Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 39
Found at i:335 original size:21 final size:21
Alignment explanation
Indices: 309--351 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
299 TTTCTGGGTT
* *
309 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
330 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
351 A
1 A
352 CGAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:411 original size:66 final size:67
Alignment explanation
Indices: 331--479 Score: 212
Period size: 66 Copynumber: 2.2 Consensus size: 67
321 ACCCATTCAA
* *
331 GGGGAACCGATACCCCTTCAACG-AAATGAATTTCCAGAATGCAAGAGGGGAATCGATACCCCA-
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAG-ATGCAAGAGGGGAATCGATACCCCAG
394 GGG
65 GGG
* * **
397 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATGCTTGAGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGATGCAAGAGGGGAATCGATACCCCAGG
462 GG
66 GG
*
464 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
480 ATGAGAAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
66 44 0.59
67 30 0.41
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGATGCAAGAGGGGAATCGATACCCCAGG
GG
Found at i:835 original size:27 final size:29
Alignment explanation
Indices: 779--846 Score: 104
Period size: 27 Copynumber: 2.4 Consensus size: 29
769 CATATTATGA
*
779 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTTGCATTAAATGTAT
*
808 TACATGACATGAA-TT-CATTATATGTAT
1 TACATGACATGAATTTGCATTAAATGTAT
835 TACATGACATGA
1 TACATGACATGA
847 TGCAGAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 22 0.59
28 2 0.05
29 13 0.35
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (29 bp):
TACATGACATGAATTTGCATTAAATGTAT
Found at i:901 original size:30 final size:31
Alignment explanation
Indices: 859--918 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
849 CAGAAAAGTT
*
859 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
890 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
919 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:1208 original size:22 final size:22
Alignment explanation
Indices: 1136--1200 Score: 123
Period size: 21 Copynumber: 3.0 Consensus size: 22
1126 CCTTATGGAC
1136 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1158 ATTCTACGGGCA-TTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1179 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1201 TTTATACGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 21 0.50
22 21 0.50
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:7127 original size:21 final size:21
Alignment explanation
Indices: 7101--7142 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7091 TTCTGGGTTG
* *
7101 GGGGAATCGGTACCCATTCAA
1 GGGGAACCGATACCCATTCAA
*
7122 GGGGAACCGATACCCCTTCAA
1 GGGGAACCGATACCCATTCAA
7143 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (21 bp):
GGGGAACCGATACCCATTCAA
Found at i:7258 original size:68 final size:67
Alignment explanation
Indices: 7122--7272 Score: 214
Period size: 67 Copynumber: 2.3 Consensus size: 67
7112 ACCCATTCAA
* *
7122 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGCAAGAGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCAG
7187 GG
66 GG
* * * **
7189 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGA-GGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACG-AAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCA
7253 GGG
65 GGG
*
7256 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
7273 ATGAGAAAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
67 57 0.76
68 18 0.24
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCAG
GG
Found at i:7615 original size:29 final size:29
Alignment explanation
Indices: 7573--7642 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
7563 CATATTATGA
**
7573 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
7602 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
7631 TACATGACATGA
1 TACATGACATGA
7643 TTATGCAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:7708 original size:30 final size:30
Alignment explanation
Indices: 7658--7716 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7648 CAGAAAAGTT
*
7658 ATATGCACTATGTGATAAGGTATGTAAATG
1 ATATGCACTATGTGATAAGGTATGGAAATG
*
7688 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGAT-AAGGTATGGAAAT
7717 ACTATGTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.34
Consensus pattern (30 bp):
ATATGCACTATGTGATAAGGTATGGAAATG
Found at i:8007 original size:22 final size:22
Alignment explanation
Indices: 7933--7999 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
7923 TTATGGACAT
7933 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
7955 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
7977 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
7999 A
1 A
8000 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:18476 original size:3 final size:3
Alignment explanation
Indices: 18463--18492 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
18453 GCAGGGTAGG
18463 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
18493 TTTTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:18897 original size:130 final size:130
Alignment explanation
Indices: 18674--19030 Score: 443
Period size: 131 Copynumber: 2.7 Consensus size: 130
18664 TCGGGTCGTC
* * *
18674 TAAGGATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAAGGATGACACGGCTCC
1 TAAGGATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATC-AAAGGTTGAAACAGCTCC
* * * *
18739 TACGTGATGAGGAGATTGGTTGAGGGATGACACGGTT-CTACATGATGAGGACGACAGACCATCT
65 TACGTGATGAGGAGATTGGTCGAGGGATGACACGGTTCCAACATGATAAGGACAACAGACCATCT
18803 T
130 T
* * * * * *
18804 TAGGGATAATAACACAGTTCCTACGTGATAAGGACAACTGGTTATCAAAGGTTGAAACAGCTTCT
1 TAAGGATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCAAAGGTTGAAACAGCTCCT
* *
18869 ACGTGATGAGGAGATCTGGTCG-GTGGATGACACGGTTCCAACGTGATAAGGACAACAGGCCATC
66 ACGTGATGAGGAGAT-TGGTCGAG-GGATGACACGGTTCCAACATGATAAGGACAACAGACCATC
18933 TT
129 TT
* * * * *
18935 TAAAGATGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGACAC-GACTCT
1 TAAGGATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCAAAGGTTGAAACAG-CTCC
* *
18999 TACGTAATGAGGAAATATGGTCGA-GGATGACA
65 TACGTGATGAGGAGAT-TGGTCGAGGGATGACA
19031 ATGTTTGTTG
Statistics
Matches: 193, Mismatches: 29, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
129 31 0.16
130 68 0.35
131 94 0.49
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (130 bp):
TAAGGATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCAAAGGTTGAAACAGCTCCT
ACGTGATGAGGAGATTGGTCGAGGGATGACACGGTTCCAACATGATAAGGACAACAGACCATCTT
Found at i:19271 original size:60 final size:60
Alignment explanation
Indices: 19123--19347 Score: 299
Period size: 60 Copynumber: 3.7 Consensus size: 60
19113 TGAAGTTGAG
* * * *
19123 CTTTCAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGT-ATAATTTTCATCAAATTG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA----GTAATACTTTAC-T-AAATCG
*
19187 G
60 T
*
19188 CTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAAGTAATACTTTACTAAATCGT
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTAATACTTTACTAAATCGT
* * * *
19248 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTAATGCTTCACCAAATCAT
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTAATACTTTACTAAATCGT
19308 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA
19348 TCTTGTGTAA
Statistics
Matches: 148, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
60 100 0.68
61 3 0.02
62 7 0.05
65 38 0.26
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (60 bp):
CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTAATACTTTACTAAATCGT
Found at i:26276 original size:13 final size:13
Alignment explanation
Indices: 26258--26288 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
26248 GTAGGGTAGG
26258 TAATAATTAATAA
1 TAATAATTAATAA
26271 TAATAATTAATAA
1 TAATAATTAATAA
26284 TAATA
1 TAATA
26289 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATAATTAATAA
Found at i:26626 original size:7 final size:7
Alignment explanation
Indices: 26614--26655 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
26604 AAACGAAGAA
26614 CAGCCAG
1 CAGCCAG
26621 CAGCCAG
1 CAGCCAG
26628 CAGCCAG
1 CAGCCAG
26635 CAGCCAG
1 CAGCCAG
26642 CAGCCAG
1 CAGCCAG
26649 CAGCCAG
1 CAGCCAG
26656 GAAAAGAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.43, G:0.29, T:0.00
Consensus pattern (7 bp):
CAGCCAG
Found at i:29578 original size:81 final size:80
Alignment explanation
Indices: 29441--29773 Score: 400
Period size: 81 Copynumber: 4.1 Consensus size: 80
29431 AAGCATTTAG
* * * * * *
29441 TCTTTTACCCAAAGGCATTTAGA-CTTTCATCTAACTTGCATGATTGACACCGTTCTACCAAATG
1 TCTTTTACTC-AAGGAATTTA-ACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATG
29505 CACAACTAGG-AATTTAA
64 CACAACTAGGCAA-TTAA
* * * * *
29522 TCTTTAACTCAGAGGTATTTAGCCTTTCATCTAACTGGCATGATTGGCACCTTTCTATCAAATGC
1 TCTTTTACTCA-AGGAATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
29587 ACAACTAGGCAATTAA
65 ACAACTAGGCAATTAA
* ** * *
29603 TCTTTTACTCAAAGGAATTTAACCTTTCATATAACTGGCATAATTGACATATTTATGTCAAATGC
1 TCTTTTACTC-AAGGAATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
*
29668 ACAGCTAGGCAATTAA
65 ACAACTAGGCAATTAA
* * * *
29684 TCTTTTACTCAACGGCATTTAACCTTTTATCTAACTGACATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAA-GGAATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
*
29749 ACATCTAGGCAATTAA
65 ACAACTAGGCAATTAA
29765 TCTTTTACT
1 TCTTTTACT
29774 TAAAACAGTT
Statistics
Matches: 220, Mismatches: 27, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
80 3 0.01
81 214 0.97
82 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (80 bp):
TCTTTTACTCAAGGAATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCA
CAACTAGGCAATTAA
Found at i:35049 original size:112 final size:109
Alignment explanation
Indices: 34908--35204 Score: 355
Period size: 112 Copynumber: 2.7 Consensus size: 109
34898 AATTAACGAT
*
34908 TGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAA-TGATTGAGCACCTC
34973 TGTGCTT-AATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAATGAC
65 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAG---AAAAAAATGAC
* * * *
35020 TGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGATGATTGAGCACCTCT
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAATGATTGAGCACCTCT
* ** **
35085 GTGCTTCAATCGAGGACTGACACCTCTGTGCAGCCAACTATGAC
66 GTGCTTCAATCGAGAACTGACACCTCTGTGCAGAAAAAAATGAC
* * * * * * * **
35129 TGAGCACCTCTGTGCTTCAATCTAAATTCTGGCACCTCTGTGCA-TCGGAATGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGA-GCTGACACCTCTGTGTAGCCAAAATGATTGAGCACCTC
*
35193 TGTGCTACAATC
65 TGTGCTTCAATC
35205 TAAAATCAAG
Statistics
Matches: 159, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
109 54 0.34
110 14 0.09
111 21 0.13
112 70 0.44
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (109 bp):
TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAATGATTGAGCACCTCT
GTGCTTCAATCGAGAACTGACACCTCTGTGCAGAAAAAAATGAC
Found at i:35090 original size:54 final size:54
Alignment explanation
Indices: 34905--35204 Score: 318
Period size: 54 Copynumber: 5.5 Consensus size: 54
34895 TAGAATTAAC
*
34905 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAA-T
* **
34960 GATTGAGCACCTCTGTGCTT-AATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAG----CCAAAAT
* ** * * * *
35017 GACTGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
*
35071 GATTGAGCACCTCTGTGCTTCAATCGAG-GACTGACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAG-CTGACACCTCTGTGCAGCCAA-AAT
* * * * * * **
35126 GACTGAGCACCTCTGTGCTTCAATCTAAATTCTGGCACCTCTGTGCA-TCGGAAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGA-GCTGACACCTCTGTGCAGCCAAAAT
*
35180 GATTGAGCACCTCTGTGCTACAATC
1 GATTGAGCACCTCTGTGCTTCAATC
35205 TAAAATCAAG
Statistics
Matches: 205, Mismatches: 31, Indels: 19
0.80 0.12 0.07
Matches are distributed among these distances:
53 1 0.00
54 96 0.47
55 48 0.23
56 15 0.07
57 20 0.10
58 25 0.12
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGCAGCCAAAAT
Found at i:36269 original size:81 final size:81
Alignment explanation
Indices: 36118--36463 Score: 370
Period size: 81 Copynumber: 4.3 Consensus size: 81
36108 ACACTGTTAA
* * * * * * * *
36118 GCAATTAGTCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACACCGTTCTG
1 GCAATTAATCTTTTACTCAAAAGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTG
* *
36183 CCAAATGTACATCTAG
66 TCAAATGCACATCTAG
* * * * ** * *
36199 GCATTTAATCTTTAACTAAAAAACATTTAGTCTTTCATCTAAGTGGCATGATTGACACCTTTTTG
1 GCAATTAATCTTTTACTCAAAAGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTG
*
36264 TCAAATGAACATCTAG
66 TCAAATGCACATCTAG
* * * *
36280 GCAATTAATCTTTTACTCAAAGGCATTTAA-ATTGTCATCTAACTGGCATAATTGGCACCTTTAT
1 GCAATTAATCTTTTACTCAAAAGCATTTAACCTT-TCATCTAACTGGCATAATTGACACCTTTTT
*
36344 GTCAAATGCACAACTAG
65 GTCAAATGCACATCTAG
** * * * * * *
36361 ATAATTAATCTTTTACTCATAGGTATTTAACCTTTCATCTAATTGGCATAATTAACACTTTTTTG
1 GCAATTAATCTTTTACTCAAAAGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTG
*
36426 TCAAATGCACAGCTAG
66 TCAAATGCACATCTAG
*
36442 GCAATTAATCTTTTACTTAAAA
1 GCAATTAATCTTTTACTCAAAA
36464 CAGTTCTTAC
Statistics
Matches: 220, Mismatches: 43, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
80 2 0.01
81 216 0.98
82 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (81 bp):
GCAATTAATCTTTTACTCAAAAGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTG
TCAAATGCACATCTAG
Found at i:63672 original size:31 final size:32
Alignment explanation
Indices: 63625--63684 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
63615 TAAAAATTTA
* *
63625 ATGTGTTTAGTACCTAAACTATTAGTTTTGAC
1 ATGTGTTTAATACCTAAACTATTAATTTTGAC
*
63657 ATGT-TTTAATACCTAAACTTTTAATTTT
1 ATGTGTTTAATACCTAAACTATTAATTTT
63685 TTTTCAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (32 bp):
ATGTGTTTAATACCTAAACTATTAATTTTGAC
Found at i:70655 original size:24 final size:24
Alignment explanation
Indices: 70621--70689 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
70611 GAGTAGAGGG
*
70621 TCTACGCGGTCCTTCGGGACAAAT
1 TCTACGTGGTCCTTCGGGACAAAT
70645 TCTACGTGGTCCTTCGGGACAAAT
1 TCTACGTGGTCCTTCGGGACAAAT
70669 TCTACGTGGTCCTTCGGGACA
1 TCTACGTGGTCCTTCGGGACA
70690 TATATGTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (24 bp):
TCTACGTGGTCCTTCGGGACAAAT
Found at i:71524 original size:12 final size:12
Alignment explanation
Indices: 71509--71538 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
71499 CACGGCACTT
71509 TTCATAGTACTG
1 TTCATAGTACTG
*
71521 TTCATGGTACTG
1 TTCATAGTACTG
71533 TTCATA
1 TTCATA
71539 CCATATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (12 bp):
TTCATAGTACTG
Found at i:71524 original size:24 final size:24
Alignment explanation
Indices: 71492--71538 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
71482 TGTAGCAGGA
*
71492 TACTATTCACGGCACTTTTCATAG
1 TACTATTCACGGCACTGTTCATAG
* * *
71516 TACTGTTCATGGTACTGTTCATA
1 TACTATTCACGGCACTGTTCATA
71539 CCATATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (24 bp):
TACTATTCACGGCACTGTTCATAG
Found at i:74302 original size:21 final size:21
Alignment explanation
Indices: 74276--74373 Score: 69
Period size: 21 Copynumber: 4.7 Consensus size: 21
74266 ATCAGTTCCC
74276 AGAATCGCAACGCGATTATTA
1 AGAATCGCAACGCGATTATTA
* *
74297 AGAATCGCAATGCGA-TAGTA
1 AGAATCGCAACGCGATTATTA
* ** *
74317 CA-AATTAGCATTGCGATT-TTCC
1 -AGAA-TCGCAACGCGATTATT-A
* *
74339 AGAATCGCAACGCGAATATGA
1 AGAATCGCAACGCGATTATTA
74360 A-AATCGCAACGCGA
1 AGAATCGCAACGCGA
74374 ACATATAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
20 19 0.32
21 36 0.61
22 4 0.07
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATTA
Found at i:74366 original size:20 final size:20
Alignment explanation
Indices: 74341--74538 Score: 80
Period size: 20 Copynumber: 9.8 Consensus size: 20
74331 GATTTTCCAG
74341 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
*
74361 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * * *
74381 AATCGCAATGCGATTCTGAC
1 AATCGCAACGCGAATATGAA
* * * * **
74401 TATCGCAATGAGTATCCGTAA
1 AATCGCAACGCGAATATG-AA
*
74422 AATCGCAACGCG--TATCCATA
1 AATCGCAACGCGAATAT-GA-A
*
74442 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
* * ** *
74463 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATATGAA
* * *
74483 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
* * *
74503 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATATGAA
* *
74523 AATTGCAACGAGAATA
1 AATCGCAACGCGAATA
74539 CGTAAATCAC
Statistics
Matches: 133, Mismatches: 35, Indels: 20
0.71 0.19 0.11
Matches are distributed among these distances:
19 3 0.02
20 100 0.75
21 27 0.20
22 3 0.02
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:74447 original size:41 final size:41
Alignment explanation
Indices: 74402--74544 Score: 198
Period size: 41 Copynumber: 3.5 Consensus size: 41
74392 GATTCTGACT
* * *
74402 ATCGCAATGAGTATCCGTAAAATCGCAACGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCATAA
* * *
74443 ATCGCAACGACAATACGTAAAATCGCAACGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCATAA
**
74484 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCATAA
*
74524 ATTGCAACGAGAATACGTAAA
1 ATCGCAACGAGAATACGTAAA
74545 TCACAATGTG
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 37 0.41
41 54 0.59
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCATAA
Found at i:74518 original size:40 final size:41
Alignment explanation
Indices: 74402--74562 Score: 209
Period size: 40 Copynumber: 4.0 Consensus size: 41
74392 GATTCTGACT
* * * *
74402 ATCGCAATGAGTATCCGTAAAATCGCAACGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
74443 ATCGCAACGACAATACGTAAAATCGCAACGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
74484 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
74524 ATTGCAACGAGAATACGT-AAATCACAATGTGTATCCGTA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTA
74563 TTCGCATTGC
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
40 54 0.51
41 52 0.49
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:74562 original size:20 final size:20
Alignment explanation
Indices: 74402--74562 Score: 151
Period size: 20 Copynumber: 8.0 Consensus size: 20
74392 GATTCTGACT
*
74402 ATCGCAATGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGT-AA
* *
74423 ATCGCAACGCGTATCCATAA
1 ATCGCAACGAGTATCCGTAA
** *
74443 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
74464 ATCGCAACGTGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* *
74484 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* *
74504 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
74524 ATTGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
74544 ATCACAATGTGTATCCGTA
1 ATCGCAACGAGTATCCGTA
74563 TTCGCATTGC
Statistics
Matches: 109, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
20 78 0.72
21 31 0.28
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:74592 original size:20 final size:20
Alignment explanation
Indices: 74567--74605 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
74557 TCCGTATTCG
*
74567 CATTGCGATTTATGTAATCA
1 CATTGCGATTTACGTAATCA
74587 CATTGCGATTTACGTAATC
1 CATTGCGATTTACGTAATC
74606 GTGTTGCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
CATTGCGATTTACGTAATCA
Found at i:74612 original size:20 final size:19
Alignment explanation
Indices: 74567--74622 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
74557 TCCGTATTCG
74567 CATTGCGATTTATGTAATCA
1 CATTGCGATTTA-GTAATCA
*
74587 CATTGCGATTTACGTAATCG
1 CATTGCGATTTA-GTAATCA
**
74607 TGTTGCGATTTAGTAA
1 CATTGCGATTTAGTAA
74623 ATCGCAACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (19 bp):
CATTGCGATTTAGTAATCA
Found at i:75490 original size:24 final size:23
Alignment explanation
Indices: 75462--75515 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
75452 CAGTATTCGA
75462 ATTTGATCTTGGTCAATACCCGG
1 ATTTGATCTTGGTCAATACCCGG
*
75485 ACTTTGATCTTGGTCAATACTCGG
1 A-TTTGATCTTGGTCAATACCCGG
75509 ATTTGAT
1 ATTTGAT
75516 GATTTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTTGATCTTGGTCAATACCCGG
Found at i:78020 original size:20 final size:19
Alignment explanation
Indices: 77992--78097 Score: 87
Period size: 20 Copynumber: 5.7 Consensus size: 19
77982 TCGCAACACG
77992 TGAAAATCGCAACGCGAATA
1 TGAAAATCGCAACGCGAA-A
* *
78012 TGAATATCGTAACGCGGAAA
1 TGAAAATCGCAACGC-GAAA
** *
78032 TGACTATCGCAATGCGAAA
1 TGAAAATCGCAACGCGAAA
78051 TGAAAATCGCAA--CG--A
1 TGAAAATCGCAACGCGAAA
* * *
78066 -GAGAATCACAAAGCGAAA
1 TGAAAATCGCAACGCGAAA
78084 TGAAAATCGCAACG
1 TGAAAATCGCAACG
78098 TGAATTTAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 24 0.35
20 26 0.38
21 3 0.04
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (19 bp):
TGAAAATCGCAACGCGAAA
Found at i:78124 original size:19 final size:19
Alignment explanation
Indices: 78102--78173 Score: 84
Period size: 19 Copynumber: 4.1 Consensus size: 19
78092 GCAACGTGAA
78102 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
78121 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
78140 TTT-G--T--CGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
*
78154 TTTCA-TTTCGCATTGCGAT
1 TTT-AGTTTCGCGTTGCGAT
78173 T
1 T
78174 CTCTCGTTGC
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 12 0.26
16 1 0.02
17 1 0.02
18 1 0.02
19 31 0.67
ACGTcount: A:0.11, C:0.17, G:0.24, T:0.49
Consensus pattern (19 bp):
TTTAGTTTCGCGTTGCGAT
Found at i:78195 original size:32 final size:32
Alignment explanation
Indices: 78112--78204 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 32
78102 TTTAGTTTCG
* * * *
78112 CGTTGCGATTTTAGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTCA-TTTCGCATTGCGATTCTCT
78145 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGA-TTTCATTTCGCATTGCGATTCTCT
78178 CGTTGCGATTTCATTTCGCATTGCGAT
1 CGTTGCGATTTCATTTCGCATTGCGAT
78205 AGTCATTTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 19 0.35
33 32 0.58
34 4 0.07
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.45
Consensus pattern (32 bp):
CGTTGCGATTTCATTTCGCATTGCGATTCTCT
Found at i:78212 original size:19 final size:17
Alignment explanation
Indices: 78155--78204 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
78145 CGTTGCGATT
78155 TTCATTTCGCATTGCGA
1 TTCATTTCGCATTGCGA
*
78172 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
78186 TTTCATTTCGCATTGCGA
1 -TTCATTTCGCATTGCGA
78204 T
1 T
78205 AGTCATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 6 0.22
15 3 0.11
16 8 0.30
17 4 0.15
18 6 0.22
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (17 bp):
TTCATTTCGCATTGCGA
Found at i:79688 original size:21 final size:20
Alignment explanation
Indices: 79663--79723 Score: 50
Period size: 21 Copynumber: 3.0 Consensus size: 20
79653 GTGAATCGAG
*
79663 CTCTTGAATGGTGTGAGGGAC
1 CTCTTGAATGGTGAGAGGG-C
* * * *
79684 CTCTTCAACGATGACAGTGGC
1 CTCTTGAATGGTGAGAG-GGC
*
79705 CTCTTGAATGGTGGGAGGG
1 CTCTTGAATGGTGAGAGGG
79724 GACTCTCGAG
Statistics
Matches: 29, Mismatches: 10, Indels: 3
0.69 0.24 0.07
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.26
Consensus pattern (20 bp):
CTCTTGAATGGTGAGAGGGC
Found at i:80269 original size:19 final size:19
Alignment explanation
Indices: 80183--80270 Score: 78
Period size: 19 Copynumber: 4.8 Consensus size: 19
80173 TCTGGAACTT
*
80183 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
** *
80204 ACTATCGCAACGCAAAATG
1 AAAATCGCAACGCGAAATG
80223 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
80237 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
80256 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
80271 TTTTGGTTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 1 0.02
18 1 0.02
19 28 0.53
21 10 0.19
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:80289 original size:19 final size:19
Alignment explanation
Indices: 80267--80310 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
80257 AAATCGCAAC
** *
80267 GCGATTTTGGTTTCTCGTT
1 GCGATTTTCATTTCACGTT
80286 GCGATTTTCATTTCACGTT
1 GCGATTTTCATTTCACGTT
80305 GCGATT
1 GCGATT
80311 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (19 bp):
GCGATTTTCATTTCACGTT
Found at i:80349 original size:20 final size:20
Alignment explanation
Indices: 80326--80366 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
80316 GTTGCAATAG
*
80326 TCATTTTCGTGTTGCGATTT
1 TCATTTTCATGTTGCGATTT
80346 TCATTTTCATGTTGCGATTT
1 TCATTTTCATGTTGCGATTT
80366 T
1 T
80367 AAGTTTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.17, T:0.56
Consensus pattern (20 bp):
TCATTTTCATGTTGCGATTT
Found at i:81013 original size:40 final size:40
Alignment explanation
Indices: 80925--81178 Score: 262
Period size: 40 Copynumber: 6.3 Consensus size: 40
80915 CTTTAAAAAT
* *
80925 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATA
80966 CGC-TTGCGATTTACGTATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACAGATA
* * *
81005 CGCGTTGCGATTTATGTATTCTCGTTGCGATTTACGGGTA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACAGATA
* *
81045 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATA
* * * *
81086 CACGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-A
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGAT-TTACAGATA
* * ** * * * * *
81126 TCGAGTTGCAATTTATATGTTCGCGTTGCGATTTATATATT
1 -CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACAGATA
81167 CGCGTTGCGATT
1 CGCGTTGCGATT
81179 CTGGAAAATC
Statistics
Matches: 178, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
39 32 0.18
40 77 0.43
41 68 0.38
42 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (40 bp):
CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACAGATA
Found at i:81077 original size:41 final size:41
Alignment explanation
Indices: 80925--81117 Score: 293
Period size: 41 Copynumber: 4.8 Consensus size: 41
80915 CTTTAAAAAT
*
80925 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
*
80966 CGC-TTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* *
81005 CGCGTTGCGA-TTTATGTATTCTCGTTGCGATTTACGGGTA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
*
81045 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* * *
81086 CACGTTGCGATTTTACGGATACTCGTTGCGAT
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGAT
81118 AGTCAGAATC
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 31 0.22
40 49 0.36
41 58 0.42
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:81091 original size:20 final size:20
Alignment explanation
Indices: 80927--81117 Score: 195
Period size: 20 Copynumber: 9.4 Consensus size: 20
80917 TTAAAAATCG
* **
80927 CGTTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGGATACT
*
80948 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
* *
80968 C-TTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACT
* *
80987 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACT
* * *
81007 CGTTGCGATTTATGTATTCT
1 CGTTGCGATTTACGGATACT
* *
81027 CGTTGCGATTTACGGGTACG
1 CGTTGCGATTTACGGATACT
* **
81047 CGTTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGGATACT
*
81068 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACT
81088 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACT
81109 CGTTGCGAT
1 CGTTGCGAT
81118 AGTCAGAATC
Statistics
Matches: 136, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
19 16 0.12
20 78 0.57
21 42 0.31
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACT
Found at i:81175 original size:20 final size:20
Alignment explanation
Indices: 80924--81178 Score: 118
Period size: 20 Copynumber: 12.7 Consensus size: 20
80914 GCTTTAAAAA
80924 TCGCGTTGCGATTT-TACGTAT
1 TCGCGTTGCGATTTATA-G-AT
**
80945 T-GTCGTTGCGATTTACGGAT
1 TCG-CGTTGCGATTTATAGAT
* *
80965 ACGC-TTGCGATTTA-CGTAT
1 TCGCGTTGCGATTTATAG-AT
* *
80984 TCTCGTTGCGATTTACAGAT
1 TCGCGTTGCGATTTATAGAT
*
81004 ACGCGTTGCGATTTAT-GTAT
1 TCGCGTTGCGATTTATAG-AT
* ** *
81024 TCTCGTTGCGATTTACGGGT
1 TCGCGTTGCGATTTATAGAT
*
81044 ACGCGTTGCGATTT-TACGTAT
1 TCGCGTTGCGATTTATA-G-AT
**
81065 T-GTCGTTGCGATTTACGGAT
1 TCG-CGTTGCGATTTATAGAT
* *
81085 ACACGTTGCGATTT-TACGGAT
1 TCGCGTTGCGATTTATA--GAT
* * *
81106 ACTCGTTGCGA--TAGTCAGAA
1 TCGCGTTGCGATTTA-T-AGAT
* *
81126 TCGAGTTGCAATTTATATG-T
1 TCGCGTTGCGATTTATA-GAT
*
81146 TCGCGTTGCGATTTATATAT
1 TCGCGTTGCGATTTATAGAT
81166 TCGCGTTGCGATT
1 TCGCGTTGCGATT
81179 CTGGAAAATC
Statistics
Matches: 176, Mismatches: 36, Indels: 45
0.68 0.14 0.18
Matches are distributed among these distances:
18 1 0.01
19 16 0.09
20 111 0.63
21 45 0.26
22 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTATAGAT
Found at i:82757 original size:27 final size:26
Alignment explanation
Indices: 82710--82760 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
82700 TTTTTTATAC
*
82710 TTAAAAAAGGAAATACGGAAAAATCA
1 TTAAAAAAGGAAATACAGAAAAATCA
82736 TTAAAAATAGGAAATGA-AGAAAAAT
1 TTAAAAA-AGGAAAT-ACAGAAAAAT
82761 GAAAATACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 14 0.64
28 1 0.05
ACGTcount: A:0.63, C:0.04, G:0.16, T:0.18
Consensus pattern (26 bp):
TTAAAAAAGGAAATACAGAAAAATCA
Found at i:85699 original size:84 final size:84
Alignment explanation
Indices: 85418--86079 Score: 686
Period size: 84 Copynumber: 7.9 Consensus size: 84
85408 TTTGATATGC
**
85418 CTGAGTGTAATCGAACTCGAAGGTC-TTTGTTTACAGATAACCCTTCTAGCCTTGAGTTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
* **
85482 TAAATTTGACATG-CTTCTGAG
66 CAAA--TGATGTGCCTT-TGAG
* * * * * * * * *
85503 TTGAATGTAATCGAACTCAAATGT-TTTTGTTGACAGGTAACCCTTCTCGCCTTAAGTTACGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
* * * *
85567 TAACTTTAATATGCCTTTGAG
66 CAA--ATGATGTGCCTTTGAG
* ** * *
85588 ATGAGTGTAATCGAACTCGAATATCTTTTTTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
*
85653 TAAATGATGTGCCTTTGAG
66 CAAATGATGTGCCTTTGAG
* * * * * * *
85672 CTGAGCGTAATCGAGCTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
*
85737 CAAATAATGTGTGCCTTTGAG
66 CAAATGA--TGTGCCTTTGAG
* * *
85758 CTGAGTGTAATCGAACTCGAAGGTATTTTGTTGGCAAATAACCCTTCTAACCTTGAGTTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
*
85823 CAAATGATGTGCGTTTGAG
66 CAAATGATGTGCCTTTGAG
* * * * * * * * * * *
85842 CTGAGTGTAATAGAACTCGAAGGTGTTTGGATGGAAGAT-AGCCTTCTCGACTTAAGCTATACTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
*
85906 CAAATGATATGCCTTTGAG
66 CAAATGATGTGCCTTTGAG
* ** *
85925 CTGAGTATAATCGAACTCGAAGGTC-TTTGTTGATAGATAACTCTTCTAGCCTTGAGTTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
* *
85989 TAAATGATGTGCCTGTGAG
66 CAAATGATGTGCCTTTGAG
* * * * * *
86008 CTGAATGTAATCGAACTCGAAGGTCTTTTGTTAGCAGACAACCCTTCTTGCCTTGAGCTAAGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
86073 CAAATGA
66 CAAATGA
86080 GCACGATATC
Statistics
Matches: 473, Mismatches: 95, Indels: 19
0.81 0.16 0.03
Matches are distributed among these distances:
82 9 0.02
83 114 0.24
84 152 0.32
85 86 0.18
86 112 0.24
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (84 bp):
CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
CAAATGATGTGCCTTTGAG
Found at i:85754 original size:170 final size:168
Alignment explanation
Indices: 85325--86077 Score: 790
Period size: 170 Copynumber: 4.5 Consensus size: 168
85315 ACCATGCGGT
* * ** * * * *
85325 TGATATGCCTATGAGCTGAATCAAATCGAACTCGAAGGTCTTT-GATGACAGATAGCCCTTCTTG
1 TGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
* * ** * * *
85389 CCTTGAGCTATGCTTTAAAT--T-TG-ATATG-CCTGAGTGTAATCGAACTCGAAGGTC-TTTGT
66 ACTTAAGCTATGCTGCAAATAATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
*
85448 TTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
131 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
** * * * * * *
85486 TTTGACATG-CTTCTGAGTTGAATGTAATCGAACTCAAATGT-TTTTGTTGACAGGTAACCCTTC
1 --TGATGTGCCTT-TGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
* * * * * * **
85549 TCGCCTTAAGTTACGCTGTAACTTTAATATGCCTTTGAGATGAGTGTAATCGAACTCGAATATCT
63 TCGACTTAAGCTATGCTGCAA--ATAATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCT
* * *
85614 TTTTTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAA
126 TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
** *
85657 TGATGTGCCTTTGAGCTGAGCGTAATCGAGCTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
1 TGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
* *
85722 ACTTAAGCTATGCTGCAAATAATGTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTT
66 ACTTAAGCTATGCTGCAAATAA--TATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT
* * * *
85787 GTTGGCAAATAACCCTTCTAACCTTGAGTTATGCTGCAAA
129 GTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * * * * * *
85827 TGATGTGCGTTTGAGCTGAGTGTAATAGAACTCGAAGGTGTTTGGATGGAAGAT-AGCCTTCTCG
1 TGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
* * *
85891 ACTTAAGCTATACTGCAAATGATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTC-TTTGT
66 ACTTAAGCTATGCTGCAAATAATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
* *
85955 TGATAGATAACTCTTCTAGCCTTGAGTTATGCTGTAAA
131 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * * * *
85993 TGATGTGCCTGTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTAGCAGACAACCCTTCTTG
1 TGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
* * *
86058 CCTTGAGCTAAGCTGCAAAT
66 ACTTAAGCTATGCTGCAAAT
86078 GAGCACGATA
Statistics
Matches: 488, Mismatches: 87, Indels: 26
0.81 0.14 0.04
Matches are distributed among these distances:
162 5 0.01
163 60 0.12
165 1 0.00
166 81 0.17
167 59 0.12
168 5 0.01
169 59 0.12
170 179 0.37
171 39 0.08
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (168 bp):
TGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCG
ACTTAAGCTATGCTGCAAATAATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
Found at i:86298 original size:122 final size:122
Alignment explanation
Indices: 86081--86302 Score: 338
Period size: 122 Copynumber: 1.8 Consensus size: 122
86071 TGCAAATGAG
* *
86081 CACGATATCCTACGTAGTGAAGTTGAAATCGTGAATGACCCATTCGTTGTGAAGTTGAGCCTCAA
1 CACGATATCCTACGTAGTGAAGTTGAAATCGTGAATGACCCATTCGTCGTGAAGTTGAACCTCAA
*
86146 ATTAGATATCTTTCATCGTAAAGTTGAAATCCAAGGGGTTGCATTGTTACTGGTGGA
66 ATTAGATATCCTTCATCGTAAAGTTGAAATCCAAGGGGTTGCATTGTTACTGGTGGA
* * * **
86203 CACGATATCCTTCGTCA-TGAAGTTGAAATCGTGGATGACCCCTTCGTCGTGAAGTTGAACCTTG
1 CACGATATCCTACGT-AGTGAAGTTGAAATCGTGAATGACCCATTCGTCGTGAAGTTGAACCTCA
* *
86267 AATTGGATATCCTTCATCGTGAAGTTGAAATCCAAG
65 AATTAGATATCCTTCATCGTAAAGTTGAAATCCAAG
86303 TTAAGTTGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
122 88 0.99
123 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (122 bp):
CACGATATCCTACGTAGTGAAGTTGAAATCGTGAATGACCCATTCGTCGTGAAGTTGAACCTCAA
ATTAGATATCCTTCATCGTAAAGTTGAAATCCAAGGGGTTGCATTGTTACTGGTGGA
Found at i:86516 original size:43 final size:43
Alignment explanation
Indices: 86455--86614 Score: 196
Period size: 43 Copynumber: 3.7 Consensus size: 43
86445 CTGCTTGTGT
* * * *
86455 GTACGAT-TCCCTTCGTCGTGAATTTAAAACCGTGGATGTGTGG
1 GTACGATAT-CCTCCGTCGTGAAGTTAAAATCGTGGATGTGTTG
* * * * **
86498 GCACGATATCCTCTGTCGTGGAGTTGAAATCGTGGATCCGTTG
1 GTACGATATCCTCCGTCGTGAAGTTAAAATCGTGGATGTGTTG
*
86541 GTACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATGTGTTG
1 GTACGATATCCTCCGTCGTGAAGTTAAAATCGTGGATGTGTTG
*
86584 GTACGATATCCTCCGTCGTGAAGTTGAAATC
1 GTACGATATCCTCCGTCGTGAAGTTAAAATC
86615 CAAGCTTGTG
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 98 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (43 bp):
GTACGATATCCTCCGTCGTGAAGTTAAAATCGTGGATGTGTTG
Found at i:86602 original size:86 final size:86
Alignment explanation
Indices: 86455--86614 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 86
86445 CTGCTTGTGT
* * * *
86455 GTACGATTCCCTTCGTCGTGAATTTAAAACCGTGGATGTGTGGGCACGATATCCTCTGTCGTGGA
1 GTACGATTCCCTCCGTCGTGAAGTTAAAACCGTGGATGTGTGGGCACGATATCCTCCGTCGTGAA
86520 GTTGAAATCGTGGATCCGTTG
66 GTTGAAATCGTGGATCCGTTG
* * * *
86541 GTACGATAT-CCTCCGTCGTGGAGTTAAAATCGTGGATGTGTTGGTACGATATCCTCCGTCGTGA
1 GTACGAT-TCCCTCCGTCGTGAAGTTAAAACCGTGGATGTGTGGGCACGATATCCTCCGTCGTGA
86605 AGTTGAAATC
65 AGTTGAAATC
86615 CAAGCTTGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
86 64 0.98
87 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (86 bp):
GTACGATTCCCTCCGTCGTGAAGTTAAAACCGTGGATGTGTGGGCACGATATCCTCCGTCGTGAA
GTTGAAATCGTGGATCCGTTG
Found at i:87159 original size:64 final size:64
Alignment explanation
Indices: 87085--87215 Score: 192
Period size: 64 Copynumber: 2.0 Consensus size: 64
87075 GAGCAAATTG
* * *
87085 TGAGTTCAATATACTTCGCTGTGAAGTTGAAATTTACTTTGAATGAAACTGGAAAA-TTGTTTGT
1 TGAGTACAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAA-TGGAAAAGTTGTTTGT
* * *
87149 TGAGTACAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTGTTTTT
1 TGAGTACAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATGGAAAAGTTGTTTGT
87213 TGA
1 TGA
87216 CAGACGCTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 6 0.10
64 54 0.90
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (64 bp):
TGAGTACAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATGGAAAAGTTGTTTGT
Found at i:87238 original size:63 final size:64
Alignment explanation
Indices: 87098--87241 Score: 184
Period size: 64 Copynumber: 2.3 Consensus size: 64
87088 GTTCAATATA
* * * *
87098 CTTCGCTGTGAAGTTGAAATTTACTTTGAATGAAACTGGAAAATTGTTTGTTGAGTACAATATC
1 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTGTTGAGCACAAGATC
* * * * *
87162 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAA-TTGAAAAGTTGTTTTTTGA-CAGACGCTC
1 CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAA-TTGTTTGTTGAGCACAAGATC
87225 CTTCGCTGTGAAGTTGA
1 CTTCGCTGTGAAGTTGA
87242 GCACCCACCA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
63 27 0.39
64 43 0.61
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (64 bp):
CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTGTTGAGCACAAGATC
Found at i:87402 original size:15 final size:15
Alignment explanation
Indices: 87382--87411 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87372 AGATGCATGC
87382 AACATGAATTAGTTT
1 AACATGAATTAGTTT
*
87397 AACATGAATTGGTTT
1 AACATGAATTAGTTT
87412 TATCTCCTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (15 bp):
AACATGAATTAGTTT
Found at i:93445 original size:24 final size:23
Alignment explanation
Indices: 93402--93454 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
93392 AATTGAATTT
*
93402 ATAAAATTATGTATTAAAATTAA
1 ATAAAATTATGTATTAAAATCAA
* * *
93425 TTAAAATTAATTTATTTAAATCAA
1 ATAAAATT-ATGTATTAAAATCAA
93449 ATAAAA
1 ATAAAA
93455 ATTTGATTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAAAATTATGTATTAAAATCAA
Found at i:100395 original size:3 final size:3
Alignment explanation
Indices: 100387--100431 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
100377 TTAGAAAAAT
100387 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100432 TGATTAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:101338 original size:11 final size:11
Alignment explanation
Indices: 101322--101371 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
101312 AAAGTAAAAT
101322 AATTAAATCTG
1 AATTAAATCTG
101333 AATTAAAT-TG
1 AATTAAATCTG
* *
101343 AAGTAAA-AT-
1 AATTAAATCTG
101352 AATTAAATCTG
1 AATTAAATCTG
101363 AATTAAATC
1 AATTAAATC
101372 GAAAGATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.18
10 10 0.30
11 17 0.52
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (11 bp):
AATTAAATCTG
Found at i:101349 original size:30 final size:30
Alignment explanation
Indices: 101313--101370 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
101303 AGTTGTACTA
101313 AAGTAAAATAATTAAATCTGAATTAAATTG
1 AAGTAAAATAATTAAATCTGAATTAAATTG
101343 AAGTAAAATAATTAAATCTGAATTAAAT
1 AAGTAAAATAATTAAATCTGAATTAAAT
101371 CGAAAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (30 bp):
AAGTAAAATAATTAAATCTGAATTAAATTG
Found at i:102115 original size:2 final size:2
Alignment explanation
Indices: 102108--102133 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102098 GCGTCTATTA
102108 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
102134 GAATTTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102897 original size:19 final size:20
Alignment explanation
Indices: 102857--102906 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
102847 TAGAGAATAA
*
102857 AAATAAAA-AGAAAATAAAT
1 AAATAAAATATAAAATAAAT
*
102876 AAATAAAATATAAAA-AAGT
1 AAATAAAATATAAAATAAAT
*
102895 AAAAAAAATATA
1 AAATAAAATATA
102907 TATATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (20 bp):
AAATAAAATATAAAATAAAT
Found at i:103055 original size:21 final size:23
Alignment explanation
Indices: 103010--103054 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
103000 GGAAATATAT
103010 ATATATATATAATAATTATAAAA
1 ATATATATATAATAATTATAAAA
103033 ATATATA-ATAA-AATTAATAAAA
1 ATATATATATAATAATT-ATAAAA
103055 TGTAATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 10 0.48
23 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
ATATATATATAATAATTATAAAA
Found at i:104941 original size:37 final size:37
Alignment explanation
Indices: 104890--105274 Score: 201
Period size: 37 Copynumber: 11.1 Consensus size: 37
104880 GGGTTTTTTG
*
104890 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * *
104927 TGTTTCAAGGGAAACATAT-TC-A-A-AG-----ATTGG
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT-T
* *
104957 TATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * *
104994 AG-TTCTAAAAGAAACTGTCTCAAGGGAGACGAAA-TT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATTT
*
105030 TGTTTCAAG-GAAAACAGAT-TC-A-A-AG-----ATTT
1 TGTTTCAAGAG-AAACTG-TCTCAAGAGAGACAAAATTT
* *
105059 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAACTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
*
105096 AT-TTT-AAGAGAAAATGTCTCAAGAGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * *
105132 AG-TTCTAAAAGAAATTGTCTCAAGAGAGACGAAA-TT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * **
105168 TGTTTAAAG-GAAA-----AC-A-A-ATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ATTT
* * *
105197 TGTTTCAAGGGAAACTATCTCAAAAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * *
105233 TGTTTTAAGAGAAACTGTATCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
105270 TGTTT
1 TGTTT
105275 TGAGTAAATT
Statistics
Matches: 262, Mismatches: 43, Indels: 86
0.67 0.11 0.22
Matches are distributed among these distances:
27 4 0.02
28 4 0.02
29 34 0.13
30 22 0.08
31 2 0.01
32 3 0.01
33 4 0.02
34 2 0.01
35 9 0.03
36 81 0.31
37 87 0.33
38 10 0.04
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:105084 original size:102 final size:102
Alignment explanation
Indices: 104899--105131 Score: 335
Period size: 101 Copynumber: 2.3 Consensus size: 102
104889 GTGTTTCAAG
* *
104899 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACATATTCAAAGATTGGTATTTCA
1 AGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGAAAACAGATTCAAAGATTGGTATTTCA
104964 AGAGAAACTGTCTCAAGAGAGACAAAAC-TTAGTTCTAAA
65 AGAGAAACTGTCTCAAGAGAGAC-AAACTTTA-TTCTAAA
* * *
105003 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACAGATTCAAAGATT-TTGTTTCAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACAGATTCAAAGATTGGTATTTCAA
* * *
105067 GGGAAACTGTCTCAAGAGAGACAAACTTTATTTTAAG
66 GAGAAACTGTCTCAAGAGAGACAAACTTTATTCTAAA
* *
105104 AGAAAATGTCTCAAGAGAGACAAAATTT
1 AGAAACTGTCTCAAGGGAGACAAAATTT
105132 AGTTCTAAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
101 34 0.29
102 31 0.26
103 28 0.24
104 24 0.21
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (102 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACAGATTCAAAGATTGGTATTTCAA
GAGAAACTGTCTCAAGAGAGACAAACTTTATTCTAAA
Found at i:105116 original size:138 final size:138
Alignment explanation
Indices: 104957--105269 Score: 518
Period size: 138 Copynumber: 2.3 Consensus size: 138
104947 CAAAGATTGG
* *
104957 TATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGGGAG
1 TATTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAGAG
* * * *
105022 ACGAAATTTGTTTCAAGGAAAACAGATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
66 ACGAAATTTGTTTAAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAAAGAG
*
105087 ACAAACTT
131 ACAAAATT
* * *
105095 TATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAAAGAAATTGTCTCAAGAGAG
1 TATTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAGAG
105160 ACGAAATTTGTTTAAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAAAGAG
66 ACGAAATTTGTTTAAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAAAGAG
105225 ACAAAATT
131 ACAAAATT
* *
105233 TGTTTTAAGAGAAACTGTATCAAGAGAGACAAAACTT
1 TATTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTT
105270 TGTTTTGAGT
Statistics
Matches: 161, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 161 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (138 bp):
TATTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAGAG
ACGAAATTTGTTTAAAGGAAAACAAATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAAAGAG
ACAAAATT
Found at i:105247 original size:36 final size:37
Alignment explanation
Indices: 105195--105275 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 37
105185 ATTCAAAGAT
* * *
105195 TTTGTTTCAAGGGAAACTATCTCAAAAGAGACAAAA-
1 TTTGTTTTAAGAGAAACTATATCAAAAGAGACAAAAC
* *
105231 TTTGTTTTAAGAGAAACTGTATCAAGAGAGACAAAAC
1 TTTGTTTTAAGAGAAACTATATCAAAAGAGACAAAAC
105268 TTTGTTTT
1 TTTGTTTT
105276 GAGTAAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 31 0.79
37 8 0.21
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (37 bp):
TTTGTTTTAAGAGAAACTATATCAAAAGAGACAAAAC
Found at i:106827 original size:95 final size:94
Alignment explanation
Indices: 106595--106854 Score: 285
Period size: 95 Copynumber: 2.7 Consensus size: 94
106585 AGCTAGCTGA
* * * * *
106595 ATCCATAAAGCCGGGGCATTTAACCAATT-TCTCTAGAGGGAGAACTTAA--TATTATTGTATAT
1 ATCCATAAAGCCAGGGCGTTTAACCAATTCT-TCTAAAGGGAAAACTCAAGCT-TTATTG----T
* *
106657 ATATTATAATCGCCTTTATCAGGCTAGCTGAATTT
60 ATATTATAATCACATTTATCAGGCTAGCTGAATTT
* *
106692 ATCCATAAAGCCGGGGCGTTTAACCAATTTTTCTAAAGGGAAAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCAGGGCGTTTAACCAATTCTTCTAAAGGGAAAACTCAAGCTTTATTGTATATTA
*
106757 TACTCACATTTATCAGGCTAGCTGAATCTT
66 TAATCACATTTATCAGGCTAGCTGAAT-TT
* * * *
106787 ATCCGTAAAGTCAGGGCGTTTAACCAATTGCTT-TAGAGGGACAACTCAAGCTTTATTGTATATA
1 ATCCATAAAGCCAGGGCGTTTAACCAATT-CTTCTAAAGGGAAAACTCAAGCTTTATTGTATAT-
106851 TATA
64 TATA
106855 TAATTATAAT
Statistics
Matches: 144, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
94 31 0.22
95 56 0.39
96 6 0.04
97 43 0.30
98 7 0.05
99 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (94 bp):
ATCCATAAAGCCAGGGCGTTTAACCAATTCTTCTAAAGGGAAAACTCAAGCTTTATTGTATATTA
TAATCACATTTATCAGGCTAGCTGAATTT
Found at i:110993 original size:17 final size:16
Alignment explanation
Indices: 110936--110983 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
110926 TGAAATAAGG
*
110936 AAAGTAATAAAAAAAT
1 AAAGTAATATAAAAAT
*
110952 AAAG-AAGATAAAAAT
1 AAAGTAATATAAAAAT
110967 AAAGTAAATATAAAAAT
1 AAAGT-AATATAAAAAT
110984 GGAAAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.48
16 4 0.15
17 10 0.37
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (16 bp):
AAAGTAATATAAAAAT
Found at i:111083 original size:4 final size:4
Alignment explanation
Indices: 111074--111100 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
111064 ATGATAATGC
111074 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
111101 ACTAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:111390 original size:15 final size:14
Alignment explanation
Indices: 111352--111391 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 14
111342 ATATATATAT
111352 ATAAAACAAAAAATA
1 ATAAAA-AAAAAATA
111367 ATAAGAAAAAAAATA
1 ATAA-AAAAAAAATA
111382 ATTAAAAAAA
1 A-TAAAAAAA
111392 TTAAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (14 bp):
ATAAAAAAAAAATA
Found at i:113664 original size:63 final size:62
Alignment explanation
Indices: 113562--113683 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 62
113552 TAGTCACATA
* *
113562 ATTTTATTTATTTTGATTTTTGCATATTAATTTCATTATTTTACATTATGGTCACATGTTTAC
1 ATTTTATTTATTTTGAATTTTGCATATTAATTTCATTA-TTTACAATATGGTCACATGTTTAC
* *
113625 ATTTTATTTATTTT-AATTTTG-ATACATTATTTTTC-TTATTTACAATATGGTCACTTGTT
1 ATTTTATTTATTTTGAATTTTGCAT--ATTA-ATTTCATTATTTACAATATGGTCACATGTT
113684 ATGCTTCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
61 2 0.04
62 25 0.48
63 21 0.40
64 4 0.08
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.58
Consensus pattern (62 bp):
ATTTTATTTATTTTGAATTTTGCATATTAATTTCATTATTTACAATATGGTCACATGTTTAC
Found at i:113984 original size:14 final size:14
Alignment explanation
Indices: 113967--113998 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
113957 TTTGTAACTT
*
113967 CTAACTTCTAACCG
1 CTAACTACTAACCG
113981 CTAACTACTAACCG
1 CTAACTACTAACCG
113995 CTAA
1 CTAA
113999 TTTTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.25
Consensus pattern (14 bp):
CTAACTACTAACCG
Found at i:114214 original size:14 final size:14
Alignment explanation
Indices: 114195--114230 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
114185 TTTTTATTTA
*
114195 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
114209 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
114223 TTTAATTT
1 TTTAATTT
114231 ATTTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:114302 original size:19 final size:19
Alignment explanation
Indices: 114278--114317 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
114268 TGTACTTTAA
114278 TTTTAATAGT-TTTATATAT
1 TTTTAATAGTCTTTA-ATAT
*
114297 TTTTAATTGTCTTTAATAT
1 TTTTAATAGTCTTTAATAT
114316 TT
1 TT
114318 GTATCCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTAATAGTCTTTAATAT
Found at i:129636 original size:14 final size:14
Alignment explanation
Indices: 129608--129672 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
129598 ATAATGTTAA
129608 TTAAGATAAAT-AAT
1 TTAA-ATAAATAAAT
129622 TTAAATAAATAAAT
1 TTAAATAAATAAAT
129636 TTGGAAAATAAGATAAAT
1 TT---AAATAA-ATAAAT
* *
129654 TAAAATAAATATAT
1 TTAAATAAATAAAT
129668 TTAAA
1 TTAAA
129673 ATTGAAAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 6 0.14
14 18 0.42
15 6 0.14
17 6 0.14
18 7 0.16
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (14 bp):
TTAAATAAATAAAT
Found at i:131292 original size:9 final size:9
Alignment explanation
Indices: 131266--131299 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
131256 TTAAAAAACT
131266 AAAATAACAA
1 AAAATAA-AA
*
131276 ATAATAAAA
1 AAAATAAAA
131285 AAAATAAAA
1 AAAATAAAA
131294 AAAATA
1 AAAATA
131300 TAGAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAATAAAA
Found at i:132960 original size:6 final size:7
Alignment explanation
Indices: 132939--132964 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
132929 GTTCGAAAGG
132939 AAATAAA
1 AAATAAA
132946 AAATAAA
1 AAATAAA
132953 AAATAAA
1 AAATAAA
132960 AAATA
1 AAATA
132965 TAATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:135138 original size:18 final size:18
Alignment explanation
Indices: 135101--135143 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
135091 AAGGAATGAA
*
135101 AAATAAAATTAAAATGTT
1 AAATAAAATAAAAATGTT
*
135119 AATTAAAATAAATAAT-TT
1 AAATAAAATAAA-AATGTT
135137 AAATAAA
1 AAATAAA
135144 CAAATTAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATAAAATAAAAATGTT
Found at i:137254 original size:25 final size:24
Alignment explanation
Indices: 137218--137268 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
137208 TTTTGACATG
* *
137218 TTTTTTTATATTTTTGTGTTACGT
1 TTTTTTTATATTCTTGTGGTACGT
*
137242 TTTTTTTCCTATTCTTGTGGTACGT
1 TTTTTTT-ATATTCTTGTGGTACGT
137267 TT
1 TT
137269 CTTATGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.10, C:0.10, G:0.14, T:0.67
Consensus pattern (24 bp):
TTTTTTTATATTCTTGTGGTACGT
Found at i:144226 original size:14 final size:14
Alignment explanation
Indices: 144198--144262 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
144188 ATAATGTTAA
144198 TTAAGATAAAT-AAT
1 TTAA-ATAAATAAAT
144212 TTAAATAAATAAAT
1 TTAAATAAATAAAT
144226 TTGGAAAATAAGATAAAT
1 TT---AAATAA-ATAAAT
* *
144244 TAAAATAAATATAT
1 TTAAATAAATAAAT
144258 TTAAA
1 TTAAA
144263 ATAGAAAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 6 0.14
14 18 0.42
15 6 0.14
17 6 0.14
18 7 0.16
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (14 bp):
TTAAATAAATAAAT
Found at i:145876 original size:22 final size:21
Alignment explanation
Indices: 145851--145910 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
145841 AACCAAATTT
*
145851 TAAAAAAATAAAATACAAATAA
1 TAAAAAAATAAAATAAAAAT-A
* * *
145873 TAAAAATATAGAATAAAAATG
1 TAAAAAAATAAAATAAAAATA
*
145894 TAATAAACATAAAATAA
1 TAA-AAAAATAAAATAA
145911 GGACCTAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (21 bp):
TAAAAAAATAAAATAAAAATA
Found at i:150082 original size:23 final size:23
Alignment explanation
Indices: 150029--150083 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
150019 AAGTTCATTT
*
150029 TGACACGTTTTTCTTTACTCTTA
1 TGACACGTTTTTCTCTACTCTTA
* * ** *
150052 TAATACGTTTTTCTCTGTTCTTG
1 TGACACGTTTTTCTCTACTCTTA
150075 TGACACGTT
1 TGACACGTT
150084 CTTTATAGTT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.13, T:0.51
Consensus pattern (23 bp):
TGACACGTTTTTCTCTACTCTTA
Found at i:151121 original size:18 final size:18
Alignment explanation
Indices: 151084--151126 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
151074 AAGGAATGAA
*
151084 AATTAAAATTAAAATGTT
1 AATTAAAATAAAAATGTT
151102 AATTAAAATAAATAAT-TT
1 AATTAAAATAAA-AATGTT
*
151120 AAATAAA
1 AATTAAA
151127 CAAATTAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTAAAATAAAAATGTT
Found at i:153229 original size:24 final size:25
Alignment explanation
Indices: 153197--153249 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
153187 ATTTTGACAT
* *
153197 GTTTTTTTT-ATATTTTTGTGTTAC
1 GTTTTTTTTCATATTCTTGTGGTAC
*
153221 GTTTTTTTTCCTATTCTTGTGGTAC
1 GTTTTTTTTCATATTCTTGTGGTAC
153246 GTTT
1 GTTT
153250 CTTATGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.09, C:0.09, G:0.15, T:0.66
Consensus pattern (25 bp):
GTTTTTTTTCATATTCTTGTGGTAC
Found at i:155660 original size:22 final size:23
Alignment explanation
Indices: 155627--155669 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
155617 ATGGATGCAC
155627 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
155650 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
155670 GCAGGGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:155683 original size:21 final size:21
Alignment explanation
Indices: 155613--155711 Score: 123
Period size: 21 Copynumber: 4.7 Consensus size: 21
155603 CGGTGTTTGA
*
155613 GTGCATGGATGCACTGCA-TG
1 GTGCATGGATGCACTGCAGGG
*
155633 GTGCATCGATGCACT--AGTGCAG
1 GTGCATGGATGCACTGCAG-G--G
155655 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
*
155676 GTGTATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCAGGG
155697 GTGCATGGATGCACT
1 GTGCATGGATGCACT
155712 TTGACACCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.01
20 14 0.21
21 35 0.51
22 15 0.22
23 1 0.01
24 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.37, T:0.23
Consensus pattern (21 bp):
GTGCATGGATGCACTGCAGGG
Found at i:155801 original size:15 final size:13
Alignment explanation
Indices: 155760--155794 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
155750 ATGGACTTTG
*
155760 AATTATTTTTTAA
1 AATTTTTTTTTAA
*
155773 ACTTTTTTTTTAA
1 AATTTTTTTTTAA
155786 AATTTTTTT
1 AATTTTTTT
155795 GATTAAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
AATTTTTTTTTAA
Found at i:156133 original size:3 final size:3
Alignment explanation
Indices: 156125--156199 Score: 89
Period size: 3 Copynumber: 25.0 Consensus size: 3
156115 AATTTTTAGT
** * *
156125 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
156173 ATA -TA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA
156200 AATATATATA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
2 2 0.03
3 56 0.92
4 3 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:156144 original size:12 final size:12
Alignment explanation
Indices: 156127--156217 Score: 76
Period size: 12 Copynumber: 7.1 Consensus size: 12
156117 TTTTTAGTTT
156127 ATTATTATTAAA
1 ATTATTATTAAA
**
156139 ATTATTATTATT
1 ATTATTATTAAA
156151 ATTATTA-TAAA
1 ATTATTATTAAA
156162 TATTATTATTAATA
1 -ATTATTATTAA-A
*
156176 TATTATTATTATTA
1 -ATTATTATTA-AA
*
156190 TTTATTATTAAA
1 ATTATTATTAAA
156202 TATATATATATTAAA
1 -AT-TAT-TATTAAA
156217 A
1 A
156218 ATTACATCAG
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
11 2 0.03
12 25 0.39
13 13 0.20
14 17 0.27
15 7 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:156245 original size:12 final size:12
Alignment explanation
Indices: 156228--156258 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
156218 ATTACATCAG
156228 AAGCCCAACAAA
1 AAGCCCAACAAA
156240 AAGCCCAACAAA
1 AAGCCCAACAAA
156252 AAGCCCA
1 AAGCCCA
156259 GTTCAAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.35, G:0.10, T:0.00
Consensus pattern (12 bp):
AAGCCCAACAAA
Found at i:158570 original size:15 final size:16
Alignment explanation
Indices: 158539--158581 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
158529 TTTTTTTTCA
158539 AATTTTTTATTACATAT
1 AATTTTTTATTA-ATAT
158556 AATTTTTTATT-ATAT
1 AATTTTTTATTAATAT
*
158571 ATTTTTTTATT
1 AATTTTTTATT
158582 TTATTCAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.56
17 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
AATTTTTTATTAATAT
Found at i:158585 original size:17 final size:17
Alignment explanation
Indices: 158539--158585 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
158529 TTTTTTTTCA
**
158539 AATTTTTTATTACATAT
1 AATTTTTTATTTTATAT
158556 AATTTTTTA--TTATAT
1 AATTTTTTATTTTATAT
*
158571 ATTTTTTTATTTTAT
1 AATTTTTTATTTTAT
158586 TCAGGTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 12 0.48
17 13 0.52
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
AATTTTTTATTTTATAT
Found at i:159369 original size:76 final size:75
Alignment explanation
Indices: 159243--159417 Score: 215
Period size: 76 Copynumber: 2.3 Consensus size: 75
159233 ATTAACAAGA
** * *
159243 AGCAAATATTGGGGCATACTGAAAACCCTTTTTCAATCAGAATCAGGAATGTTGATGTATCCTGA
1 AGCAAATGCTGGGGCATGCTG-AAACCCTTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGA
* *
159308 ATGTTTATATC
65 ACGTTCATATC
* * **
159319 AGCAAAATGCTGGGGCATGCTGAAAGCCTTTTTCAATCAGAATGAAGAATGTTGATGTATTTTGA
1 AGC-AAATGCTGGGGCATGCTGAAACCCTTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGA
*
159384 ACGTTCGTATC
65 ACGTTCATATC
* *
159395 AGCAATTGTTGGGGCATGCTGAA
1 AGCAAATGCTGGGGCATGCTGAA
159418 GGCCCACATC
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
75 18 0.21
76 52 0.61
77 15 0.18
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (75 bp):
AGCAAATGCTGGGGCATGCTGAAACCCTTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAA
CGTTCATATC
Found at i:160376 original size:54 final size:53
Alignment explanation
Indices: 160294--160451 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 53
160284 TGATTGAGAA
*
160294 ATTTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATTTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATG-TTTACGAAC
* * *
160348 ATTTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCCAGTGTTT---TAC
1 ATTTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAAC
* * * * *
160398 ATCTGAGCAGAAACCACATG-AGATGATGCATGTATTGTCAAATGTTTTACGAAC
1 ATTTGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATG-TTTACGAAC
160452 CAGTTATTCT
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
50 37 0.43
51 4 0.05
53 3 0.03
54 43 0.49
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (53 bp):
ATTTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAAC
Found at i:160436 original size:50 final size:50
Alignment explanation
Indices: 160297--160447 Score: 160
Period size: 50 Copynumber: 2.9 Consensus size: 50
160287 TTGAGAAATT
* * * *
160297 TGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATT
1 TGAGCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATG-TTT---TACATC
* * *
160351 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCCAGTGTTTTACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATGTTTTACATC
* * *
160401 TGAGCAGAAACCACATG-AGATGATGCATGTATTGTCAAATGTTTTAC
1 TGAGCAGAAACCACA-GAAAAGGATGAATGTATTGTCAAATGTTTTAC
160448 GAACCAGTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 43 0.51
51 1 0.01
53 3 0.04
54 38 0.45
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (50 bp):
TGAGCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATGTTTTACATC
Found at i:160832 original size:22 final size:22
Alignment explanation
Indices: 160803--160857 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
160793 ATCTATACTC
160803 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
160825 TTTAAAGATGATAGATTCTGTT
1 TTCAAAGATGATAGATTCTCTT
160847 TTCAAAGATGA
1 TTCAAAGATGA
160858 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:162509 original size:76 final size:76
Alignment explanation
Indices: 161534--162475 Score: 1713
Period size: 76 Copynumber: 12.4 Consensus size: 76
161524 CTATTTCCCA
*
161534 CATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
161599 AGCCTTAGGGT
66 AGCCTTAGGGT
161610 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
161675 AGCCTTAGGGT
66 AGCCTTAGGGT
161686 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
161751 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
161762 CATCTGTAAGTCCTACAGTGAATGATGTTTCCAAAAAGCCTTTGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
161827 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
161838 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
161903 AGCCTTAGGGT
66 AGCCTTAGGGT
161914 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
161979 AGCCTTAGGGT
66 AGCCTTAGGGT
*
161990 CATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
162055 AGCCTTAGGGT
66 AGCCTTAGGGT
162066 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
162131 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
162142 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
162207 AGCCTTAGGGT
66 AGCCTTAGGGT
*
162218 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
162283 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
162294 TATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
162359 AACCTTAGGGT
66 AGCCTTAGGGT
* * * *
162370 CATCTGTAAGTCCTGCAGTACATAATGTTTCCAAAAAGCCTTCGCGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
162435 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
162446 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
162476 TTAAGACCTC
Statistics
Matches: 833, Mismatches: 33, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 833 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:162630 original size:3 final size:3
Alignment explanation
Indices: 162622--162694 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
162612 AATTTTTCGT
** * * *
162622 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
162670 TAA TAA TTTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA
162695 AATATATATA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
3 55 0.96
4 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:163860 original size:15 final size:15
Alignment explanation
Indices: 163840--163869 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
163830 GATTTCTTAA
163840 TTTTAATAATTGATT
1 TTTTAATAATTGATT
*
163855 TTTTAATCATTGATT
1 TTTTAATAATTGATT
163870 AATAATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (15 bp):
TTTTAATAATTGATT
Found at i:171738 original size:114 final size:114
Alignment explanation
Indices: 171533--171866 Score: 553
Period size: 114 Copynumber: 2.9 Consensus size: 114
171523 CATGTTCTTG
*
171533 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAAGAGCCCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
171598 GGTATGAACCCCAAAACCAATAATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
171647 TAGTAGAAATAAAGAGCCCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAAGAGCCCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
171712 GGTATGAACCCCAAAATCAATCATTGGATTTAAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
* * * * *
171761 TAGTAGAAAT-AAGAAGACTCAATAGCCTCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATT
1 TAGTAGAAATAAAG-AGCCCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTT
* *
171825 TGGTATGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
65 TGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
171867 CTGCATGATC
Statistics
Matches: 206, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
113 3 0.01
114 203 0.99
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAAGAGCCCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
Found at i:174257 original size:53 final size:53
Alignment explanation
Indices: 174177--174278 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 53
174167 ATGATGAGAA
**
174177 ATTTGAGCAGAAGCCACAGAAAAGGATGAA-TGTGTGTCAAATGCTTTACGAAC
1 ATTTGAGCAGAAAACACAGAAAAGGATGAAGTGT-TGTCAAATGCTTTACGAAC
* *
174230 ATTTGAGCAGAAAACACAGAAAAGGATGAAGTGTTGTCAAGTGTTTTAC
1 ATTTGAGCAGAAAACACAGAAAAGGATGAAGTGTTGTCAAATGCTTTAC
174279 ATCTGAGCAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 41 0.93
54 3 0.07
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (53 bp):
ATTTGAGCAGAAAACACAGAAAAGGATGAAGTGTTGTCAAATGCTTTACGAAC
Found at i:174712 original size:22 final size:22
Alignment explanation
Indices: 174683--174737 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
174673 ATCTACACTC
174683 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
174705 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
174727 TTCAAAGATGA
1 TTCAAAGATGA
174738 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:175875 original size:75 final size:76
Alignment explanation
Indices: 175414--176118 Score: 1250
Period size: 76 Copynumber: 9.4 Consensus size: 76
175404 CTATTTCCCA
175414 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
175479 AGCCTTAGGGT
66 AGCCTTAGGGT
*
175490 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
175555 AGCCTTAGGGT
66 AGCCTTAGGGT
175566 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
175631 AGCCTTAGGGT
66 AGCCTTAGGGT
175642 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTT--TGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
175704 AGCCTTAGGGT
66 AGCCTTAGGGT
*
175715 CA--TGTAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
175778 AGCCGTAGGGT
66 AGCCTTAGGGT
*
175789 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG-ATTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
175853 AGCCTTAGGGT
66 AGCCTTAGGGT
*
175864 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCC-TCGGGAGC-TTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
175927 AAGCCTTAGGGT
65 AAGCCTTAGGGT
175939 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
176003 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
176014 CATCTGTAAGTCCTGCAGTACATGATGTTTCCAAAAAGCC-TCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
176078 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
176089 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
176119 TTAAGACTCT
Statistics
Matches: 606, Mismatches: 14, Indels: 19
0.95 0.02 0.03
Matches are distributed among these distances:
71 44 0.07
72 4 0.01
73 22 0.04
74 37 0.06
75 249 0.41
76 250 0.41
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:175967 original size:150 final size:151
Alignment explanation
Indices: 175414--176118 Score: 1262
Period size: 150 Copynumber: 4.7 Consensus size: 151
175404 CTATTTCCCA
175414 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
175479 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTT
175544 GATGTTTTCAAAGCCTTAGGGT
130 GATGTTTTCAAAGCCTTAGGGT
175566 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
175631 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT-
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTG
175695 -TGTTTTCAAAGCCTTAGGGT
131 ATGTTTTCAAAGCCTTAGGGT
*
175715 CA--TGTAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
175778 AGCCGTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTG
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTG
175843 ATGTTTTCAAAGCCTTAGGGT
131 ATGTTTTCAAAGCCTTAGGGT
*
175864 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCC-TCGGGAGC-TTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
175927 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
175992 GATGTTTTCAAAGCCTTAGGGT
130 GATGTTTTCAAAGCCTTAGGGT
* *
176014 CATCTGTAAGTCCTGCAGTACATGATGTTTCCAAAAAGCC-TCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
176078 AGCCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTT
176119 TTAAGACTCT
Statistics
Matches: 535, Mismatches: 12, Indels: 14
0.95 0.02 0.02
Matches are distributed among these distances:
147 122 0.23
149 60 0.11
150 183 0.34
151 38 0.07
152 132 0.25
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (151 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTG
ATGTTTTCAAAGCCTTAGGGT
Found at i:176295 original size:15 final size:14
Alignment explanation
Indices: 176261--176334 Score: 62
Period size: 14 Copynumber: 5.2 Consensus size: 14
176251 TTTTCGTTAT
* *
176261 TATTATTAAAATAT
1 TATTATTAATATAA
**
176275 TATTATTTTTATAAA
1 TATTATTAATAT-AA
176290 TATTATTAATATAA
1 TATTATTAATATAA
*
176304 TATTATT-ATATTA
1 TATTATTAATATAA
176317 T-TATATTAATATATA
1 TAT-TATTAATATA-A
176332 TAT
1 TAT
176335 ATATATATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
12 1 0.02
13 10 0.21
14 22 0.47
15 13 0.28
16 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTAATATAA
Found at i:176306 original size:32 final size:34
Alignment explanation
Indices: 176258--176321 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
176248 TAATTTTCGT
*
176258 TATTATTATTAAAATATTATTAT-TT-TTATAAA
1 TATTATTAATAAAATATTATTATATTATTATAAA
*
176290 TATTATTAATATAATATTATTATATTATTATA
1 TATTATTAATAAAATATTATTATATTATTATA
176322 TTAATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 21 0.75
33 2 0.07
34 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
TATTATTAATAAAATATTATTATATTATTATAAA
Found at i:176315 original size:22 final size:25
Alignment explanation
Indices: 176294--176344 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 25
176284 TATAAATATT
176294 ATTAATA-TAATAT-TAT-TATATT
1 ATTAATATTAATATATATATATATT
176316 ATT-ATATTAATATATATATATATAT
1 ATTAATATTAATATATATATATAT-T
176341 ATTA
1 ATTA
176345 CAAATTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 3 0.12
22 9 0.38
23 3 0.12
24 5 0.21
25 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTAATATTAATATATATATATATT
Found at i:176316 original size:8 final size:8
Alignment explanation
Indices: 176257--176344 Score: 56
Period size: 8 Copynumber: 10.8 Consensus size: 8
176247 CTAATTTTCG
176257 TTATTATTA
1 TTATTA-TA
**
176266 TTAAAATA
1 TTATTATA
176274 TTATTAT-
1 TTATTATA
176281 TT-TTATAA
1 TTATTAT-A
*
176289 ATATTATTA
1 TTATTA-TA
* *
176298 ATATAATA
1 TTATTATA
176306 TTATTATA
1 TTATTATA
176314 TTATTATA
1 TTATTATA
*
176322 TTAATATA
1 TTATTATA
176330 -TATATATA
1 TTAT-TATA
176338 TATATTA
1 T-TATTA
176345 CAAATTACAT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
6 4 0.06
7 4 0.06
8 35 0.56
9 15 0.24
10 4 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:177724 original size:2 final size:2
Alignment explanation
Indices: 177717--177746 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
177707 ATTATATTTA
177717 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
177747 TGGTTAATAA
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:178724 original size:21 final size:21
Alignment explanation
Indices: 178698--178744 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
178688 ATTCTGACTA
178698 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
178719 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
178740 TCGCA
1 TCGCA
178745 ATGCAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:178765 original size:20 final size:20
Alignment explanation
Indices: 178740--178963 Score: 178
Period size: 20 Copynumber: 11.3 Consensus size: 20
178730 TTTTCCTAAT
* *
178740 TCGCAATGCAAATACGTAAA
1 TCGCAATGCGATTACGTAAA
178760 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
178780 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* * * *
178800 TCGTAATGAGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
*
178821 TCGCTATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
178841 TCGCAATGCG---ACGT-AA
1 TCGCAATGCGATTACGTAAA
* *
178857 CCGCATTGCGATTTACGT-AA
1 TCGCAATGCGA-TTACGTAAA
*
178877 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGA-TTACGTAAA
* * *
178897 TCGCATTACGATTTTAC-TAAT
1 TCGCAATGCGA--TTACGTAAA
* *
178918 TCGCATTGCGATTTACAT-AA
1 TCGCAATGCGA-TTACGTAAA
*
178938 TCGCATTGCGATTTA-GTAAA
1 TCGCAATGCGA-TTACGTAAA
178958 TCGCAA
1 TCGCAA
178964 CGAGATTCTG
Statistics
Matches: 174, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
16 10 0.06
17 4 0.02
19 1 0.01
20 127 0.73
21 32 0.18
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:178830 original size:41 final size:40
Alignment explanation
Indices: 178740--178848 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 40
178730 TTTTCCTAAT
* * * *
178740 TCGCAATGCAAATACGTAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAATCGCAATGAGATTACGAAAA
* *
178780 TCGCAATGCGATTACGTAAATCGTAATGAGAATTAGGAAAA
1 TCGCAATGCGATTACGTAAATCGCAATGAG-ATTACGAAAA
*
178821 TCGCTATGCGATTACGTAAATCGCAATG
1 TCGCAATGCGATTACGTAAATCGCAATG
178849 CGACGTAACC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 26 0.43
41 34 0.57
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (40 bp):
TCGCAATGCGATTACGTAAATCGCAATGAGATTACGAAAA
Found at i:178925 original size:41 final size:41
Alignment explanation
Indices: 178851--178951 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
178841 TCGCAATGCG
*
178851 ACGTAACCGCATTGCGA-TTTACGTAATCGCATTGCGATTT
1 ACGTAATCGCATTGCGATTTTACGTAATCGCATTGCGATTT
*
178891 ACGTAATCGCATTACGATTTTAC-TAATTCGCATTGCGATTT
1 ACGTAATCGCATTGCGATTTTACGTAA-TCGCATTGCGATTT
*
178932 ACATAATCGCATTGCGATTT
1 ACGTAATCGCATTGCGATTT
178952 AGTAAATCGC
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
40 18 0.33
41 37 0.67
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (41 bp):
ACGTAATCGCATTGCGATTTTACGTAATCGCATTGCGATTT
Found at i:179849 original size:24 final size:24
Alignment explanation
Indices: 179822--179875 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
179812 AGTATTCAAA
*
179822 TTTGATTTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
179846 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
179870 TTTGAT
1 TTTGAT
179876 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:182419 original size:19 final size:19
Alignment explanation
Indices: 182377--182420 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
182367 CAATCATCTT
*
182377 AATGTCTATCGCAACGTGGA
1 AATGACTATCGCAAC-TGGA
182397 AATGACTATCGCAA-TGCGA
1 AATGACTATCGCAACTG-GA
182416 AATGA
1 AATGA
182421 AAATCACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.09
19 7 0.32
20 13 0.59
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (19 bp):
AATGACTATCGCAACTGGA
Found at i:182446 original size:33 final size:33
Alignment explanation
Indices: 182404--182530 Score: 220
Period size: 33 Copynumber: 3.8 Consensus size: 33
182394 GGAAATGACT
*
182404 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
182437 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
182470 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
182503 ATCGCAAAT-CGAAATGAAAATCGCAACG
1 ATCGC-AATGCGAAATGAAAATCGCAACG
182531 CGAATTTAGT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
33 88 0.97
34 3 0.03
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:182460 original size:19 final size:19
Alignment explanation
Indices: 182404--182495 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
182394 GGAAATGACT
182404 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
182423 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
182437 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
182456 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
182470 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
182489 ATCGCAA
1 ATCGCAA
182496 CGAGGGAATC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 19 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 26 0.46
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:182474 original size:14 final size:14
Alignment explanation
Indices: 182422--182509 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
182412 GCGAAATGAA
*
182422 AATCACAACGAGAG
1 AATCGCAACGAGAG
*
182436 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
182455 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
182469 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
182488 AATCGCAACGAGGG
1 AATCGCAACGAGAG
182502 AATCGCAA
1 AATCGCAA
182510 ATCGAAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 26 0.45
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:182526 original size:19 final size:18
Alignment explanation
Indices: 182404--182528 Score: 85
Period size: 19 Copynumber: 7.4 Consensus size: 18
182394 GGAAATGACT
182404 ATCGCAATGCGAAATGAAA
1 ATCGCAAT-CGAAATGAAA
* *
182423 ATCACAA-CG--A-GAGA
1 ATCGCAATCGAAATGAAA
182437 ATCGCAATGCGAAATGAAA
1 ATCGCAAT-CGAAATGAAA
*
182456 ATCGCAA-CG--A-GAGA
1 ATCGCAATCGAAATGAAA
182470 ATCGCAATGCGAAATGAAA
1 ATCGCAAT-CGAAATGAAA
**
182489 ATCGCAA-CG--A-GGGA
1 ATCGCAATCGAAATGAAA
182503 ATCGCAAATCGAAATGAAA
1 ATCGC-AATCGAAATGAAA
182522 ATCGCAA
1 ATCGCAA
182529 CGCGAATTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 31
0.66 0.08 0.25
Matches are distributed among these distances:
14 26 0.32
15 5 0.06
16 6 0.07
17 6 0.07
18 5 0.06
19 33 0.41
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (18 bp):
ATCGCAATCGAAATGAAA
Found at i:182565 original size:19 final size:19
Alignment explanation
Indices: 182530--182575 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
182520 AAATCGCAAC
* *
182530 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGCT
182549 GCGATTTTAGTTTCGCGCT
1 GCGATTTTAGTTTCGCGCT
182568 GCGATTTT
1 GCGATTTT
182576 GTCGTTGCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.43
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGCT
Found at i:182731 original size:14 final size:14
Alignment explanation
Indices: 182712--182748 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
182702 CATCAATTAA
182712 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
182726 ACAAATCATCTTTT
1 ACAAATCAACTTTT
182740 ACAAATCAA
1 ACAAATCAA
182749 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:184136 original size:21 final size:21
Alignment explanation
Indices: 184070--184136 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
184060 GTGAATCGGG
*
184070 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
184090 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
184112 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
184133 CTCT
1 CTCT
184137 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:184626 original size:19 final size:19
Alignment explanation
Indices: 184602--184662 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
184592 AAAAAAGACT
184602 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
184621 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
184635 ATTGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
184654 ATCGCAACG
1 ATCGCAACG
184663 ACAAAATCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 9 0.27
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.55
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Done.