Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_pilon, whole genome shotgun sequence
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: 1697051
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1285188 original size:42 final size:42
Alignment explanation
Indices: 1285097--1285301 Score: 265
Period size: 42 Copynumber: 4.8 Consensus size: 42
1285087 CTATACACCA
* * *
1285097 GTAAGGCTTAACCTGT-GCACAAAGCAGAGGAGA-CTAGGAAAACT
1 GTAAGGCTT-ACCT-TCGCACACAGCAAAGG-GACCT-GGGAAACT
*
1285141 GTAAGGTTTATCCTT-GCACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTA-CCTTCGCACACAGCAAAGGGACCTGGGAAACT
*
1285183 GTAAGGCTTACCCTT-GCACACAGCAAAGGGACCTGGTAAACT
1 GTAAGGCTTA-CCTTCGCACACAGCAAAGGGACCTGGGAAACT
1285225 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
* *
1285267 GTAAGGCTTACCTTCGTACACAACAAAGGGACCTG
1 GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTG
1285302 ATAATACTTC
Statistics
Matches: 148, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
41 4 0.03
42 117 0.79
43 16 0.11
44 11 0.07
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (42 bp):
GTAAGGCTTACCTTCGCACACAGCAAAGGGACCTGGGAAACT
Found at i:1286266 original size:29 final size:28
Alignment explanation
Indices: 1286234--1286301 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
1286224 CATTTTACAG
* *
1286234 AAATAGCACCTTTTTTAAAATAATTACCA
1 AAATAGCACC-ATTTCAAAATAATTACCA
* * *
1286263 AAATAGCAGCCATTTCGAATTAATTCCCA
1 AAATAGCA-CCATTTCAAAATAATTACCA
1286292 AAATAGCACC
1 AAATAGCACC
1286302 CGGTCAACGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 2 0.06
29 29 0.88
30 2 0.06
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (28 bp):
AAATAGCACCATTTCAAAATAATTACCA
Found at i:1288830 original size:27 final size:28
Alignment explanation
Indices: 1288800--1288859 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
1288790 TAAATTTTGC
*
1288800 TAAAAATAAA-GAAAATT-AAAATGAAAA
1 TAAAAATAAATG-AAATTAAAAACGAAAA
*
1288827 TAAAATTAAATGAAATTAAAAACGAAAA
1 TAAAAATAAATGAAATTAAAAACGAAAA
1288855 TAAAA
1 TAAAA
1288860 CGAAATAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (28 bp):
TAAAAATAAATGAAATTAAAAACGAAAA
Found at i:1288837 original size:16 final size:17
Alignment explanation
Indices: 1288811--1288847 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1288801 AAAAATAAAG
1288811 AAAATTAAAATGAAAAT
1 AAAATTAAAATGAAAAT
*
1288828 AAAATT-AAATGAAATT
1 AAAATTAAAATGAAAAT
1288844 AAAA
1 AAAA
1288848 ACGAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAATTAAAATGAAAAT
Found at i:1300526 original size:21 final size:21
Alignment explanation
Indices: 1300502--1300579 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
1300492 CCTTCGGGAT
1300502 ATATATGTAATCCTTTGGAAC
1 ATATATGTAATCCTTTGGAAC
*** * * *
1300523 ATATATGCGGTTCTTCGGGAC
1 ATATATGTAATCCTTTGGAAC
* ** *
1300544 ACATATGTGGTCCTTTGGAAT
1 ATATATGTAATCCTTTGGAAC
*
1300565 ATACATGTAATCCTT
1 ATATATGTAATCCTT
1300580 AAGAAGTTAT
Statistics
Matches: 41, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (21 bp):
ATATATGTAATCCTTTGGAAC
Found at i:1300615 original size:21 final size:22
Alignment explanation
Indices: 1300589--1300644 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
1300579 TAAGAAGTTA
* *
1300589 TCCTTCGAGACA-TCTATGTGG
1 TCCTTCGGGACATTCTATATGG
*
1300610 TCCTTCGGGAAATTTCTATATGG
1 TCCTTCGGGACA-TTCTATATGG
1300633 TCCTTCGGGACA
1 TCCTTCGGGACA
1300645 AAATATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 10 0.34
23 19 0.66
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
TCCTTCGGGACATTCTATATGG
Found at i:1307822 original size:51 final size:51
Alignment explanation
Indices: 1307746--1307951 Score: 385
Period size: 51 Copynumber: 4.0 Consensus size: 51
1307736 TGCTGCACCC
* * *
1307746 TTAAGTTTTATATTGCCTGTTGTTTATAATTTATAACAGTGAAGTCTCCCT
1 TTAAGCTTTATATTGCCTGTCGTTTAGAATTTATAACAGTGAAGTCTCCCT
1307797 TTAAGCTTTATATTGCCTGTCGTTTAGAATTTATAACAGTGAAGTCTCCCT
1 TTAAGCTTTATATTGCCTGTCGTTTAGAATTTATAACAGTGAAGTCTCCCT
1307848 TTAAGCTTTATATTGCCTGTCGTTTAGAATTTATAACAGTGAAGTCTCCCT
1 TTAAGCTTTATATTGCCTGTCGTTTAGAATTTATAACAGTGAAGTCTCCCT
1307899 TTAAGCTTTATATTGCCTGTCGTTTAGAATTTATAACAGTGAAGTCTCCCT
1 TTAAGCTTTATATTGCCTGTCGTTTAGAATTTATAACAGTGAAGTCTCCCT
1307950 TT
1 TT
1307952 GCTGCTGCTT
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 152 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (51 bp):
TTAAGCTTTATATTGCCTGTCGTTTAGAATTTATAACAGTGAAGTCTCCCT
Found at i:1308241 original size:27 final size:28
Alignment explanation
Indices: 1308194--1308248 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
1308184 ATGTTTTCGT
*
1308194 CTCTAAAATTTTATAAGTTCAAATTCAC
1 CTCTAAAATTTTATAAATTCAAATTCAC
1308222 CTCTAAAA-TTTATAAATTCAAATTCAC
1 CTCTAAAATTTTATAAATTCAAATTCAC
1308249 ACATTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (28 bp):
CTCTAAAATTTTATAAATTCAAATTCAC
Found at i:1308281 original size:25 final size:25
Alignment explanation
Indices: 1308253--1308303 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
1308243 ATTCACACAT
1308253 TAATATAAAATCTTACGTACGTTCC
1 TAATATAAAATCTTACGTACGTTCC
*
1308278 TAATATAACATCTTACGTACGTTCC
1 TAATATAAAATCTTACGTACGTTCC
1308303 T
1 T
1308304 TCTTACAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (25 bp):
TAATATAAAATCTTACGTACGTTCC
Found at i:1313197 original size:27 final size:25
Alignment explanation
Indices: 1313139--1313197 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
1313129 ATGTTTTGGT
*
1313139 ATTTTTATATATATGCTATTGAATC
1 ATTTTTATATATATGCTATTGAATA
*
1313164 ATGTTTTGATATATATGTTATTGAATAA
1 AT-TTTT-ATATATATGCTATTGAAT-A
1313192 ATTTTT
1 ATTTTT
1313198 TCACCATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.07
26 4 0.14
27 21 0.72
28 2 0.07
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.54
Consensus pattern (25 bp):
ATTTTTATATATATGCTATTGAATA
Found at i:1314717 original size:2 final size:2
Alignment explanation
Indices: 1314712--1314796 Score: 98
Period size: 2 Copynumber: 42.5 Consensus size: 2
1314702 TATATATATA
* * * *
1314712 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG AG AG AG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * *
1314754 AG AG AG TG TG TG TG TG TG TG TG TG TG TG AG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1314796 T
1 T
1314797 TATAATATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.09, C:0.00, G:0.48, T:0.42
Consensus pattern (2 bp):
TG
Found at i:1314918 original size:20 final size:20
Alignment explanation
Indices: 1314893--1315012 Score: 62
Period size: 20 Copynumber: 5.3 Consensus size: 20
1314883 AATTGAAAAT
1314893 GCATGAAAGGATGCATAAAG
1 GCATGAAAGGATGCATAAAG
* *
1314913 GCATGAACGGATGCCATAATTGAAAAT
1 GCATGAAAGGATG-C---A-T--AAAG
*
1314940 GCATGAAATGATGCATAAAG
1 GCATGAAAGGATGCATAAAG
*
1314960 GCAT-AAACGGATGTCATAATTAAAAAT
1 GCATGAAA-GGATG-C---A-T--AAAG
1314987 GCATGAAAGGATGCATAAAG
1 GCATGAAAGGATGCATAAAG
1315007 GCATGA
1 GCATGA
1315013 GCGGATTCCA
Statistics
Matches: 76, Mismatches: 8, Indels: 32
0.66 0.07 0.28
Matches are distributed among these distances:
19 3 0.04
20 32 0.42
21 2 0.03
22 2 0.03
23 2 0.03
24 2 0.03
25 2 0.03
26 2 0.03
27 26 0.34
28 3 0.04
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATAAAG
Found at i:1314953 original size:47 final size:47
Alignment explanation
Indices: 1314880--1315049 Score: 286
Period size: 47 Copynumber: 3.6 Consensus size: 47
1314870 AAATCAATTT
1314880 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
* * *
1314927 CATAATTGAAAATGCATGAAATGATGCATAAAGGCATAAACGGATGT
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
* * *
1314974 CATAATTAAAAATGCATGAAAGGATGCATAAAGGCATGAGCGGATTC
1 CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
1315021 CATAATTGAAAATGCATGAAAGGATGCAT
1 CATAATTGAAAATGCATGAAAGGATGCAT
1315050 TAGTGGCATG
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.22
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATAAAGGCATGAACGGATGC
Found at i:1315987 original size:44 final size:47
Alignment explanation
Indices: 1315910--1316002 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 47
1315900 CAAACAGAAC
*
1315910 ATAAAAGACATGAAAAAAATGCCATAAATGAAATG-TATAATAGTGT
1 ATAAAAGACATGAAAAAAATGCCATAAATGAAATGATATAAGAGTGT
* *
1315956 ATAAAAG-CATG-AAAGAATGTCAT-AATGGAAATGATATAAGAGTGT
1 ATAAAAGACATGAAAAAAATGCCATAAAT-GAAATGATATAAGAGTGT
1316001 AT
1 AT
1316003 TATAAGAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 3 0.07
44 16 0.38
45 16 0.38
46 7 0.17
ACGTcount: A:0.52, C:0.05, G:0.18, T:0.25
Consensus pattern (47 bp):
ATAAAAGACATGAAAAAAATGCCATAAATGAAATGATATAAGAGTGT
Found at i:1331368 original size:27 final size:26
Alignment explanation
Indices: 1331330--1331382 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
1331320 ATTGAGAAGT
1331330 TTTCCTAGACACACTAGTTTTTCTAG
1 TTTCCTAGACACACTAGTTTTTCTAG
*
1331356 TTTCCTTATACACACTAGTTTTTCTAG
1 TTTCC-TAGACACACTAGTTTTTCTAG
1331383 GAGATTCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (26 bp):
TTTCCTAGACACACTAGTTTTTCTAG
Found at i:1340071 original size:20 final size:20
Alignment explanation
Indices: 1340048--1340091 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
1340038 ATCGTCACTA
1340048 TTCACTGTTGCTATTTACTG
1 TTCACTGTTGCTATTTACTG
1340068 TTCACTGTTGCTATTTACTG
1 TTCACTGTTGCTATTTACTG
1340088 TTCA
1 TTCA
1340092 AAAAAATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (20 bp):
TTCACTGTTGCTATTTACTG
Found at i:1343667 original size:4 final size:4
Alignment explanation
Indices: 1343653--1343686 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
1343643 ATAGGATTTT
1343653 AATA TAATA AATA AATA GAATA AATA AATA AATA
1 AATA -AATA AATA AATA -AATA AATA AATA AATA
1343687 TTATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:1343669 original size:13 final size:12
Alignment explanation
Indices: 1343653--1343686 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
1343643 ATAGGATTTT
1343653 AATATAATAAATA
1 AATA-AATAAATA
1343666 AATAGAATAAATA
1 AATA-AATAAATA
1343679 AATAAATA
1 AATAAATA
1343687 TTATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
AATAAATAAATA
Found at i:1343678 original size:17 final size:18
Alignment explanation
Indices: 1343653--1343686 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1343643 ATAGGATTTT
1343653 AATATAATAAATAAATAG
1 AATATAATAAATAAATAG
1343671 AATA-AATAAATAAATA
1 AATATAATAAATAAATA
1343687 TTATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATATAATAAATAAATAG
Found at i:1345018 original size:3 final size:3
Alignment explanation
Indices: 1345010--1345074 Score: 103
Period size: 3 Copynumber: 21.0 Consensus size: 3
1345000 AATATTTATT
*
1345010 TAA TAA TAAA TAA TAA TAA TAA TAA TGTA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
1345057 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
1345075 GCAAATTGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 53 0.91
4 5 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1345357 original size:19 final size:19
Alignment explanation
Indices: 1345319--1345373 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
1345309 AGATTTAAAC
*
1345319 TTATTTTCTTATTT-TT-T
1 TTATTTTTTTATTTATTAT
1345336 TTATTTTTTTATTTATTAT
1 TTATTTTTTTATTTATTAT
* * *
1345355 TTATTATTATGTTTATTAT
1 TTATTTTTTTATTTATTAT
1345374 GTTTTTTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 13 0.41
18 2 0.06
19 17 0.53
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTTTTATTTATTAT
Found at i:1348163 original size:95 final size:95
Alignment explanation
Indices: 1348053--1348313 Score: 353
Period size: 95 Copynumber: 2.7 Consensus size: 95
1348043 ATTATAATTA
* * * *
1348053 TATATATATACAATAAAGCTTGAGCTATCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTATG
1 TATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATG
1348118 GATAAGATTCAACTAGCCTGATAAAGGCGAT
65 GATAAGATTCAACTAGCCTGATAAAGGCGAT
1348149 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATGG
* * * *
1348214 ATAATATTTAGCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAACTAGCCTGATAAAGGCGAT
* * * * *
1348244 TATAATAT-CTATACAATGATATTAAGTTGTCCCTCTAGAGAAATTGGTTAAACGCCCCAGCTTC
1 TATAATATACAATA-AA-G--CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTT
1348308 ATGGAT
62 ATGGAT
1348314 CCAGCTAACC
Statistics
Matches: 148, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
94 4 0.03
95 93 0.63
96 5 0.03
98 46 0.31
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (95 bp):
TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATGG
ATAAGATTCAACTAGCCTGATAAAGGCGAT
Found at i:1349729 original size:116 final size:116
Alignment explanation
Indices: 1349522--1349765 Score: 371
Period size: 116 Copynumber: 2.1 Consensus size: 116
1349512 TCATATTTAG
* * * ** * *
1349522 ATTGGATTTTAACTTCACGACGAATGATATCCAATTCCCGGCTCAACTTCACAATGAAGGGGCCA
1 ATTGGATTTCAACTTCACCACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCCA
* *
1349587 TCCACAGTTTTAACTTCACGACGAAGGGAATCGTGCTCACCCGCAACATTC
66 TCCACAGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTC
*
1349638 ATTGGATTTCAACTTCACCACGAAGGATATCCAATTCAAGGCTGAACTTCACAACGAAGAGGCCA
1 ATTGGATTTCAACTTCACCACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCCA
* *
1349703 TCCACGGTTTCAACTTCACGATGAAGGGAATCGTGCTCACCAGCAACATTC
66 TCCACAGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTC
*
1349754 ATTGGGTTTCAA
1 ATTGGATTTCAA
1349766 GATAGAATTT
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (116 bp):
ATTGGATTTCAACTTCACCACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCCA
TCCACAGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTC
Found at i:1350509 original size:804 final size:804
Alignment explanation
Indices: 1348961--1350569 Score: 3004
Period size: 804 Copynumber: 2.0 Consensus size: 804
1348951 TCGAGAGACC
1348961 AGATAGAATTTGTGACATCAACTCGAGAAGAAAATGGGGCATGATCGATTCCAAGGATCAAGATC
1 AGATAGAATTTGTGACATCAACTCGAGAAGAAAATGGGGCATGATCGATTCCAAGGATCAAGATC
* * *
1349026 GGAAGACAAAGCACGGGACTCCGTCCAAGGCTAATTCATATTGCATTCATCTTAGACATACTTAA
66 GAAAGACAAAGAACGGGACTCCGTCCAAGGCTAATTCATATTGCATGCATCTTAGACATACTTAA
1349091 GAGCATCACATTTATCATTTTTAGCATACATAATTTTTTACAACTTTTTGAGTCAAGTTTCAACT
131 GAGCATCACATTTATCATTTTTAGCATACATAATTTTTTACAACTTTTTGAGTCAAGTTTCAACT
* * *
1349156 TCAAGACAAAAGATACTCGATTTAAAAGCACATTCAAAAGTTGATGGTGGTTGCTCGACCTCATA
196 TCAAGACAAAAGATACTCGATTCAAAAGCACATTCAAAAGTTGATGGTGGTTGCTCAACCTCACA
*
1349221 GTGAAGGGGCGACTGTCTGACGACAAAACAACTTTCCGAGTGTCGTTCAGAGTCAATTTCAACTT
261 GTGAAGGGGCGACTGTCTGACGACAAAACAACTTTCCGAGTCTCGTTCAGAGTCAATTTCAACTT
*
1349286 CACATCCAATGATATTGAACTCTAAGCGACACAATTTGTTTGAAATTGGATTTCAACTCCACGGC
326 CACATCCAATGATATTGAACTCTAAGCAACACAATTTGTTTGAAATTGGATTTCAACTCCACGGC
1349351 GGAGGACATACAACTCAAAACCAACTTTCTCAAGATTGAATTTCAACTTCACGATGAAGGATATC
391 GGAGGACATACAACTCAAAACCAACTTTCTCAAGATTGAATTTCAACTTCACGATGAAGGATATC
* *
1349416 TAATTCAAAGCTCAACTTCAAGGCGAAGGGGCTTCCCAGTTTCACTCATATCTAATTTCAACTTC
456 TAATTCAAAGCTCAACTTCAAGGCGAAGGGGCTTCCCAGTTTCACTCATAGCCAATTTCAACTTC
1349481 ACGGCGAAAGATATTGGACTCGAAGCAACATTCATATTTAGATTGGATTTTAACTTCACGACGAA
521 ACGGCGAAAGATATTGGACTCGAAGCAACATTCATATTTAGATTGGATTTTAACTTCACGACGAA
1349546 TGATATCCAATTCCCGGCTCAACTTCACAATGAAGGGGCCATCCACAGTTTTAACTTCACGACGA
586 TGATATCCAATTCCCGGCTCAACTTCACAATGAAGGGGCCATCCACAGTTTTAACTTCACGACGA
1349611 AGGGAATCGTGCTCACCCGCAACATTCATTGGATTTCAACTTCACCACGAAGGATATCCAATTCA
651 AGGGAATCGTGCTCACCCGCAACATTCATTGGATTTCAACTTCACCACGAAGGATATCCAATTCA
*
1349676 AGGCTGAACTTCACAACGAAGAGGCCATCCACGGTTTCAACTTCACGATGAAGGGAATCGTGCTC
716 AGGCTCAACTTCACAACGAAGAGGCCATCCACGGTTTCAACTTCACGATGAAGGGAATCGTGCTC
1349741 ACCAGCAACATTCATTGGGTTTCA
781 ACCAGCAACATTCATTGGGTTTCA
1349765 AGATAGAATTTGTGACATCAACTCGAGAAGAAAATGGGGCATGATCGATTCCAAGGATCAAGATC
1 AGATAGAATTTGTGACATCAACTCGAGAAGAAAATGGGGCATGATCGATTCCAAGGATCAAGATC
1349830 GAAAGACAAAGAACGGGACTCCGTCCAAGGCTAATTCATATTGCATGCATCTTAGACATACTTAA
66 GAAAGACAAAGAACGGGACTCCGTCCAAGGCTAATTCATATTGCATGCATCTTAGACATACTTAA
* *
1349895 GAGCATCACATTTATCATTTTTAGCATACATAATTTTTTACAGCTTTTTGAGTCAAGTTTTAACT
131 GAGCATCACATTTATCATTTTTAGCATACATAATTTTTTACAACTTTTTGAGTCAAGTTTCAACT
* *
1349960 TCAAGACAAAAGATACTCGATTCAAAAGCACATTCAAAAGTTGATGGTGGTTGTTCAACCTCACG
196 TCAAGACAAAAGATACTCGATTCAAAAGCACATTCAAAAGTTGATGGTGGTTGCTCAACCTCACA
* *
1350025 GTGAAGGGGCGACTGTCTGATGACAAAACAACTTTCTGAGTCTCGTTCAGAGTCAATTTCAACTT
261 GTGAAGGGGCGACTGTCTGACGACAAAACAACTTTCCGAGTCTCGTTCAGAGTCAATTTCAACTT
1350090 CACATCCAATGATATTGAACTCTAAGCAACACAATTTGTTTGAAATTGGATTTCAACTCCACGGC
326 CACATCCAATGATATTGAACTCTAAGCAACACAATTTGTTTGAAATTGGATTTCAACTCCACGGC
1350155 GGAGGACATACAACTCAAAACCAACTTTCTCAAGATTGAATTTCAACTTCACGATGAAGGATATC
391 GGAGGACATACAACTCAAAACCAACTTTCTCAAGATTGAATTTCAACTTCACGATGAAGGATATC
*
1350220 TAATTCAAAGCTCAACTTCACGGCGAAGGGGCTTCCCAGTTTCACTCATAGCCAATTTCAACTTC
456 TAATTCAAAGCTCAACTTCAAGGCGAAGGGGCTTCCCAGTTTCACTCATAGCCAATTTCAACTTC
1350285 ACGGCGAAAGATATTGGACTCGAAGCAACATTCATATTTAGATTGGATTTTAACTTCACGAC-AG
521 ACGGCGAAAGATATTGGACTCGAAGCAACATTCATATTTAGATTGGATTTTAACTTCACGACGA-
* *
1350349 ATGATATCTAATTCCCGGCTCAACTTCACAATGAAGGGGCCATCCACGGTTTTAACTTCACGACG
585 ATGATATCCAATTCCCGGCTCAACTTCACAATGAAGGGGCCATCCACAGTTTTAACTTCACGACG
*
1350414 AAGGGAATCGTGCTCACCCGCAATATTCATTGGATTTCAACTTCACCACGAAGGATATCCAATTC
650 AAGGGAATCGTGCTCACCCGCAACATTCATTGGATTTCAACTTCACCACGAAGGATATCCAATTC
*
1350479 AAGGCTCAACTTCACAACGAAGGGGCCATCCACGGTTTCAACTTCACGATGAAGGGAATCGTGCT
715 AAGGCTCAACTTCACAACGAAGAGGCCATCCACGGTTTCAACTTCACGATGAAGGGAATCGTGCT
1350544 CACCAGCAACATTCATTGGGTTTCA
780 CACCAGCAACATTCATTGGGTTTCA
1350569 A
1 A
1350570 CTTCACGAAG
Statistics
Matches: 782, Mismatches: 22, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
803 1 0.00
804 781 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (804 bp):
AGATAGAATTTGTGACATCAACTCGAGAAGAAAATGGGGCATGATCGATTCCAAGGATCAAGATC
GAAAGACAAAGAACGGGACTCCGTCCAAGGCTAATTCATATTGCATGCATCTTAGACATACTTAA
GAGCATCACATTTATCATTTTTAGCATACATAATTTTTTACAACTTTTTGAGTCAAGTTTCAACT
TCAAGACAAAAGATACTCGATTCAAAAGCACATTCAAAAGTTGATGGTGGTTGCTCAACCTCACA
GTGAAGGGGCGACTGTCTGACGACAAAACAACTTTCCGAGTCTCGTTCAGAGTCAATTTCAACTT
CACATCCAATGATATTGAACTCTAAGCAACACAATTTGTTTGAAATTGGATTTCAACTCCACGGC
GGAGGACATACAACTCAAAACCAACTTTCTCAAGATTGAATTTCAACTTCACGATGAAGGATATC
TAATTCAAAGCTCAACTTCAAGGCGAAGGGGCTTCCCAGTTTCACTCATAGCCAATTTCAACTTC
ACGGCGAAAGATATTGGACTCGAAGCAACATTCATATTTAGATTGGATTTTAACTTCACGACGAA
TGATATCCAATTCCCGGCTCAACTTCACAATGAAGGGGCCATCCACAGTTTTAACTTCACGACGA
AGGGAATCGTGCTCACCCGCAACATTCATTGGATTTCAACTTCACCACGAAGGATATCCAATTCA
AGGCTCAACTTCACAACGAAGAGGCCATCCACGGTTTCAACTTCACGATGAAGGGAATCGTGCTC
ACCAGCAACATTCATTGGGTTTCA
Found at i:1350533 original size:116 final size:116
Alignment explanation
Indices: 1350326--1350738 Score: 531
Period size: 116 Copynumber: 3.5 Consensus size: 116
1350316 TCATATTTAG
* * * ** *
1350326 ATTGGATTTTAACTTCACGAC-AGATGATATCTAATTCCCGGCTCAACTTCACAATGAAGGGGCC
1 ATTGGATTTCAACTTCACGACGA-AGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCC
* *
1350390 ATCCACGGTTTTAACTTCACGACGAAGGGAATCGTGCTCACCCGCAATATTC
65 ATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAATATTC
*
1350442 ATTGGATTTCAACTTCACCACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
* *
1350507 TCCACGGTTTCAACTTCACGATGAAGGGAATCGTGCTCACCAGCAACATTC
66 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAATATTC
* * * * *
1350558 ATTGGGTTTCAACTTCACGAAGAATGATATCCAATTCAAGGCTCAACTGCACAACGAAGGGGTCA
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
* * * * **
1350623 TCCACGGTTTCAACTTCACGACGAAGAGAATCGTACCCACAATAAGCAATGCAACC
66 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCAC---CAGCAAT--ATTC
* * * *
1350679 CTTGGATTTCAACATCACGACGAAGGATATCCAATTTAAGGCTCAACTTCACGACGAAGG
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGG
1350739 ATATCGTGTT
Statistics
Matches: 258, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
116 198 0.77
117 1 0.00
119 5 0.02
121 54 0.21
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (116 bp):
ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCA
TCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAATATTC
Found at i:1350899 original size:84 final size:84
Alignment explanation
Indices: 1350748--1351136 Score: 553
Period size: 84 Copynumber: 4.6 Consensus size: 84
1350738 GATATCGTGT
* * * * * * *
1350748 TCATTTGCAGCATAACTCAAGGCTAAAAAGGTTATCTACTAACCAAAGACCTTCGAGCTCGACTA
1 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
1350813 CGCTCAACTCCAAGGCACA
66 CGCTCAACTCCAAGGCACA
*
1350832 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTA
1 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
*
1350897 CGCTCAGCTCCAAGGCACA
66 CGCTCAACTCCAAGGCACA
* * * *
1350916 TCATTTGCAACATAGCTCAAGGCTAGAAGGTTTATCTGCCAATAAAAAACCTTCGAGTTCGACTA
1 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
1350981 CGCTTAGCTCCAAGGCACA
66 CGCTCAACTCCAAGGCACA
* *
1351000 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGATTA
1 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
1351065 CACTCAACTCAAAGGCACA
66 CGCTCAACTCCAAGGCACA
* * * * * *
1351084 ACATTTGCATCATAGCTCAAGGCAAGAAGGGCTAACAGCCAACAAAAGACCTT
1 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTT
1351137 TGATTTTGAT
Statistics
Matches: 274, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 274 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (84 bp):
TCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
CGCTCAACTCCAAGGCACA
Found at i:1352756 original size:19 final size:19
Alignment explanation
Indices: 1352732--1352780 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
1352722 ATTTAAACTT
1352732 TTTTTTATTCTTAT-TTTTA
1 TTTTTTATT-TTATATTTTA
*
1352751 TTTTTTATTTTTTATTTTA
1 TTTTTTATTTTATATTTTA
1352770 TTTATTTATTT
1 TTT-TTTATTT
1352781 ATGTTTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 17 0.63
20 7 0.26
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTATTTTATATTTTA
Found at i:1352758 original size:13 final size:13
Alignment explanation
Indices: 1352732--1352780 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
1352722 ATTTAAACTT
*
1352732 TTTTTTATTCTTA
1 TTTTTTATTTTTA
1352745 -TTTTTATTTTTTA
1 TTTTTTA-TTTTTA
1352758 TTTTTTA-TTTTA
1 TTTTTTATTTTTA
1352770 TTTATTTATTT
1 TTT-TTTATTT
1352781 ATGTTTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 14 0.45
13 9 0.29
14 8 0.26
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:1363343 original size:13 final size:13
Alignment explanation
Indices: 1363325--1363361 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1363315 CTTTGGATGA
1363325 CTTTCTCTTCCTT
1 CTTTCTCTTCCTT
*
1363338 CTTTCTCTTACTT
1 CTTTCTCTTCCTT
1363351 CTTTCTCTTCC
1 CTTTCTCTTCC
1363362 CCTCTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.03, C:0.38, G:0.00, T:0.59
Consensus pattern (13 bp):
CTTTCTCTTCCTT
Found at i:1364185 original size:34 final size:35
Alignment explanation
Indices: 1364115--1364200 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 35
1364105 CTGTCTAAGG
* * *
1364115 AAGTGAAGTTAAGGTTGAATCCTCATTTGCGAGTT
1 AAGTCAAGTTATGGATGAATCCTCATTTGCGAGTT
* *
1364150 AAGTCAAGTTATGGATGACTCCTC-TTTGCGGGTT
1 AAGTCAAGTTATGGATGAATCCTCATTTGCGAGTT
**
1364184 AAGTCAAAATATGGATG
1 AAGTCAAGTTATGGATG
1364201 TCCTTTAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 24 0.55
35 20 0.45
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (35 bp):
AAGTCAAGTTATGGATGAATCCTCATTTGCGAGTT
Found at i:1364541 original size:16 final size:16
Alignment explanation
Indices: 1364520--1364554 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1364510 GTCTCAAGTA
1364520 AGACAAAATTTTCAAG
1 AGACAAAATTTTCAAG
1364536 AGACAAAATTTTCAAG
1 AGACAAAATTTTCAAG
1364552 AGA
1 AGA
1364555 AAAGATCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.23
Consensus pattern (16 bp):
AGACAAAATTTTCAAG
Found at i:1364636 original size:36 final size:36
Alignment explanation
Indices: 1364543--1364720 Score: 132
Period size: 36 Copynumber: 4.9 Consensus size: 36
1364533 AAGAGACAAA
*
1364543 ATTTTCAAGAGAAAAGATCTCAAGTGAGATACAATTTTT
1 ATTTT-AAGAGAAAATATCTCAAGTGAGATA-AA-TTTT
* * * *
1364582 GTTTTAAGATAAACTATCTCGAGTGAGATGAAA-TTT
1 ATTTTAAGAGAAAATATCTCAAGTGAGAT-AAATTTT
1364618 ATTTTAAGAGAAAATATCTCAA-TAGAGATAAAGTTTT
1 ATTTTAAGAGAAAATATCTCAAGT-GAGATAAA-TTTT
* * * * * *
1364655 ATTCTGAGAG-AAATCGTCTCGAGTAAGATAAA--TC
1 ATTTTAAGAGAAAAT-ATCTCAAGTGAGATAAATTTT
* *
1364689 ATTTCAAGAGAAAACTATCTCAAGCGAGATAA
1 ATTTTAAGAGAAAA-TATCTCAAGTGAGATAA
1364721 TGTTTTTGTT
Statistics
Matches: 109, Mismatches: 22, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
34 8 0.07
35 19 0.17
36 31 0.28
37 23 0.21
38 23 0.21
39 5 0.05
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (36 bp):
ATTTTAAGAGAAAATATCTCAAGTGAGATAAATTTT
Found at i:1364718 original size:72 final size:73
Alignment explanation
Indices: 1364545--1364726 Score: 190
Period size: 73 Copynumber: 2.5 Consensus size: 73
1364535 GAGACAAAAT
* * * * * * *
1364545 TTTCAAGAGAAAAGATCTCAAGTGAGATACAATTTTTGTTTTAAGATAAACTATCTCGAGTGAGA
1 TTTCAAGAGAAAATATCTCAAGAGAGATA-AAGTTTTATTCTAAGAGAAACTATCTCGAGTAAGA
*
1364610 TGAAATTTA
65 TGAAATTCA
* * * *
1364619 TTTTAAGAGAAAATATCTCAATAGAGATAAAGTTTTATTCTGAGAGAAA-TCGTCTCGAGTAAGA
1 TTTCAAGAGAAAATATCTCAAGAGAGATAAAGTTTTATTCTAAGAGAAACT-ATCTCGAGTAAGA
1364683 T-AAA-TCA
65 TGAAATTCA
* *
1364690 TTTCAAGAGAAAACTATCTCAAGCGAGATAATGTTTT
1 TTTCAAGAGAAAA-TATCTCAAGAGAGATAAAGTTTT
1364727 TGTTTCAAGT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
71 14 0.16
72 24 0.27
73 27 0.30
74 25 0.28
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.32
Consensus pattern (73 bp):
TTTCAAGAGAAAATATCTCAAGAGAGATAAAGTTTTATTCTAAGAGAAACTATCTCGAGTAAGAT
GAAATTCA
Found at i:1365024 original size:136 final size:139
Alignment explanation
Indices: 1364802--1365060 Score: 296
Period size: 136 Copynumber: 1.9 Consensus size: 139
1364792 AAAAAAAGTT
* * *
1364802 TTGAGAGAAAGTGTCTCGAGTGAGATGAAAATTTTAAAGAGAAAATTCTCTCAAATGAGATAAAG
1 TTGAGAGAAACTGTCTCGAGTGAGATGAAAATTTTAAAGAGAAAAATATCTCAAATGAGATAAAG
* * * * *
1364867 TTTTGTTTCAAGAAAATTGTCTTGAGTGAGA-CAAAAATTTAAAGGGAAAATATCTCATATGAAA
66 CTTTGTTTCAAGAAAACTGTCTCGAATGAGATCAAAAATTTAAAGGAAAAATATCTCATATGAAA
1364931 TAAAAAAAA
131 TAAAAAAAA
* * * *
1364940 TTGAGAGAACCTGTC-CTGAGTGAGATG-GAATTTT-CAGAGAAAAATATCTCAAGTGAGATGAA
1 TTGAGAGAAACTGTCTC-GAGTGAGATGAAAATTTTAAAGAGAAAAATATCTCAAATGAGAT-AA
* * * * *
1365002 A-CTTT-TTTCTAGAGAAACTGTCTCGAATGAGATGAAAATTTTCAATGAAAAATATCTCA
64 AGCTTTGTTTCAAGA-AAACTGTCTCGAATGAGATCAAAAATTTAAAGGAAAAATATCTCA
1365061 AGTGAGATAA
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
135 7 0.07
136 39 0.39
137 31 0.31
138 23 0.23
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (139 bp):
TTGAGAGAAACTGTCTCGAGTGAGATGAAAATTTTAAAGAGAAAAATATCTCAAATGAGATAAAG
CTTTGTTTCAAGAAAACTGTCTCGAATGAGATCAAAAATTTAAAGGAAAAATATCTCATATGAAA
TAAAAAAAA
Found at i:1368313 original size:948 final size:951
Alignment explanation
Indices: 1365926--1369729 Score: 5981
Period size: 948 Copynumber: 4.0 Consensus size: 951
1365916 ATATTAATAG
* *
1365926 TAAATGTTAATTTGGAAGGTGTTTAGAGTGGTTTCTTTTTTTGAGGGATTCTTTGGTTTTCGTGA
1 TAAAGGTTAATTTGGAAGGTGTTTAGAGTGGTTTCTTTTTTTGAGGGATTCTTTGG-TTTGGTGA
* * * ** *
1365991 TCATGTACATCACTTCTATGCATTCATGTATACCTTTGAGAAACCATTGGACCTTTGACAATTTA
65 TCATGTACATCGCTTCTATACATTCATGTATACCTTTGAGAAGCCGCTGGACCTTTGACAAGTTA
*
1366056 GCAAAAAGTGCTAGTGATTGCTTAAAATGCTCTTGGGAGCACATTCGGTACTGTAGTGC-AGGAC
130 GCAAAAAGTGCTAGTGATTGCTTAAAATGCTCTTGGGAGCACATTCGGTACTGTAGTACTA-GAC
* * *
1366120 CTTTTAGAGAGTGTTCATATTTTAGTTCTCTGAAATCTTCCACTTGTTTAGGTTTTGTAGACTCC
194 CTTTTAGAGAGTGTTCATATTTTAGTTCTCTAAAATCATCCACTTGTTTAGGTTTCGTAGACTCC
* * *
1366185 TTTAGTAGAGACAATGCAT-AAATATCGATCTAGAAACATAATTTCTGAGTGCTTGTATCTAGTT
259 TTTAGTAGAGGCAATGC-TGAAATATCGATCTAGAAACATAATTTCTGAGTGTTTGTATCTAGTC
* * *
1366249 GATTATAACAGATGTTTCTTAACTCCCTTATTTTATCTTCCATCGAAACTCATTCTCAATTCAAA
323 GACTATAACAGATGTTTCTTTACTCCCTTAGTTTATCTTCCATCGAAACTCATTCTCAATTCAAA
* * * * *
1366314 CTTTAGGACTTACCACTTTTCTTAATTTATATTTCATTAACCTTAGTGTTCTCATATTTGCATTG
388 CTTTAGGCCTTACCACCTTTATTAATTTATATTTCATTAACCTTGGTGTTCTCATATTTGCTTTG
* * * *
1366379 CTTTTGTTAGGAAATTCATCTCGACACAAAGT-T-AGTGTCATAATCTAAATGTAATCCCATTCA
453 TTTTTGTTAGAAAATTCATCTCGA-ACAAAGTATCAGTGTCATGATCTAAATGTAATCCCGTTCA
* * *
1366442 TAAAGTCAGGGATCTTAATATTACCTCTTTGGCCCATTACTTTAGTAGAGTACCTCTAATCAGAT
517 TAAAGTCAGGGCTCTTAATATTACCTCTTTGGCCCATTACTTTAGCAGAATACCTCTAATCAGAT
1366507 GATTCAAGTGTTAGAAAGTCTTCAACTTGACCACTTGAATGAAACTC-ATCATAAAGCTTGGACT
582 GATTCAAGTGTTAGAAAGTCTTCAACTTGACCACTTGAATGAAACTCAATCATAAAGCTTGGACT
*
1366571 TACCTCCATGACTACTTCAGACTTACCTCCGAAGATTATTAGCTTACTACTTTCAACGGAGTGCC
647 TACCTCCATGACTACTTCAGACTTACCTCCGAAGATTATCAGCTTACTACTTTCAACGGAGTGCC
* * *
1366636 CCTAATAATATTAAAACTATCATGGATTAATATCACATTACTTTCTTGATTATTCGATTTCAATA
712 CCCAATAATATTAAAACTATCATGCATTAATATCACATTACATTCTTGATTATTCGATTTCAATA
* * *
1366701 TTTCTTAAGATTATCAACAATAACCTGTTATAGTCTGTGTGTCGTTGAAGGCTAGAAAATTTCAT
777 TTTCTTAAGCTTATCAACAAGAACCTGTTATAGTCTATGTGTCGTTGAAGGCTAGAAAATTTCAT
**
1366766 CTTTAGAGTTTAATTTCCAAGCAAATGACCTAATTTAAATTTATAAATTCCACTATTCTATCTGT
842 CTTTAGAGTTTAATTTCCAAGCAAATGACCTAATTTAAATTTATCTATTCCACTATTCTATCTGT
* * * *
1366831 GTGGATTAAGAATCACCATTTAATATCCTAAATAGAACTTCAGTC
907 GTAGATTAAGAATCACCATTGAACATCCTAAATAGAACTGCAGTC
* * * *
1366876 TAAAGGTTAATTTGGAAGGTATTTAGAGTGGTTTCTTTTTTTGAGGGATTGTTTTGTTTGATGAT
1 TAAAGGTTAATTTGGAAGGTGTTTAGAGTGGTTTCTTTTTTTGAGGGATTCTTTGGTTTGGTGAT
*
1366941 CATGTACATCGCTTCTATACATTCATGTATACCTTTGAGAAGCAGCTGGACCTTTGACAAGTTAG
66 CATGTACATCGCTTCTATACATTCATGTATACCTTTGAGAAGCCGCTGGACCTTTGACAAGTTAG
* * *
1367006 CAAAAAGTGCTAGTGATTGCTTAAAATGCTCTTGGGAGCACATTTGGTACCGTAGTGCTAGACCT
131 CAAAAAGTGCTAGTGATTGCTTAAAATGCTCTTGGGAGCACATTCGGTACTGTAGTACTAGACCT
* * *
1367071 TTTAAGAGAGTGTTCATATTTTTGTTCTCTAAAATCATCCACTTGTTTAGGTTTCTTAGATTCCT
196 TTT-AGAGAGTGTTCATATTTTAGTTCTCTAAAATCATCCACTTGTTTAGGTTTCGTAGACTCCT
1367136 TTAGTAGAGGCAATGCTGAAATATCGATCTAGAAACATAATTTCTGAGTGTTTGTATCTAGTCGA
260 TTAGTAGAGGCAATGCTGAAATATCGATCTAGAAACATAATTTCTGAGTGTTTGTATCTAGTCGA
1367201 CTATAACAGATGTTTCTTTACTCCCTTAGTTTATCTTCCATCGAAACTCATTCTCAATTCAAACT
325 CTATAACAGATGTTTCTTTACTCCCTTAGTTTATCTTCCATCGAAACTCATTCTCAATTCAAACT
* *
1367266 TTAGGCCTTACAACCTTTATTAATTTATATTTCATTAACCTTGGTGTTCTCGTATTTGCTTTGTT
390 TTAGGCCTTACCACCTTTATTAATTTATATTTCATTAACCTTGGTGTTCTCATATTTGCTTTGTT
*
1367331 TTTGTTAGAAAATTAATCTCG-AC--A-TATCAGTGTCATGATCTAAATGTAATCCCGTTCATAA
455 TTTGTTAGAAAATTCATCTCGAACAAAGTATCAGTGTCATGATCTAAATGTAATCCCGTTCATAA
1367392 AGTCAGGGCTCTTAATATTACCTCTTTGGCCCATTACTTTAGCAGAATACCTCTAATCAGATGAT
520 AGTCAGGGCTCTTAATATTACCTCTTTGGCCCATTACTTTAGCAGAATACCTCTAATCAGATGAT
* * *
1367457 TCAATTGTTAGAAAGTCTTCAACTTTACCACTTGAATGAAACTCAATCATAAAGCTTTGACTTAC
585 TCAAGTGTTAGAAAGTCTTCAACTTGACCACTTGAATGAAACTCAATCATAAAGCTTGGACTTAC
* * *
1367522 CTCCATGACTACTTTAGACTTACCTCTGAAGATTATCAGCTTACTACTTTCAACGGAGTGCTCCC
650 CTCCATGACTACTTCAGACTTACCTCCGAAGATTATCAGCTTACTACTTTCAACGGAGTGCCCCC
1367587 AATAATATTAAAACTATCATGCATTAATATCACATTACATTCTTGATTATTCGATTTCAATATTT
715 AATAATATTAAAACTATCATGCATTAATATCACATTACATTCTTGATTATTCGATTTCAATATTT
*
1367652 CTTAAGCTTATCAACAAGAACCTGTTATAGTCTATGTGCCGTTGAAGGCTAGAAAATTTCATCTT
780 CTTAAGCTTATCAACAAGAACCTGTTATAGTCTATGTGTCGTTGAAGGCTAGAAAATTTCATCTT
*
1367717 TAGAGTTTAATTTCCAAGCAAATGACCTAATTTAAATTTATCTATTCCACTATTCTATCTATGTA
845 TAGAGTTTAATTTCCAAGCAAATGACCTAATTTAAATTTATCTATTCCACTATTCTATCTGTGTA
* *
1367782 -AATAAGAATCACCATTGAACTTCCTAAATAGAACTGCAGTC
910 GATTAAGAATCACCATTGAACATCCTAAATAGAACTGCAGTC
1367823 TAAAGGTTAATTTGGAAGGTGTTTAGAGTGGTTTCTTTTTTTGAGGGATTCTTTGGTTTGGTGAT
1 TAAAGGTTAATTTGGAAGGTGTTTAGAGTGGTTTCTTTTTTTGAGGGATTCTTTGGTTTGGTGAT
* * * *
1367888 CATGTACATCGCTTTTATACATTCATGTATACCTTTGAGAAGTCGTTGGACCTTTG-CATGTTAG
66 CATGTACATCGCTTCTATACATTCATGTATACCTTTGAGAAGCCGCTGGACCTTTGACAAGTTAG
*
1367952 C-AAAAGTGCTAGTGATTGTTTAAAATGCTCTTGGGAGCACA-TCGGTACTGTAGTACTAGACCT
131 CAAAAAGTGCTAGTGATTGCTTAAAATGCTCTTGGGAGCACATTCGGTACTGTAGTACTAGACCT
1368015 TTTAGAGAGTGTTCATATTTTAGTTCTCTAAAATCATCCACTTGTTTAGGTTTCGTAGACTCCTT
196 TTTAGAGAGTGTTCATATTTTAGTTCTCTAAAATCATCCACTTGTTTAGGTTTCGTAGACTCCTT
* *
1368080 TAGTAGAGGCAATGCTGAAATATCGATCTAGTAACATAATTTATGAGTGTTTGTATCTAGTCGAC
261 TAGTAGAGGCAATGCTGAAATATCGATCTAGAAACATAATTTCTGAGTGTTTGTATCTAGTCGAC
* * *
1368145 TATAACAGATGTTTCTTTACTCCCTTAGATTATCTTTCATCGAAACTCATTCTCAATTCAAACAT
326 TATAACAGATGTTTCTTTACTCCCTTAGTTTATCTTCCATCGAAACTCATTCTCAATTCAAACTT
* * *
1368210 TAGGCCTTACCGCCTTTATTAATTTATATTT-GTTAACCTTGGTGTTCTCATATTTTCTTTGTTT
391 TAGGCCTTACCACCTTTATTAATTTATATTTCATTAACCTTGGTGTTCTCATATTTGCTTTGTTT
* * *
1368274 TTGTTAGAAAATTCATCTTGACACAAAGTTATCAGTGTCATGATCTGAATGTAATCTCGTTCATA
456 TTGTTAGAAAATTCATCTCGA-ACAAAG-TATCAGTGTCATGATCTAAATGTAATCCCGTTCATA
* * * * * * *
1368339 AATTCATGCCTCTTAATATTACCTATTTGGCCCATTACTTTAGGAAAATACCTCCAATCAGATGA
519 AAGTCAGGGCTCTTAATATTACCTCTTTGGCCCATTACTTTAGCAGAATACCTCTAATCAGATGA
* * *
1368404 TTCAAGTGTTAGAAAGTCTTCAACTTGACCACATGAATGAAACTCATTCATAAAGCTTGGACTTG
584 TTCAAGTGTTAGAAAGTCTTCAACTTGACCACTTGAATGAAACTCAATCATAAAGCTTGGACTTA
* * *
1368469 CCTCCATTACTACTTCAGACTTACCTCCGAAGATTATTAGCTTACTACTTTCAACGGAATGCCCC
649 CCTCCATGACTACTTCAGACTTACCTCCGAAGATTATCAGCTTACTACTTTCAACGGAGTGCCCC
*
1368534 CAATAATATTAAAACTATCATGCATTAATATCACATTACATTCTTGATTATTCAATTTCAATATT
714 CAATAATATTAAAACTATCATGCATTAATATCACATTACATTCTTGATTATTCGATTTCAATATT
* * * *
1368599 TCTTAAGCTTATCAACAAGAACCGGTTATAGTTTGTGTGTCATTGAAGGCTAGAAAATTTCATCT
779 TCTTAAGCTTATCAACAAGAACCTGTTATAGTCTATGTGTCGTTGAAGGCTAGAAAATTTCATCT
*
1368664 TTAGAGTTTAATTTCCAAGAAAATGACCTAATTTAAATTTATCTATTCCACTATTCTATCTGTGT
844 TTAGAGTTTAATTTCCAAGCAAATGACCTAATTTAAATTTATCTATTCCACTATTCTATCTGTGT
1368729 AGATTAAGAATCACCATTGAACATCCTAAATAGAACTGCAGTC
909 AGATTAAGAATCACCATTGAACATCCTAAATAGAACTGCAGTC
* * * *
1368772 TAAAAGTTAATTTGGAAAGCGTTTAGAGTGGTTTGTTTTTTTTTGAGGGATTCTTTGGTTTGGTG
1 TAAAGGTTAATTTGGAAGGTGTTTAGAGTGG-TT-TCTTTTTTTGAGGGATTCTTTGGTTTGGTG
1368837 ATCATGTACATCG-TATCTATACATTCATGTATACCTTTGAGAAGCCGCTGGACCTTTGACAAGT
64 ATCATGTACATCGCT-TCTATACATTCATGTATACCTTTGAGAAGCCGCTGGACCTTTGACAAGT
* *
1368901 TAGCAAAAAGTGCTAGTGATTGTTTAAAATGCTCTTGGGAGCACGTTCGGTACTGTAGTGA-TAG
128 TAGCAAAAAGTGCTAGTGATTGCTTAAAATGCTCTTGGGAGCACATTCGGTACTGTAGT-ACTAG
* * * *
1368965 ACCTTTTAGGGAGTGTTCATATTTTAGTTCTATAAAATCTTCCACTTTTTTAGGTTTCGTAGACT
192 ACCTTTTAGAGAGTGTTCATATTTTAGTTCTCTAAAATCATCCACTTGTTTAGGTTTCGTAGACT
* * * * * * *
1369030 CCATTATTAGAAGCAATGTTGAAATATCAATCTAGAAGCATAATTTCTCAGTGTTTGTATCTAGT
257 CCTTTAGTAGAGGCAATGCTGAAATATCGATCTAGAAACATAATTTCTGAGTGTTTGTATCTAGT
* *
1369095 TGACTATAACAGATGTTTCTTTACTCCTTTAGTTTATCTTCCATCGAAACTCATTCTCAATTCAA
322 CGACTATAACAGATGTTTCTTTACTCCCTTAGTTTATCTTCCATCGAAACTCATTCTCAATTCAA
* * *
1369160 ACTTTAGGCATTACCGCCTTTATTAATTTATATTTCATTAACCTTGATGTTCTCATATTTGCTTT
387 ACTTTAGGCCTTACCACCTTTATTAATTTATATTTCATTAACCTTGGTGTTCTCATATTTGCTTT
* * * * * * *
1369225 GTTTATGTTAGAAAATCCATCTC-AACACAGTTATCAATGTCATGATTTGAATGTAATCTCGTTC
452 GTTTTTGTTAGAAAATTCATCTCGAACAAAG-TATCAGTGTCATGATCTAAATGTAATCCCGTTC
* *
1369289 ATAAAGTCAGGGCTCTTAATATTACCTCTTTGGCCCATTATTTTAGCATAATACCTCTAATCAGA
516 ATAAAGTCAGGGCTCTTAATATTACCTCTTTGGCCCATTACTTTAGCAGAATACCTCTAATCAGA
* * *
1369354 TGATTCAAGTGTTAGAAAGTCTTCAACTTGACCACTTGAATGAAACTCATTAAGAAAGCTTGGAC
581 TGATTCAAGTGTTAGAAAGTCTTCAACTTGACCACTTGAATGAAACTCAATCATAAAGCTTGGAC
* * * * *
1369419 TTACCTTCATGACTACTTCAGACTTACCTTC-ATGACTACTTCAGACTTACTACTTTCATCGGAG
646 TTACCTCCATGACTACTTCAGACTTACCTCCGAAGATTA--TCAG-CTTACTACTTTCAACGGAG
* * *
1369483 TGCCCCCAATGATATTAAAACTATCATGCATTAATATCACATTACTTTCTTGATTATTTGATTTC
708 TGCCCCCAATAATATTAAAACTATCATGCATTAATATCACATTACATTCTTGATTATTCGATTTC
* * *
1369548 AATATTTCTTAAGCTTATCAACACGAACTTGTTATAGTCTATGTGTCGTAGAAGGCTAGAAAATT
773 AATATTTCTTAAGCTTATCAACAAGAACCTGTTATAGTCTATGTGTCGTTGAAGGCTAGAAAATT
* * *
1369613 CCAGCTTTAGAGTTTAATTTCCAAGCAAATGACCTAATTTAAATTTATTTATTCCACTATTCTA-
838 TCATCTTTAGAGTTTAATTTCCAAGCAAATGACCTAATTTAAATTTATCTATTCCACTATTCTAT
*
1369677 CTGTGTAGATTAAGAAACACCATTGAACATCCTAAATAGAACTGCAGTC
903 CTGTGTAGATTAAGAATCACCATTGAACATCCTAAATAGAACTGCAGTC
1369726 TAAA
1 TAAA
1369730 TGGTCTAGCA
Statistics
Matches: 2633, Mismatches: 197, Indels: 44
0.92 0.07 0.02
Matches are distributed among these distances:
942 48 0.02
943 213 0.08
944 24 0.01
945 40 0.02
946 11 0.00
947 284 0.11
948 664 0.25
949 197 0.07
950 309 0.12
951 82 0.03
952 13 0.00
953 222 0.08
954 283 0.11
955 243 0.09
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (951 bp):
TAAAGGTTAATTTGGAAGGTGTTTAGAGTGGTTTCTTTTTTTGAGGGATTCTTTGGTTTGGTGAT
CATGTACATCGCTTCTATACATTCATGTATACCTTTGAGAAGCCGCTGGACCTTTGACAAGTTAG
CAAAAAGTGCTAGTGATTGCTTAAAATGCTCTTGGGAGCACATTCGGTACTGTAGTACTAGACCT
TTTAGAGAGTGTTCATATTTTAGTTCTCTAAAATCATCCACTTGTTTAGGTTTCGTAGACTCCTT
TAGTAGAGGCAATGCTGAAATATCGATCTAGAAACATAATTTCTGAGTGTTTGTATCTAGTCGAC
TATAACAGATGTTTCTTTACTCCCTTAGTTTATCTTCCATCGAAACTCATTCTCAATTCAAACTT
TAGGCCTTACCACCTTTATTAATTTATATTTCATTAACCTTGGTGTTCTCATATTTGCTTTGTTT
TTGTTAGAAAATTCATCTCGAACAAAGTATCAGTGTCATGATCTAAATGTAATCCCGTTCATAAA
GTCAGGGCTCTTAATATTACCTCTTTGGCCCATTACTTTAGCAGAATACCTCTAATCAGATGATT
CAAGTGTTAGAAAGTCTTCAACTTGACCACTTGAATGAAACTCAATCATAAAGCTTGGACTTACC
TCCATGACTACTTCAGACTTACCTCCGAAGATTATCAGCTTACTACTTTCAACGGAGTGCCCCCA
ATAATATTAAAACTATCATGCATTAATATCACATTACATTCTTGATTATTCGATTTCAATATTTC
TTAAGCTTATCAACAAGAACCTGTTATAGTCTATGTGTCGTTGAAGGCTAGAAAATTTCATCTTT
AGAGTTTAATTTCCAAGCAAATGACCTAATTTAAATTTATCTATTCCACTATTCTATCTGTGTAG
ATTAAGAATCACCATTGAACATCCTAAATAGAACTGCAGTC
Found at i:1369442 original size:23 final size:23
Alignment explanation
Indices: 1369416--1369468 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
1369406 AGAAAGCTTG
1369416 GACTTACCTTCATGACTACTTCA
1 GACTTACCTTCATGACTACTTCA
1369439 GACTTACCTTCATGACTACTTCA
1 GACTTACCTTCATGACTACTTCA
1369462 GACTTAC
1 GACTTAC
1369469 TACTTTCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.34
Consensus pattern (23 bp):
GACTTACCTTCATGACTACTTCA
Found at i:1369469 original size:11 final size:12
Alignment explanation
Indices: 1369416--1369469 Score: 62
Period size: 11 Copynumber: 4.7 Consensus size: 12
1369406 AGAAAGCTTG
1369416 GACTTACCTTCAT
1 GACTTA-CTTCAT
1369429 GAC-TACTTCA-
1 GACTTACTTCAT
1369439 GACTTACCTTCAT
1 GACTTA-CTTCAT
1369452 GAC-TACTTCA-
1 GACTTACTTCAT
1369462 GACTTACT
1 GACTTACT
1369470 ACTTTCATCG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.16
11 16 0.43
12 9 0.24
13 6 0.16
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (12 bp):
GACTTACTTCAT
Found at i:1370041 original size:19 final size:20
Alignment explanation
Indices: 1370013--1370050 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1370003 TCTTTTCATC
1370013 TTCATGTTC-TCTTCATTTTT
1 TTCATGTTCTTC-TCATTTTT
1370033 TTCAT-TTCTTCTCATTTT
1 TTCATGTTCTTCTCATTTT
1370051 CTTTTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.11, C:0.21, G:0.03, T:0.66
Consensus pattern (20 bp):
TTCATGTTCTTCTCATTTTT
Found at i:1370062 original size:15 final size:16
Alignment explanation
Indices: 1370031--1370066 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
1370021 CTCTTCATTT
1370031 TTTTCATTTCTTCTCA
1 TTTTCATTTCTTCTCA
*
1370047 TTTTCTTTTC-TCTCA
1 TTTTCATTTCTTCTCA
1370062 TTTTC
1 TTTTC
1370067 CTCTCCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCATTTCTTCTCA
Found at i:1371594 original size:32 final size:32
Alignment explanation
Indices: 1371550--1371824 Score: 225
Period size: 32 Copynumber: 8.6 Consensus size: 32
1371540 ATACTGGCAG
* * *
1371550 AGTGTTGTATTCATATAAAGCACAATAGTGTCC
1 AGTGTTGCATTCAGATAATGCACAATAGTGT-C
* * *
1371583 A-TGTTGCATTCAGATAAAGTAC-ATCAGTGTT
1 AGTGTTGCATTCAGATAATGCACAAT-AGTGTC
* * *
1371614 AATGTTGTATTCAGATAATGCACATTAGTGTC
1 AGTGTTGCATTCAGATAATGCACAATAGTGTC
* * * ** * *
1371646 AGTGCTCCATTCAAATAATTAAC-ATCAATATC
1 AGTGTTGCATTCAGATAATGCACAAT-AGTGTC
* * *
1371678 AGTGTTACATTCAGATAATGCATAATAGTGTT
1 AGTGTTGCATTCAGATAATGCACAATAGTGTC
* *
1371710 AGTGTTGCATTCAGATAATGCATAATAGTGTT
1 AGTGTTGCATTCAGATAATGCACAATAGTGTC
1371742 AGTGTTGCATTCAGATAATGCACAATAGTGTC
1 AGTGTTGCATTCAGATAATGCACAATAGTGTC
* * ** * *
1371774 ATTG-TGCAATTTAGATAATTTATAGTAGTGTC
1 AGTGTTGC-ATTCAGATAATGCACAATAGTGTC
* *
1371806 ATTGTCGCATTCAGATAAT
1 AGTGTTGCATTCAGATAAT
1371825 AAATATCAAT
Statistics
Matches: 196, Mismatches: 39, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
31 7 0.04
32 183 0.93
33 6 0.03
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
AGTGTTGCATTCAGATAATGCACAATAGTGTC
Found at i:1378308 original size:15 final size:16
Alignment explanation
Indices: 1378282--1378327 Score: 85
Period size: 15 Copynumber: 2.9 Consensus size: 16
1378272 TCATAAACAA
1378282 TTAAATTATAAAACTC
1 TTAAATTATAAAACTC
1378298 TTAAATT-TAAAACTC
1 TTAAATTATAAAACTC
1378313 TTAAATTATAAAACT
1 TTAAATTATAAAACT
1378328 TAATGTCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAATTATAAAACTC
Found at i:1381347 original size:19 final size:19
Alignment explanation
Indices: 1381323--1381359 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1381313 CAAAGTGAGT
1381323 TTATTTAGTTTAATATTTC
1 TTATTTAGTTTAATATTTC
**
1381342 TTATTTTTTTTAATATTT
1 TTATTTAGTTTAATATTT
1381360 ATGTACTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (19 bp):
TTATTTAGTTTAATATTTC
Found at i:1382757 original size:194 final size:192
Alignment explanation
Indices: 1382373--1382852 Score: 531
Period size: 194 Copynumber: 2.5 Consensus size: 192
1382363 ATTATATATG
* * *
1382373 GTGATGTTATGCATAATCATCATTCATAATATTATTAGGTA-ATGATATATTATGTCATTAAAAA
1 GTGATGTTATGCATAAACGTCATTCATAATATTATTAGGTACAT--TATATTATGTCACTAAAAA
* * ***
1382437 TGTGACAATATCTTTTTCATCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAACT
64 TGTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCATGACAATATAAACT
** *
1382502 ATCAATAACGAAATCTTATTTAATTTAGTGACGTAATCAACTGTAATATAATATAAATTATAAA
129 ATCAATAACGAAATCTTACATAATTTAGTGACATAATCAACTGTAATATAATATAAATTATAAA
*
1382566 GTGACGTTATGCATAAACGTCATTCATAATATTATTAGGTAACATTTATATTATGTCACTAAAAA
1 GTGATGTTATGCATAAACGTCATTCATAATATTATTAGGT-ACA-TTATATTATGTCACT-AAAA
* * *
1382631 AT-TGACAATATCTCTTTCGTCACATATAGGTTGATTTTAATGTATTATCCATGACGATATAAA-
63 ATGTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCATGACAATATAAAC
* * ** * *
1382694 TCATCAATAACGAAATTTTACATAATTTAGTGACATAATTAGTTGTCAT-TGAATATTAATTATA
128 T-ATCAATAACGAAATCTTACATAATTTAGTGACATAATCAACTGTAATAT-AATATAAATTATA
*
1382758 TA
191 AA
** * * ** * * *
1382760 GTGATGTTATATATAAATGTCATCCATGCTACTATTAGGTGACGA-TATACTATGTTACTAAAAA
1 GTGATGTTATGCATAAACGTCATTCATAATATTATTAGGT-AC-ATTATATTATGTCACTAAAAA
* *
1382824 TGTGACAAT-TTTCTTTTCGTCACGTATAA
64 TGTGACAATATCTC-TTTCGTCACATATAA
1382853 AATGAAATTA
Statistics
Matches: 242, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
192 9 0.04
193 71 0.29
194 153 0.63
195 8 0.03
196 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (192 bp):
GTGATGTTATGCATAAACGTCATTCATAATATTATTAGGTACATTATATTATGTCACTAAAAATG
TGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCATGACAATATAAACTAT
CAATAACGAAATCTTACATAATTTAGTGACATAATCAACTGTAATATAATATAAATTATAAA
Found at i:1384773 original size:20 final size:21
Alignment explanation
Indices: 1384748--1384800 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1384738 GACTAACAAA
1384748 TTCGCAACGCGAACTT-CAAT
1 TTCGCAACGCGAACTTCCAAT
* **
1384768 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGAACTTCCAAT
1384788 TTCGCAACGCGAA
1 TTCGCAACGCGAA
1384801 TATATAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.15
20 20 0.77
21 2 0.08
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (21 bp):
TTCGCAACGCGAACTTCCAAT
Found at i:1384832 original size:20 final size:19
Alignment explanation
Indices: 1384809--1384947 Score: 145
Period size: 20 Copynumber: 7.0 Consensus size: 19
1384799 AATATATAAA
*
1384809 TCGCAACACAGAAGTCAAAT
1 TCGCAACGC-GAAGTCAAAT
* *
1384829 TCGCAATGCGATAGCCAAAT
1 TCGCAACGCGA-AGTCAAAT
1384849 TCGCAACGCGATAGTCAAAT
1 TCGCAACGCGA-AGTCAAAT
* *
1384869 TCGCAACACAAAGTCAAAT
1 TCGCAACGCGAAGTCAAAT
*
1384888 TCGCAACAC-ATACGTCAAAT
1 TCGCAACGCGA-A-GTCAAAT
1384908 TCGCAACGCGATAGTCAAAT
1 TCGCAACGCGA-AGTCAAAT
*
1384928 TTGCAACGCGAAAGTCAAAT
1 TCGCAACGCG-AAGTCAAAT
1384948 ATTTTTACGC
Statistics
Matches: 105, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
18 1 0.01
19 20 0.19
20 80 0.76
21 4 0.04
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (19 bp):
TCGCAACGCGAAGTCAAAT
Found at i:1384909 original size:59 final size:59
Alignment explanation
Indices: 1384783--1384947 Score: 201
Period size: 59 Copynumber: 2.8 Consensus size: 59
1384773 AACCCAGTTT
* * **
1384783 CCAATTTCGCAACGCGAATA-T-ATAAATCGCAACACAGAAGTCAAATTCGCAATGCGATAG
1 CCAAATTCGCAACGCG-ATAGTCA-AATTCGCAACACA-AAGTCAAATTCGCAACACGATAG
1384843 CCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAGTCAAATTCGCAACAC-ATACG
1 CCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAGTCAAATTCGCAACACGATA-G
* * *
1384902 TCAAATTCGCAACGCGATAGTCAAATTTGCAACGCGAAAGTCAAAT
1 CCAAATTCGCAACGCGATAGTCAAATTCGCAACAC-AAAGTCAAAT
1384948 ATTTTTACGC
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
58 3 0.03
59 52 0.55
60 38 0.40
61 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (59 bp):
CCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAGTCAAATTCGCAACACGATAG
Found at i:1385479 original size:20 final size:19
Alignment explanation
Indices: 1385444--1385497 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1385434 AAATCGCAAC
1385444 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
1385463 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
* *
1385483 GTGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
1385498 AGAAACTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:1387641 original size:21 final size:21
Alignment explanation
Indices: 1387622--1387720 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
1387612 GATGCACCTA
*
1387622 TCATCATTCAAGAGGCACCTC
1 TCATCATTCAAGAGGCCCCTC
*
1387643 -CTATCATTCAAGAGACCCCTC
1 TC-ATCATTCAAGAGGCCCCTC
*
1387664 TCATCA-TCGAAGAAGCCCCTC
1 TCATCATTC-AAGAGGCCCCTC
* * * *
1387685 CCACCGTTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCCCCTC
*
1387706 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
1387721 TCCTGCCCGC
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.05
21 57 0.90
22 3 0.05
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.21
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTC
Found at i:1387669 original size:42 final size:42
Alignment explanation
Indices: 1387622--1387740 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
1387612 GATGCACCTA
* *
1387622 TCATCATTCAAGAGGCACCTCCTATCATTCAAGAGACCCCTC
1 TCATCATTCAAGAGGCACCTCCCACCATTCAAGAGACCCCTC
* * * * *
1387664 TCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTC-AAGAGGCACCTCCCACCATTCAAGAGACCCCTC
* * *
1387706 TCATCGTTCAAGAGG-TCCTGCCCGCCATTCAAGAG
1 TCATCATTCAAGAGGCACCT-CCCACCATTCAAGAG
1387741 CTCGATTCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 5 0.08
42 55 0.89
43 2 0.03
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (42 bp):
TCATCATTCAAGAGGCACCTCCCACCATTCAAGAGACCCCTC
Found at i:1389840 original size:61 final size:62
Alignment explanation
Indices: 1389740--1389879 Score: 194
Period size: 66 Copynumber: 2.2 Consensus size: 62
1389730 TTTTACATTG
*
1389740 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
* * *
1389800 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAATTGATTTGT
1389865 A
62 A
1389866 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
1389880 GTTTCTAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
60 17 0.24
61 18 0.26
64 4 0.06
66 31 0.44
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.51
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
Found at i:1390303 original size:39 final size:39
Alignment explanation
Indices: 1390249--1390335 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1390239 TCAAGTTGTA
*
1390249 GATTTTGATTTCCTTTTGCTTGGCACTATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1390288 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGTTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1390327 GATTTTGAT
1 GATTTTGAT
1390336 GAGCATCGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.13, G:0.21, T:0.49
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1390668 original size:18 final size:18
Alignment explanation
Indices: 1390645--1390681 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1390635 CAAAATTTAT
1390645 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1390663 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1390681 A
1 A
1390682 CTCTAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1390924 original size:30 final size:30
Alignment explanation
Indices: 1390888--1390946 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
1390878 GAAGAGATAG
1390888 ATTGTTTTGTTATACACAACCCATCTCATA
1 ATTGTTTTGTTATACACAACCCATCTCATA
*
1390918 ATTGTTTTGTTATACACATCCCATCTCAT
1 ATTGTTTTGTTATACACAACCCATCTCAT
1390947 CTAAATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (30 bp):
ATTGTTTTGTTATACACAACCCATCTCATA
Found at i:1391285 original size:20 final size:20
Alignment explanation
Indices: 1391223--1391285 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
1391213 GATTTTCAGT
*
1391223 TTGCGAATTTGACTTTCGCA
1 TTGCGAATTTGACTTTCGCG
* *
1391243 TTGCGAATTTGACTTTAGTG
1 TTGCGAATTTGACTTTCGCG
1391263 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
1391283 TTG
1 TTG
1391286 ATCGCAACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCG
Found at i:1391594 original size:18 final size:18
Alignment explanation
Indices: 1391571--1391606 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1391561 AAGCCGGTTG
*
1391571 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1391589 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
1391607 CCTTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1393912 original size:24 final size:24
Alignment explanation
Indices: 1393858--1393913 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
1393848 TCCATCACTC
* *
1393858 ATCAAAATCCGAGTATTCCCCAAG
1 ATCAAATTCCGAGTATTCACCAAG
* *
1393882 ATCAAATTCCGGGTATTGACCAAG
1 ATCAAATTCCGAGTATTCACCAAG
1393906 ATCAAATT
1 ATCAAATT
1393914 TTGAATACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (24 bp):
ATCAAATTCCGAGTATTCACCAAG
Found at i:1394059 original size:12 final size:12
Alignment explanation
Indices: 1394038--1394071 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1394028 GGTTGTGGGT
*
1394038 TTTGAGATTGTG
1 TTTGATATTGTG
1394050 TTTGATATTGTG
1 TTTGATATTGTG
*
1394062 TTTGGTATTG
1 TTTGATATTG
1394072 GAAATGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1394836 original size:19 final size:19
Alignment explanation
Indices: 1394812--1394883 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
1394802 ACTAAAACCT
1394812 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
1394831 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATT-C-A
** **
1394852 GTTGCGAATTTGACTTTGT
1 GTTGCGAATTTGAAATTCA
1394871 GTTGCGAATTTGA
1 GTTGCGAATTTGA
1394884 CTATCGCGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 30 0.65
20 1 0.02
21 15 0.33
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:1394859 original size:40 final size:39
Alignment explanation
Indices: 1394812--1394982 Score: 148
Period size: 40 Copynumber: 4.3 Consensus size: 39
1394802 ACTAAAACCT
*
1394812 GTTGCGAATTTGAAATTCAGTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATTGAGTTGCGAATTTGAAATT-CGC
** * *
1394852 GTTGCGAATTTGACTTTGTGTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAATTGAGTTGCGAATTTGAAAT-TCGC
** * * *
1394891 GTTGCGAATTTGACTTTTGTGTTGCG-ATTTACAAATTCAC
1 GTTGCGAATTTGA-AATTGAGTTGCGAATTT-GAAATTCGC
* * * * *
1394931 GTTGCGAAATTGGAAACTGAGTTGCGAAATTGGAGTTCGC
1 GTTGCG-AATTTGAAATTGAGTTGCGAATTTGAAATTCGC
1394971 GTTGCGAATTTG
1 GTTGCGAATTTG
1394983 TTGGTCATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
39 27 0.26
40 67 0.64
41 11 0.10
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (39 bp):
GTTGCGAATTTGAAATTGAGTTGCGAATTTGAAATTCGC
Found at i:1394884 original size:19 final size:19
Alignment explanation
Indices: 1394811--1394917 Score: 97
Period size: 20 Copynumber: 5.4 Consensus size: 19
1394801 AACTAAAACC
** *
1394811 TGTTGCGAATTTGAAATTC
1 TGTTGCGAATTTGACTTTG
* * *
1394830 AGTTGCGAATTTGAAATTCCG
1 TGTTGCGAATTTG-ACTT-TG
*
1394851 CGTTGCGAATTTGACTTTG
1 TGTTGCGAATTTGACTTTG
*
1394870 TGTTGCGAATTTGACTATCG
1 TGTTGCGAATTTGACT-TTG
*
1394890 CGTTGCGAATTTGACTTTTG
1 TGTTGCGAATTTGAC-TTTG
1394910 TGTTGCGA
1 TGTTGCGA
1394918 TTTACAAATT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
19 28 0.39
20 31 0.43
21 13 0.18
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (19 bp):
TGTTGCGAATTTGACTTTG
Found at i:1394914 original size:20 final size:20
Alignment explanation
Indices: 1394852--1394917 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
1394842 GAAATTCCGC
1394852 GTTGCGAATTTGAC-TTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
1394871 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
1394891 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
1394911 GTTGCGA
1 GTTGCGA
1394918 TTTACAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:1404871 original size:2 final size:2
Alignment explanation
Indices: 1404866--1404897 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1404856 ATATATTTTT
1404866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1404898 AAGTAATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1405677 original size:27 final size:27
Alignment explanation
Indices: 1405646--1405701 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
1405636 ACAATTTTTA
1405646 TTAATTATAATCATTAGATTAATAAAT
1 TTAATTATAATCATTAGATTAATAAAT
**
1405673 TTAATTATAATTGTTAGATTAATAAAT
1 TTAATTATAATCATTAGATTAATAAAT
1405700 TT
1 TT
1405702 TATTTTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (27 bp):
TTAATTATAATCATTAGATTAATAAAT
Found at i:1405682 original size:12 final size:14
Alignment explanation
Indices: 1405659--1405701 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1405649 ATTATAATCA
1405659 TTAGATTAATAAAT
1 TTAGATTAATAAAT
*
1405673 TTA-ATT-ATAATT
1 TTAGATTAATAAAT
1405685 GTTAGATTAATAAAT
1 -TTAGATTAATAAAT
1405700 TT
1 TT
1405702 TATTTTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 8 0.33
15 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (14 bp):
TTAGATTAATAAAT
Found at i:1405767 original size:39 final size:41
Alignment explanation
Indices: 1405673--1405768 Score: 137
Period size: 39 Copynumber: 2.4 Consensus size: 41
1405663 ATTAATAAAT
*
1405673 TTAATTATAATT-GTTAGATTAATAAATTTTATTTTCTATA
1 TTAATTATAATTCATTAGATTAATAAATTTTATTTTCTATA
* *
1405713 TTAATTATGA-CCATTAGATTAATAAA-TTTATTTTCTATA
1 TTAATTATAATTCATTAGATTAATAAATTTTATTTTCTATA
1405752 TTAATTAT-ATTCATTAG
1 TTAATTATAATTCATTAG
1405769 GGTAAAAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 27 0.54
40 22 0.44
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (41 bp):
TTAATTATAATTCATTAGATTAATAAATTTTATTTTCTATA
Found at i:1406826 original size:2 final size:2
Alignment explanation
Indices: 1406819--1406872 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1406809 GTAGTTTACG
1406819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1406861 TA TA TA TA TA TA
1 TA TA TA TA TA TA
1406873 ACACCACATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1422964 original size:21 final size:21
Alignment explanation
Indices: 1422924--1422964 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1422914 ATTAAAAAGA
*
1422924 AAGGAAAATAATAATCATAAG
1 AAGGAAAATAATAATAATAAG
*
1422945 AAGGAAAATAATACTAATAA
1 AAGGAAAATAATAATAATAA
1422965 TTAATGTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGGAAAATAATAATAATAAG
Found at i:1426311 original size:14 final size:14
Alignment explanation
Indices: 1426274--1426328 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
1426264 TGACCCGACC
*
1426274 GAGTCAACTCGGACT
1 GAGTCAACTCGTA-T
* *
1426289 GAGTAAACTCATAT
1 GAGTCAACTCGTAT
**
1426303 GAGTCAACTCGTCC
1 GAGTCAACTCGTAT
1426317 GAGTCAACTCGT
1 GAGTCAACTCGT
1426329 TGACTTTGAC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
14 23 0.70
15 10 0.30
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (14 bp):
GAGTCAACTCGTAT
Found at i:1442632 original size:36 final size:36
Alignment explanation
Indices: 1442565--1442634 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
1442555 TCTTAGGTAC
*
1442565 ATAAGGAATTACCAGCTTGATCAATGTTGAACCTCT
1 ATAAGGAATTACCAGCTTGATCAATGATGAACCTCT
* *
1442601 ATAAGGAATTACCATCTTGATTGAA-GATGAACCT
1 ATAAGGAATTACCAGCTTGA-TCAATGATGAACCT
1442635 GTAGAGACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 27 0.90
37 3 0.10
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (36 bp):
ATAAGGAATTACCAGCTTGATCAATGATGAACCTCT
Found at i:1455601 original size:20 final size:20
Alignment explanation
Indices: 1455544--1455602 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
1455534 TTTGGTGCAT
1455544 GAGGAATCGATACCCCCTTG
1 GAGGAATCGATACCCCCTTG
* * *
1455564 AAGGGGAACCGATTCCCCC-TG
1 --GAGGAATCGATACCCCCTTG
1455585 GAGGTAATCGATACCCCC
1 GAGG-AATCGATACCCCC
1455603 ACGAGGTTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 3 0.10
20 11 0.37
21 2 0.07
22 14 0.47
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.17
Consensus pattern (20 bp):
GAGGAATCGATACCCCCTTG
Found at i:1468562 original size:27 final size:27
Alignment explanation
Indices: 1468523--1468589 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
1468513 GGGTCAGGTG
* *
1468523 CGCATGGGGCCATAGCTTGTGAAAGCA
1 CGCATGGGACCATAGCTTGTGAAAACA
* *
1468550 TGCATGGGACCATAGCTTTTGAAAACA
1 CGCATGGGACCATAGCTTGTGAAAACA
1468577 CGCATGGGACCAT
1 CGCATGGGACCAT
1468590 GCTGCTAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (27 bp):
CGCATGGGACCATAGCTTGTGAAAACA
Found at i:1472516 original size:129 final size:131
Alignment explanation
Indices: 1472280--1472612 Score: 393
Period size: 129 Copynumber: 2.6 Consensus size: 131
1472270 TTTTAAGAGT
* * * * * * *
1472280 GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATTATCTTTCGTGCATTAAAACAGTCA
1 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCCTTAAAGCAGTC-
* * * * *
1472345 ATTT-TTACCCCAATTGAAATAAAGAGATATTACTATTTCATCTTAAAATTTAATATCGATTC-A
65 ATTTATTACCCCAATTGAAATAAAGAGATATCACTATTCCATCTTAAAAATCAATATCAATTCGA
1472408 -A
130 GA
** * * *
1472409 GTGAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCA
1 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCCTTAAAGCAGTCA
* * * * *
1472474 TTTATTGCCCCAATTGAAATGAATAGATATCACTATTCCATCTTAAAAATCGATATTAATTCGAG
66 TTTATTACCCCAATTGAAATAAAGAGATATCACTATTCCATCTTAAAAATCAATATCAATTCGAG
1472539 A
131 A
* * * * *
1472540 GAAAATGGTAATATCAAATTATTTACAATCGAGAAAAAATGACCTATCATGCCTTAAAGCAATCA
1 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCCTTAAAGCAGTCA
1472605 TTTATTAC
66 TTTATTAC
1472613 TATGACCGAA
Statistics
Matches: 169, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
128 4 0.02
129 101 0.60
130 1 0.01
131 63 0.37
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (131 bp):
GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCCTTAAAGCAGTCA
TTTATTACCCCAATTGAAATAAAGAGATATCACTATTCCATCTTAAAAATCAATATCAATTCGAG
A
Found at i:1480348 original size:64 final size:64
Alignment explanation
Indices: 1480272--1480408 Score: 168
Period size: 64 Copynumber: 2.1 Consensus size: 64
1480262 TTGGACCCTT
* *
1480272 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCCA
1 AGTGCATCGGTGCACCAAGTGTGCATCAATGCATAAAATGCATTCGATGTTTGAATAA-AACCCA
* ***** * *
1480336 AGTGCATTGGTGCATTGCTTGTGCATCAATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCACCAAGTGTGCATCAATGCATAAAATGCATTCGATGTTTGAATAAAACCCA
1480400 AGTGCATCG
1 AGTGCATCG
1480409 ATACATAGAG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 59 0.97
65 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (64 bp):
AGTGCATCGGTGCACCAAGTGTGCATCAATGCATAAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:1480424 original size:64 final size:64
Alignment explanation
Indices: 1480292--1480454 Score: 175
Period size: 64 Copynumber: 2.5 Consensus size: 64
1480282 TGCACCAAGT
* * * * * * ***
1480292 GTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAGCCCAAGTGCATTGGTGCATTGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATACATAGAGA
* *
1480356 GTGCATCAATGCATGAAATGCATTCGATGTTTTAATAA-AACCCAAGTGCATCGATACATAGAGA
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAA-AATAACCCAAGTGCATCGATACATAGAGA
1480420 GTGCATTCGATGCATGATGAAATGCATTCGATGTT
1 GTGCA-TCGATGC---ATGAAATGCATTCGATGTT
1480455 CAATTTATTC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 55 0.67
65 8 0.10
68 19 0.23
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATACATAGAGA
Found at i:1481369 original size:17 final size:17
Alignment explanation
Indices: 1481336--1481369 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1481326 TCAAAAGAAT
**
1481336 CCAAGAAGGATTGAAAA
1 CCAAGAAGGATCAAAAA
1481353 CCAAGAAGGATCAAAAA
1 CCAAGAAGGATCAAAAA
1481370 TATGGTGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.21, T:0.09
Consensus pattern (17 bp):
CCAAGAAGGATCAAAAA
Found at i:1483082 original size:31 final size:31
Alignment explanation
Indices: 1483046--1483136 Score: 155
Period size: 31 Copynumber: 2.9 Consensus size: 31
1483036 AACTTAAAAG
* * *
1483046 AGTTTTGCAATTCTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1483077 AGTTTTACAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1483108 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
1483137 CATACAACTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1483230 original size:36 final size:35
Alignment explanation
Indices: 1483182--1483260 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 35
1483172 AACACAACCT
1483182 TATTATT--TCTATTATAAGTCTCACATAATCACATG
1 TATTATTAGTCTATTATAAGTCTCACATAAT--CATG
1483217 TA-TATTAGTCTATTATAAGTCTCACATAATCATG
1 TATTATTAGTCTATTATAAGTCTCACATAATCATG
1483251 TATTATTAGT
1 TATTATTAGT
1483261 TTTATAGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
34 10 0.24
35 9 0.22
36 22 0.54
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (35 bp):
TATTATTAGTCTATTATAAGTCTCACATAATCATG
Found at i:1487772 original size:116 final size:116
Alignment explanation
Indices: 1487555--1487772 Score: 260
Period size: 116 Copynumber: 1.9 Consensus size: 116
1487545 CTTTCAAATT
* *
1487555 AAATTTTCTTTTCAATATTTTCAAATTTCATTTTTGAAAGTTCTAAATCCTTCTTCAAGAGTTCA
1 AAATTTTCTTTTCAATATTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTCTTCAAGAGTTCA
* *
1487620 TTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTG
66 TTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
* * * * * * *
1487671 AAATTTTCTTTTTAA-AGTTTTCAGATTTTAGTTTTGAAAGCTCTAACTCCTTTTTCAATATTTC
1 AAATTTTCTTTTCAATA-TTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTCTTCAAGAGTTC
* * * **
1487735 ATTTTGTTTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAA
65 ATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAA
1487773 TATCATTTTT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
115 1 0.01
116 79 0.94
117 4 0.05
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.50
Consensus pattern (116 bp):
AAATTTTCTTTTCAATATTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTCTTCAAGAGTTCA
TTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
Found at i:1489204 original size:64 final size:64
Alignment explanation
Indices: 1489091--1489214 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 64
1489081 GTGCACCAAG
* * * **
1489091 TGTGCGTCGATGCATAAAATGCATTCGGTGTTTGAAAATAGCCTGAGTGCATCGATGCATTGCT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATTGCT
* *
1489155 TGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAA-AACCCAAGTGCATCGATGCAT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAACCCAAGTGCATCGATGCAT
1489215 GAAATGCATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
64 50 0.96
65 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
TGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATTGCT
Found at i:1491104 original size:13 final size:14
Alignment explanation
Indices: 1491086--1491118 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1491076 TTTTCAAGTG
1491086 GGAAAAAAT-TTAA
1 GGAAAAAATATTAA
1491099 GGAAAAAATATTAA
1 GGAAAAAATATTAA
*
1491113 GTAAAA
1 GGAAAA
1491119 TTAAATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (14 bp):
GGAAAAAATATTAA
Found at i:1491392 original size:36 final size:36
Alignment explanation
Indices: 1491214--1491394 Score: 210
Period size: 36 Copynumber: 5.1 Consensus size: 36
1491204 TCACTCAAGA
*
1491214 TTTATCTCACTTGAGATTGTTTTTTCTTAAAATAGAG
1 TTTATCTCACTTGAGATTG-TTTTTCTTAAAATAGAT
** * *
1491251 TTTATCTCACTTGAGATCATTTTTCTTAAAACATAT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAATAGAT
* * * *
1491287 TTCACCTCACTTCAGATTATTTTTCTTAAAA-AGAT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAATAGAT
* *
1491322 TTTA--T--CTTAAGATTGTTTTTCTTAAAATAAAT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAATAGAT
*
1491354 TTTATCTCACTTGAGATTGTTTTTCTTAAATTAGAT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAATAGAT
1491390 TTTAT
1 TTTAT
1491395 TTTCCTTAAT
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
31 20 0.16
32 7 0.06
33 1 0.01
34 1 0.01
35 6 0.05
36 70 0.57
37 17 0.14
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (36 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAATAGAT
Found at i:1492973 original size:54 final size:54
Alignment explanation
Indices: 1492910--1493365 Score: 610
Period size: 54 Copynumber: 8.4 Consensus size: 54
1492900 ATAAGTTCGT
* * *
1492910 TGGGGTGCACACATGGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * * *
1492964 TGGGTTGCACACTTAGGGTCGATACGGTCGTTCATAAACATGTTATGATTTTTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * * * *
1493018 TGGGTTGCACACTTAGTGTCAATATGGTCATTCATAAACATATTATGAATTTTT
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* **
1493072 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATATACATATTATGAATTCCA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * * *
1493126 TGGGTTGCACACTTAGTGTCAATACGGTCGATCATAAACATATTATAAATTTTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * *
1493180 TGGGTTGCATACTTAGTGTCGATACGGTCATTCATAAACATATTATGAATTATG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
* * **
1493234 TGGGTTGCAGACTTAGT-ACTGATACGGTCGTTCATAAACATATTATGAATTCCA
1 TGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACATATTATGAATTCTG
* * *
1493288 TGGGTTACACACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATT-TCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCT-G
*
1493342 TGGGTTGCACACTTAGTGTTGATA
1 TGGGTTGCACACTTAGTGTCGATA
1493366 GTACCCATAG
Statistics
Matches: 349, Mismatches: 50, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
53 1 0.00
54 347 0.99
55 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
Found at i:1493182 original size:162 final size:162
Alignment explanation
Indices: 1492909--1493360 Score: 690
Period size: 162 Copynumber: 2.8 Consensus size: 162
1492899 TATAAGTTCG
* * * **
1492909 TTGGGGTGCACACATGGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCAC
1 TTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGGTTGCAC
* * * *
1492974 ACTTAGGGTCGATACGGTCGTTCATAAACATGTTATGATTTTTGTGGGTTGCACACTTAGTGTCA
66 ACTTAGTGTCAATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACTTAGTGTCA
* *
1493039 ATATGGTCATTCATAAACATATTATGAATTTT
131 ATACGGTCATTCATAAACATATTATGAATTAT
*
1493071 TTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATATACATATTATGAATTCCATGGGTTGCAC
1 TTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGGTTGCAC
* * * *
1493136 ACTTAGTGTCAATACGGTCGATCATAAACATATTATAAATTTTGTGGGTTGCATACTTAGTGTCG
66 ACTTAGTGTCAATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACTTAGTGTCA
1493201 ATACGGTCATTCATAAACATATTATGAATTAT
131 ATACGGTCATTCATAAACATATTATGAATTAT
* * * *
1493233 GTGGGTTGCAGACTTAGT-ACTGATACGGTCGTTCATAAACATATTATGAATTCCATGGGTTACA
1 TTGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATAAACATATTATGAATTCCATGGGTTGCA
* *
1493297 CACTTAGTGCCAATACGGTCGTTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGT
65 CACTTAGTGTCAATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACTTAGTGT
1493361 TGATAGTACC
Statistics
Matches: 263, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 1 0.00
162 262 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (162 bp):
TTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCATGGGTTGCAC
ACTTAGTGTCAATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACTTAGTGTCA
ATACGGTCATTCATAAACATATTATGAATTAT
Found at i:1497886 original size:97 final size:97
Alignment explanation
Indices: 1497761--1497956 Score: 311
Period size: 97 Copynumber: 2.0 Consensus size: 97
1497751 AAAATTGTTT
* * *
1497761 TTGGCAAAACGCCCCCTTAATAAAATATTTAATGAAAAATATATCAATTGTTGAAAAATATGTGA
1 TTGGAAAAACGCCCCCTTAATAAAATATTTAATGAAAAAGATATCAATTGTTGAAAAATATGAGA
* *
1497826 AAATGTTCAGCTTCCCCTTTTTCATTAAGAAA
66 AAATGTTCAACTCCCCCTTTTTCATTAAGAAA
* * *
1497858 TTGGAAAAACTCCCCCTTAATAAAATATTTAATTAAAAAGGTATCAATTGTTGAAAAATATGAGA
1 TTGGAAAAACGCCCCCTTAATAAAATATTTAATGAAAAAGATATCAATTGTTGAAAAATATGAGA
*
1497923 AAATGTTCAACTCCCCCTTTTTCATTAAGGAA
66 AAATGTTCAACTCCCCCTTTTTCATTAAGAAA
1497955 TT
1 TT
1497957 TAATTTTTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (97 bp):
TTGGAAAAACGCCCCCTTAATAAAATATTTAATGAAAAAGATATCAATTGTTGAAAAATATGAGA
AAATGTTCAACTCCCCCTTTTTCATTAAGAAA
Found at i:1501276 original size:57 final size:56
Alignment explanation
Indices: 1501199--1501338 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 56
1501189 TAAGGCCCTG
* * * *
1501199 AGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAAAAAATAAGGTTCTC
1 AGCAGAAAGTCAAGGAACCTGCAAGTAATCAA-CCCATCACAAAAAATAAGGCTCCC
* * * * ** * * *
1501256 GGCATAAAGCCAAGGAACCTGCAAGTATTCAACCTGTCACGAACAGTAAGGCTCCC
1 AGCAGAAAGTCAAGGAACCTGCAAGTAATCAACCCATCACAAAAAATAAGGCTCCC
1501312 AGCAGAAAGTCAAGGAACCTGCAAGTA
1 AGCAGAAAGTCAAGGAACCTGCAAGTA
1501339 TTCTTCCCCG
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
56 41 0.60
57 27 0.40
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.15
Consensus pattern (56 bp):
AGCAGAAAGTCAAGGAACCTGCAAGTAATCAACCCATCACAAAAAATAAGGCTCCC
Found at i:1501385 original size:113 final size:113
Alignment explanation
Indices: 1501178--1501398 Score: 273
Period size: 113 Copynumber: 2.0 Consensus size: 113
1501168 TTACAACCCC
*
1501178 GTCACGAACAGTAAGGCCCTGAGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAAA
1 GTCACGAACAGTAAGGCCCTCAGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAAA
** * * *
1501243 AAATAAGGTTCTCGGCATAAAGCCAAGGAACCTGCAAGTATTCAACCT
66 AAATAAGACTCTCAGCACAAAGCCAAGGAACCTACAAGTATTCAACCT
* * * ** * *
1501291 GTCACGAACAGTAAGGCTCC-CAGCAGAAAGTCAAGGAACCTGCAAGTATTCTTCCCCGTCACCA
1 GTCACGAACAGTAAGGC-CCTCAGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAA
* * * *
1501355 ACAGTAAGACTCTCAGCACAAAGTCGAGGAACCTACAAGTATTC
65 AAAATAAGACTCTCAGCACAAAGCCAAGGAACCTACAAGTATTC
1501399 TTCCTCTAAC
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
113 88 0.98
114 2 0.02
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (113 bp):
GTCACGAACAGTAAGGCCCTCAGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAAA
AAATAAGACTCTCAGCACAAAGCCAAGGAACCTACAAGTATTCAACCT
Found at i:1501402 original size:57 final size:57
Alignment explanation
Indices: 1501173--1501399 Score: 249
Period size: 57 Copynumber: 4.0 Consensus size: 57
1501163 TAACCTTACA
* * * * *
1501173 ACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGTCAAGAAACCTGCAAGTAATCA
1 ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
* * * * * * * *
1501230 ACCCCATCACAAAAAATAAGGTTCTCGGCATAAAGCCAAGGAACCTGCAAGTATTC-
1 ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
* * * *
1501286 AACCTGTCACGAACAGTAAGGCTCCCAGCAGAAAGTCAAGGAACCTGCAAGTATTCT
1 ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
* * * * *
1501343 TCCCCGTCACCAACAGTAAGACTCTCAGCACAAAGTCGAGGAACCTACAAGTATTCT
1 ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
1501400 TCCTCTAACT
Statistics
Matches: 137, Mismatches: 32, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
56 45 0.33
57 92 0.67
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.17
Consensus pattern (57 bp):
ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
Found at i:1504968 original size:29 final size:29
Alignment explanation
Indices: 1504936--1505123 Score: 125
Period size: 29 Copynumber: 6.6 Consensus size: 29
1504926 TTTTTTTTAA
* * *
1504936 AATTACGAAAATAGCACCATTTTGAAATT
1 AATTACCAAAATAGCACCATTTTCAAAAT
*
1504965 AATTACCAAAATAGCATCATTTTCAAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * * *
1504994 AATTACTAAAATATCACTC-TATTAAAAAT
1 AATTACCAAAATAGCAC-CATTTTCAAAAT
* ** * *** *
1505023 -TTTATGAAATTTTTACC-TTTTTAAAA-
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * *
1505049 AATTACAAAAATAGCACTATTTTTAAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * *
1505078 AATTACCAGAATAGCACCATTTCCCAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
*
1505107 AATTATCAAAAT-GCACC
1 AATTACCAAAATAGCACC
1505124 TGATCAACGG
Statistics
Matches: 122, Mismatches: 33, Indels: 9
0.74 0.20 0.05
Matches are distributed among these distances:
27 17 0.14
28 24 0.20
29 80 0.66
30 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
AATTACCAAAATAGCACCATTTTCAAAAT
Found at i:1509813 original size:57 final size:56
Alignment explanation
Indices: 1509736--1509875 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 56
1509726 TAAGGCCCTG
* * * *
1509736 AGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAAAAAATAAGGTTCTC
1 AGCAGAAAGTCAAGGAACCTGCAAGTAATCAA-CCCATCACAAAAAATAAGGCTCCC
* * * * ** * * *
1509793 GGCATAAAGCCAAGGAACCTGCAAGTATTCAACCTGTCACGAACAGTAAGGCTCCC
1 AGCAGAAAGTCAAGGAACCTGCAAGTAATCAACCCATCACAAAAAATAAGGCTCCC
1509849 AGCAGAAAGTCAAGGAACCTGCAAGTA
1 AGCAGAAAGTCAAGGAACCTGCAAGTA
1509876 TTCTTCCCCG
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
56 41 0.60
57 27 0.40
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.15
Consensus pattern (56 bp):
AGCAGAAAGTCAAGGAACCTGCAAGTAATCAACCCATCACAAAAAATAAGGCTCCC
Found at i:1509922 original size:113 final size:113
Alignment explanation
Indices: 1509715--1509935 Score: 273
Period size: 113 Copynumber: 2.0 Consensus size: 113
1509705 TTACAACCCC
*
1509715 GTCACGAACAGTAAGGCCCTGAGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAAA
1 GTCACGAACAGTAAGGCCCTCAGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAAA
** * * *
1509780 AAATAAGGTTCTCGGCATAAAGCCAAGGAACCTGCAAGTATTCAACCT
66 AAATAAGACTCTCAGCACAAAGCCAAGGAACCTACAAGTATTCAACCT
* * * ** * *
1509828 GTCACGAACAGTAAGGCTCC-CAGCAGAAAGTCAAGGAACCTGCAAGTATTCTTCCCCGTCACCA
1 GTCACGAACAGTAAGGC-CCTCAGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAA
* * * *
1509892 ACAGTAAGACTCTCAGCACAAAGTCGAGGAACCTACAAGTATTC
65 AAAATAAGACTCTCAGCACAAAGCCAAGGAACCTACAAGTATTC
1509936 TTCCTCTAAC
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
113 88 0.98
114 2 0.02
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (113 bp):
GTCACGAACAGTAAGGCCCTCAGCACAAAGTCAAGAAACCTGCAAGTAATCAACCCCATCACAAA
AAATAAGACTCTCAGCACAAAGCCAAGGAACCTACAAGTATTCAACCT
Found at i:1509939 original size:57 final size:57
Alignment explanation
Indices: 1509710--1509936 Score: 249
Period size: 57 Copynumber: 4.0 Consensus size: 57
1509700 TAACCTTACA
* * * * *
1509710 ACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGTCAAGAAACCTGCAAGTAATCA
1 ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
* * * * * * * *
1509767 ACCCCATCACAAAAAATAAGGTTCTCGGCATAAAGCCAAGGAACCTGCAAGTATTC-
1 ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
* * * *
1509823 AACCTGTCACGAACAGTAAGGCTCCCAGCAGAAAGTCAAGGAACCTGCAAGTATTCT
1 ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
* * * * *
1509880 TCCCCGTCACCAACAGTAAGACTCTCAGCACAAAGTCGAGGAACCTACAAGTATTCT
1 ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
1509937 TCCTCTAACT
Statistics
Matches: 137, Mismatches: 32, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
56 45 0.33
57 92 0.67
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.17
Consensus pattern (57 bp):
ACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCAAGGAACCTGCAAGTATTCT
Found at i:1513510 original size:29 final size:29
Alignment explanation
Indices: 1513478--1513665 Score: 125
Period size: 29 Copynumber: 6.6 Consensus size: 29
1513468 TTTTTTTTAA
* * *
1513478 AATTACGAAAATAGCACCATTTTGAAATT
1 AATTACCAAAATAGCACCATTTTCAAAAT
*
1513507 AATTACCAAAATAGCATCATTTTCAAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * * *
1513536 AATTACTAAAATATCACTC-TATTAAAAAT
1 AATTACCAAAATAGCAC-CATTTTCAAAAT
* ** * *** *
1513565 -TTTATGAAATTTTTACC-TTTTTAAAA-
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * *
1513591 AATTACAAAAATAGCACTATTTTTAAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
* * *
1513620 AATTACCAGAATAGCACCATTTCCCAAAT
1 AATTACCAAAATAGCACCATTTTCAAAAT
*
1513649 AATTATCAAAAT-GCACC
1 AATTACCAAAATAGCACC
1513666 TGATCAACGG
Statistics
Matches: 122, Mismatches: 33, Indels: 9
0.74 0.20 0.05
Matches are distributed among these distances:
27 17 0.14
28 24 0.20
29 80 0.66
30 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
AATTACCAAAATAGCACCATTTTCAAAAT
Found at i:1517307 original size:54 final size:54
Alignment explanation
Indices: 1517211--1517505 Score: 358
Period size: 54 Copynumber: 5.4 Consensus size: 54
1517201 TCGTTGGGGT
* * * * * * *
1517211 TGGGGTGCACACATAGTGTCAATACTGTCATTCAAAAAACATATTATAAATTCTA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTC-ATAAACATATTATGAATTCTA
* * * *
1517266 TGAGTTACACAGTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTA
* ** *
1517320 TGGGTTGAACACTTAGTGTCGATACGGTTATTCATAAACTTATTATGAATTCTA
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTA
* * *
1517374 TGGGTTGCACACTCAGTGCCGATACGGTCGTTCATAAGCATATTATGAATTC-A
1 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTA
* * * * *
1517427 GTGGGTTGCACACTTAATGCCAATACGGTCGTTCATAAACATATTATGAATTTTG
1 -TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTA
1517482 TGGGTTGCACACTTAGTGTCGATA
1 TGGGTTGCACACTTAGTGTCGATA
1517506 GTACACATAG
Statistics
Matches: 203, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.00
54 177 0.87
55 25 0.12
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTA
Found at i:1537324 original size:3 final size:3
Alignment explanation
Indices: 1537247--1537305 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
1537237 TACATTTGAT
*
1537247 TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1537294 TTA TTA TTA TTA
1 TTA TTA TTA TTA
1537306 ATAATAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1538393 original size:28 final size:29
Alignment explanation
Indices: 1538339--1538408 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
1538329 TTACAGCATG
*
1538339 TTTTTATATATTATAATTCGGTTCATTAA
1 TTTTTATATATTATAATTCAGTTCATTAA
* *
1538368 TTTTTAT-TCATTATAATTTAG-TCATTGA
1 TTTTTATAT-ATTATAATTCAGTTCATTAA
1538396 TTTACTTATATAT
1 TTT--TTATATAT
1538409 ATATTTTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 10 0.29
29 17 0.50
30 6 0.18
31 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (29 bp):
TTTTTATATATTATAATTCAGTTCATTAA
Found at i:1538753 original size:3 final size:3
Alignment explanation
Indices: 1538745--1538792 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
1538735 AATATATTTA
1538745 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1538793 TAATCATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1539006 original size:16 final size:16
Alignment explanation
Indices: 1538967--1539013 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1538957 CCATTTTCTG
*
1538967 ATAT-TTTTAAATAAAT
1 ATATATTTTAAAT-TAT
*
1538983 AAATATTTTAAATTAT
1 ATATATTTTAAATTAT
1538999 ATATATTTT-AATTAT
1 ATATATTTTAAATTAT
1539014 TTTTAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTAAATTAT
Found at i:1547314 original size:703 final size:703
Alignment explanation
Indices: 1545969--1547377 Score: 2818
Period size: 703 Copynumber: 2.0 Consensus size: 703
1545959 GAAGAAGCTA
1545969 TGGGAGGATTATTTATCAACATGATTACAAATGCCCACAAGACTGGCAAATACTTGACTGGAATT
1 TGGGAGGATTATTTATCAACATGATTACAAATGCCCACAAGACTGGCAAATACTTGACTGGAATT
1546034 CGCCCTTGTCTTCCTGGTGAAACACTCAATAATTGGACTGCTGAAGATCTCCCTGTAGTTTTTAG
66 CGCCCTTGTCTTCCTGGTGAAACACTCAATAATTGGACTGCTGAAGATCTCCCTGTAGTTTTTAG
1546099 TATTAACACAGAGTAATACTCAGAACTAATATTTTATGCTTTAGCCCAAGAATATAAAAAGTTTT
131 TATTAACACAGAGTAATACTCAGAACTAATATTTTATGCTTTAGCCCAAGAATATAAAAAGTTTT
1546164 TGTTATCTTGTAAGGGCAATTATGTTAAGTTCACTTAATATCAAATATAAGAATTTTCTTAAAAT
196 TGTTATCTTGTAAGGGCAATTATGTTAAGTTCACTTAATATCAAATATAAGAATTTTCTTAAAAT
1546229 TTTCAAATGGCAATCATTCTTTACATTGTTTTCATTTTTTACATTCATTATTTCTCATTTTTTAT
261 TTTCAAATGGCAATCATTCTTTACATTGTTTTCATTTTTTACATTCATTATTTCTCATTTTTTAT
1546294 ATTTATTTCATAAATTTACTATATCCTTTCGGAAATATGTCCGACTTAAATTTGCAGGTGTCACA
326 ATTTATTTCATAAATTTACTATATCCTTTCGGAAATATGTCCGACTTAAATTTGCAGGTGTCACA
1546359 ATGTTAATAGCCTGATTATTCCTAAATTTAATCATCAGATAAATTTAGAGCGGCCCATATGTTTG
391 ATGTTAATAGCCTGATTATTCCTAAATTTAATCATCAGATAAATTTAGAGCGGCCCATATGTTTG
1546424 GAGGAAGTCAATGAGTGTGAGGATGAAATAGAATGTGATGTTCCTACTGAATTGTTAAGACTGGT
456 GAGGAAGTCAATGAGTGTGAGGATGAAATAGAATGTGATGTTCCTACTGAATTGTTAAGACTGGT
1546489 AGAAAAAGAAGAAAAACAAATCTTACCTCACAAAGAAGAAATTTAAACTGTAAATCTGGGAACCG
521 AGAAAAAGAAGAAAAACAAATCTTACCTCACAAAGAAGAAATTTAAACTGTAAATCTGGGAACCG
1546554 ATGAAGAAATGAAAGAAGTAAAAATTTGTACTACTTTGTCAGCCCAGATAAAACGAGAATTGATA
586 ATGAAGAAATGAAAGAAGTAAAAATTTGTACTACTTTGTCAGCCCAGATAAAACGAGAATTGATA
1546619 GATCTCCTCCAAGAGTTCAAAGATATCTTCCCCTGGTCTTATCAAGATACGCC
651 GATCTCCTCCAAGAGTTCAAAGATATCTTCCCCTGGTCTTATCAAGATACGCC
1546672 TGGGAGGATTATTTATCAACATGATTACAAATGCCCACAAGACTGGCAAATACTTGACTGGAATT
1 TGGGAGGATTATTTATCAACATGATTACAAATGCCCACAAGACTGGCAAATACTTGACTGGAATT
1546737 CGCCCTTGTCTTCCTGGTGAAACACTCAATAATTGGACTGCTGAAGATCTCCCTGTAGTTTTTAG
66 CGCCCTTGTCTTCCTGGTGAAACACTCAATAATTGGACTGCTGAAGATCTCCCTGTAGTTTTTAG
1546802 TATTAACACAGAGTAATACTCAGAACTAATATTTTATGCTTTAGCCCAAGAATATAAAAAGTTTT
131 TATTAACACAGAGTAATACTCAGAACTAATATTTTATGCTTTAGCCCAAGAATATAAAAAGTTTT
1546867 TGTTATCTTGTAAGGGCAATTATGTTAAGTTCACTTAATATCAAATATAAGAATTTTCTTAAAAT
196 TGTTATCTTGTAAGGGCAATTATGTTAAGTTCACTTAATATCAAATATAAGAATTTTCTTAAAAT
1546932 TTTCAAATGGCAATCATTCTTTACATTGTTTTCATTTTTTACATTCATTATTTCTCATTTTTTAT
261 TTTCAAATGGCAATCATTCTTTACATTGTTTTCATTTTTTACATTCATTATTTCTCATTTTTTAT
1546997 ATTTATTTCATAAATTTACTATATCCTTTCGGAAATATGTCCGACTTAAATTTGCAGGTGTCACA
326 ATTTATTTCATAAATTTACTATATCCTTTCGGAAATATGTCCGACTTAAATTTGCAGGTGTCACA
1547062 ATGTTAATAGCCTGATTATTCCTAAATTTAATCATCAGATAAATTTAGAGCGGCCCATATGTTTG
391 ATGTTAATAGCCTGATTATTCCTAAATTTAATCATCAGATAAATTTAGAGCGGCCCATATGTTTG
1547127 GAGGAAGTCAATGAGTGTGAGGATGAAATAGAATGTGATGTTCCTACTGAATTGTTAAGACTGGT
456 GAGGAAGTCAATGAGTGTGAGGATGAAATAGAATGTGATGTTCCTACTGAATTGTTAAGACTGGT
1547192 AGAAAAAGAAGAAAAACAAATCTTACCTCACAAAGAAGAAATTTAAACTGTAAATCTGGGAACCG
521 AGAAAAAGAAGAAAAACAAATCTTACCTCACAAAGAAGAAATTTAAACTGTAAATCTGGGAACCG
1547257 ATGAAGAAATGAAAGAAGTAAAAATTTGTACTACTTTGTCAGCCCAGATAAAACGAGAATTGATA
586 ATGAAGAAATGAAAGAAGTAAAAATTTGTACTACTTTGTCAGCCCAGATAAAACGAGAATTGATA
1547322 GATCTCCTCCAAGAGTTCAAAGATATCTTCCCCTGGTCTTATCAAGATACGCC
651 GATCTCCTCCAAGAGTTCAAAGATATCTTCCCCTGGTCTTATCAAGATACGCC
1547375 TGG
1 TGG
1547378 TTTGAGTACA
Statistics
Matches: 706, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
703 706 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (703 bp):
TGGGAGGATTATTTATCAACATGATTACAAATGCCCACAAGACTGGCAAATACTTGACTGGAATT
CGCCCTTGTCTTCCTGGTGAAACACTCAATAATTGGACTGCTGAAGATCTCCCTGTAGTTTTTAG
TATTAACACAGAGTAATACTCAGAACTAATATTTTATGCTTTAGCCCAAGAATATAAAAAGTTTT
TGTTATCTTGTAAGGGCAATTATGTTAAGTTCACTTAATATCAAATATAAGAATTTTCTTAAAAT
TTTCAAATGGCAATCATTCTTTACATTGTTTTCATTTTTTACATTCATTATTTCTCATTTTTTAT
ATTTATTTCATAAATTTACTATATCCTTTCGGAAATATGTCCGACTTAAATTTGCAGGTGTCACA
ATGTTAATAGCCTGATTATTCCTAAATTTAATCATCAGATAAATTTAGAGCGGCCCATATGTTTG
GAGGAAGTCAATGAGTGTGAGGATGAAATAGAATGTGATGTTCCTACTGAATTGTTAAGACTGGT
AGAAAAAGAAGAAAAACAAATCTTACCTCACAAAGAAGAAATTTAAACTGTAAATCTGGGAACCG
ATGAAGAAATGAAAGAAGTAAAAATTTGTACTACTTTGTCAGCCCAGATAAAACGAGAATTGATA
GATCTCCTCCAAGAGTTCAAAGATATCTTCCCCTGGTCTTATCAAGATACGCC
Found at i:1550538 original size:12 final size:12
Alignment explanation
Indices: 1550516--1550586 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
1550506 TTGAAGAAAA
1550516 AAAAATGAAAATG
1 AAAAAT-AAAATG
1550529 AAAAATAAAATG
1 AAAAATAAAATG
* *
1550541 AAAAAGAAAAAG
1 AAAAATAAAATG
*
1550553 ATAAATATGAAATG
1 A-AAA-ATAAAATG
*
1550567 --AAATGAAATG
1 AAAAATAAAATG
*
1550577 AAAAAGAAAA
1 AAAAATAAAA
1550587 ATGATAATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 8 0.17
11 2 0.04
12 23 0.49
13 9 0.19
14 5 0.11
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAAATAAAATG
Found at i:1550590 original size:18 final size:18
Alignment explanation
Indices: 1550509--1550588 Score: 78
Period size: 18 Copynumber: 4.5 Consensus size: 18
1550499 ATTATGCTTG
1550509 AAGAAAAA-AAAATGAAA
1 AAGAAAAATAAAATGAAA
*
1550526 ATGAAAAATAAAATGAAA
1 AAGAAAAATAAAATGAAA
1550544 AAGAAAAAGATAAATATG-AA
1 AAG-AAAA-ATAAA-ATGAAA
* *
1550564 ATG--AAATGAAATGAAA
1 AAGAAAAATAAAATGAAA
1550580 AAGAAAAAT
1 AAGAAAAAT
1550589 GATAATATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
15 3 0.06
16 8 0.16
17 9 0.18
18 15 0.29
19 4 0.08
20 9 0.18
21 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAGAAAAATAAAATGAAA
Found at i:1552992 original size:20 final size:20
Alignment explanation
Indices: 1552930--1552993 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
1552920 TCCAGAGAAA
1552930 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
1552950 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
1552969 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
1552989 GTTCA
1 GTTCA
1552994 ACCTTTGCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:1552996 original size:112 final size:112
Alignment explanation
Indices: 1552799--1553358 Score: 519
Period size: 121 Copynumber: 4.8 Consensus size: 112
1552789 TACTCAATGG
* * *
1552799 ATCAACATTTCCAAAG-AAGTTCGTAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AAGAGGAAGAAGAAGTTCAT
1552863 AATGAGAAGAACTTGTTCAACCTTTTGTTCAAATTCATCACTAGAT-GA
65 AATGAGAAGAACTTGTTCAACCTTTTG-TCAAATTCATCACTAGATCGA
* *
1552911 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
1552976 ATGAGAAGAACTTGTTCAACC-TTTG-CATGACTCTATCACAAAAGGAGATAGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTGTCA-AATTC-ATCAC---------TAGATC-GA
** *
1553033 ATCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCTT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
* *
1553097 AATGAGAAGAACTTGTTCAACCTTTTGCTAAAATTCATCACTCGATGGATCAA
65 AATGAGAAGAACTTGTTCAACCTTTTG-TCAAATTCATCACT--A--GATCGA
* * *
1553150 CATCAAC-TTTTCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCAT
1 -ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * *
1553214 AATGAGAAGAACTTGTTCAACC-TTTG-CATGACTCTATCACAGAAGGAGATAGATCAA
65 AATGAGAAGAACTTGTTCAACCTTTTGTCA-AATTC-ATCAC---------TAGATCGA
* ** *
1553271 CATCCACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAATG-AGAAGAAGTTCA
1 -ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCA
* *
1553334 TAATAAGAAGAATTTGTTCAACCTT
64 TAATGAGAAGAACTTGTTCAACCTT
1553359 GCCTTAATTC
Statistics
Matches: 374, Mismatches: 36, Indels: 66
0.79 0.08 0.14
Matches are distributed among these distances:
109 2 0.01
110 3 0.01
111 9 0.02
112 55 0.15
113 25 0.07
114 2 0.01
115 3 0.01
116 10 0.03
117 45 0.12
118 37 0.10
120 5 0.01
121 100 0.27
122 63 0.17
123 10 0.03
124 3 0.01
125 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (112 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGTCAAATTCATCACTAGATCGA
Found at i:1553064 original size:121 final size:122
Alignment explanation
Indices: 1552911--1553358 Score: 594
Period size: 121 Copynumber: 3.7 Consensus size: 122
1552901 CACTAGATGA
* *
1552911 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
1552975 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAGC
66 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCAC-AAAGGAGATAGATCAAC
** *
1553033 ATCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCTT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
** * ** *
1553097 AATGAGAAGAACTTGTTCAACCTTTTGCTAAAATTC-ATCAC----TCGATGGATCAAC
66 AATGAGAAGAACTTGTTCAACC-TTTGC-ATGACTCTATCACAAAGGAGATAGATCAAC
* * *
1553151 ATCAAC-TTTTCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1553214 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACA-AAGGAGATAGATCAAC
* ** *
1553272 ATCCACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAATG-AGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
1553335 AATAAGAAGAATTTGTTCAACCTT
66 AATGAGAAGAACTTGTTCAACCTT
1553359 GCCTTAATTC
Statistics
Matches: 281, Mismatches: 33, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
115 4 0.01
116 10 0.04
117 45 0.16
118 42 0.15
121 105 0.37
122 61 0.22
123 10 0.04
124 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAAAGGAGATAGATCAAC
Found at i:1553252 original size:239 final size:234
Alignment explanation
Indices: 1552799--1553358 Score: 910
Period size: 239 Copynumber: 2.4 Consensus size: 234
1552789 TACTCAATGG
* * *
1552799 ATCAACATTTCCA-AAGAAGTTCGTAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAAG-TGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * *
1552863 AATGAGAAGAACTTGTTCAACCTTTTGTTCAAATTCATCACTAGATGAATCAACTTTTCCAGAGA
65 AATGAGAAGAACTTGTTCAACCTTTTGCTAAAATTCATCACTAGATAAATCAACTTTTCCAGAGA
*
1552928 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
130 AAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
1552993 AACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAGC
195 AACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAAC
*
1553033 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCTTA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
1553098 ATGAGAAGAACTTGTTCAACCTTTTGCTAAAATTCATCACTCGATGGATCAACATCAACTTTT-C
66 ATGAGAAGAACTTGTTCAACCTTTTGCTAAAATTCATCACT--A--GAT-AA-ATCAACTTTTCC
1553162 AGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACT
125 AGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACT
*
1553227 TGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAAC
190 TGTTCAACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAAC
* *
1553272 ATCCACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAATG-AGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* *
1553336 ATAAGAAGAATTTGTTCAACCTT
66 ATGAGAAGAACTTGTTCAACCTT
1553359 GCCTTAATTC
Statistics
Matches: 304, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
234 96 0.32
235 3 0.01
236 1 0.00
238 37 0.12
239 157 0.52
240 10 0.03
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (234 bp):
ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTAAAATTCATCACTAGATAAATCAACTTTTCCAGAGAA
AGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAAC
Found at i:1553758 original size:3 final size:3
Alignment explanation
Indices: 1553691--1553741 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
1553681 TCCATTTGAT
* * ** *
1553691 TTA TTA TTA TTA TTA TTA TCA TCA TCC TTA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1553739 TTA
1 TTA
1553742 ATAAAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1555426 original size:16 final size:16
Alignment explanation
Indices: 1555387--1555433 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1555377 CCATTTTCTG
*
1555387 ATAT-TTTTAAATAAAT
1 ATATATTTTAAAT-TAT
*
1555403 AAATATTTTAAATTAT
1 ATATATTTTAAATTAT
1555419 ATATATTTT-AATTAT
1 ATATATTTTAAATTAT
1555434 TTTTAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTAAATTAT
Found at i:1556190 original size:19 final size:19
Alignment explanation
Indices: 1556166--1556209 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
1556156 TTCTCACATT
1556166 TTCTTTGCAGATGATATGG
1 TTCTTTGCAGATGATATGG
1556185 TTCTTTGCAGATGATATGG
1 TTCTTTGCAGATGATATGG
1556204 TTCTTT
1 TTCTTT
1556210 TTGCTGAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.18, C:0.11, G:0.23, T:0.48
Consensus pattern (19 bp):
TTCTTTGCAGATGATATGG
Found at i:1557010 original size:63 final size:63
Alignment explanation
Indices: 1556913--1557044 Score: 246
Period size: 63 Copynumber: 2.1 Consensus size: 63
1556903 AAAAAACCGA
*
1556913 TTTTTTCAAACCGAAACCGGTTACATCATCCGGCCTTTCAAACCGGTTAGAATCCGAACCAAT
1 TTTTTTCAAACCGAAACCGGTTACACCATCCGGCCTTTCAAACCGGTTAGAATCCGAACCAAT
*
1556976 TTTTTTCAAACCGAAACCGGTTACACCATCCGGCCTTTCAAACCGGTTAGAATCCGAACCGAT
1 TTTTTTCAAACCGAAACCGGTTACACCATCCGGCCTTTCAAACCGGTTAGAATCCGAACCAAT
1557039 TTTTTT
1 TTTTTT
1557045 AAAATCTGAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (63 bp):
TTTTTTCAAACCGAAACCGGTTACACCATCCGGCCTTTCAAACCGGTTAGAATCCGAACCAAT
Found at i:1559806 original size:3 final size:3
Alignment explanation
Indices: 1559798--1559840 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1559788 TTATTCACAA
1559798 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1559841 GTGAAATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1572826 original size:24 final size:24
Alignment explanation
Indices: 1572794--1572846 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1572784 ATCCGAAGAA
*
1572794 TATTTTTATTTAATTAATTAA-TTT
1 TATTTTTATTT-ATTAATAAATTTT
*
1572818 TATTTTTATTTATTTATAAATTTT
1 TATTTTTATTTATTAATAAATTTT
1572842 TATTT
1 TATTT
1572847 GAAGGGGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTTTTATTTATTAATAAATTTT
Found at i:1573373 original size:18 final size:17
Alignment explanation
Indices: 1573325--1573373 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
1573315 TTATTTAATG
*
1573325 TTATTGTGATTTTTCGA
1 TTATTGTTATTTTTCGA
* * *
1573342 TAATTTTTTATTTTGCGA
1 TTA-TTGTTATTTTTCGA
1573360 TTATTGTTATTTTT
1 TTATTGTTATTTTT
1573374 TATTATTTTG
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.65
Consensus pattern (17 bp):
TTATTGTTATTTTTCGA
Found at i:1587354 original size:18 final size:18
Alignment explanation
Indices: 1587328--1587366 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1587318 TTTTCATTCA
*
1587328 TCTCATATAAATATCCAT
1 TCTCATATAAATATACAT
*
1587346 TCTCGTATAAATATACAT
1 TCTCATATAAATATACAT
1587364 TCT
1 TCT
1587367 TTTCTAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (18 bp):
TCTCATATAAATATACAT
Found at i:1590785 original size:2 final size:2
Alignment explanation
Indices: 1590778--1590807 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1590768 AGTTATTTTC
1590778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1590808 TATCTATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1590873 original size:22 final size:24
Alignment explanation
Indices: 1590821--1590876 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
1590811 CTATAGTTAT
1590821 TATGATA-ATAACTTATTCATTAA
1 TATGATATATAACTTATTCATTAA
*
1590844 TATGTGATATATAAGTTATT-ATT-A
1 TA--TGATATATAACTTATTCATTAA
1590868 TATGATATA
1 TATGATATA
1590877 GCACACATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
24 3 0.10
25 8 0.28
26 9 0.31
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (24 bp):
TATGATATATAACTTATTCATTAA
Found at i:1592095 original size:29 final size:29
Alignment explanation
Indices: 1592053--1592127 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
1592043 GTTTGAGATA
*
1592053 CAACACCACCACCATCTCTATTTCGACAT
1 CAACACCACCACCATCTCTATTTCAACAT
*
1592082 CAACACTACCACCATCTCTATTTCAACAT
1 CAACACCACCACCATCTCTATTTCAACAT
* * *
1592111 TAACACCATCAACATCT
1 CAACACCACCACCATCT
1592128 TCCATCAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.35, C:0.39, G:0.01, T:0.25
Consensus pattern (29 bp):
CAACACCACCACCATCTCTATTTCAACAT
Found at i:1592535 original size:23 final size:23
Alignment explanation
Indices: 1592486--1592542 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
1592476 AATTCAAAGG
* *
1592486 AAAAAGAAAAAGAAAAAAATCAG
1 AAAAAGAAGAAGAAAAAAATCAC
* **
1592509 AAAAAGAAGAAGAAAATAATTTC
1 AAAAAGAAGAAGAAAAAAATCAC
1592532 AAAAAG-AGAAG
1 AAAAAGAAGAAG
1592543 CAAAGCCAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.72, C:0.04, G:0.16, T:0.09
Consensus pattern (23 bp):
AAAAAGAAGAAGAAAAAAATCAC
Found at i:1595387 original size:24 final size:25
Alignment explanation
Indices: 1595360--1595408 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
1595350 AAACTGCTTA
*
1595360 TTTCATATGT-TATA-ATATAGTTAT
1 TTTCATATATATATATATATA-TTAT
1595384 TTTCATATATATATATATATATTAT
1 TTTCATATATATATATATATATTAT
1595409 ATCTATAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 8 0.36
26 5 0.23
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTCATATATATATATATATATTAT
Found at i:1596683 original size:29 final size:29
Alignment explanation
Indices: 1596641--1596720 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 29
1596631 GTTTGAGATA
1596641 CAACACCAACACCATCTCCATTTCAACAT
1 CAACACCAACACCATCTCCATTTCAACAT
*
1596670 CAACACCACCACCATCTCCATTTCAACAT
1 CAACACCAACACCATCTCCATTTCAACAT
* * *
1596699 CAATACCATCAACATCATCCAT
1 CAACACCAACACCATC-TCCAT
1596721 CAAGACCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 41 0.89
30 5 0.11
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (29 bp):
CAACACCAACACCATCTCCATTTCAACAT
Found at i:1596684 original size:23 final size:23
Alignment explanation
Indices: 1596641--1596684 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1596631 GTTTGAGATA
* *
1596641 CAACACCAACACCATCTCCATTT
1 CAACACCAACACCACCACCATTT
*
1596664 CAACATCAACACCACCACCAT
1 CAACACCAACACCACCACCAT
1596685 CTCCATTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (23 bp):
CAACACCAACACCACCACCATTT
Found at i:1597186 original size:7 final size:7
Alignment explanation
Indices: 1597169--1597229 Score: 81
Period size: 7 Copynumber: 8.7 Consensus size: 7
1597159 AAATAAAAAT
1597169 AAAAGAGG
1 AAAA-AGG
1597177 AAAAAGG
1 AAAAAGG
1597184 AAAAAGG
1 AAAAAGG
1597191 AAAAAGG
1 AAAAAGG
1597198 AAAAAGG
1 AAAAAGG
*
1597205 AAAAAAG
1 AAAAAGG
1597212 AAAAA--
1 AAAAAGG
1597217 AAAAAGAG
1 AAAAAG-G
1597225 AAAAA
1 AAAAA
1597230 AAATAAAAGA
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
5 5 0.10
7 35 0.71
8 9 0.18
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Done.