Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 18 of 131
Found at i:6149836 original size:22 final size:22
Alignment explanation
Indices: 6149811--6149887 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
6149801 TTAAATATGG
*
6149811 ATTTGAGAGAAATTTGAAAGG-A
1 ATTTGAGAGAAA-TTGAGAGGAA
6149833 ATTTGAGAGTAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
6149856 ATTT-AGAGGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTGAGAGGAA
6149878 ATTTGAGAGA
1 ATTTGAGAGA
6149888 GGATTAGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
22 38 0.76
23 12 0.24
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:6149850 original size:33 final size:33
Alignment explanation
Indices: 6149811--6149887 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
6149801 TTAAATATGG
* *
6149811 ATTTGAGAGAAATTTGAAAGGAATTTGAGAGTAA
1 ATTTGAGAGAAATTT-AAAGGAAATTGAGAGGAA
*
6149845 A-TTGAGAGGAAATTTAGAGGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTTAAAGGAAATTGAGAGGAA
6149878 ATTTGAGAGA
1 ATTTGAGAGA
6149888 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 24 0.63
34 14 0.37
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAAAGGAAATTGAGAGGAA
Found at i:6153482 original size:12 final size:12
Alignment explanation
Indices: 6153465--6153492 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6153455 CTCTTCACTT
6153465 TTTTTTATTTAA
1 TTTTTTATTTAA
6153477 TTTTTTATTTAA
1 TTTTTTATTTAA
6153489 TTTT
1 TTTT
6153493 ATTTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTATTTAA
Found at i:6155318 original size:17 final size:18
Alignment explanation
Indices: 6155296--6155329 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6155286 CAAGTGCTTT
6155296 TTTGACAAA-TTGGAACA
1 TTTGACAAATTTGGAACA
6155313 TTTGACAAATTTGGAAC
1 TTTGACAAATTTGGAAC
6155330 TGTATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
TTTGACAAATTTGGAACA
Found at i:6158404 original size:18 final size:17
Alignment explanation
Indices: 6158381--6158414 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6158371 TCAATGTTTA
*
6158381 TATAGCACAAATTATAAG
1 TATAGCA-AAAGTATAAG
6158399 TATAGCAAAAGTATAA
1 TATAGCAAAAGTATAA
6158415 ATATTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (17 bp):
TATAGCAAAAGTATAAG
Found at i:6158838 original size:18 final size:18
Alignment explanation
Indices: 6158819--6158851 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6158809 TTTTAAATTA
6158819 AAAAT-TAAAAATAAAGT
1 AAAATATAAAAATAAAGT
6158836 AAAATATAAAAA-AAAG
1 AAAATATAAAAATAAAG
6158852 AAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (18 bp):
AAAATATAAAAATAAAGT
Found at i:6160509 original size:30 final size:30
Alignment explanation
Indices: 6160473--6160532 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
6160463 CAAACTGTAA
6160473 GCAAACATCAGTAGTACCTTATAAGTATCT
1 GCAAACATCAGTAGTACCTTATAAGTATCT
*
6160503 GCAAACATCAGTAGTACTTTATAAGTATCT
1 GCAAACATCAGTAGTACCTTATAAGTATCT
6160533 TACAATCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (30 bp):
GCAAACATCAGTAGTACCTTATAAGTATCT
Found at i:6172990 original size:19 final size:19
Alignment explanation
Indices: 6172944--6172994 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
6172934 CACTTACGCG
* **
6172944 CCAGGATGCACTTTGTGTG
1 CCAGGATGCGCTTTGTGCA
* *
6172963 CTAGTATGCGCTTTGTGCA
1 CCAGGATGCGCTTTGTGCA
6172982 CCAGGATGCGCTT
1 CCAGGATGCGCTT
6172995 CGAGCACCAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (19 bp):
CCAGGATGCGCTTTGTGCA
Found at i:6173009 original size:19 final size:19
Alignment explanation
Indices: 6172967--6173009 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
6172957 TGTGTGCTAG
* * *
6172967 TATGCGCTTTGTGCACCAG
1 TATGCGCTTCGAGCACCAA
*
6172986 GATGCGCTTCGAGCACCAA
1 TATGCGCTTCGAGCACCAA
6173005 TATGC
1 TATGC
6173010 ACATTACGTG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (19 bp):
TATGCGCTTCGAGCACCAA
Found at i:6175699 original size:43 final size:43
Alignment explanation
Indices: 6175553--6175708 Score: 126
Period size: 43 Copynumber: 3.6 Consensus size: 43
6175543 GTGATTTTGC
*
6175553 GTAAGACCATGTCTGGGACGTTGGCATCGATT-TGA-GATT-TACGT
1 GTAAGACCACGTCTGGGACGTTGGCATC-ATTAT-ATGATTATA--T
* * * * **
6175597 GTAAGACCAGGTCTGGGACATTGGCATC-GTATATGATCACGT
1 GTAAGACCACGTCTGGGACGTTGGCATCATTATATGATTATAT
* * *
6175639 GTAAGACC-CTATTTGGGACAG-TGGCATCATTATTTGATTATAT
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATCATTATATGATTATAT
6175682 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
6175709 TGTACGAGCT
Statistics
Matches: 87, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
42 26 0.30
43 34 0.39
44 27 0.31
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACGTTGGCATCATTATATGATTATAT
Found at i:6177846 original size:14 final size:14
Alignment explanation
Indices: 6177811--6177847 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6177801 TAGAATGAGG
6177811 GAAGGAGG-GAGAA
1 GAAGGAGGAGAGAA
6177824 G-AGGAAGGAGAGAA
1 GAAGG-AGGAGAGAA
6177838 GAAGGAGGAG
1 GAAGGAGGAG
6177848 GACTGATGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 4 0.19
14 11 0.52
15 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (14 bp):
GAAGGAGGAGAGAA
Found at i:6179310 original size:16 final size:16
Alignment explanation
Indices: 6179289--6179324 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6179279 TTTGGTTCAC
6179289 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
6179305 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
6179321 TGTA
1 TGTA
6179325 ATAGCTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6179581 original size:18 final size:17
Alignment explanation
Indices: 6179560--6179594 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6179550 TTATTATTAA
*
6179560 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6179578 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6179595 TCTTANNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6187400 original size:54 final size:54
Alignment explanation
Indices: 6187335--6187483 Score: 214
Period size: 54 Copynumber: 2.8 Consensus size: 54
6187325 AAAGAAAAGA
*
6187335 AAAAGGTTGTGAAGCAGCTAAACTGAAACAGAAGAAAGAAACAGAAGGAACAGTT
1 AAAA-GTTGTGAAGCAGCTAAACTGAAACAGAAGAAAGAAACAGAAGGAACAGCT
* *
6187390 AAAAGTTGTGAAGCAGCTAAACTGAAACAGAA-AGAAGAAATAGAAGGAACGGCT
1 AAAAGTTGTGAAGCAGCTAAACTGAAACAGAAGA-AAGAAACAGAAGGAACAGCT
* *
6187444 --AAGTTGTGAAGTAGCTAAACTGAAACAGAAGGAAGAAACA
1 AAAAGTTGTGAAGCAGCTAAACTGAAACAGAAGAAAGAAACA
6187484 AAAGAAAAGG
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
52 36 0.42
53 1 0.01
54 45 0.52
55 4 0.05
ACGTcount: A:0.50, C:0.11, G:0.26, T:0.13
Consensus pattern (54 bp):
AAAAGTTGTGAAGCAGCTAAACTGAAACAGAAGAAAGAAACAGAAGGAACAGCT
Found at i:6188100 original size:4 final size:4
Alignment explanation
Indices: 6188091--6188118 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
6188081 TCTGTAAGCA
6188091 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
6188119 AATTGGATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:6194355 original size:13 final size:13
Alignment explanation
Indices: 6194337--6194361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6194327 ATATCTGGGA
6194337 AAACAAATAGCAT
1 AAACAAATAGCAT
6194350 AAACAAATAGCA
1 AAACAAATAGCA
6194362 ACCAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
AAACAAATAGCAT
Found at i:6201274 original size:50 final size:49
Alignment explanation
Indices: 6201199--6201387 Score: 191
Period size: 51 Copynumber: 3.8 Consensus size: 49
6201189 AAGTGAAGTT
* *
6201199 GATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAA
1 GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGAA
* * * *
6201248 CGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
1 -GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGA-A
* * * * * * *
6201299 GCTTCGATCACGTGTGTAGTACTATATGCAAGCTACAACGTGTATCAGATGAA
1 G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAG--GAA
*
6201352 AAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
6201388 TGTCAACCGG
Statistics
Matches: 111, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
50 44 0.40
51 61 0.55
52 3 0.03
53 1 0.01
54 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGGAA
Found at i:6201389 original size:102 final size:101
Alignment explanation
Indices: 6201205--6201389 Score: 275
Period size: 102 Copynumber: 1.8 Consensus size: 101
6201195 AGTTGATAGG
* * * * * *
6201205 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAACGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATATGCAAGCTACAACGTGTACAGGAACAATAGGTCACATGTGTAGTAC
6201270 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
6201306 TCACGTGTGTAGTACTATATGCAAGCTACAACGTGTATCAGATGAA-AAT-GGTCACATGTGTAG
1 TCACGTGTGTAGTACTATATGCAAGCTACAACGTGTA-CAG--GAACAATAGGTCACATGTGTAG
6201369 TACTATGTGCAGGCTACTATG
63 TACTATGTGCAGGCTACTATG
6201390 TCAACCGGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
101 34 0.45
102 36 0.48
103 2 0.03
104 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATATGCAAGCTACAACGTGTACAGGAACAATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:6205559 original size:27 final size:28
Alignment explanation
Indices: 6205511--6205578 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
6205501 AAATAAAAAA
*
6205511 TTACCAAAATGT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
*
6205538 TTACTAAAATATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
6205565 TTACCAAAATATAT
1 TTACCAAAATATAT
6205579 CAAAAAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 32 0.86
28 5 0.14
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:6205593 original size:9 final size:9
Alignment explanation
Indices: 6205579--6205622 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
6205569 CAAAATATAT
6205579 CAAAAAAAA
1 CAAAAAAAA
6205588 C-AAAAAAA
1 CAAAAAAAA
6205596 CAAAAAAAA
1 CAAAAAAAA
* *
6205605 TAAAAAACA
1 CAAAAAAAA
*
6205614 GAAAAAAAA
1 CAAAAAAAA
6205623 ACTTGAACTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:6205594 original size:8 final size:8
Alignment explanation
Indices: 6205581--6205620 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
6205571 AAATATATCA
6205581 AAAAAAAC
1 AAAAAAAC
6205589 AAAAAAAC
1 AAAAAAAC
6205597 AAAAAAA-
1 AAAAAAAC
6205604 ATAAAAAAC
1 A-AAAAAAC
6205613 AGAAAAAA
1 A-AAAAAA
6205621 AAACTTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 1 0.03
8 21 0.72
9 7 0.24
ACGTcount: A:0.88, C:0.07, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:6205601 original size:17 final size:16
Alignment explanation
Indices: 6205579--6205623 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
6205569 CAAAATATAT
6205579 CAAAAAAAACAAAAAAA
1 CAAAAAAAA-AAAAAAA
*
6205596 CAAAAAAAATAAAAAA
1 CAAAAAAAAAAAAAAA
6205612 CAGAAAAAAAAA
1 CA-AAAAAAAAA
6205624 CTTGAACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:6205694 original size:27 final size:27
Alignment explanation
Indices: 6205664--6205730 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
6205654 AGGGAAGCAA
6205664 GTTGGCGGCACCAAACAAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGGATCCCT
****
6205691 GTTGGCGGCACCAGTGGAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGGATCCCT
6205718 GTTGGCGGCACCA
1 GTTGGCGGCACCA
6205731 CCCTTGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.28, G:0.36, T:0.16
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGGATCCCT
Found at i:6205800 original size:18 final size:17
Alignment explanation
Indices: 6205777--6205892 Score: 76
Period size: 18 Copynumber: 6.5 Consensus size: 17
6205767 GAAGGAGAGG
6205777 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
6205795 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
6205812 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
6205828 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
6205846 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
6205866 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
6205884 GGAAAGAAA
1 GG-AAGAAA
6205893 AGGAAAGGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
15 9 0.11
16 4 0.05
17 4 0.05
18 31 0.39
19 20 0.25
20 12 0.15
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:6205810 original size:10 final size:10
Alignment explanation
Indices: 6205779--6205850 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
6205769 AGGAGAGGGG
*
6205779 AAGAAGAAGA
1 AAGAAAAAGA
6205789 AAGAAAGGAAGA
1 AAGAAA--AAGA
6205801 AAGAAAAAGA
1 AAGAAAAAGA
* *
6205811 AGGAAAAGGA
1 AAGAAAAAGA
6205821 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
6205835 AAGAAAAAGA
1 AAGAAAAAGA
*
6205845 AGGAAA
1 AAGAAA
6205851 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:6205810 original size:22 final size:23
Alignment explanation
Indices: 6205779--6205880 Score: 73
Period size: 24 Copynumber: 4.3 Consensus size: 23
6205769 AGGAGAGGGG
*
6205779 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
6205801 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
6205823 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* ***
6205849 AAGAAAAGGAAAGGGGAGGAAAGA
1 AAGAAAAAGAAAGAAAAGG-AAGA
6205873 AAGAAAAA
1 AAGAAAAA
6205881 TAAGGAAAGA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
22 12 0.20
23 10 0.17
24 32 0.53
25 5 0.08
26 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:6205816 original size:14 final size:13
Alignment explanation
Indices: 6205782--6205855 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
6205772 AGAGGGGAAG
6205782 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
6205794 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
6205807 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
6205823 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
6205841 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
6205855 A
1 A
6205856 GGAAAGGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:6205837 original size:28 final size:28
Alignment explanation
Indices: 6205782--6205861 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
6205772 AGAGGGGAAG
6205782 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
6205807 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
6205841 AAGAAGGAAAGAAAAGGAAAG
1 AAGAAGGAAAGAAAAGGAAAG
6205862 GGGAGGAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 3 0.07
28 8 0.17
29 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 6 0.13
34 17 0.37
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:6205855 original size:38 final size:38
Alignment explanation
Indices: 6205797--6205903 Score: 168
Period size: 38 Copynumber: 2.9 Consensus size: 38
6205787 GAAAGAAAGG
6205797 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
6205831 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
6205869 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGA
6205904 AGAGNNNNNN
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
34 15 0.23
35 1 0.02
38 50 0.76
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:6205857 original size:10 final size:10
Alignment explanation
Indices: 6205799--6205899 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
6205789 AAGAAAGGAA
*
6205799 GAAAGAAAAA
1 GAAAGAAAAG
*
6205809 GAAGGAAAAG
1 GAAAGAAAAG
* *
6205819 GAAAGGAGAG
1 GAAAGAAAAG
6205829 GAAAG-AAA-
1 GAAAGAAAAG
6205837 GAAA-AAGAAG
1 GAAAGAA-AAG
6205847 GAAAGAAAAG
1 GAAAGAAAAG
***
6205857 GAAAGGGGAG
1 GAAAGAAAAG
6205867 GAAAG-AAA-
1 GAAAGAAAAG
6205875 GAAA-AATAAG
1 GAAAGAA-AAG
6205885 GAAAGAAAAG
1 GAAAGAAAAG
6205895 GAAAG
1 GAAAG
6205900 GAGAAGAGNN
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
8 10 0.14
9 7 0.10
10 51 0.71
11 4 0.06
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:6206541 original size:27 final size:26
Alignment explanation
Indices: 6206491--6206559 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 26
6206481 NNNNAAAAAA
6206491 TTACCAAAATATTATAACTTTTTTTTAT
1 TTACCAAAATA-TATAAC-TTTTTTTAT
6206519 TTACCGAAAAATATATAA-TTTTTTTAT
1 TTACC--AAAATATATAACTTTTTTTAT
6206546 TTACCAAAATATAT
1 TTACCAAAATATAT
6206560 CAAAAACAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
25 9 0.23
27 14 0.36
28 5 0.13
29 5 0.13
30 6 0.15
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (26 bp):
TTACCAAAATATATAACTTTTTTTAT
Found at i:6206582 original size:17 final size:17
Alignment explanation
Indices: 6206560--6206595 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6206550 CAAAATATAT
* *
6206560 CAAAAACAAGTAAAAAA
1 CAAAAAAAAGAAAAAAA
6206577 CAAAAAAAAGAAAAAAA
1 CAAAAAAAAGAAAAAAA
6206594 CA
1 CA
6206596 CCCTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.03
Consensus pattern (17 bp):
CAAAAAAAAGAAAAAAA
Found at i:6207920 original size:17 final size:17
Alignment explanation
Indices: 6207898--6207934 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6207888 ATGGGGTAAG
6207898 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
6207915 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
6207932 ATG
1 ATG
6207935 ACATCTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:6208940 original size:15 final size:14
Alignment explanation
Indices: 6208900--6208928 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6208890 TTTTTGTATC
6208900 AATTTAATTATTCT
1 AATTTAATTATTCT
6208914 AATTTAATTATTCT
1 AATTTAATTATTCT
6208928 A
1 A
6208929 GTTTTAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:6211484 original size:18 final size:18
Alignment explanation
Indices: 6211458--6211495 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6211448 GTCCCAATGA
*
6211458 TCGCCACCACATTCTTCT
1 TCGCAACCACATTCTTCT
6211476 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
6211494 TC
1 TC
6211496 ACCACCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.42, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:6211502 original size:18 final size:18
Alignment explanation
Indices: 6211461--6211502 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6211451 CCAATGATCG
*
6211461 CCACCACATTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
6211479 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
6211497 CCACCA
1 CCACCA
6211503 ACCATATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:6212239 original size:3 final size:3
Alignment explanation
Indices: 6212231--6212271 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6212221 AGTAACATCT
6212231 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6212272 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6212404 original size:27 final size:27
Alignment explanation
Indices: 6212366--6212443 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
6212356 NNNNNNNNNG
6212366 TGGTGCCGCCAACAGGGAAT-CCTTGTT
1 TGGTGCCGCCAACAGGG-ATCCCTTGTT
* *
6212393 TGGTGCCGCCAACAAGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGATCCCTTGTT
* *
6212420 TGGTGCCGCCAACAGTGTTCCCTT
1 TGGTGCCGCCAACAGGGATCCCTT
6212444 CACCCAGGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGATCCCTTGTT
Found at i:6212549 original size:27 final size:27
Alignment explanation
Indices: 6212493--6212561 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
6212483 TGTTTTTTTG
*
6212493 ATATATTTTGGTAAATAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATAT
* *
6212520 ATATTTTTTGGTAAATAAAAAAAATGT
1 ATATATTTTGGTAAATAAAAAAAATAT
*
6212547 ATAACATTTTGGTAA
1 AT-ATATTTTGGTAA
6212562 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 26 0.72
28 10 0.28
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAATAT
Found at i:6212556 original size:28 final size:27
Alignment explanation
Indices: 6212497--6212561 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
6212487 TTTTTGATAT
*
6212497 ATTTTGGTAAATAAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAAATTATATAC
*
6212524 TTTTTGGTAAATAAAAAAAATGTATA-AC
1 ATTTTGGTAAAT-AAAAAAAT-TATATAC
6212552 ATTTTGGTAA
1 ATTTTGGTAA
6212562 TTTTTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 11 0.33
28 18 0.55
29 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (27 bp):
ATTTTGGTAAATAAAAAAATTATATAC
Found at i:6220495 original size:872 final size:873
Alignment explanation
Indices: 6218798--6220544 Score: 3478
Period size: 872 Copynumber: 2.0 Consensus size: 873
6218788 TATTTAAATT
6218798 CGTTAATATTATGATTTTTTAATAAGAATATAAAAAATAATTTATTATAATTTATTGTTAATATA
1 CGTTAATATTA-GATTTTTTAATAAGAATATAAAAAATAATTTATTATAATTTATTGTTAATATA
6218863 TTTTATTTATCTTTTTTAGAAAGGGAGTGTGTGCGAGTTGTTTGTTTCCCTGCTGCATCTGAACT
65 TTTTATTTATCTTTTTTAGAAAGGGAGTGTGTGCGAGTTGTTTGTTTCCCTGCTGCATCTGAACT
6218928 TCAAACGGGTTTGGCCTTAACCATGTTAATGGTCCCAAATTATTGGTTAATAGAGTATTAAAGTC
130 TCAAACGGGTTTGGCCTTAACCATGTTAATGGTCCCAAATTATTGGTTAATAGAGTATTAAAGTC
6218993 AATGTACCAATAAATCATGAAATGCTATAGTTCTATAATATGATTTTAAAATTTTATTTAGAAGT
195 AATGTACCAATAAATCATGAAATGCTATAGTTCTATAATATGATTTTAAAATTTTATTTAGAAGT
6219058 AATTCGCGGGATCATGCGCTCTTTTATTTTCACCAGACGTCTATTATTAAATTCACCTGATTCGA
260 AATTCGCGGGATCATGCGCTCTTTTATTTTCACCAGACGTCTATTATTAAATTCACCTGATTCGA
6219123 TAGTACCCATTTTTGGAATGTCCAATGCCAAAGTCACAGAATGGGTAAGTTGCCATTCTCGCCAA
325 TAGTACCCATTTTTGGAATGTCCAATGCCAAAGTCACAGAATGGGTAAGTTGCCATTCTCGCCAA
6219188 TTGAAAGGACCTTCTGATCAATCCAGAGATCGTTTCGATTCCATTTGTAATGAGGATTCAGAATA
390 TTGAAAGGACCTTCTGATCAATCCAGAGATCGTTTCGATTCCATTTGTAATGAGGATTCAGAATA
6219253 TGACACATCGATTAATCAAAGAGAGATTCAACAACTAAAAGAAAGATCGATTCTTTGGGATCCTT
455 TGACACATCGATTAATCAAAGAGAGATTCAACAACTAAAAGAAAGATCGATTCTTTGGGATCCTT
6219318 CCTTTCTTCAAACCGAACGAATAGAACATTTCTCTTCTACATGTTCATGGAGTTTTGAAAAATCC
520 CCTTTCTTCAAACCGAACGAATAGAACATTTCTCTTCTACATGTTCATGGAGTTTTGAAAAATCC
6219383 AAACATCTCAGAGATAGATAGAGAGGTAGGAATTTATCGAGCGAATTGCACTCCTTTATATACGT
585 AAACATCTCAGAGATAGATAGAGAGGTAGGAATTTATCGAGCGAATTGCACTCCTTTATATACGT
6219448 CAGGAGTCCATTGATGAGAAAGAGCTAAGAAAAACTTGAATCTAATCAGAAAGAAAAATCTGACT
650 CAGGAGTCCATTGATGAGAAAGAGCTAAGAAAAACTTGAATCTAATCAGAAAGAAAAATCTGACT
6219513 TGTCATTCTCCTCTAGAAAAAGGATATGGATGACATGAATCACATTTTCCTCAAATTGGGTCTAT
715 TGTCATTCTCCTCTAGAAAAAGGATATGGATGACATGAATCACATTTTCCTCAAATTGGGTCTAT
6219578 ATAAAGAAAGGCGTCTGTTAAATTAAAACTTTAAGATTCGATTGTCTCAATGGAAATATTTAAGC
780 ATAAAGAAAGGCGTCTGTTAAATTAAAACTTTAAGATTCGATTGTCTCAATGGAAATATTTAAGC
6219643 TATTATTATTCTTCGGCTTTCACAGAGCG
845 TATTATTATTCTTCGGCTTTCACAGAGCG
6219672 CGTTAATATTA-ATTTTTTAATAAGAATATAAAAAATAATTTATTATAATTTATTGTTAATATAT
1 CGTTAATATTAGATTTTTTAATAAGAATATAAAAAATAATTTATTATAATTTATTGTTAATATAT
6219736 TTTATTTATCTTTTTTAGAAAGGGAGTGTGTGCGAGTTGTTTGTTTCCCTGCTGCATCTGAACTT
66 TTTATTTATCTTTTTTAGAAAGGGAGTGTGTGCGAGTTGTTTGTTTCCCTGCTGCATCTGAACTT
6219801 CAAACGGGTTTGGCCTTAACCATGTTAATGGTCCCAAATTATTGGTTAATAGAGTATTAAAGTCA
131 CAAACGGGTTTGGCCTTAACCATGTTAATGGTCCCAAATTATTGGTTAATAGAGTATTAAAGTCA
6219866 ATGTACCAATAAATCATGAAATGCTATAGTTCTATAATATGATTTTAAAATTTTATTTAGAAGTA
196 ATGTACCAATAAATCATGAAATGCTATAGTTCTATAATATGATTTTAAAATTTTATTTAGAAGTA
6219931 ATTCGCGGGATCATGCGCTCTTTTATTTTCACCAGACGTCTATTATTAAATTCACCTGATTCGAT
261 ATTCGCGGGATCATGCGCTCTTTTATTTTCACCAGACGTCTATTATTAAATTCACCTGATTCGAT
6219996 AGTACCCATTTTTGGAATGTCCAATGCCAAAGTCACAGAATGGGTAAGTTGCCATTCTCGCCAAT
326 AGTACCCATTTTTGGAATGTCCAATGCCAAAGTCACAGAATGGGTAAGTTGCCATTCTCGCCAAT
6220061 TGAAAGGACCTTCTGATCAATCCAGAGATCGTTTCGATTCCATTTGTAATGAGGATTCAGAATAT
391 TGAAAGGACCTTCTGATCAATCCAGAGATCGTTTCGATTCCATTTGTAATGAGGATTCAGAATAT
6220126 GACACATCGATTAATCAAAGAGAGATTCAACAACTAAAAGAAAGATCGATTCTTTGGGATCCTTC
456 GACACATCGATTAATCAAAGAGAGATTCAACAACTAAAAGAAAGATCGATTCTTTGGGATCCTTC
6220191 CTTTCTTCAAACCGAACGAATAGAACATTTCTCTTCTACATGTTCATGGAGTTTTGAAAAATCCA
521 CTTTCTTCAAACCGAACGAATAGAACATTTCTCTTCTACATGTTCATGGAGTTTTGAAAAATCCA
6220256 AACATCTCAGAGATAGATAGAGAGGTAGGAATTTATCGAGCGAATTGCACTCCTTTATATACGTC
586 AACATCTCAGAGATAGATAGAGAGGTAGGAATTTATCGAGCGAATTGCACTCCTTTATATACGTC
6220321 AGGAGTCCATTGATGAGAAAGAGCTAAGAAAAACTTGAATCTAATCAGAAAGAAAAATCTGACTT
651 AGGAGTCCATTGATGAGAAAGAGCTAAGAAAAACTTGAATCTAATCAGAAAGAAAAATCTGACTT
6220386 GTCATTCTCCTCTAGAAAAAGGATATGGATGACATGAATCACATTTTCCTCAAATTGGGTCTATA
716 GTCATTCTCCTCTAGAAAAAGGATATGGATGACATGAATCACATTTTCCTCAAATTGGGTCTATA
6220451 TAAAGAAAGGCGTCTGTTAAATTAAAACTTTAAGATTCGATTGTCTCAATGGAAATATTTAAGCT
781 TAAAGAAAGGCGTCTGTTAAATTAAAACTTTAAGATTCGATTGTCTCAATGGAAATATTTAAGCT
6220516 ATTATTATTCTTCGGCTTTCACAGAGCG
846 ATTATTATTCTTCGGCTTTCACAGAGCG
6220544 C
1 C
6220545 CTGATAGTAA
Statistics
Matches: 873, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
872 862 0.99
874 11 0.01
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (873 bp):
CGTTAATATTAGATTTTTTAATAAGAATATAAAAAATAATTTATTATAATTTATTGTTAATATAT
TTTATTTATCTTTTTTAGAAAGGGAGTGTGTGCGAGTTGTTTGTTTCCCTGCTGCATCTGAACTT
CAAACGGGTTTGGCCTTAACCATGTTAATGGTCCCAAATTATTGGTTAATAGAGTATTAAAGTCA
ATGTACCAATAAATCATGAAATGCTATAGTTCTATAATATGATTTTAAAATTTTATTTAGAAGTA
ATTCGCGGGATCATGCGCTCTTTTATTTTCACCAGACGTCTATTATTAAATTCACCTGATTCGAT
AGTACCCATTTTTGGAATGTCCAATGCCAAAGTCACAGAATGGGTAAGTTGCCATTCTCGCCAAT
TGAAAGGACCTTCTGATCAATCCAGAGATCGTTTCGATTCCATTTGTAATGAGGATTCAGAATAT
GACACATCGATTAATCAAAGAGAGATTCAACAACTAAAAGAAAGATCGATTCTTTGGGATCCTTC
CTTTCTTCAAACCGAACGAATAGAACATTTCTCTTCTACATGTTCATGGAGTTTTGAAAAATCCA
AACATCTCAGAGATAGATAGAGAGGTAGGAATTTATCGAGCGAATTGCACTCCTTTATATACGTC
AGGAGTCCATTGATGAGAAAGAGCTAAGAAAAACTTGAATCTAATCAGAAAGAAAAATCTGACTT
GTCATTCTCCTCTAGAAAAAGGATATGGATGACATGAATCACATTTTCCTCAAATTGGGTCTATA
TAAAGAAAGGCGTCTGTTAAATTAAAACTTTAAGATTCGATTGTCTCAATGGAAATATTTAAGCT
ATTATTATTCTTCGGCTTTCACAGAGCG
Found at i:6224741 original size:20 final size:21
Alignment explanation
Indices: 6224694--6224741 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
6224684 TTCTGTAGTG
*
6224694 AAGAATATGAGAAGAGAGAAA
1 AAGAAAATGAGAAGAGAGAAA
* *
6224715 AA-TAAATGGGAAGA-AGAAA
1 AAGAAAATGAGAAGAGAGAAA
6224734 AAGAAAAT
1 AAGAAAAT
6224742 AAAAAAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 7 0.32
20 13 0.59
21 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (21 bp):
AAGAAAATGAGAAGAGAGAAA
Found at i:6228086 original size:57 final size:61
Alignment explanation
Indices: 6227974--6228121 Score: 182
Period size: 57 Copynumber: 2.5 Consensus size: 61
6227964 AATTGACGGT
*
6227974 AAAAAGGATCTAGCCTGGACGGGTGATCCTATTCTGATATAGCCCTCTCGAAGAATATGTGTG
1 AAAAAGGATCTAGCCTGGACGGGTGATCC--TTCTGATATAGCCCTCCCGAAGAATATGTGTG
*
6228037 AAAAA-GATCTAGCCTGGATGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATA--TGTG
1 AAAAAGGATCTAGCCTGGACGGGTGATCCTTCTGATATAGCCCTCCCGAAGAATATGTGTG
* * *
6228092 AAAAATGGATTTAGCCCGGACGGGTAATCC
1 AAAAA-GGATCTAGCCTGGACGGGTGATCC
6228122 GAATTAGGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
55 9 0.12
57 39 0.51
58 2 0.03
61 1 0.01
62 20 0.26
63 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (61 bp):
AAAAAGGATCTAGCCTGGACGGGTGATCCTTCTGATATAGCCCTCCCGAAGAATATGTGTG
Found at i:6233540 original size:18 final size:19
Alignment explanation
Indices: 6233505--6233541 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6233495 AGCCTGCTTC
6233505 AACTTCAACAACAGCTTTA
1 AACTTCAACAACAGCTTTA
*
6233524 AACTTCAAGAACA-CTTTA
1 AACTTCAACAACAGCTTTA
6233542 GACACCTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.27
Consensus pattern (19 bp):
AACTTCAACAACAGCTTTA
Found at i:6237518 original size:33 final size:33
Alignment explanation
Indices: 6237476--6237539 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
6237466 TGTCATTTTT
* *
6237476 TTTTAATTTCAAATTTCATTTAATTACATTTCA
1 TTTTAATTTCAAACTTCATTTAATTAAATTTCA
* *
6237509 TTTTCATTTCAAACTTCATTTCATTAAATTT
1 TTTTAATTTCAAACTTCATTTAATTAAATTT
6237540 TTTTTCCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (33 bp):
TTTTAATTTCAAACTTCATTTAATTAAATTTCA
Found at i:6237576 original size:21 final size:21
Alignment explanation
Indices: 6237524--6237576 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
6237514 ATTTCAAACT
*
6237524 TCATTTC-ATTAAATTTTTTT
1 TCATTTCAATTAAATTTTTTC
* * *
6237544 TCCATCTAAATTTAATTTTTTC
1 T-CATTTCAATTAAATTTTTTC
6237566 TCATTTCAATT
1 TCATTTCAATT
6237577 CTTTTTTCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 1 0.04
21 12 0.48
22 12 0.48
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.58
Consensus pattern (21 bp):
TCATTTCAATTAAATTTTTTC
Found at i:6237626 original size:17 final size:18
Alignment explanation
Indices: 6237604--6237643 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
6237594 ACAAGTAGTC
6237604 TCATTTCAATTT-TATTT
1 TCATTTCAATTTATATTT
6237621 TCATTTCAATTTATATTT
1 TCATTTCAATTTATATTT
6237639 T-ATTT
1 TCATTT
6237644 TCATCTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (18 bp):
TCATTTCAATTTATATTT
Found at i:6237680 original size:28 final size:28
Alignment explanation
Indices: 6237642--6237824 Score: 130
Period size: 28 Copynumber: 6.6 Consensus size: 28
6237632 TATATTTTAT
*
6237642 TTTCATCTCATATTCATTTCAACTTTCA
1 TTTCATTTCATATTCATTTCAACTTTCA
* * * *
6237670 TTTGATTTCATATTCATTTCAAATTACG
1 TTTCATTTCATATTCATTTCAACTTTCA
*
6237698 TTTCATTTCATATTTATTT-AACGTTTCA
1 TTTCATTTCATATTCATTTCAAC-TTTCA
* ***
6237726 TTTCATTT-AAATTTC-TTT-TTTTTTCA
1 TTTCATTTCATA-TTCATTTCAACTTTCA
*
6237752 TTTCAATTT-ATATTTTAATTTC-A-TTTCA
1 TTTC-ATTTCATA--TTCATTTCAACTTTCA
* *
6237780 TATTCATTTCATATTCATTTCAAATATCA
1 T-TTCATTTCATATTCATTTCAACTTTCA
6237809 TTTCATATTCAT-TTCA
1 TTTCAT-TTCATATTCA
6237825 AATTTTGTCT
Statistics
Matches: 124, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
26 9 0.07
27 20 0.16
28 76 0.61
29 19 0.15
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.56
Consensus pattern (28 bp):
TTTCATTTCATATTCATTTCAACTTTCA
Found at i:6237701 original size:23 final size:23
Alignment explanation
Indices: 6237674--6237828 Score: 110
Period size: 23 Copynumber: 6.9 Consensus size: 23
6237664 CTTTCATTTG
6237674 ATTTCATATTCATTTCAAATTAC
1 ATTTCATATTCATTTCAAATTAC
* * *
6237697 GTTTCAT-TTCATATT-TATTTAAC
1 ATTTCATATTCAT-TTCAAATT-AC
* *
6237720 GTTTCAT-TTCATTT-AAATTTC
1 ATTTCATATTCATTTCAAATTAC
** * * *
6237741 -TTTTTTTTTCATTTCAATTTAT
1 ATTTCATATTCATTTCAAATTAC
* *
6237763 ATTTTA-ATTTCATTTCATATT-C
1 ATTTCATA-TTCATTTCAAATTAC
6237785 ATTTCATATTCATTTCAAA-TATC
1 ATTTCATATTCATTTCAAATTA-C
6237808 ATTTCATATTCATTTCAAATT
1 ATTTCATATTCATTTCAAATT
6237829 TTGTCTTATT
Statistics
Matches: 104, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.04
21 9 0.09
22 32 0.31
23 58 0.56
24 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.01, T:0.56
Consensus pattern (23 bp):
ATTTCATATTCATTTCAAATTAC
Found at i:6237772 original size:18 final size:18
Alignment explanation
Indices: 6237746--6237817 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 18
6237736 ATTTCTTTTT
*
6237746 TTTTCATTTCAATTT-ATA
1 TTTTAATTTC-ATTTCATA
6237764 TTTTAATTTCATTTCATA
1 TTTTAATTTCATTTCATA
*
6237782 --TTCATTTCATATTCAT-
1 TTTTAATTTCAT-TTCATA
** *
6237798 TTCAAATATCATTTCATA
1 TTTTAATTTCATTTCATA
6237816 TT
1 TT
6237818 CATTTCAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
16 9 0.21
17 14 0.33
18 20 0.47
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAATTTCATTTCATA
Found at i:6237785 original size:11 final size:11
Alignment explanation
Indices: 6237771--6237824 Score: 90
Period size: 11 Copynumber: 4.8 Consensus size: 11
6237761 ATATTTTAAT
6237771 TTCATTTCATA
1 TTCATTTCATA
6237782 TTCATTTCATA
1 TTCATTTCATA
*
6237793 TTCATTTCAAA
1 TTCATTTCATA
6237804 TATCATTTCATA
1 T-TCATTTCATA
6237816 TTCATTTCA
1 TTCATTTCA
6237825 AATTTTGTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
11 30 0.75
12 10 0.25
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.52
Consensus pattern (11 bp):
TTCATTTCATA
Found at i:6237877 original size:17 final size:17
Alignment explanation
Indices: 6237857--6237896 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6237847 TTTTACTTTA
*
6237857 TTTAAATTT-TTTCTCAT
1 TTTAAATTTCATTC-CAT
6237874 TTTAAATTTCATTCCAT
1 TTTAAATTTCATTCCAT
6237891 TTTAAA
1 TTTAAA
6237897 ATGTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATTTCATTCCAT
Found at i:6237922 original size:25 final size:25
Alignment explanation
Indices: 6237875--6237923 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6237865 TTTTCTCATT
* * *
6237875 TTAAATTTCATTCCATTTTAAAATG
1 TTAAATTTCATTCAAATTCAAAATG
*
6237900 TTAAATTTCATTTAAATTCAAAAT
1 TTAAATTTCATTCAAATTCAAAAT
6237924 TTTTCTCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (25 bp):
TTAAATTTCATTCAAATTCAAAATG
Found at i:6238082 original size:17 final size:17
Alignment explanation
Indices: 6238052--6238103 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
6238042 TTTATTTTTT
6238052 TCATTTCAATTTTCATTTC
1 TCATTTC-A-TTTCATTTC
6238071 TCATTTCATTTCATTTC
1 TCATTTCATTTCATTTC
** *
6238088 AGATTTCAATTCATTT
1 TCATTTCATTTCATTT
6238104 AAATTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 22 0.73
18 1 0.03
19 7 0.23
ACGTcount: A:0.23, C:0.19, G:0.02, T:0.56
Consensus pattern (17 bp):
TCATTTCATTTCATTTC
Found at i:6238131 original size:19 final size:18
Alignment explanation
Indices: 6238096--6238144 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
6238086 TCAGATTTCA
6238096 ATTCATTTAAATTTATAT
1 ATTCATTTAAATTTATAT
*
6238114 ATTCATTTTAA-TTATAT
1 ATTCATTTAAATTTATAT
* *
6238131 ATACATTTCAATTT
1 ATTCATTTAAATTT
6238145 CTATTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTCATTTAAATTTATAT
Found at i:6238214 original size:24 final size:24
Alignment explanation
Indices: 6238179--6238231 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
6238169 TTCCAATTTT
*
6238179 AATTTAATTTCAACTTCTTTTTAA
1 AATTTAAATTCAACTTCTTTTTAA
*
6238203 AATTTAAATTCAATTTCTTTTTAA
1 AATTTAAATTCAACTTCTTTTTAA
6238227 AATTT
1 AATTT
6238232 TACTCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTTAAATTCAACTTCTTTTTAA
Found at i:6238245 original size:24 final size:24
Alignment explanation
Indices: 6238194--6238253 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
6238184 AATTTCAACT
* *
6238194 TCTTTTTAAAATTTAAATTCAATT
1 TCTTTTTAAAATTTAAACTCAATA
*
6238218 TCTTTTTAAAATTT-TACTCATATA
1 TCTTTTTAAAATTTAAACTCA-ATA
*
6238242 TCTTTTTTAAAT
1 TCTTTTTAAAAT
6238254 ATATTTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (24 bp):
TCTTTTTAAAATTTAAACTCAATA
Found at i:6239336 original size:5 final size:5
Alignment explanation
Indices: 6239321--6239349 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
6239311 CTATCCGGGC
6239321 CCAAA -CAAA CCAAA CCAAA CCAAA CCAAA
1 CCAAA CCAAA CCAAA CCAAA CCAAA CCAAA
6239350 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAA
Found at i:6240824 original size:13 final size:13
Alignment explanation
Indices: 6240806--6240836 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6240796 ATTGCATATA
*
6240806 TTATTTTATTTAT
1 TTATTTTATCTAT
6240819 TTATTTTATCTAT
1 TTATTTTATCTAT
6240832 TTATT
1 TTATT
6240837 ATCTTTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTTATCTAT
Found at i:6242310 original size:19 final size:22
Alignment explanation
Indices: 6242286--6242332 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6242276 AAAAATATCT
6242286 TTATT-AAAT-TAAT-TAAAAA
1 TTATTAAAATATAATATAAAAA
6242305 TTATTAAAATATAATATAAAAA
1 TTATTAAAATATAATATAAAAA
6242327 TCTATT
1 T-TATT
6242333 TTCATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 4 0.17
22 7 0.29
23 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTATTAAAATATAATATAAAAA
Found at i:6250309 original size:44 final size:44
Alignment explanation
Indices: 6250259--6250660 Score: 298
Period size: 44 Copynumber: 9.0 Consensus size: 44
6250249 CATCATAACG
* * *
6250259 AATCTTATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
6250303 AATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTAAAACTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
*
6250347 AATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTTAAA-CTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTACA
* * *
6250391 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCTACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * * * *
6250435 AGTCTCATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * * * *
6250480 AATTTTATTTCCCTGAAATTGCAGTGGAACATATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---C----TACA
* * * *
6250531 AATCTTATCTCTCC-GAAGTTGCGGTGAAGTAGATTGAAA-ATAACA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATT-AAAGCT-ACA
* * * * *
6250576 AATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * *
6250621 AATCTTAT-TTCC---ACTT-CAGTGGAACAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
6250660 A
1 A
6250661 GTTGCAGTGG
Statistics
Matches: 283, Mismatches: 59, Indels: 37
0.75 0.16 0.10
Matches are distributed among these distances:
39 2 0.01
40 17 0.06
41 3 0.01
43 5 0.02
44 146 0.52
45 78 0.28
51 25 0.09
52 7 0.02
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:6250517 original size:132 final size:133
Alignment explanation
Indices: 6250259--6250963 Score: 320
Period size: 132 Copynumber: 5.4 Consensus size: 133
6250249 CATCATAACG
* * * *
6250259 AATCTTATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGCCACAAATCTTATCTCCTTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTCATCTCCTTAAAGTTA
* * * *
6250324 CAGTGGAGTAGATTAAAACTATAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTTAAA-CT
66 CAGTGGAGCAGATTAAAACTACAAATCTTATATCCCTGAAATTGCAGTGGAACAGATTTAAAGCT
6250388 ACA
131 ACA
* * * * * *
6250391 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCTACGAGTCTCATCTCCTTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTCATCTCCTTAAAGTTA
* * * * * *
6250456 TAGTGGAGCAGATTGAAGA-TAGCGAATTTTATTTCCCTGAAATTGCAGTGGAACATATTAAAGC
66 CAGTGGAGCAGATT-AAAACTA-CAAATCTTATATCCCTGAAATTGCAGTGGAACAGATT-----
*
6250520 TACAAGTTACA
124 TA-AAGCTACA
* * * *** * * * *
6250531 AATCTTATCTCTCC-GAAGTTGCGGTGAAGTAGATTGAAAATAACAAATCTTATCCCCCTGAAGT
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATT-AAAGCCACAAATCTCATCTCCTTAAAGT
* * * * * *
6250595 TGCAGTGGAGTAGATTGAAGA-TAGCTAATCTTAT-TTCC---ACTT-CAGTGGAACAGA-TTAA
64 TACAGTGGAGCAGATT-AAAACTA-CAAATCTTATATCCCTGAAATTGCAGTGGAACAGATTTAA
6250653 AG-----
127 AGCTACA
*** * *
6250655 ---C-TA-----C--AAGTTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCCACAAATCTCATCTCCTTAAAGTT
* * * * * * * *
6250709 GCAATGGAGTAGATTGAAGAC-AGCTAATCTTAT-TTCCTTAAAGTTGCAGTGGAATAGATTAAA
65 ACAGTGGAGCAGATT-AAAACTA-CAAATCTTATATCCCTGAAA-TTGCAGTGGAACAGATT---
*
6250772 GCTATAAGTTACA
124 --TA-AAGCTACA
* * * * ** ** *
6250785 AATCTTATCTCTCTGAAGTTGCGGTGGAGTAGATTGAAGTTACAAATCTTGTCTTCC-TGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTCATC-TCCTTAAAGTT
* ** * * * * *
6250849 GCAGTGGAGCAGATTAAAGTTACAAATTTTATCTCCCT-AAAGTTGCAGTGGAGCA-AATTGAAG
65 ACAGTGGAGCAGATTAAAACTACAAATCTTATATCCCTGAAA-TTGCAGTGGAACAGATTTAAAG
6250912 CTACA
129 CTACA
* * * * *
6250917 AGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCAACAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAAT
6250964 TTTATACCTC
Statistics
Matches: 456, Mismatches: 74, Indels: 86
0.74 0.12 0.14
Matches are distributed among these distances:
113 80 0.18
114 1 0.00
116 1 0.00
117 2 0.00
118 11 0.02
119 1 0.00
120 2 0.00
121 1 0.00
124 2 0.00
125 3 0.01
129 3 0.01
130 2 0.00
132 117 0.26
133 35 0.08
134 2 0.00
135 1 0.00
136 11 0.02
137 3 0.01
138 4 0.01
139 28 0.06
140 75 0.16
141 71 0.16
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (133 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTCATCTCCTTAAAGTTA
CAGTGGAGCAGATTAAAACTACAAATCTTATATCCCTGAAATTGCAGTGGAACAGATTTAAAGCT
ACA
Found at i:6250723 original size:45 final size:45
Alignment explanation
Indices: 6250659--6250954 Score: 249
Period size: 44 Copynumber: 6.5 Consensus size: 45
6250649 TTAAAGCTAC
*
6250659 AAGTTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCCCTA
1 AAGTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTA
* * * * * * *
6250704 AAGTTGCAATGGAGTAGATTGAAGACAGCTAATCTTATTTCCTTA
1 AAGTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTA
* * *
6250749 AAGTTGCAGTGGAATAGATT-AAAGCTATAAGTTACAAATCTTATCTCTCTG
1 AAGTTGCAGTGGAGTAGATTGAAA---AT-A---ACAAATCTTATCTCCCTA
* * * * * *
6250800 AAGTTGCGGTGGAGTAGATTG-AAGTTACAAATCTTGTCTTCCTG
1 AAGTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTA
* * * *
6250844 AAGTTGCAGTGGAGCAGATT-AAAGTTACAAATTTTATCTCCCTA
1 AAGTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTA
* * ** * *
6250888 AAGTTGCAGTGGAGCAAATTGAAGCT-ACAAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTA
*
6250932 AAGTTGTAGTGGAGTAGATTGAA
1 AAGTTGCAGTGGAGTAGATTGAA
6250955 GCAACAAATT
Statistics
Matches: 201, Mismatches: 40, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
44 108 0.54
45 58 0.29
47 1 0.00
48 2 0.01
51 32 0.16
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (45 bp):
AAGTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTA
Found at i:6250744 original size:113 final size:115
Alignment explanation
Indices: 6250546--6250781 Score: 341
Period size: 113 Copynumber: 2.0 Consensus size: 115
6250536 TATCTCTCCG
* * * *
6250546 AAGTTGCGGTGAAGTAGATTGAAAATAACAAATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATT
1 AAGTTGCAGTGAAGCAGATTGAAAATAACAAATCTTATCCCCCTAAAGTTGCAATGGAGTAGATT
*
6250611 GAAGATAGCTAATCTTATTTCC-ACTT-CAGTGGAACAGATTAAAGCTAC
66 GAAGACAGCTAATCTTATTTCCAACTTGCAGTGGAACAGATTAAAGCTAC
* *
6250659 AAGTTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCCCTAAAGTTGCAATGGAGTAGATT
1 AAGTTGCAGTGAAGCAGATTGAAAATAACAAATCTTATCCCCCTAAAGTTGCAATGGAGTAGATT
* * *
6250724 GAAGACAGCTAATCTTATTTCCTTAAAGTTGCAGTGGAATAGATTAAAGCTAT
66 GAAGACAGCTAATCTTATTTCC---AACTTGCAGTGGAACAGATTAAAGCTAC
6250777 AAGTT
1 AAGTT
6250782 ACAAATCTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
113 80 0.74
117 3 0.03
118 25 0.23
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (115 bp):
AAGTTGCAGTGAAGCAGATTGAAAATAACAAATCTTATCCCCCTAAAGTTGCAATGGAGTAGATT
GAAGACAGCTAATCTTATTTCCAACTTGCAGTGGAACAGATTAAAGCTAC
Found at i:6250845 original size:44 final size:44
Alignment explanation
Indices: 6250777--6251003 Score: 244
Period size: 44 Copynumber: 5.2 Consensus size: 44
6250767 TTAAAGCTAT
*
6250777 AAGTTACAAATCTTATC-TCTCTGAAGTTGCGGTGGAGTAGATTG
1 AAGTTACAAATCTTATCTTC-CTGAAGTTGCAGTGGAGTAGATTG
* * *
6250821 AAGTTACAAATCTTGTCTTCCTGAAGTTGCAGTGGAGCAGATTA
1 AAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTG
* * * * *
6250865 AAGTTACAAATTTTATCTCCCTAAAGTTGCAGTGGAGCAAATTG
1 AAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTG
* * * *
6250909 AAGCTACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTG
1 AAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTG
** * * *
6250953 AAGCAACAAATTTTATACCT-CTGAAGTTGCAGTGG-GATAGAATG
1 AAGTTACAAATCTTAT-CTTCCTGAAGTTGCAGTGGAG-TAGATTG
6250997 AAGTTAC
1 AAGTTAC
6251004 TTCAAAAAGA
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.01
44 150 0.97
45 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (44 bp):
AAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTG
Found at i:6250932 original size:88 final size:88
Alignment explanation
Indices: 6250777--6250987 Score: 271
Period size: 88 Copynumber: 2.4 Consensus size: 88
6250767 TTAAAGCTAT
* * * * * * *
6250777 AAGTTACAAATCTTATCTCTCTGAAGTTGCGGTGGAGTAGATTGAAGTTACAAATCTTGTCTTCC
1 AAGTTACAAATTTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
6250842 TGAAGTTGCAGTGGAGCAGATTA
66 TGAAGTTGCAGTGGAGCAGATTA
* * *
6250865 AAGTTACAAATTTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACAAGTCTTATCTCCC
1 AAGTTACAAATTTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
* * *
6250930 TGAAGTTGTAGTGGAGTAGATTG
66 TGAAGTTGCAGTGGAGCAGATTA
**
6250953 AAGCAACAAATTTTATAC-CTCTGAAGTTGCAGTGG
1 AAGTTACAAATTTTAT-CTCTCTGAAGTTGCAGTGG
6250988 GATAGAATGA
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
88 104 0.99
89 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (88 bp):
AAGTTACAAATTTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAGATTA
Found at i:6251329 original size:22 final size:22
Alignment explanation
Indices: 6251295--6251353 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
6251285 ACCCTAAATC
* *
6251295 CCTAGCTTGTGCCACCG-CAGCT
1 CCTAGCCTCTGCCACCGTC-GCT
*
6251317 CCTTGCCTCTGCCACCGTCGCT
1 CCTAGCCTCTGCCACCGTCGCT
6251339 CCTAGCCTCTGCCAC
1 CCTAGCCTCTGCCAC
6251354 ATTATTGACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.10, C:0.47, G:0.19, T:0.24
Consensus pattern (22 bp):
CCTAGCCTCTGCCACCGTCGCT
Found at i:6251686 original size:102 final size:103
Alignment explanation
Indices: 6251543--6251748 Score: 405
Period size: 102 Copynumber: 2.0 Consensus size: 103
6251533 TCCAAAAATC
6251543 AAACAAAATACAAAAAACCCAAAGGTGACTTTTTTTTCTATTTTTTTGTTTATATATATTTATAT
1 AAACAAAATACAAAAAACCCAAAGGTGACTTTTTTTTCTATTTTTTTGTTTATATATATTTATAT
6251608 AAAAAAATTCATAAAATAAAAAAGGGAAAACTCACTTG
66 AAAAAAATTCATAAAATAAAAAAGGGAAAACTCACTTG
6251646 AAACAAAATAC-AAAAACCCAAAGGTGACTTTTTTTTCTATTTTTTTGTTTATATATATTTATAT
1 AAACAAAATACAAAAAACCCAAAGGTGACTTTTTTTTCTATTTTTTTGTTTATATATATTTATAT
6251710 AAAAAAATTCATAAAATAAAAAAGGGAAAACTCACTTG
66 AAAAAAATTCATAAAATAAAAAAGGGAAAACTCACTTG
6251748 A
1 A
6251749 CGTTCTACCT
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 92 0.89
103 11 0.11
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.35
Consensus pattern (103 bp):
AAACAAAATACAAAAAACCCAAAGGTGACTTTTTTTTCTATTTTTTTGTTTATATATATTTATAT
AAAAAAATTCATAAAATAAAAAAGGGAAAACTCACTTG
Found at i:6252612 original size:3 final size:3
Alignment explanation
Indices: 6252604--6252650 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6252594 CTAGCCCATT
6252604 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6252651 TACTGTGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6255271 original size:37 final size:37
Alignment explanation
Indices: 6255228--6255300 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
6255218 CATCTACCGA
*
6255228 TGTTTGGATTTTTGGGAGTTGGCATTGACCCTCCACG
1 TGTTTGGATTTTCGGGAGTTGGCATTGACCCTCCACG
6255265 TGTTTGGATTTTCGGGAGTTGGCATTGACCCTCCAC
1 TGTTTGGATTTTCGGGAGTTGGCATTGACCCTCCAC
6255301 AACCCGGCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.37
Consensus pattern (37 bp):
TGTTTGGATTTTCGGGAGTTGGCATTGACCCTCCACG
Found at i:6255830 original size:12 final size:12
Alignment explanation
Indices: 6255799--6255824 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6255789 TTCAACTAAT
6255799 AAAGCAAACAAA
1 AAAGCAAACAAA
6255811 AAAGCAAACAAA
1 AAAGCAAACAAA
6255823 AA
1 AA
6255825 CTCAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:6256036 original size:53 final size:54
Alignment explanation
Indices: 6255925--6256056 Score: 137
Period size: 53 Copynumber: 2.5 Consensus size: 54
6255915 GTTGGTGCCG
* * *
6255925 GCCATCAGTGT-CCAAAAGAAAAAAAAATTCAAGACCCGAAAACGGTGGTACTA
1 GCCATCAATGTCCCAAAACAAAAAAAAATTCAAGACCCGAAAAAGGTGGTACTA
* * *
6255978 GCCATCAAT-TCCCAAAACAAAAATAAAA-TCGAGACCCGAAAAAGGT-GTAGTC
1 GCCATCAATGTCCCAAAACAAAAA-AAAATTCAAGACCCGAAAAAGGTGGTACTA
* **
6256030 GACCATCAGTGTCCCAAAGGAAAAAAA
1 G-CCATCAATGTCCCAAAACAAAAAAA
6256057 TTTTGTCTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
52 6 0.09
53 44 0.67
54 16 0.24
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.14
Consensus pattern (54 bp):
GCCATCAATGTCCCAAAACAAAAAAAAATTCAAGACCCGAAAAAGGTGGTACTA
Found at i:6280439 original size:6 final size:6
Alignment explanation
Indices: 6280428--6280477 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
6280418 TGATTAATAT
6280428 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
6280476 AT
1 AT
6280478 GTGTGTGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:6286001 original size:12 final size:12
Alignment explanation
Indices: 6285984--6286008 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6285974 GGTGTTCATT
6285984 CGGTTAACCGAC
1 CGGTTAACCGAC
6285996 CGGTTAACCGAC
1 CGGTTAACCGAC
6286008 C
1 C
6286009 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:6286990 original size:26 final size:26
Alignment explanation
Indices: 6286961--6287017 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
6286951 CTGATGTCGA
*
6286961 ATCCCCTTCTATTATTACTGATGCAT
1 ATCCCCTTCTATTATTACTAATGCAT
*
6286987 ATCCCCTTCTGTTATTACTAATGCAT
1 ATCCCCTTCTATTATTACTAATGCAT
6287013 ATCCC
1 ATCCC
6287018 ATCTGTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (26 bp):
ATCCCCTTCTATTATTACTAATGCAT
Found at i:6287803 original size:190 final size:190
Alignment explanation
Indices: 6287480--6287860 Score: 753
Period size: 190 Copynumber: 2.0 Consensus size: 190
6287470 CAATCAAGAC
6287480 TTAAACTTTCCCAAACTTCTCATCTTAACAACCCCTCCACATTTCGGGCACGCTACCTCCGCTAC
1 TTAAACTTTCCCAAACTTCTCATCTTAACAACCCCTCCACATTTCGGGCACGCTACCTCCGCTAC
6287545 CAATCTTTTTAGGCACAAATTAGCTAGATTAGGGATGAAGTTCCAAGAAATTTTCCAAATTAAAA
66 CAATCTTTTTAGGCACAAATTAGCTAGATTAGGGATGAAGTTCCAAGAAATTTTCCAAATTAAAA
6287610 TATTAATTTTTGCTGGGATATAAATGTTCCATAGTTTTTTGTAAAAAAAATTCAGCTCGG
131 TATTAATTTTTGCTGGGATATAAATGTTCCATAGTTTTTTGTAAAAAAAATTCAGCTCGG
6287670 TTAAACTTTCCCAAACTTCTCATCTTAACAACCCCTCCACATTTCGGGCACGCTACCTCCGCTAC
1 TTAAACTTTCCCAAACTTCTCATCTTAACAACCCCTCCACATTTCGGGCACGCTACCTCCGCTAC
6287735 CAATCTTTTTAGGCACAAATTAGCTAGATTAGGGATGAAGTTCCAAGAAATTTTCCAAATTAAAA
66 CAATCTTTTTAGGCACAAATTAGCTAGATTAGGGATGAAGTTCCAAGAAATTTTCCAAATTAAAA
*
6287800 TATTAATTTTTGCTGGGATATAAATGTTCCATAGTTTTTTGTAAAAAAATTTCAGCTCGG
131 TATTAATTTTTGCTGGGATATAAATGTTCCATAGTTTTTTGTAAAAAAAATTCAGCTCGG
6287860 T
1 T
6287861 CTATATATAA
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 190 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (190 bp):
TTAAACTTTCCCAAACTTCTCATCTTAACAACCCCTCCACATTTCGGGCACGCTACCTCCGCTAC
CAATCTTTTTAGGCACAAATTAGCTAGATTAGGGATGAAGTTCCAAGAAATTTTCCAAATTAAAA
TATTAATTTTTGCTGGGATATAAATGTTCCATAGTTTTTTGTAAAAAAAATTCAGCTCGG
Found at i:6301760 original size:43 final size:41
Alignment explanation
Indices: 6301707--6301810 Score: 153
Period size: 39 Copynumber: 2.6 Consensus size: 41
6301697 CAACTCTTTA
*
6301707 TATAGAAGTTGTAAGTGACTATTCATCTACATCACTTAAATGC
1 TATAGGAGTTGT--GTGACTATTCATCTACATCACTTAAATGC
6301750 TATAGGAG-T-TGTGACTATTCATCTACATCACTTAAATGC
1 TATAGGAGTTGTGTGACTATTCATCTACATCACTTAAATGC
6301789 TATAGGAG-T-TGTGACTATTCAT
1 TATAGGAGTTGTGTGACTATTCAT
6301811 GCATGTGTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
39 51 0.85
41 1 0.02
42 1 0.02
43 7 0.12
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (41 bp):
TATAGGAGTTGTGTGACTATTCATCTACATCACTTAAATGC
Found at i:6301770 original size:39 final size:39
Alignment explanation
Indices: 6301721--6301810 Score: 180
Period size: 39 Copynumber: 2.3 Consensus size: 39
6301711 GAAGTTGTAA
6301721 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
6301760 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
6301799 GTGACTATTCAT
1 GTGACTATTCAT
6301811 GCATGTGTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
Found at i:6301865 original size:32 final size:32
Alignment explanation
Indices: 6301820--6301894 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
6301810 TGCATGTGTG
6301820 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
* * *
6301852 TAACTCTTGATCTTCAAGTTTCTTCACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
*
6301884 CAACTCTTCAT
1 TAACTCTTCAT
6301895 AATTTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.24, C:0.28, G:0.04, T:0.44
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTCTCTTAACATTTC
Found at i:6306320 original size:38 final size:38
Alignment explanation
Indices: 6306225--6306320 Score: 87
Period size: 38 Copynumber: 2.6 Consensus size: 38
6306215 TGTCTATTCA
* *
6306225 ATTTCATTACAAT-CCTATTCCATTTCTACAGAATGGCT
1 ATTTCATTACAATACTTATTCCATTTCTACA-AATGCCT
6306263 ATTTCATT---ATAGCTCTATTCCATTTCATTAC-AAT-CCT
1 ATTTCATTACAATA-CT-TATTCCATTTC--TACAAATGCCT
6306300 ATTTCATTACAATACTTATTC
1 ATTTCATTACAATACTTATTC
6306321 AATTCCATCC
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
35 2 0.04
37 11 0.23
38 27 0.56
39 2 0.04
40 6 0.12
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (38 bp):
ATTTCATTACAATACTTATTCCATTTCTACAAATGCCT
Found at i:6311067 original size:2 final size:2
Alignment explanation
Indices: 6311060--6311086 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6311050 TGTTTAATGA
6311060 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
6311087 AAACTCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6314976 original size:3 final size:3
Alignment explanation
Indices: 6314968--6315032 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
6314958 TATTAACATG
6314968 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6315016 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
6315033 GGGCGAAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6316649 original size:47 final size:47
Alignment explanation
Indices: 6316534--6316693 Score: 196
Period size: 47 Copynumber: 3.4 Consensus size: 47
6316524 GGATAGCAGT
* * *
6316534 AACAACATTCGGACAGCATTGATTTG-TACAAAAATGAACAGCATTTA
1 AACAACATTCGGACAGCATTAATATGCTA-AAAAATGGACAGCATTTA
* * * * *
6316581 AGCACCAATTTGGACAACATTAATATGCTAAAAAACGGACAGCATTTA
1 AACAAC-ATTCGGACAGCATTAATATGCTAAAAAATGGACAGCATTTA
* * *
6316629 ACCAACATTCGGACAGCATTAGTATGCTAAAAAATGGACAGCATCTA
1 AACAACATTCGGACAGCATTAATATGCTAAAAAATGGACAGCATTTA
6316676 AACAACATTCGGACAGCA
1 AACAACATTCGGACAGCA
6316694 CCTTGTCATC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 57 0.60
48 36 0.38
49 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (47 bp):
AACAACATTCGGACAGCATTAATATGCTAAAAAATGGACAGCATTTA
Found at i:6317348 original size:43 final size:42
Alignment explanation
Indices: 6317272--6317397 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 42
6317262 GAAACACATA
* * * *
6317272 TATCACATA-CAATGCCATATCCCAGATATGGTCTTACATGT
1 TATCACATATCGATGCCATATCCCAGACAAGGTCTTACACGT
*
6317313 TATCACATATCGATGCCACTATCCTAGACAAGGTCTTACACGT
1 TATCACATATCGATGCCA-TATCCCAGACAAGGTCTTACACGT
* * * * *
6317356 AATCTCATATCGATGCCAATGTCCCAGACATGGTTTTACACG
1 TATCACATATCGATGCC-ATATCCCAGACAAGGTCTTACACG
6317398 AAATCGTTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
41 9 0.13
42 7 0.10
43 54 0.76
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
TATCACATATCGATGCCATATCCCAGACAAGGTCTTACACGT
Found at i:6320638 original size:9 final size:9
Alignment explanation
Indices: 6320624--6320673 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
6320614 TTTTGGTTAA
6320624 AAATTAACC
1 AAATTAACC
6320633 AAATTAACC
1 AAATTAACC
* *
6320642 GAATTACCC
1 AAATTAACC
*
6320651 GAATTAACC
1 AAATTAACC
* *
6320660 GAATTACCC
1 AAATTAACC
6320669 AAATT
1 AAATT
6320674 GAATCACTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (9 bp):
AAATTAACC
Found at i:6320655 original size:18 final size:18
Alignment explanation
Indices: 6320625--6320673 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
6320615 TTTGGTTAAA
*
6320625 AATTAACCAAATTAACCG
1 AATTACCCAAATTAACCG
*
6320643 AATTACCCGAATTAACCG
1 AATTACCCAAATTAACCG
6320661 AATTACCCAAATT
1 AATTACCCAAATT
6320674 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (18 bp):
AATTACCCAAATTAACCG
Found at i:6320819 original size:18 final size:18
Alignment explanation
Indices: 6320783--6320822 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6320773 TTTTATGATT
**
6320783 GGTTGGGTTGGGTAATTG
1 GGTTGGGTTGAATAATTG
*
6320801 GGTTGGGTTGAATACTTG
1 GGTTGGGTTGAATAATTG
6320819 GGTT
1 GGTT
6320823 TAGATTGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.45, T:0.40
Consensus pattern (18 bp):
GGTTGGGTTGAATAATTG
Found at i:6331447 original size:3 final size:3
Alignment explanation
Indices: 6331432--6331484 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
6331422 ATGAATGGAA
* *
6331432 AAG AAG AAA AAG AAG AAG AAG AAG AAG TAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6331480 AAG AA
1 AAG AA
6331485 AAACTATATG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:6331886 original size:25 final size:25
Alignment explanation
Indices: 6331856--6331926 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
6331846 CTTTTCTTAA
6331856 ACTTTTGATTTTTAATATTTT-AAAT
1 ACTTTT-ATTTTTAATATTTTAAAAT
*
6331881 ACTTTT-TTTTGAATATTTTTAAAAT
1 ACTTTTATTTTTAATA-TTTTAAAAT
*
6331906 AATTTTATTTCTTAATATTTT
1 ACTTTTATTT-TTAATATTTT
6331927 TATAATATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 8 0.21
24 4 0.10
25 15 0.38
26 7 0.18
27 5 0.13
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (25 bp):
ACTTTTATTTTTAATATTTTAAAAT
Found at i:6334274 original size:33 final size:33
Alignment explanation
Indices: 6334226--6334294 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
6334216 GGCTCCCAAG
6334226 TAGCTTGAGCCGAGTATCATTT-AGCTCAAATGA
1 TAGCTTGAGCCGAGTAT-ATTTCAGCTCAAATGA
** * *
6334259 TAGCTTGAGTTGAGTATTTTTCAGCTCGAATGA
1 TAGCTTGAGCCGAGTATATTTCAGCTCAAATGA
6334292 TAG
1 TAG
6334295 TTCGAGCTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (33 bp):
TAGCTTGAGCCGAGTATATTTCAGCTCAAATGA
Found at i:6336051 original size:25 final size:23
Alignment explanation
Indices: 6336023--6336068 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
6336013 GCATTATTAA
*
6336023 GATAATTAATCCTGTTTTATAATAC
1 GATAATTAAACC--TTTTATAATAC
*
6336048 GATATTTAAACCTTTTATAAT
1 GATAATTAAACCTTTTATAAT
6336069 CAAGGTCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
25 10 0.53
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (23 bp):
GATAATTAAACCTTTTATAATAC
Found at i:6341830 original size:17 final size:18
Alignment explanation
Indices: 6341799--6341832 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6341789 TTAATGGGAT
*
6341799 AAAAAATGTTTCAATTAG
1 AAAAAATGTTCCAATTAG
6341817 AAAAAAT-TTCCAATTA
1 AAAAAATGTTCCAATTA
6341833 ATGAACCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (18 bp):
AAAAAATGTTCCAATTAG
Found at i:6342317 original size:10 final size:11
Alignment explanation
Indices: 6342298--6342329 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
6342288 CGACCCTAAT
6342298 AAAACAAAAAA
1 AAAACAAAAAA
6342309 AAAACAAAAAA
1 AAAACAAAAAA
6342320 AAAACCAAAA
1 AAAA-CAAAA
6342330 CAAATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:6344509 original size:220 final size:219
Alignment explanation
Indices: 6344128--6344564 Score: 682
Period size: 220 Copynumber: 2.0 Consensus size: 219
6344118 TTCTATCTTG
* *
6344128 AGATAACAAGATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCCTCGAGAATAACTTT
1 AGATAACAAGATGCCACATCCAGTAAGTTAGGATACAAAACCTCGAATCCCTCGAGAATAACTTT
6344193 TTTTATTTTTTTATTCCAAAACTCACATATTTTAATTTTAAAAGGATATTCAGTCATTCAGGTTC
66 TTTTATTTTTTTATTCCAAAACTCACATATTTTAATTTTAAAAGGATATTCAGTCATTCAGGTTC
* ** *
6344258 AATGGAAAAAAATTGAAACCCAGTAAGTTAGGGCACGACTTCTCGCA-TTCTAAATACCGAACAT
131 AACGGAAAAAAATCAAAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGAACAT
*
6344322 TGCCTTATTTTGGAAATTTTCTCT
196 TGCATTATTTTGGAAATTTTCTCT
*
6344346 AGATAACAAGATGCCACGTCCAGTAAGTTAGGATACAAAACCTCGAAT-CCTCGAGAATAAACTT
1 AGATAACAAGATGCCACATCCAGTAAGTTAGGATACAAAACCTCGAATCCCTCGAGAAT-AACTT
* * ** *
6344410 TTCTTTCATTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTTGGTCATTTAGG
65 TT-TTT-ATTTTTTTATTCCAAAACTCACATATTTTAATTTTAAAAGGATATTCAGTCATTCAGG
* *
6344475 TTCAAC-GAGAAAAAATCAAAACCTAGTTAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGA
128 TTCAACGGA-AAAAAATCAAAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGA
6344539 ACATTGCATTATTTTGGAAATTTTCT
192 ACATTGCATTATTTTGGAAATTTTCT
6344565 TTATTATAAA
Statistics
Matches: 199, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
217 10 0.05
218 52 0.26
219 5 0.03
220 95 0.48
221 37 0.19
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (219 bp):
AGATAACAAGATGCCACATCCAGTAAGTTAGGATACAAAACCTCGAATCCCTCGAGAATAACTTT
TTTTATTTTTTTATTCCAAAACTCACATATTTTAATTTTAAAAGGATATTCAGTCATTCAGGTTC
AACGGAAAAAAATCAAAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGAACAT
TGCATTATTTTGGAAATTTTCTCT
Found at i:6344845 original size:18 final size:17
Alignment explanation
Indices: 6344819--6344881 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
6344809 TTTAATAATG
*
6344819 ATAATAATAAACAAATAA
1 ATAAAAATAAA-AAATAA
*
6344837 ATAAAAATATAGAAATGAA
1 ATAAAAATA-AAAAAT-AA
*
6344856 ATGAAAATAAAAAATATA
1 ATAAAAATAAAAAATA-A
6344874 A-AAAAATA
1 ATAAAAATA
6344882 CGATAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 7 0.19
18 19 0.51
19 11 0.30
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAAAAATAA
Found at i:6346470 original size:25 final size:23
Alignment explanation
Indices: 6346442--6346487 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
6346432 GCATTATTAA
*
6346442 GATAATTAATCCTGTTTTATAATAC
1 GATAATTAAACC--TTTTATAATAC
*
6346467 GATATTTAAACCTTTTATAAT
1 GATAATTAAACCTTTTATAAT
6346488 CAAGGTCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
25 10 0.53
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (23 bp):
GATAATTAAACCTTTTATAATAC
Found at i:6352249 original size:17 final size:18
Alignment explanation
Indices: 6352218--6352251 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6352208 TTAATGGGAT
*
6352218 AAAAAATGTTTCAATTAG
1 AAAAAATGTTCCAATTAG
6352236 AAAAAAT-TTCCAATTA
1 AAAAAATGTTCCAATTA
6352252 ATGAACCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (18 bp):
AAAAAATGTTCCAATTAG
Found at i:6352736 original size:10 final size:11
Alignment explanation
Indices: 6352717--6352748 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
6352707 CGACCCTAAT
6352717 AAAACAAAAAA
1 AAAACAAAAAA
6352728 AAAACAAAAAA
1 AAAACAAAAAA
6352739 AAAACCAAAA
1 AAAA-CAAAA
6352749 CAAATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:6354996 original size:221 final size:221
Alignment explanation
Indices: 6354613--6355054 Score: 884
Period size: 221 Copynumber: 2.0 Consensus size: 221
6354603 ATAAACTTTT
6354613 CTTTCATTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTTGGTCATTTAGGTT
1 CTTTCATTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTTGGTCATTTAGGTT
6354678 CAACGAGAAAAAATCAAAACCTAGTTAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGAACA
66 CAACGAGAAAAAATCAAAACCTAGTTAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGAACA
6354743 TTGCATTATTTTGGAAATTTTCTTTATTATAAAATTTTGAACGACGTTTATTTCCTTTTGAAGTA
131 TTGCATTATTTTGGAAATTTTCTTTATTATAAAATTTTGAACGACGTTTATTTCCTTTTGAAGTA
6354808 TGGTGTTAATATGCATAACGGAATAA
196 TGGTGTTAATATGCATAACGGAATAA
6354834 CTTTCATTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTTGGTCATTTAGGTT
1 CTTTCATTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTTGGTCATTTAGGTT
6354899 CAACGAGAAAAAATCAAAACCTAGTTAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGAACA
66 CAACGAGAAAAAATCAAAACCTAGTTAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGAACA
6354964 TTGCATTATTTTGGAAATTTTCTTTATTATAAAATTTTGAACGACGTTTATTTCCTTTTGAAGTA
131 TTGCATTATTTTGGAAATTTTCTTTATTATAAAATTTTGAACGACGTTTATTTCCTTTTGAAGTA
6355029 TGGTGTTAATATGCATAACGGAATAA
196 TGGTGTTAATATGCATAACGGAATAA
6355055 TAAATACGAT
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 221 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (221 bp):
CTTTCATTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTTGGTCATTTAGGTT
CAACGAGAAAAAATCAAAACCTAGTTAGTTAGGGCACGACTTCTCGCATTTCGAAATACCGAACA
TTGCATTATTTTGGAAATTTTCTTTATTATAAAATTTTGAACGACGTTTATTTCCTTTTGAAGTA
TGGTGTTAATATGCATAACGGAATAA
Found at i:6355267 original size:18 final size:17
Alignment explanation
Indices: 6355241--6355303 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
6355231 TTTAATAATG
*
6355241 ATAATAATAAACAAATAA
1 ATAAAAATAAA-AAATAA
*
6355259 ATAAAAATATAGAAATGAA
1 ATAAAAATA-AAAAAT-AA
*
6355278 ATGAAAATAAAAAATATA
1 ATAAAAATAAAAAATA-A
6355296 A-AAAAATA
1 ATAAAAATA
6355304 CGATAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 7 0.19
18 19 0.51
19 11 0.30
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAAAAATAA
Found at i:6357049 original size:44 final size:44
Alignment explanation
Indices: 6356962--6357525 Score: 309
Period size: 44 Copynumber: 12.5 Consensus size: 44
6356952 AATCCGACCT
* * * * * *
6356962 ACTGCAACTTCAGAGATATAAGATTCATCGTTTTAATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTAATAGCTTCAATCTGCTCC
*
6357006 ACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTAATAGCTTCAATCTGCTCC
* * * ** * *
6357050 ACTGCAACTTTAGGGAGATAATATTGGTTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATT-AATAGCTTCAATCTGCTCC
* * * *
6357095 AGTGCAACTTCAG-GAAGATAAGACTTGTTATGGTAGACTT-AATCCGAC-CT
1 ACTGCAACTTCAGAG-AGATAAGA----TTA--ATAG-CTTCAATCTG-CTCC
* * * * * * *
6357145 ACTGCAACTTCAGAG-GTATAGGATTCATTGTTTTAATCCGCTCT
1 ACTGCAACTTCAGAGAG-ATAAGATTAATAGCTTCAATCTGCTCC
* * *
6357189 ACTGCAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTAATAGCTTCAATCTGCTCC
** * *
6357233 ACTGCAACTTCA-AGGAGATAAGATTGGTATCTTCAACCTGCTCC
1 ACTGCAACTTCAGA-GAGATAAGATTAATAGCTTCAATCTGCTCC
* * * ** * *
6357277 ACTGCAACTTTAGGGAGATAAGGTTGTTTATCTTCAATCTGCTTC
1 ACTGCAACTTCAGAGAGATAAGATT-AATAGCTTCAATCTGCTCC
* * * * *
6357322 ACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGACTT-AATCCGAC-CT
1 ACTGCAACTTCAGAGAGATAAGA----TTA--ATAG-CTTCAATCTG-CTCC
* * * * * * * *
6357372 ACTACAACTTTAGAG-GTATAGGATTCATCGTTTTAATCCGCTCC
1 ACTGCAACTTCAGAGAG-ATAAGATTAATAGCTTCAATCTGCTCC
* *
6357416 ACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTAATAGCTTCAATCTGCTCC
* * ** *
6357460 ACTGCAACTTTAGAAAGATAAGATTGGTATCTTCAA-CTTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATTAATAGCTTCAATC-TGCTCC
* *
6357504 ACTGCAACTTTAGGGAGATAAG
1 ACTGCAACTTCAGAGAGATAAG
6357526 GTTTGTTATC
Statistics
Matches: 403, Mismatches: 86, Indels: 62
0.73 0.16 0.11
Matches are distributed among these distances:
43 7 0.02
44 258 0.64
45 70 0.17
46 4 0.01
49 6 0.01
50 49 0.12
51 9 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATTAATAGCTTCAATCTGCTCC
Found at i:6357166 original size:139 final size:138
Alignment explanation
Indices: 6357006--6357255 Score: 342
Period size: 139 Copynumber: 1.8 Consensus size: 138
6356996 AATCCGCTCC
*
6357006 ACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCCGCTCCACTGCAACTTTAGGGAGATAA
* ** * * *
6357071 TATTGGTTATCTTCAGTCTGCTCCAGTGCAACTTC-AGGAAGATAAGACTTGTTATGGTAGACTT
66 GATT-AATAGCTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGACTTGTTATGGTAGACTT
6357135 AATCCGACCT
129 AATCCGACCT
* * * * *
6357145 ACTGCAACTTCAGAG-GTATAGGATTCATTGTTTTAATCCGCTCTACTGCAACTTTAGGGAGATA
1 ACTGCAACTTCAGAGAG-ATAGGATTAATAGCTTCAATCCGCTCCACTGCAACTTTAGGGAGATA
*
6357209 GGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
65 AGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
6357256 TTGGTATCTT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
138 34 0.35
139 62 0.65
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (138 bp):
ACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCCGCTCCACTGCAACTTTAGGGAGATAA
GATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTTATGGTAGACTTAA
TCCGACCT
Found at i:6357195 original size:183 final size:182
Alignment explanation
Indices: 6356895--6357298 Score: 628
Period size: 183 Copynumber: 2.2 Consensus size: 182
6356885 TAATATCCGC
* * *
6356895 TATCTACAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTCATTATGGTAGATTTAATCCGAC
1 TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTCATTATGGTAGACTTAATCCGAC
6356960 CTACTGCAACTTCAGAGATATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGAGAGAT
66 CTACTGCAACTTCAGAGATATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGAGAGAT
* * *
6357025 AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAATATTGG
131 AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGG
* * * **
6357077 TTATCTTCAGTCTGCTCCAGTGCAACTTCAGGAAGATAAGACTTGTTATGGTAGACTTAATCCGA
1 -TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTCATTATGGTAGACTTAATCCGA
* * * * * *
6357142 CCTACTGCAACTTCAGAGGTATAGGATTCATTGTTTTAATCCGCTCTACTGCAACTTTAGGGAGA
65 CCTACTGCAACTTCAGAGATATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGAGAGA
6357207 TAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGG
130 TAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGG
**
6357260 TATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAG
1 TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAG
6357299 GTTGTTTATC
Statistics
Matches: 199, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
182 34 0.17
183 165 0.83
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (182 bp):
TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTCATTATGGTAGACTTAATCCGAC
CTACTGCAACTTCAGAGATATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGAGAGAT
AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGG
Found at i:6357344 original size:227 final size:227
Alignment explanation
Indices: 6356949--6357537 Score: 869
Period size: 227 Copynumber: 2.6 Consensus size: 227
6356939 TTATGGTAGA
* * * * * * * *
6356949 TTTAATCCGAC-CTACTGCAACTTCAGAGATATAAGATTCATCGTTTTAATCCGCTCCACTGCAA
1 TTTAATCCG-CTCTACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAA
* ** * * ** *
6357013 CTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAATATTGGT
65 CTTCAGAGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGTT
* * *
6357078 TATCTTCAGTCTGCTCCAGTGCAACTTCAGGAAGATAAGACTTGTTATGGTAGACTTAATCCGAC
130 TATCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGACTTGTTATGGTAGACTTAATCCGAC
* *
6357143 CTACTGCAACTTCAGAGGTATAGGATTCATTGT
195 CTACTACAACTTCAGAGGTATAGGATTCATCGT
*
6357176 TTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAAC
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAAC
6357241 TTCA-AGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGTT
66 TTCAGA-GAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGTT
* *
6357305 TATCTTCAATCTGCTTCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGAC
130 TATCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGACTTGTTATGGTAGACTTAATCCGAC
*
6357370 CTACTACAACTTTAGAGGTATAGGATTCATCGT
195 CTACTACAACTTCAGAGGTATAGGATTCATCGT
*
6357403 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAAC
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAAC
* * *
6357468 TTTAGAAAGATAAGATTGGTATCTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTT-TGT
66 TTCAGAGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGT-T
6357532 TATCTT
130 TATCTT
6357538 TAGTCTTGAT
Statistics
Matches: 328, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
226 3 0.01
227 324 0.99
228 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (227 bp):
TTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAAC
TTCAGAGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGTTT
ATCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGACTTGTTATGGTAGACTTAATCCGACC
TACTACAACTTCAGAGGTATAGGATTCATCGT
Found at i:6357366 original size:183 final size:179
Alignment explanation
Indices: 6356994--6357534 Score: 533
Period size: 183 Copynumber: 3.0 Consensus size: 179
6356984 ATTCATCGTT
* * *
6356994 TTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
1 TTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
* * * * *
6357059 TTAGGGAGATAATATTGGTTATCTTCAGTCTGCTCCAGTGCAACTTCAGGAAGATAAGACTTGTT
66 TCAGGGAGATAAGATTGG-TATCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGA-TTG-T
* * * * * * **
6357124 ATGGTAGACTT-AATCCGACCT-ACTGCAACTTCAGAGG-TATAGGA-T-TCATTGTT
128 -T--TA-TCTTCAATCTG-CTTCACTGCAACTTCAG-GGAGATAAGATTGTTATTGAC
6357177 TTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
1 TTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
* * * *
6357242 TCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGTTTA
66 TCAGGGAGATAAGATTGGTATCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTGTTTA
*
6357307 TCTTCAATCTGCTTCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGAC
131 TCTTCAATCTGCTTCACTGCAACTTCAGGGAGATAAGA-TTGTTAT--T-GAC
* * * * * * *
6357360 TTAATCCGAC-CTACTACAACTTTAGAGG-TATAGGATTCATCGTTTTAATCCGCTCCACTGCAA
1 TTAATCCG-CTCTACTGCAACTTTAG-GGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAA
* ** * * *
6357423 CTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGAAAGATAAGATTG-G
64 CTTCAGGGAGATAAGATTGGTATCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTGTT
* * *
6357487 TATCTTCAA-CTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTTAT
129 TATCTTCAATC-TGCTTCACTGCAACTTCAGGGAGATAA-GATTGTTAT
6357535 CTTTAGTCTT
Statistics
Matches: 303, Mismatches: 42, Indels: 27
0.81 0.11 0.07
Matches are distributed among these distances:
176 7 0.02
177 24 0.08
179 2 0.01
180 4 0.01
181 4 0.01
182 75 0.25
183 184 0.61
184 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (179 bp):
TTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
TCAGGGAGATAAGATTGGTATCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTGTTTA
TCTTCAATCTGCTTCACTGCAACTTCAGGGAGATAAGATTGTTATTGAC
Found at i:6357615 original size:51 final size:51
Alignment explanation
Indices: 6357560--6357659 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
6357550 ATTCTGCTGC
* * * *
6357560 AACGCCAGGGAAACAAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACTGT
1 AACGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGT
* * *
6357611 AACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACT
1 AACGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACT
6357660 TCAGCTTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (51 bp):
AACGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGT
Found at i:6357678 original size:21 final size:21
Alignment explanation
Indices: 6357637--6357680 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6357627 GATTCGCTGC
*
6357637 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
6357658 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
6357679 CT
1 CT
6357681 GCAATGTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Found at i:6357678 original size:72 final size:72
Alignment explanation
Indices: 6357590--6357731 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
6357580 CGCTGCCTTT
* * * * *
6357590 AGCTTTAATCTGTTCCACTGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCT
1 AGCTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCGCT
6357655 CCACTTC
66 CCACTTC
* * * * * *
6357662 AGCTTTAATCTATTCCACTGCAATGTCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
1 AGCTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCGCT
6357727 CCACT
66 CCACT
6357732 GCAAAGCCAG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (72 bp):
AGCTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCGCT
CCACTTC
Found at i:6357743 original size:51 final size:51
Alignment explanation
Indices: 6357658--6357876 Score: 240
Period size: 51 Copynumber: 4.3 Consensus size: 51
6357648 ATCCGCTCCA
* * * *
6357658 CTTCAGCTTTAATCTATTCCACTGCAATGTCAGGGAAATAAGATTCGCTAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
* * * * * *
6357709 CTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAATATTTGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
* * * * *
6357760 CTTCAGCTTTAATCTGCTCCGCTGCAACGCTAAGGAAACAAGATTTGCTAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
* * * * ** *
6357811 CTTTAGCTTTAATATGTTCCACTGTAACGCCAAGGAGATGGGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
6357862 CTTCAGCTTTAATCT
1 CTTCAGCTTTAATCT
6357877 TCCCCACTTC
Statistics
Matches: 138, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 138 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (51 bp):
CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
Found at i:6357765 original size:123 final size:123
Alignment explanation
Indices: 6357546--6357779 Score: 342
Period size: 123 Copynumber: 1.9 Consensus size: 123
6357536 TTTAGTCTTG
** * *
6357546 ATCTATTCTGCTGCAACGCCAGGGAAACAAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACTGT
1 ATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGC
* * *
6357611 AACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTA
66 AAAGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTA
* * *
6357669 ATCTATTCCACTGCAATGTCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGC
1 ATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGC
* * * *
6357734 AAAGCCAGGGAAATAATATTTGCTGCCTTCAGCTTTAATCTGCTCC
66 AAAGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCC
6357780 GCTGCAACGC
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (123 bp):
ATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGC
AAAGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTA
Found at i:6357834 original size:102 final size:102
Alignment explanation
Indices: 6357658--6357876 Score: 278
Period size: 102 Copynumber: 2.1 Consensus size: 102
6357648 ATCCGCTCCA
* * * * *
6357658 CTTCAGCTTTAATCTATTCCACTGCAATGTCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCCACTGCAACGTCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATA
* * *
6357723 TGTTCCACTGCAAAGCCAGGGAAATAATATTTGCTGC
66 TGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTGC
* * *
6357760 CTTCAGCTTTAATCTGCTCCGCTGCAACG-CTAAGGAAACAAGATTTGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTACTCCACTGCAACGTC-AAGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * * **
6357824 ATGTTCCACTGTAACGCCAAGGAGATGGGATTCGCTGC
65 ATGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTGC
6357862 CTTCAGCTTTAATCT
1 CTTCAGCTTTAATCT
6357877 TCCCCACTTC
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
101 1 0.01
102 99 0.99
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (102 bp):
CTTCAGCTTTAATCTACTCCACTGCAACGTCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATA
TGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTGC
Found at i:6366991 original size:220 final size:219
Alignment explanation
Indices: 6366610--6367051 Score: 744
Period size: 220 Copynumber: 2.0 Consensus size: 219
6366600 AACCCTTCTA
6366610 TCTCGAGATAACAAAATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAA
1 TCTCGAGATAACAAAATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAA
6366675 ACTTTTTTATTTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCA
66 ACTTTTTTATTTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCA
*
6366740 GGTTCAACGAAAAAAAATCAGAACCCAGTAAGTTCGGGCACGACTTCTCGCATTTCTAAATACCG
131 GGTTCAACGAAAAAAAATCAGAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCG
6366805 AACATTGCCTTATTTTGGAAATTT
196 AACATTGCCTTATTTTGGAAATTT
* * * *
6366829 TCTCGAGATAACAAGATGTCACGTCCAGTAAGTTAGGATACAACACCTTGAATCCTCGATAATAA
1 TCTCGAGATAACAAAATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAA
* *
6366894 ACTTTTCTT-TTATTTTTTATTCTAATACTCACGTATTTTAATTTTAAAAGGATATTCGGTCATT
66 ACTTTT-TTATT-TTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATT
* * * *
6366958 TAGGTTCAATGAGAAAAAAT-TGAAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATA
129 CAGGTTCAACGAAAAAAAATCAG-AACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATA
6367022 CCGAACATTGCCTTATTTTGGAAATTT
193 CCGAACATTGCCTTATTTTGGAAATTT
6367049 TCT
1 TCT
6367052 TTATTATAAA
Statistics
Matches: 209, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
219 70 0.33
220 139 0.67
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (219 bp):
TCTCGAGATAACAAAATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAA
ACTTTTTTATTTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCA
GGTTCAACGAAAAAAAATCAGAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCG
AACATTGCCTTATTTTGGAAATTT
Found at i:6368407 original size:13 final size:14
Alignment explanation
Indices: 6368391--6368420 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6368381 GGATTATTTA
6368391 TTTATTTA-TTGGT
1 TTTATTTATTTGGT
6368404 TTTATTTATTTGGT
1 TTTATTTATTTGGT
6368418 TTT
1 TTT
6368421 GGGCCCTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTGGT
Found at i:6370826 original size:45 final size:45
Alignment explanation
Indices: 6370762--6370852 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
6370752 CAACAATATT
*
6370762 TAGAATGGAACTAATTTTGAGTAAGCATTATGTAATTAGCCATTC
1 TAGAATGGAACTAATTTTGAGTAAGCATGATGTAATTAGCCATTC
6370807 TAGAATGGAACTAATTTTGAGTAAGCATGATGTAATTAGCCATTC
1 TAGAATGGAACTAATTTTGAGTAAGCATGATGTAATTAGCCATTC
6370852 T
1 T
6370853 GATTTAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (45 bp):
TAGAATGGAACTAATTTTGAGTAAGCATGATGTAATTAGCCATTC
Found at i:6371331 original size:23 final size:24
Alignment explanation
Indices: 6371290--6371334 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
6371280 TATTATTTTA
6371290 ATTTTAATTTTTAAAATTTTAATC
1 ATTTTAATTTTTAAAATTTTAATC
* *
6371314 ATTTT-ATTTTTCAGATTTTAA
1 ATTTTAATTTTTAAAATTTTAA
6371335 ATTTCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTAATTTTTAAAATTTTAATC
Found at i:6374623 original size:2 final size:2
Alignment explanation
Indices: 6374618--6374650 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6374608 TTAAAAAATG
6374618 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6374651 CCCTAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6381988 original size:45 final size:45
Alignment explanation
Indices: 6381937--6382057 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
6381927 TCAGTTTGCC
*
6381937 CCACTGCAAT-TTCAAGGG-GATAAGACTTGCTTTCTTGAGTCTGCT
1 CCACTGC-ATCTTC-AGGGAGATAAGACTTGCTTTCTTGAGTCTCCT
* * * *
6381982 CCACTGCATCTTCAGGGAAATAAGACTCGTTTTCTTGGGTCTCCT
1 CCACTGCATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTCCT
* *
6382027 CCACTACATCTTCAGGGAGATAAGACCTGCT
1 CCACTGCATCTTCAGGGAGATAAGACTTGCT
6382058 ATGATCTATC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 6 0.09
45 58 0.91
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (45 bp):
CCACTGCATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTCCT
Found at i:6382132 original size:44 final size:43
Alignment explanation
Indices: 6382082--6382324 Score: 204
Period size: 44 Copynumber: 5.6 Consensus size: 43
6382072 TATTCCGCTT
*
6382082 CACTGCAACTTCAGGGAGATAGGATAATTGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGAT-ATTGGCTTTAATCTGCTC
* * * **
6382126 CACTGCAACCTCAGGGAGATAAGAT-TCGCCATCTTGGGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATATTGGC-T-TT-AATCTGCTC
* * ** * * * *
6382171 CACTACAACTTCAAGGAGATAAGA-CCT-GATATGATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATATTGGCTTTAATCTGCTC
* * * * ** *
6382212 TACTGCAATTTCAGAGAGATAAGATCTATCACTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATAT-TGGCTTTAATCTGCTC
* *
6382256 CATTGCAACTTCAGGGAGATATGATTATTGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGA-TATTGGCTTTAATCTGCTC
6382300 CACTGCAACTTCAGGGAGATAAGAT
1 CACTGCAACTTCAGGGAGATAAGAT
6382325 TCGCCATCTT
Statistics
Matches: 152, Mismatches: 39, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
41 26 0.17
42 5 0.03
43 4 0.03
44 87 0.57
45 30 0.20
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGATATTGGCTTTAATCTGCTC
Found at i:6383266 original size:25 final size:26
Alignment explanation
Indices: 6383238--6383286 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
6383228 AGTGTCTTGA
6383238 AAAGAAAAAAGTATT-CAAGAACAGC
1 AAAGAAAAAAGTATTGCAAGAACAGC
*
6383263 AAAGAATAAAGTATTGCAAGAACA
1 AAAGAAAAAAGTATTGCAAGAACA
6383287 AACAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.59, C:0.10, G:0.16, T:0.14
Consensus pattern (26 bp):
AAAGAAAAAAGTATTGCAAGAACAGC
Found at i:6390415 original size:20 final size:21
Alignment explanation
Indices: 6390392--6390432 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6390382 ATATATGTAC
6390392 ATATATA-AGTTAT-AAAATAA
1 ATATATAGA-TTATGAAAATAA
6390412 ATATATAGATTATGAAAATAA
1 ATATATAGATTATGAAAATAA
6390433 TGATTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATAGATTATGAAAATAA
Done.