GTATCAA GTAA-CA GAATCA
1 GAATCA GAATCA -G-AATCA GAATCA GAATCA GAATC-A G-AATCA GAATCA
48724156 GAATCA GAAT
1 GAATCA GAAT
48724166 GTGAATGAAA
Statistics
Matches: 159, Mismatches: 23, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
5 12 0.08
6 123 0.77
7 16 0.10
8 8 0.05
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.18
Consensus pattern (6 bp):
GAATCA
Found at i:48724041 original size:19 final size:18
Alignment explanation
Indices: 48723983--48724165 Score: 107
Period size: 19 Copynumber: 10.2 Consensus size: 18
48723973 TCAAAATCAA
*
48723983 AATCAGAATCAGGTGACAG
1 AATCAGAATCA-GTAACAG
* * *
48724002 AATCAAAACCA-AAATCAG
1 AATCAGAATCAGTAA-CAG
*
48724020 AATCAGAATTAGGTAACAG
1 AATCAGAATCA-GTAACAG
*
48724039 AATCAGAATCAGTATCA-
1 AATCAGAATCAGTAACAG
*
48724056 AGT---AA-CAG-AATCAG
1 AATCAGAATCAGTAA-CAG
*
48724070 AATCAGTATCAGGTAACAG
1 AATCAGAATCA-GTAACAG
48724089 AATCAGAATCAG-AACTAG
1 AATCAGAATCAGTAAC-AG
* *
48724107 AATAAGAATTAGGTAACAG
1 AATCAGAATCA-GTAACAG
*
48724126 AATCAGAATCAGTATCAAG
1 AATCAGAATCAGTAAC-AG
48724145 TAA-CAGAATCAG-AATCAG
1 -AATCAGAATCAGTAA-CAG
48724163 AAT
1 AAT
48724166 GTGAATGAAA
Statistics
Matches: 125, Mismatches: 21, Indels: 37
0.68 0.11 0.20
Matches are distributed among these distances:
12 1 0.01
13 5 0.04
14 4 0.03
17 9 0.07
18 37 0.30
19 60 0.48
20 9 0.07
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
AATCAGAATCAGTAACAG
Found at i:48724042 original size:25 final size:25
Alignment explanation
Indices: 48724014--48724102 Score: 142
Period size: 25 Copynumber: 3.6 Consensus size: 25
48724004 TCAAAACCAA
*
48724014 AATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
* *
48724039 AATCAGAATCAGTATCAAGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
48724064 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
48724089 AATCAGAATCAGAA
1 AATCAGAATCAGAA
48724103 CTAGAATAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:48724081 original size:87 final size:87
Alignment explanation
Indices: 48723977--48724165 Score: 299
Period size: 87 Copynumber: 2.2 Consensus size: 87
48723967 TGAGAATCAA
* * *
48723977 AATCAAAATCAGAATCAGGTGACAGAATCAAAACCAAAA-TCAGAATCAGAATTAGGTAACAGAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAAAACCAAAACT-AGAATAAGAATTAGGTAACAGAA
48724041 TCAGAATCAGTATCAAGTAACAG
65 TCAGAATCAGTATCAAGTAACAG
* * * *
48724064 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACTAGAATAAGAATTAGGTAACAGAAT
1 AATCAGAATCAGAATCAGGTAACAGAATCAAAACCAAAACTAGAATAAGAATTAGGTAACAGAAT
48724129 CAGAATCAGTATCAAGTAACAG
66 CAGAATCAGTATCAAGTAACAG
48724151 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
48724166 GTGAATGAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 92 0.99
88 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (87 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAAAACCAAAACTAGAATAAGAATTAGGTAACAGAAT
CAGAATCAGTATCAAGTAACAG
Found at i:48724102 original size:37 final size:37
Alignment explanation
Indices: 48724061--48724142 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
48724051 TATCAAGTAA
* *
48724061 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATAAGAATCAGGTAACAGAATCAGAAT
*
48724098 CAGAA-CTAGAATAAGAATTAGGTAACAGAATCAGAAT
1 CAGAATC-AGAATAAGAATCAGGTAACAGAATCAGAAT
*
48724135 CAGTATCA
1 CAGAATCA
48724143 AGTAACAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 1 0.03
37 37 0.95
38 1 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (37 bp):
CAGAATCAGAATAAGAATCAGGTAACAGAATCAGAAT
Found at i:48724133 original size:25 final size:25
Alignment explanation
Indices: 48724105--48724165 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
48724095 AATCAGAACT
* * *
48724105 AGAATAAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAAGTAACAGAATC
*
48724130 AGAATCAGTATCAAGTAACAGAATC
1 AGAATCAGAATCAAGTAACAGAATC
48724155 AGAATCAGAAT
1 AGAATCAGAAT
48724166 GTGAATGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.18, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAAGTAACAGAATC
Found at i:48724712 original size:27 final size:26
Alignment explanation
Indices: 48724681--48724743 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
48724671 GGGTAAAATG
*
48724681 GTAATTTTACCCCACAAGGGTATCTC
1 GTAATTTTACCCCACAAGGGTATCTA
* * * *
48724707 GATAATTCTACCCTACAGGGGTATTTA
1 G-TAATTTTACCCCACAAGGGTATCTA
48724734 GTAATTTTAC
1 GTAATTTTAC
48724744 AAACCAGGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (26 bp):
GTAATTTTACCCCACAAGGGTATCTA
Found at i:48724771 original size:27 final size:27
Alignment explanation
Indices: 48724722--48724848 Score: 184
Period size: 27 Copynumber: 4.7 Consensus size: 27
48724712 TTCTACCCTA
*
48724722 CAGGGGTA-TTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
48724748 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
48724775 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
48724802 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
48724829 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
48724849 GGTAAACTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 8 0.09
27 80 0.91
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:48726447 original size:41 final size:40
Alignment explanation
Indices: 48726382--48726550 Score: 143
Period size: 41 Copynumber: 4.2 Consensus size: 40
48726372 AGTCCGACTC
*
48726382 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
48726421 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * *
48726461 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTTGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
48726506 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTC-GA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
48726544 TTTAGAC
1 -TTAGAC
48726551 CCCGATTAGC
Statistics
Matches: 104, Mismatches: 12, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
38 1 0.01
39 8 0.08
40 16 0.15
41 47 0.45
42 18 0.17
43 10 0.10
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:48734774 original size:41 final size:40
Alignment explanation
Indices: 48734721--48734890 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
48734711 AGTCCGACTC
*
48734721 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
48734760 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
48734800 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
48734845 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
48734884 TTTAGAC
1 -TTAGAC
48734891 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:48738215 original size:42 final size:43
Alignment explanation
Indices: 48738155--48738294 Score: 210
Period size: 43 Copynumber: 3.3 Consensus size: 43
48738145 TTTTTTTTGG
*
48738155 AAAAAACACCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
* *
48738198 -AAAAACGCCTCTAAAGACCAGAACTTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
* * * *
48738240 GAAAAATGCCGCTAAAGACCAAGACTTTTAGCGGTGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
48738283 AAAAAACGCCGC
1 AAAAAACGCCGC
48738295 CAATTTACCC
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 39 0.45
43 47 0.55
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
Found at i:48741975 original size:16 final size:17
Alignment explanation
Indices: 48741944--48741988 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
48741934 AAAGAGATGC
48741944 AAGAATA-AGAGAAAAG
1 AAGAATATAGAGAAAAG
48741960 AAGAATATAGAG-AAAG
1 AAGAATATAGAGAAAAG
48741976 AGAGAATTATAGA
1 A-AGAA-TATAGA
48741989 TAGAAACCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 12 0.46
17 8 0.31
18 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.13
Consensus pattern (17 bp):
AAGAATATAGAGAAAAG
Found at i:48743243 original size:17 final size:18
Alignment explanation
Indices: 48743210--48743243 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48743200 TATCTCTTAA
48743210 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
48743228 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
48743244 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:48743499 original size:20 final size:20
Alignment explanation
Indices: 48743449--48743499 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
48743439 TTTCTAATAG
48743449 TAAACCCTAAACCTAAACCC
1 TAAACCCTAAACCTAAACCC
* ** * *
48743469 CAAACTATAAACCTATATCC
1 TAAACCCTAAACCTAAACCC
48743489 TAAACCCTAAA
1 TAAACCCTAAA
48743500 TATATGTACA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAACCTAAACCC
Found at i:48743750 original size:7 final size:7
Alignment explanation
Indices: 48743710--48743757 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
48743700 CATTATATCA
*
48743710 TAAACCC
1 TAAACCT
48743717 TAAACCCT
1 TAAA-CCT
*
48743725 TAAACCA
1 TAAACCT
* *
48743732 TGAACAT
1 TAAACCT
48743739 TAAACCT
1 TAAACCT
48743746 TAAACCT
1 TAAACCT
48743753 TAAAC
1 TAAAC
48743758 ATTATATTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:48743901 original size:16 final size:15
Alignment explanation
Indices: 48743855--48743905 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 15
48743845 AGGAGTTATA
48743855 GTTTAGTGTTTAAGG
1 GTTTAGTGTTTAAGG
48743870 GTTTTTAG-GATTTAAGG
1 G--TTTAGTG-TTTAAGG
48743887 GTTTAGTGTTTTAAGG
1 GTTTAGTG-TTTAAGG
48743903 GTT
1 GTT
48743906 ATAGATTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.19
16 12 0.39
17 13 0.42
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (15 bp):
GTTTAGTGTTTAAGG
Found at i:48744005 original size:41 final size:41
Alignment explanation
Indices: 48743960--48744159 Score: 262
Period size: 41 Copynumber: 4.9 Consensus size: 41
48743950 ATTATATGAC
*
48743960 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
48744001 TTTTAGCGGCGTTCTT-CCAAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTT-TTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
48744042 TTTTAGCGGCGTTCTGCCAAAAGCGCCGCTAATGCT-TTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
48744082 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
* * *
48744123 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC
48744160 CGTGTTTTAT
Statistics
Matches: 144, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
40 38 0.26
41 103 0.72
42 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:48751254 original size:43 final size:42
Alignment explanation
Indices: 48751187--48751274 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 42
48751177 ATAGGCATCG
*
48751187 CATCCACAATGAACTCAGACCACTCAACGAGCTCAGATGCTCA
1 CATCCACAATGAACTCAGACCACTCAACAAGCTCAGATGC-CA
* * * *
48751230 CATCCATAATGAACTC-GAAGCACTCAACAAGTTCGGATGCCA
1 CATCCACAATGAACTCAG-ACCACTCAACAAGCTCAGATGCCA
48751272 CAT
1 CAT
48751275 ATCTCACGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 6 0.15
43 33 0.85
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (42 bp):
CATCCACAATGAACTCAGACCACTCAACAAGCTCAGATGCCA
Found at i:48754655 original size:39 final size:39
Alignment explanation
Indices: 48754600--48754793 Score: 207
Period size: 39 Copynumber: 5.1 Consensus size: 39
48754590 ATATAATTAC
* *
48754600 ACCCTTGATCACACTTATGTGCCCCTGTTGTACTTCGGT
1 ACCCTTGATCGCACTTACGTGCCCCTGTTGTACTTCGGT
*
48754639 ACCCTTGATCGTACTTACGTGCCCCTGTTGTACTTCGGT
1 ACCCTTGATCGCACTTACGTGCCCCTGTTGTACTTCGGT
* * * ** *
48754678 ACGC-TAATCTCACTTGTGTGCCCCTGTTGTACTTCTGT
1 ACCCTTGATCGCACTTACGTGCCCCTGTTGTACTTCGGT
* * * **
48754716 ACCCCTGATCGCACTTACATGCCCCTATTGTACTTCAAT
1 ACCCTTGATCGCACTTACGTGCCCCTGTTGTACTTCGGT
* *
48754755 AACCCTT-ATCGCACTTAC--GCCCTTATTGTACTTCGGT
1 -ACCCTTGATCGCACTTACGTGCCCCTGTTGTACTTCGGT
48754792 AC
1 AC
48754794 TCCTAATAGC
Statistics
Matches: 130, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
36 2 0.02
37 16 0.12
38 31 0.24
39 76 0.58
40 5 0.04
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.35
Consensus pattern (39 bp):
ACCCTTGATCGCACTTACGTGCCCCTGTTGTACTTCGGT
Found at i:48754673 original size:19 final size:19
Alignment explanation
Indices: 48754612--48754673 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
48754602 CCTTGATCAC
*
48754612 ACTTATGTGCCCCTGTTGT
1 ACTTACGTGCCCCTGTTGT
* * *
48754631 ACTT-CGGTACCCTTGATCGT
1 ACTTAC-GTGCCCCTG-TTGT
48754651 ACTTACGTGCCCCTGTTGT
1 ACTTACGTGCCCCTGTTGT
48754670 ACTT
1 ACTT
48754674 CGGTACGCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 14 0.42
21 1 0.03
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (19 bp):
ACTTACGTGCCCCTGTTGT
Found at i:48758451 original size:25 final size:25
Alignment explanation
Indices: 48758423--48758473 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
48758413 AGCATATCCC
* *
48758423 TAGGGGTATAATGGTCATTTTCACA
1 TAGGGGCAAAATGGTCATTTTCACA
*
48758448 TAGGGGCAAAATGGTCATTTTTACA
1 TAGGGGCAAAATGGTCATTTTCACA
48758473 T
1 T
48758474 TATAAGGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (25 bp):
TAGGGGCAAAATGGTCATTTTCACA
Found at i:48764290 original size:26 final size:26
Alignment explanation
Indices: 48764260--48764320 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
48764250 TAATTTGATG
48764260 AAATGACCGTTATACCCTCGTGAGGT
1 AAATGACCGTTATACCCTCGTGAGGT
48764286 AAATGACCGTTATACCCTCGTGAGGT
1 AAATGACCGTTATACCCTCGTGAGGT
48764312 AAATGACCG
1 AAATGACCG
48764321 ATATGCCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (26 bp):
AAATGACCGTTATACCCTCGTGAGGT
Found at i:48764555 original size:22 final size:23
Alignment explanation
Indices: 48764530--48764572 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
48764520 TATCCCCACA
*
48764530 TGGAGTGTA-CGGATGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
48764552 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
48764573 GTAGGACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.02, G:0.51, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:48777241 original size:46 final size:44
Alignment explanation
Indices: 48777191--48777360 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 44
48777181 TTGAGCATCC
* *
48777191 GAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATG-AAATGTCT
* * *
48777237 GAACTCGTTGAGTTGAGTCCGAGTTCA-TGA-GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATG-AA--ATG--TCT
*
48777284 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATG-AAATGTCT
* * *
48777330 TAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48777361 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 55 0.53
47 28 0.27
48 4 0.04
50 7 0.07
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (44 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGAAATGTCT
Found at i:48777344 original size:93 final size:93
Alignment explanation
Indices: 48777185--48777356 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
48777175 GGATGGTTGA
* * *
48777185 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATAGATGCAAATGTCTGAACTCATTGAGT
48777250 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * *
48777278 GCATCCGAACTCGTTGAGTTGAG-TCTGAGTTCACTTATAGATGTAAATGTCTTAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTATAGATGCAAATGTCTGAACTCATTGAG
48777342 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
48777357 CTTAGGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATAGATGCAAATGTCTGAACTCATTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:48784785 original size:46 final size:46
Alignment explanation
Indices: 48784735--48784907 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
48784725 TGGTTGAGCA
48784735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48784781 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48784826 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
48784874 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48784908 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48784891 original size:93 final size:93
Alignment explanation
Indices: 48784732--48784902 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
48784722 GGATGGTTGA
* *
48784732 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48784797 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48784825 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48784890 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48784903 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48794232 original size:29 final size:29
Alignment explanation
Indices: 48794199--48794258 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
48794189 GCACGATGAG
*
48794199 AATGTGTATAGACTATCAATAGCTCAACA
1 AATGTGTATAGACTATCAACAGCTCAACA
*
48794228 AATGTGTATAGGCTATCAACAGCTCAACA
1 AATGTGTATAGACTATCAACAGCTCAACA
48794257 AA
1 AA
48794259 GTGACTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (29 bp):
AATGTGTATAGACTATCAACAGCTCAACA
Found at i:48796000 original size:26 final size:25
Alignment explanation
Indices: 48795971--48796020 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
48795961 AGCTCAATAA
* *
48795971 AGCTTACTATTCATCAGCTCGAAAGG
1 AGCTTACCAATCAT-AGCTCGAAAGG
*
48795997 AGCTTACCAATCATGGCTCGAAAG
1 AGCTTACCAATCATAGCTCGAAAG
48796021 AGCATAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
AGCTTACCAATCATAGCTCGAAAGG
Found at i:48802185 original size:21 final size:22
Alignment explanation
Indices: 48802159--48802200 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48802149 TACTAGATAC
*
48802159 AGGGGC-ACACGCCTGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
48802180 AGGGGCAACACGCCCGTGTGA
1 AGGGGCAACACGCCCGTGTGA
48802201 CCAATTCGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.26, G:0.40, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:48803370 original size:47 final size:44
Alignment explanation
Indices: 48803222--48803427 Score: 161
Period size: 45 Copynumber: 4.5 Consensus size: 44
48803212 GCAGATGTCG
** * * *
48803222 TGTCCCAGACATGATCTTACACTGAAACATCTC-GTAGCCGATGCA
1 TGTCCCAGACATG-TCTTACACTGACTCGTCTCAAT-GCTGATGCA
* * *
48803267 TGTCCCAGACATGTTTTACACTGACTTACGTCTCGA-GGTCGATG-A
1 TGTCCCAGACATGTCTTACACTGAC-T-CGTCTCAATGCT-GATGCA
48803312 TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCTGATGCCA
1 TGTCCCAGACATGTCTTACACT-G-ACTCGTCTCAATGCTGATG-CA
* *
48803359 TGTCCCAGACATGATCTTACACTGGCTC-TCAT-AATGTGGCCGATGCA
1 TGTCCCAGACATG-TCTTACACTGACTCGTC-TCAA--T-GCTGATGCA
*
48803406 TGTCCTAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
48803428 AGCTCACAAT
Statistics
Matches: 134, Mismatches: 13, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
44 10 0.07
45 51 0.38
46 26 0.19
47 32 0.24
48 15 0.11
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGACTCGTCTCAATGCTGATGCA
Found at i:48810090 original size:30 final size:30
Alignment explanation
Indices: 48810056--48810115 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
48810046 ACTTAACAAG
*
48810056 CAAATACCTCTAAAATAGTAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
48810086 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
48810116 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:48811570 original size:47 final size:44
Alignment explanation
Indices: 48811455--48811581 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 44
48811445 AGCTTGTTGT
* * *
48811455 GCCGATGCTGTGTCCCAGACATGGTCTTACACTAACACATCTCCTA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACATCTCCAA
48811501 GCCGATGCATGTCCCA-AGCATGTCTTACACTAGCAC-TCGTCTCAA
1 GCCGATGCATGTCCCAGA-CATGTCTTACACTAGCACATC-TC-CAA
*
48811546 TGCTGATGCCATGTCCCAGACATGTCTTACACTAGC
1 -GCCGATG-CATGTCCCAGACATGTCTTACACTAGC
48811582 TCACAGTAAC
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
43 2 0.03
44 17 0.24
45 12 0.17
46 14 0.20
47 25 0.35
48 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCCAA
Found at i:48813185 original size:230 final size:230
Alignment explanation
Indices: 48812782--48813240 Score: 810
Period size: 230 Copynumber: 2.0 Consensus size: 230
48812772 TGACTGCGCA
*
48812782 CAAAATCGGGTTGTTACATGGTAAAACCCTAATCTCTCAACCATTTTACAAAATAACCCCCTTCA
1 CAAAATCGGGTTGTTACATGGTAAAACACTAATCTCTCAACCATTTTACAAAATAACCCCCTTCA
* * *
48812847 TATAAAGATTACGTTACAAGGAGTGCAAAATACAAAAATCATCAAGAATAACCTTATAAATGACT
66 TAGAAAGATTACGTTACAAGGAGTCCAAAATACAAAAATCATAAAGAATAACCTTATAAATGACT
* *
48812912 TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAAGCCCCCTTTTGAAGATGAAAA
131 TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAACCCCCCTTTTGAAAATGAAAA
*
48812977 TTGGTTGAAGAAGAAGAAAATAAAAAGATGAAGCC
196 TCGGTTGAAGAAGAAGAAAATAAAAAGATGAAGCC
* *
48813012 CAAAATCGGGTTGTTACATGGTAAAACACTAATCTCTCAACCATTTTGCAAAATAATCCCCTTCA
1 CAAAATCGGGTTGTTACATGGTAAAACACTAATCTCTCAACCATTTTACAAAATAACCCCCTTCA
* * *
48813077 TAGAAAGCTTATGTTACAAGGAGTCCAAAATACAAAAATCATAAAGAATAACCTTATAGATGACT
66 TAGAAAGATTACGTTACAAGGAGTCCAAAATACAAAAATCATAAAGAATAACCTTATAAATGACT
48813142 TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAACCCCCCTTTTGAAAATGAAAA
131 TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAACCCCCCTTTTGAAAATGAAAA
48813207 TCGGTTGAAGAAGAAGAAAATAAAAAGATGAAGC
196 TCGGTTGAAGAAGAAGAAAATAAAAAGATGAAGC
48813241 ATTTTTTTGT
Statistics
Matches: 217, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
230 217 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (230 bp):
CAAAATCGGGTTGTTACATGGTAAAACACTAATCTCTCAACCATTTTACAAAATAACCCCCTTCA
TAGAAAGATTACGTTACAAGGAGTCCAAAATACAAAAATCATAAAGAATAACCTTATAAATGACT
TACTTGTAAGAGATGTTAATGGCTGATATTTTGTGCTCTCAAAACCCCCCTTTTGAAAATGAAAA
TCGGTTGAAGAAGAAGAAAATAAAAAGATGAAGCC
Found at i:48823538 original size:40 final size:40
Alignment explanation
Indices: 48823491--48823674 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
48823481 CTCGCACAAG
* *
48823491 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
48823531 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
48823571 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
48823611 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
48823651 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
48823675 CATTCGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:48834223 original size:28 final size:26
Alignment explanation
Indices: 48834163--48834256 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 26
48834153 TTTGCAATAT
*
48834163 GGCCGCCAGAACAGATATTGTGACAG
1 GGCCACCAGAACAGATATTGTGACAG
* * *
48834189 AGTCACCAGATACAGATAATTGTGGCAG
1 GGCCACCAGA-ACAGAT-ATTGTGACAG
*
48834217 GGCCACCAGAAACAGAT-TTTTGTATCAG
1 GGCCACCAG-AACAGATATTGTG-A-CAG
*
48834245 AGCCACCAGAAC
1 GGCCACCAGAAC
48834257 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
26 11 0.20
27 9 0.17
28 33 0.61
29 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
GGCCACCAGAACAGATATTGTGACAG
Found at i:48834387 original size:26 final size:26
Alignment explanation
Indices: 48834358--48834432 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
48834348 CAAAATCAAC
*
48834358 CCTAAGGGTATAATGGTCATTTTGCA
1 CCTAGGGGTATAATGGTCATTTTGCA
48834384 CCTAGGGGTATAATGGTCATTTTGCA
1 CCTAGGGGTATAATGGTCATTTTGCA
* *
48834410 CCTAGGGGTATAGTGGTGATTTT
1 CCTAGGGGTATAATGGTCATTTT
48834433 CATACTTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTCATTTTGCA
Found at i:48842152 original size:28 final size:28
Alignment explanation
Indices: 48842071--48842186 Score: 110
Period size: 28 Copynumber: 4.2 Consensus size: 28
48842061 AGCATGGTTG
* *
48842071 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * * * * *
48842097 CCAGATACAAATAATTGAGGTAGGGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
*
48842125 CCAGAAACAGATATTTGTGGCTGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * *
48842153 TCAGAAATAGATTTTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
48842181 CCAGAA
1 CCAGAA
48842187 TGCTTCCTCC
Statistics
Matches: 69, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
26 4 0.06
27 6 0.09
28 59 0.86
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:48846549 original size:16 final size:16
Alignment explanation
Indices: 48846528--48846567 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
48846518 AATAGGGATT
48846528 AAATTGTGGAATGTGC
1 AAATTGTGGAATGTGC
48846544 AAATTGTGGAATGTGC
1 AAATTGTGGAATGTGC
48846560 AAATTGTG
1 AAATTGTG
48846568 TGGTTGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.33
Consensus pattern (16 bp):
AAATTGTGGAATGTGC
Found at i:48852552 original size:40 final size:40
Alignment explanation
Indices: 48852515--48852739 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
48852505 GCTACTCGTT
* *
48852515 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
48852555 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48852595 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
48852635 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
48852674 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
48852715 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48852740 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48852699 original size:119 final size:120
Alignment explanation
Indices: 48852517--48852739 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
48852507 TACTCGTTCA
*
48852517 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
48852582 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
48852637 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
48852699 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
48852740 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:48853934 original size:56 final size:56
Alignment explanation
Indices: 48853867--48854042 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
48853857 TATTAGTTTA
*
48853867 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
48853923 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
48853979 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
48854035 TTGCCCAT
1 TTGCCCAT
48854043 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:48871274 original size:16 final size:17
Alignment explanation
Indices: 48871247--48871278 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48871237 ATAGTAGGGG
48871247 CAAATGTGTAAATTTTC
1 CAAATGTGTAAATTTTC
48871264 CAAAT-TGTAAATTTT
1 CAAATGTGTAAATTTT
48871279 AGGCTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (17 bp):
CAAATGTGTAAATTTTC
Found at i:48871607 original size:41 final size:41
Alignment explanation
Indices: 48871531--48871707 Score: 257
Period size: 41 Copynumber: 4.3 Consensus size: 41
48871521 CTACATGCCA
* * * *
48871531 CACTTAGTGTGCGA-TTCGACATAGCTTCGGTTATATATGG
1 CACTTAGTGTGCGAGATCAAGATAGCTTCGGCTATATATGG
48871571 CACTTAGTGTGCGAGATCAAGATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGAGATCAAGATAGCTTCGGCTATATATGG
*
48871612 CACTTAGTGTGCGAGATCAAGATAGCTTTGGCTATATATGG
1 CACTTAGTGTGCGAGATCAAGATAGCTTCGGCTATATATGG
* * * *
48871653 CACTTAGTGTGCGAGATCGAGGTAGATTCAGCTATATATGG
1 CACTTAGTGTGCGAGATCAAGATAGCTTCGGCTATATATGG
*
48871694 CACTTAATGTGCGA
1 CACTTAGTGTGCGA
48871708 TTTGAGTAGT
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 14 0.11
41 111 0.89
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (41 bp):
CACTTAGTGTGCGAGATCAAGATAGCTTCGGCTATATATGG
Found at i:48871745 original size:82 final size:82
Alignment explanation
Indices: 48871551--48871748 Score: 238
Period size: 82 Copynumber: 2.4 Consensus size: 82
48871541 GCGATTCGAC
* * * * *
48871551 ATAGCTTCGGTTATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGCTATATATGGCACT
1 ATAGCTTTGGCTATATACGGCACTTAGTGTGCGAGATCAAGATAGATTCAGCTATATATGGCACT
*
48871616 TAGTGTGCGAGATCAAG
66 TAATGTGCGAGATCAAG
* * *
48871633 ATAGCTTTGGCTATATATGGCACTTAGTGTGCGAGATCGAGGTAGATTCAGCTATATATGGCACT
1 ATAGCTTTGGCTATATACGGCACTTAGTGTGCGAGATCAAGATAGATTCAGCTATATATGGCACT
* **
48871698 TAATGTGCGA-TTTGAG
66 TAATGTGCGAGATCAAG
* * * *
48871714 -TAGTTTTGGCTCTGTACGGCACTTAGTGTGTGAGA
1 ATAGCTTTGGCTATATACGGCACTTAGTGTGCGAGA
48871749 AATAGAGTAT
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 30 0.30
81 3 0.03
82 68 0.67
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (82 bp):
ATAGCTTTGGCTATATACGGCACTTAGTGTGCGAGATCAAGATAGATTCAGCTATATATGGCACT
TAATGTGCGAGATCAAG
Found at i:48875005 original size:16 final size:18
Alignment explanation
Indices: 48874984--48875021 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
48874974 AAACCATAAT
48874984 TAATATTA-CAAATTA-A
1 TAATATTATCAAATTACA
*
48875000 TAATATTATCCAATTACA
1 TAATATTATCAAATTACA
48875018 TAAT
1 TAAT
48875022 CAGTAGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
TAATATTATCAAATTACA
Found at i:48877217 original size:20 final size:20
Alignment explanation
Indices: 48877189--48877227 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48877179 CTAGGAAATA
48877189 TGTGATCTGAGCTCATGATT
1 TGTGATCTGAGCTCATGATT
* *
48877209 TGTGGTCTGAGTTCATGAT
1 TGTGATCTGAGCTCATGAT
48877228 ATATGTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.13, G:0.28, T:0.41
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGATT
Found at i:48886171 original size:42 final size:42
Alignment explanation
Indices: 48886112--48886233 Score: 176
Period size: 43 Copynumber: 2.9 Consensus size: 42
48886102 TTAAGGTTAC
48886112 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
*
48886154 TGAGACTT-CATGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGA-TTACATGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* *
48886197 CGAAATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
48886234 TGGTATGGTA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
42 34 0.48
43 37 0.52
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:48887812 original size:17 final size:19
Alignment explanation
Indices: 48887780--48887822 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
48887770 CCATATTGCG
*
48887780 GGCCCATGTAGGCCCATAC
1 GGCCCATGTAGGCCCACAC
48887799 -GCCCATGT-GGCCCACAC
1 GGCCCATGTAGGCCCACAC
48887816 GGCCCAT
1 GGCCCAT
48887823 AATAGCCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.14
Consensus pattern (19 bp):
GGCCCATGTAGGCCCACAC
Found at i:48888585 original size:53 final size:53
Alignment explanation
Indices: 48888505--48888613 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
48888495 CTATGATATG
*
48888505 ATTGCATGATTGTGTGAAAATTTCATGGAGAAATTCTATGCATAAAGTGCTTA
1 ATTGCATGATTATGTGAAAATTTCATGGAGAAATTCTATGCATAAAGTGCTTA
48888558 ATTGCATGATTATGTGAAAATTTCATGGAGAAATTCTATGCATAAAGTGCTTA
1 ATTGCATGATTATGTGAAAATTTCATGGAGAAATTCTATGCATAAAGTGCTTA
48888611 ATT
1 ATT
48888614 TGAAGTTAGG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (53 bp):
ATTGCATGATTATGTGAAAATTTCATGGAGAAATTCTATGCATAAAGTGCTTA
Found at i:48890101 original size:50 final size:49
Alignment explanation
Indices: 48889980--48890166 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
48889970 TGAGGTCGCA
* * * *
48889980 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC---AGACTGTAGGTCACG
**
48890031 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
48890081 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
48890130 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
48890167 TAGCTTCGGC
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 39 0.33
50 42 0.36
51 31 0.26
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:48910830 original size:33 final size:33
Alignment explanation
Indices: 48910759--48910830 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
48910749 ACAATGCATG
* * *
48910759 CAGTAACAGTCTGGGCCAGAGCCCTAATCAGTAC
1 CAGT-ACAGTCTGGGCCAGAGCCCTAAACAGAAA
* **
48910793 CAGTACAGTTTGGGCCTTAGCCCTAAACAGAAA
1 CAGTACAGTCTGGGCCAGAGCCCTAAACAGAAA
48910826 CAGTA
1 CAGTA
48910831 TAGGCCTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.19
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCAGAGCCCTAAACAGAAA
Found at i:48912789 original size:40 final size:40
Alignment explanation
Indices: 48912729--48912909 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
48912719 TATTCGGATG
* ** * *
48912729 ATATCCGGGCTAAGTTCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
48912769 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
*
48912809 ATATACGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
* ** *
48912849 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
*
48912889 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
48912910 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 112 0.88
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
Found at i:48914997 original size:11 final size:11
Alignment explanation
Indices: 48914981--48915006 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48914971 ACTTAAACAA
48914981 GGTTCCATGTC
1 GGTTCCATGTC
48914992 GGTTCCATGTC
1 GGTTCCATGTC
48915003 GGTT
1 GGTT
48915007 ACAAGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.23, G:0.31, T:0.38
Consensus pattern (11 bp):
GGTTCCATGTC
Found at i:48920955 original size:40 final size:41
Alignment explanation
Indices: 48920896--48921003 Score: 143
Period size: 40 Copynumber: 2.7 Consensus size: 41
48920886 GAAATTTGCA
*
48920896 AGTT-ACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCT
1 AGTTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCG
* **
48920936 AG-TGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCG
1 AGTTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCG
*
48920976 AGTTG-CTATATCC-GGCTAAATCCCGAAG
1 AGTTGACTATATCCGGGCTAAGTCCCGAAG
48921004 ATACTTGGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 14 0.23
40 44 0.73
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (41 bp):
AGTTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCG
Found at i:48922410 original size:26 final size:26
Alignment explanation
Indices: 48922381--48922458 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
48922371 ACCAATATCA
48922381 TAGCAAAGCTACCAGTAATAATAATG
1 TAGCAAAGCTACCAGTAATAATAATG
* * * * *
48922407 TAGCATAGCTGCCAGAAACAGTGAATG
1 TAGCAAAGCTACCAGTAATAAT-AATG
* *
48922434 TGGCAAAGCCACCAGT-ATCAATAAT
1 TAGCAAAGCTACCAGTAAT-AATAAT
48922459 TGTGACATAG
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
26 21 0.55
27 17 0.45
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (26 bp):
TAGCAAAGCTACCAGTAATAATAATG
Found at i:48922492 original size:27 final size:27
Alignment explanation
Indices: 48922425--48922504 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
48922415 CTGCCAGAAA
* * *
48922425 CAGTGAATGTGGCAAAGCCACCAGTAT
1 CAGTGAATGTGACATAGACACCAGTAT
*
48922452 CAAT-AATTGTGACATAGACACCAGTAT
1 CAGTGAA-TGTGACATAGACACCAGTAT
*
48922479 CAGTGAATGCGACATA-ATCACCAGTA
1 CAGTGAATGTGACATAGA-CACCAGTA
48922505 CAATACTTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.89
28 2 0.05
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (27 bp):
CAGTGAATGTGACATAGACACCAGTAT
Found at i:48922687 original size:27 final size:26
Alignment explanation
Indices: 48922646--48922786 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 26
48922636 GGGCATACTA
48922646 GTCA-TTTACCCTACAAGGCCATTACG
1 GTCATTTTACCCTACAAGG-CATTACG
*
48922672 GTCATTTTACCCTACAATGGCATTATG
1 GTCATTTTACCCTACAA-GGCATTACG
* *
48922699 GTCATTTTACCCTACAGAGGCGTTACA
1 GTCATTTTACCCTACA-AGGCATTACG
**
48922726 GTCATTTTACCCTACGGGGGCATTACG
1 GTCATTTTACCCTAC-AAGGCATTACG
* * *
48922753 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACA-AGGCATTACG
48922780 GTCATTT
1 GTCATTT
48922787 CCATCCACTA
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
26 4 0.04
27 92 0.93
28 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (26 bp):
GTCATTTTACCCTACAAGGCATTACG
Found at i:48922784 original size:54 final size:54
Alignment explanation
Indices: 48922646--48922786 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 54
48922636 GGGCATACTA
* *
48922646 GTCA-TTTACCCTACA-AGGCCATTACGGTCATTTTACCCTACAATGGCATTATG
1 GTCATTTTACCCTACAGAGG-CATTACGGTCATTTTACCCTACAAGGGCATTACG
* * **
48922699 GTCATTTTACCCTACAGAGGCGTTACAGTCATTTTACCCTACGGGGGCATTACG
1 GTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCCTACAAGGGCATTACG
* * *
48922753 GTCATTTTACCCTATAGGGGTATTACGGTCATTT
1 GTCATTTTACCCTACAGAGGCATTACGGTCATTT
48922787 CCATCCACTA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
53 4 0.05
54 68 0.91
55 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
GTCATTTTACCCTACAGAGGCATTACGGTCATTTTACCCTACAAGGGCATTACG
Found at i:48922941 original size:20 final size:20
Alignment explanation
Indices: 48922911--48922950 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48922901 AAAGGACTCA
48922911 GGTGACAAATATGGCCAAAAT
1 GGTGACAAATA-GGCCAAAAT
*
48922932 GGTG-CAAATAGGCCCAAAT
1 GGTGACAAATAGGCCAAAAT
48922951 CCCATTACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (20 bp):
GGTGACAAATAGGCCAAAAT
Found at i:48928404 original size:45 final size:45
Alignment explanation
Indices: 48928323--48928435 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
48928313 TGGCATTTCA
*
48928323 CCTGTTAGGCTCG-AGGCCCG-ATATCAGTTCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATAG
48928366 CCTGCTAGGCTCGAAGGCCCGAATAGT-A-TCTCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATA-TCAGT-TCACCGGCATTATAG
** * *
48928411 TTTGCTAAGCTCAAAGGCCCGAATA
1 CCTGCTAGGCTCGAAGGCCCGAATA
48928436 ATCAAGTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 12 0.20
44 8 0.13
45 40 0.66
46 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (45 bp):
CCTGCTAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATAG
Found at i:48928813 original size:43 final size:43
Alignment explanation
Indices: 48928765--48928876 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
48928755 CCGGCATTAC
*
48928765 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
48928808 GCCTGCTGGGCATGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
48928851 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
48928877 TAATACCAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.29, C:0.31, G:0.28, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:48928918 original size:38 final size:38
Alignment explanation
Indices: 48928869--48929069 Score: 233
Period size: 38 Copynumber: 5.3 Consensus size: 38
48928859 GGCACGAAGG
* * * *
48928869 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
48928907 CCTGGTTATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** * * *
48928945 CCCGAATATTTTACTAGCACGAAGCTTGCGGGTCTTTAAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTT-AA
* *
48928985 CCTGGATATAATACCAACACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
48929023 CCCGGATATAATACCAACACGAAGCCTGCGGGA-TTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
48929060 CCCGGATATA
1 CCCGGATATA
48929070 CATCGAATAT
Statistics
Matches: 136, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 14 0.10
38 89 0.65
39 6 0.04
40 27 0.20
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:48929006 original size:78 final size:78
Alignment explanation
Indices: 48928869--48929054 Score: 232
Period size: 78 Copynumber: 2.4 Consensus size: 78
48928859 GGCACGAAGG
* * * * * * *
48928869 CCCGAATATAATACCAGCACTAGGCCTGCGGG-ATTT-ATCCTGGTTATAATACCAGCACGAAGC
1 CCCGAATATAATACCAACACGAAGCCTGCGGGTCTTTAAACCTGGATATAATACCAACACGAAGC
*
48928932 CTGTGGGATTTAA
66 CTGCGGGATTTAA
** * * *
48928945 CCCGAATATTTTACTAGCACGAAGCTTGCGGGTCTTTAAACCTGGATATAATACCAACACGAAGC
1 CCCGAATATAATACCAACACGAAGCCTGCGGGTCTTTAAACCTGGATATAATACCAACACGAAGC
48929010 CTGCGGGATTTAA
66 CTGCGGGATTTAA
*
48929023 CCCGGATATAATACCAACACGAAGCCTGCGGG
1 CCCGAATATAATACCAACACGAAGCCTGCGGG
48929055 ATTAACCCGG
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
76 26 0.29
77 3 0.03
78 62 0.68
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (78 bp):
CCCGAATATAATACCAACACGAAGCCTGCGGGTCTTTAAACCTGGATATAATACCAACACGAAGC
CTGCGGGATTTAA
Found at i:48934751 original size:23 final size:23
Alignment explanation
Indices: 48934725--48934773 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
48934715 TGACCCATGC
*
48934725 AAACACAAAACAAACCA-AAAAAT
1 AAAC-CAAAAAAAACCATAAAAAT
*
48934748 AAACCAAAAAAAACCATAAACAT
1 AAACCAAAAAAAACCATAAAAAT
48934771 AAA
1 AAA
48934774 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.73, C:0.20, G:0.00, T:0.06
Consensus pattern (23 bp):
AAACCAAAAAAAACCATAAAAAT
Found at i:48937405 original size:131 final size:132
Alignment explanation
Indices: 48937162--48937416 Score: 298
Period size: 131 Copynumber: 1.9 Consensus size: 132
48937152 GTTTCACAAT
* * * * * *
48937162 TATTAAAAATCCTTTAAAACGAAGGTGATATTCGATACTTGGTAATTCATGGAATCGTACCCTAA
1 TATTAAAAATCCCTTAAAACAAAGGCGATATTCGATACTTGGCAATTCACGAAATCGTACCCTAA
* * * * * * *
48937227 CGTGTTGGGTTGCAATTCCTTGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCACG
66 CGTGCTGGGTTGCAATTCCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCACG
48937292 GC
131 GC
* * *
48937294 TATTAAAAATCCCTT-AAACAAAGGCGATATGT-GATATTTGGCAATTCACGAAATTGTGCCCTA
1 TATTAAAAATCCCTTAAAACAAAGGCGATAT-TCGATACTTGGCAATTCACGAAATCGTACCCTA
* * * * *
48937357 GCGTGCTGGGTTGCAATTTCTCGTTTTCTTAAAATAATCAAATATCCCTTCAAAATTTCA
65 ACGTGCTGGGTTGCAATTCCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCA
48937417 TTCGTGTCTT
Statistics
Matches: 101, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
131 86 0.85
132 15 0.15
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (132 bp):
TATTAAAAATCCCTTAAAACAAAGGCGATATTCGATACTTGGCAATTCACGAAATCGTACCCTAA
CGTGCTGGGTTGCAATTCCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCACG
GC
Found at i:48937563 original size:131 final size:129
Alignment explanation
Indices: 48937350--48937676 Score: 291
Period size: 131 Copynumber: 2.5 Consensus size: 129
48937340 CACGAAATTG
* * * *
48937350 TGCCCTAGCGTGCTGGGTTGCAATTTCTCGTTTTCTTAAAATAATCAAATATCCCTTCAAAATTT
1 TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTT
* * * * *
48937415 CATTCGTGTCTTCTAAAAATCC-GTTAAAACGAAGGCAATATTTTG-TGTTCGACAATTCGGGAA
66 CACTCATGTCTTCTAAAAA-CCTGTTAAAAC-AAGG-AAT-GTTCGATGTTCGACAATTCGAGAA
48937478 TCA
127 TCA
** * * * ***
48937481 TGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTT
1 TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTT
* * * * * * *
48937546 CACTCATGT-TTGTTAAAAACCTTTTAAAACAAGGGATGTTCGATGTTTGGCAATTTGAGAATCG
66 CACTCATGTCTT-CTAAAAACCTGTTAAAACAAGGAATGTTCGATGTTCGACAATTCGAGAATCA
* * * * * * * **
48937610 TGCCCTATCGTGCTGGGTTGCACTTTTTCATTTGTTCTAAATAATCGAATATCCCTTCTGAATTT
1 TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTT
48937675 CA
66 CA
48937677 TTCGTATTTT
Statistics
Matches: 156, Mismatches: 37, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
128 3 0.02
129 72 0.46
130 8 0.05
131 73 0.47
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (129 bp):
TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCAAATATCCCTTCAAAATTT
CACTCATGTCTTCTAAAAACCTGTTAAAACAAGGAATGTTCGATGTTCGACAATTCGAGAATCA
Found at i:48949255 original size:44 final size:44
Alignment explanation
Indices: 48949192--48949901 Score: 823
Period size: 44 Copynumber: 16.1 Consensus size: 44
48949182 GCGAATCCTA
**
48949192 CAGATTTGGCATCTCTGTATTGGC-GAAGAGCAGATTAAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAG-AGAGCAGATCGAAGATAG
* * * * *
48949236 CAGATTTGGAATTTCTGTATTGACAGGGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* ** * * * * *
48949280 CAGATTTAGTGTCTTTGTATTGTCAAAGGGCAAATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
**
48949324 CAGATTTGGCATCTCTGTATTGTTAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* ** *
48949368 CAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* **
48949412 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* *
48949456 CAGATTTGGCATTTCTGTATTGACAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * *
48949500 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* ** * *
48949544 CAGATTTGGCTTCTCTGTATTACCGGAGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* **
48949588 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * * *
48949632 TAGATTTGGCATCTCTGTGTTGACAGAGAGCAAACCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
** * *
48949676 CAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * *
48949720 TAGATTTGGCGTCTCTGTATTGGCAGGGAGC-GTATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAG-ATCGAAGATAG
* * *
48949764 CAGATTTGGCATCTCTGTATTGTCAGAG-GACAGATTGAGGATAG
1 CAGATTTGGCATCTCTGTATTGGCAGAGAG-CAGATCGAAGATAG
* ** * *
48949808 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAAATCGAAGATAA
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
* * * *
48949852 CAGATTTGGCATCTCCGTATTGGCAGAGAGCAGATCAAAAATAA
1 CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
48949896 CAGATT
1 CAGATT
48949902 GGTGTTCCCG
Statistics
Matches: 574, Mismatches: 87, Indels: 10
0.86 0.13 0.01
Matches are distributed among these distances:
43 2 0.00
44 569 0.99
45 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.27
Consensus pattern (44 bp):
CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
Found at i:48951504 original size:28 final size:25
Alignment explanation
Indices: 48951472--48951537 Score: 60
Period size: 28 Copynumber: 2.4 Consensus size: 25
48951462 TGTATTTACG
48951472 AATTATCCTTCCATTTTAACGTGATTTC
1 AATTATCCTTCC--TTT-ACGTGATTTC
* *
48951500 AATTAGGCCCTCTCCTTTATGTGATTTC
1 AATTA--TCCT-TCCTTTACGTGATTTC
48951528 AATTATCCTT
1 AATTATCCTT
48951538 TTTTTAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
28 19 0.59
29 3 0.09
30 3 0.09
31 3 0.09
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (25 bp):
AATTATCCTTCCTTTACGTGATTTC
Found at i:48953972 original size:27 final size:27
Alignment explanation
Indices: 48953942--48954119 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
48953932 ATATTAAGTC
* *
48953942 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
48953969 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
48953997 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* ** *
48954024 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
* **
48954051 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
48954078 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
48954105 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48954120 GTACAATTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.79
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48954100 original size:81 final size:82
Alignment explanation
Indices: 48953963--48954117 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 82
48953953 TGCTATATAA
* *
48953963 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
48954028 CACTTAGTGTCGCATGG
66 CACTTAGTGTCGCATGG
* * **
48954045 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
48954108 ACACTTAGTG
65 ACACTTAGTG
48954118 CTGTACAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 42 0.64
82 24 0.36
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGTCGCATGG
Found at i:48956167 original size:131 final size:132
Alignment explanation
Indices: 48955924--48956178 Score: 289
Period size: 131 Copynumber: 1.9 Consensus size: 132
48955914 GTTTCACAAT
* * * **
48955924 TATTAAAAATCCTTTAAAACAAAGGTGATATTCGATACTCGATAATTCGTGGAATCGTGCCCTAA
1 TATTAAAAATCCCTTAAAACAAAGGCGATATGCGATACTCGATAATTCACGGAATCGTGCCCTAA
* * * * * * * *
48955989 CGTGTTGGGCTGCAATTCCTCGTTTTCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCACG
66 CGTGCTGGGCTGCAATTCCTCATTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCACG
48956054 AC
131 AC
* * * *
48956056 TATTAAAAATCCCTT-AAACTAAGGCGATATGCGATATTTGGA-AATTCACGGAATTGTGCCCTA
1 TATTAAAAATCCCTTAAAACAAAGGCGATATGCGATA-CTCGATAATTCACGGAATCGTGCCCTA
* * * * *
48956119 GCGTGCTGGGTTGCAATTTCTCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCA
65 ACGTGCTGGGCTGCAATTCCTCATTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCA
48956179 TTTGTGTCTT
Statistics
Matches: 100, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
131 83 0.83
132 17 0.17
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (132 bp):
TATTAAAAATCCCTTAAAACAAAGGCGATATGCGATACTCGATAATTCACGGAATCGTGCCCTAA
CGTGCTGGGCTGCAATTCCTCATTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCACG
AC
Found at i:48956194 original size:131 final size:131
Alignment explanation
Indices: 48956059--48956299 Score: 288
Period size: 131 Copynumber: 1.8 Consensus size: 131
48956049 CCACGACTAT
* * **
48956059 TAAAAATCCCTT-AAACTAAGGCGATATGCGATATTTGGA-AATTCACGGAATTGTGCCCTAGCG
1 TAAAAATCCCTTAAAACGAAGGCAATATGCGATATTT-GACAATTC-CGGAATCATGCCCTAGCG
* *
48956122 TGCTGGGTTGCAATTTCTCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCATTTGTGTC
64 TGCTGGGTTGCAATTTCTCATTTGCTCAAAACAATCAAATATCCCTTCAAAATTTCATTTGTGTC
48956187 TTC
129 TTC
* ** * * * *
48956190 TAAAAATCCGTTAAAACGAAGGCAATATTTGGTGTTTGACAATTCGGGAATCATGCCCTATCGTG
1 TAAAAATCCCTTAAAACGAAGGCAATATGCGATATTTGACAATTCCGGAATCATGCCCTAGCGTG
** * * *
48956255 CTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTT
66 CTGGGTTGCAATTTCTCATTTGCTCAAAACAATCAAATATCCCTT
48956300 TAGGTTTTCA
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
131 67 0.74
132 23 0.26
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (131 bp):
TAAAAATCCCTTAAAACGAAGGCAATATGCGATATTTGACAATTCCGGAATCATGCCCTAGCGTG
CTGGGTTGCAATTTCTCATTTGCTCAAAACAATCAAATATCCCTTCAAAATTTCATTTGTGTCTT
C
Found at i:48956309 original size:131 final size:129
Alignment explanation
Indices: 48956112--48956441 Score: 342
Period size: 129 Copynumber: 2.5 Consensus size: 129
48956102 CACGGAATTG
* * * *
48956112 TGCCCTAGCGTGCTGGGTTGCAATTTCTCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTT
1 TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAATAATCGAATATCCCTTCAAAATTT
* ** * *
48956177 CATTTGTGTCTT-CTAAAAATCCGTT-AAAACGAAGGCAATATTTGGTG-TTTGACAATTCGGGA
66 CACTCATGT-TTGCTAAAAA-CCGTTCAAAAC-AAGG-AATATTTGATGTTTTG-CAATTCGAGA
48956239 ATCA
126 ATCA
* * * * * ***
48956243 TGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAGGTTTT
1 TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAATAATCGAATATCCCTTCAAAATTT
* * * * * *
48956308 CACTCATGTTTGTTAAAAACCTTTCAAAACAAGGGATGTTTGATGTTTTGCAATTTGAGAATCG
66 CACTCATGTTTGCTAAAAACCGTTCAAAACAAGGAATATTTGATGTTTTGCAATTCGAGAATCA
* * * * *
48956372 TGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCTAAATAATCGAATATCCCTTCTAAATTT
1 TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAATAATCGAATATCCCTTCAAAATTT
48956437 CACTC
66 CACTC
48956442 GTATTTTCTA
Statistics
Matches: 160, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
129 76 0.47
130 14 0.09
131 70 0.44
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (129 bp):
TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCAAAATAATCGAATATCCCTTCAAAATTT
CACTCATGTTTGCTAAAAACCGTTCAAAACAAGGAATATTTGATGTTTTGCAATTCGAGAATCA
Found at i:48958164 original size:27 final size:27
Alignment explanation
Indices: 48958129--48958220 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
48958119 CCCCAAAATA
** *
48958129 GGTAAAATGATAGTAATACCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
48958156 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
48958183 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
48958210 GGTAAAATGAC
1 GGTAAAATGAC
48958221 GATTATGCCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:48958400 original size:27 final size:26
Alignment explanation
Indices: 48958356--48958406 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
48958346 ATGGAGGAAG
*
48958356 TACTGTACTGGTGACTATGTCACATT
1 TACTGTACTGGTGACTATGCCACATT
48958382 TACTGTTACTGGTCG-CTATGCCACA
1 TACTG-TACTGGT-GACTATGCCACA
48958407 ACTGCTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 16 0.73
28 1 0.05
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TACTGTACTGGTGACTATGCCACATT
Found at i:48958673 original size:33 final size:34
Alignment explanation
Indices: 48958624--48958695 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
48958614 CTTATGTCCA
* * *
48958624 CACTGTTACTGCATAGGGCTAAGGCCTAGACTGT
1 CACTGATACTGAATAGGGCTAAGGCCAAGACTGT
*
48958658 -ACTGATACTGAATAGGGCTCAGGCCAAGACTGT
1 CACTGATACTGAATAGGGCTAAGGCCAAGACTGT
48958691 CACTG
1 CACTG
48958696 TATGCACTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (34 bp):
CACTGATACTGAATAGGGCTAAGGCCAAGACTGT
Found at i:48961251 original size:68 final size:65
Alignment explanation
Indices: 48961115--48961463 Score: 170
Period size: 68 Copynumber: 5.3 Consensus size: 65
48961105 TGGAACCACG
* ** * * *
48961115 CATGCGACCTAGCTACAT-AT-ATCCCGTAGCTCTCTTGTCTACATGGTGTACACAT-AGTA-TC
1 CATGTGACCTAGCTACATCATAATCTTGTAGCTCTCTTGTC-ACATGATGTGCAC-TCAGCACT-
*
48961176 ACC
63 ACA
48961179 CATGTGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCAGCACT
1 CATGTGACCTAGCTACATCATAA--TCTTGTAGCTCTCTTGT-CACATGATGTGCACTCAGCACT
*
48961244 ATA
63 ACA
* ** * * * *
48961247 CATGTGACCTAGCTAGAT-ACCATC-TGTATCATCCAATCTT-TC-C--GAAGGTTCAAC-CGGG
1 CATGTGACCTAGCTACATCATAATCTTGTAGC-T-C--TCTTGTCACATG-ATGTGC-ACTC--A
* * *
48961305 GAACCACG
58 GCACTACA
* ** * * *
48961313 CATGCGACCTAGCTACAT-AT-ATCCCGTAGCTCTCTTGTCTACATGGTGTACACGT-AGTA-TC
1 CATGTGACCTAGCTACATCATAATCTTGTAGCTCTCTTGTC-ACATGATGTGCAC-TCAGCACT-
*
48961374 ACC
63 ACA
*
48961377 CATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTCAGCACT
1 CATGTGACCTAGCTACATCATAA--TCTTGTAGCTCTCTTGT-CACATGATGTGCACTCAGCACT
*
48961442 ATA
63 ACA
48961445 CATGTGACCTAGCTACATC
1 CATGTGACCTAGCTACATC
48961464 CCATCTATAT
Statistics
Matches: 215, Mismatches: 39, Indels: 58
0.69 0.12 0.19
Matches are distributed among these distances:
62 4 0.02
63 3 0.01
64 50 0.23
65 17 0.08
66 32 0.15
67 6 0.03
68 99 0.46
69 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (65 bp):
CATGTGACCTAGCTACATCATAATCTTGTAGCTCTCTTGTCACATGATGTGCACTCAGCACTACA
Done.