Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 118 of 143
Found at i:35678789 original size:29 final size:30
Alignment explanation
Indices: 35678717--35679147 Score: 293
Period size: 29 Copynumber: 14.8 Consensus size: 30
35678707 ACTCTCGAGA
* **
35678717 AAAAATGGTAATTTTGGGAAAATTTGGGG-C
1 AAAAAT-GTAATTTTTGGAAGTTTTGGGGTC
**
35678747 TAAAAATG--ATATTTTAAAAGTTTTGGGGTC
1 -AAAAATGTAAT-TTTTGGAAGTTTTGGGGTC
* * * ***
35678777 AAAAATGGAATTTTTAGAA-ATTCAAGGTC
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
* **
35678806 AAAAATGGAATTTTTGGAAGTTCGAGGGGT-
1 AAAAATGTAATTTTTGGAAGTT-TTGGGGTC
* ***
35678836 -AAAATGTATTTTTTGGAAGTTTCAAGGTC
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
* *
35678865 AAAAATGTAATTTTTGGAAGCTTGGGGGT-
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
*
35678894 AAAAATGTAATTTTTGAAAGTTTTGGGGTC
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
* *
35678924 -AAAATGTAATTTTTGGAAGTTTAGAGG-C
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
* **
35678952 -AAAATGTAATTTTTAGAAGTTTTAAGGT-
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
* * * **
35678980 TAAAATGGAATTTTTGAAAGTTTAAGGGT-
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
* * *
35679009 AAAAATGTAATTTTTGAAAGTTTAGCGG-C
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
* * *
35679038 AAAAATGTAATTTGTAGAAGTTTTAGGGT-
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
* * * * **
35679067 TAAAATGGAATTATTGAAAGTTTAAGGG-C
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
*
35679096 AAAAATATAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
*
35679126 -AAAATATAA-TTTTGGACAGTTT
1 AAAAATGTAATTTTTGGA-AGTTT
35679148 AGGGACCTTT
Statistics
Matches: 319, Mismatches: 65, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
28 37 0.12
29 237 0.74
30 34 0.11
31 11 0.03
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.36
Consensus pattern (30 bp):
AAAAATGTAATTTTTGGAAGTTTTGGGGTC
Found at i:35678819 original size:58 final size:58
Alignment explanation
Indices: 35678764--35679148 Score: 363
Period size: 58 Copynumber: 6.6 Consensus size: 58
35678754 GATATTTTAA
* * * *
35678764 AAGTTTTGGGGTCAAAAATGGAATTTTTAGAAA-TTCAAGGTCAAAAATGGAATTTTTGG
1 AAGTTTAGGGGT-AAAAATGTAATTTTT-GAAAGTTTAAGGTCAAAAATGTAATTTTTGG
* * *
35678823 AAGTTCGAGGGGT-AAAATGTATTTTTTGGAAGTTTCAAGGTCAAAAATGTAATTTTTGG
1 AAGTT-TAGGGGTAAAAATGTAATTTTTGAAAGTTT-AAGGTCAAAAATGTAATTTTTGG
* * **
35678882 AAGCTTGGGGGTAAAAATGTAATTTTTGAAAGTTTTGGGGTC-AAAATGTAATTTTTGG
1 AAGTTTAGGGGTAAAAATGTAATTTTTGAAAG-TTTAAGGTCAAAAATGTAATTTTTGG
* * * * *
35678940 AAGTTTAGAGG-CAAAATGTAATTTTT-AGAAGTTTTAAGGT-TAAAATGGAATTTTTGA
1 AAGTTTAGGGGTAAAAATGTAATTTTTGA-AAG-TTTAAGGTCAAAAATGTAATTTTTGG
* * * *
35678997 AAGTTTAAGGGTAAAAATGTAATTTTTGAAAGTTT-AGCGGCAAAAATGTAATTTGTAG
1 AAGTTTAGGGGTAAAAATGTAATTTTTGAAAGTTTAAG-GTCAAAAATGTAATTTTTGG
* * * * *
35679055 AAGTTTTA-GGGTTAAAATGGAATTATTGAAAGTTTAAGGGCAAAAATATAATTTTTGG
1 AAG-TTTAGGGGTAAAAATGTAATTTTTGAAAGTTTAAGGTCAAAAATGTAATTTTTGG
* * * * *
35679113 AAGTTTTGGGGTCAAAATATAATTTTGGACAGTTTA
1 AAGTTTAGGGGTAAAAATGTAATTTTTGAAAGTTTA
35679149 GGGACCTTTA
Statistics
Matches: 268, Mismatches: 44, Indels: 29
0.79 0.13 0.09
Matches are distributed among these distances:
56 3 0.01
57 57 0.21
58 141 0.53
59 59 0.22
60 8 0.03
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (58 bp):
AAGTTTAGGGGTAAAAATGTAATTTTTGAAAGTTTAAGGTCAAAAATGTAATTTTTGG
Found at i:35679130 original size:87 final size:88
Alignment explanation
Indices: 35678764--35679138 Score: 395
Period size: 87 Copynumber: 4.3 Consensus size: 88
35678754 GATATTTTAA
* * * * * *
35678764 AAGTTTTGGGGTCAAAAATGGAATTTTTAGAA-ATTCAAGGTCAAAAATGGAATTTTTGGAAGTT
1 AAGTTTAGAGGTCAAAAATGTAATTTTTAGAAGTTTTAAGGT-AAAAATGGAATTTTTGAAAGTT
** ** *
35678828 CGAGGGGTAAAATGTATTTTTTGG
65 TAAGGGCAAAAATGTAATTTTTGG
* * *** *
35678852 AAGTTTCA-AGGTCAAAAATGTAATTTTTGGAAGCTTGGGGGTAAAAATGTAATTTTTGAAAGTT
1 AAGTTT-AGAGGTCAAAAATGTAATTTTTAGAAGTTTTAAGGTAAAAATGGAATTTTTGAAAGTT
**
35678916 TTGGGGTC-AAAATGTAATTTTTGG
65 TAAGGG-CAAAAATGTAATTTTTGG
*
35678940 AAGTTTAGAGG-C-AAAATGTAATTTTTAGAAGTTTTAAGGTTAAAATGGAATTTTTGAAAGTTT
1 AAGTTTAGAGGTCAAAAATGTAATTTTTAGAAGTTTTAAGGTAAAAATGGAATTTTTGAAAGTTT
* *
35679003 AAGGGTAAAAATGTAATTTTTGA
66 AAGGGCAAAAATGTAATTTTTGG
* * * * *
35679026 AAGTTTAGCGG-CAAAAATGTAATTTGTAGAAGTTTTAGGGTTAAAATGGAATTATTGAAAGTTT
1 AAGTTTAGAGGTCAAAAATGTAATTTTTAGAAGTTTTAAGGTAAAAATGGAATTTTTGAAAGTTT
*
35679090 AAGGGCAAAAATATAATTTTTGG
66 AAGGGCAAAAATGTAATTTTTGG
* * *
35679113 AAGTTTTGGGGTC-AAAATATAATTTT
1 AAGTTTAGAGGTCAAAAATGTAATTTT
35679139 GGACAGTTTA
Statistics
Matches: 243, Mismatches: 37, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
86 73 0.30
87 90 0.37
88 75 0.31
89 5 0.02
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.37
Consensus pattern (88 bp):
AAGTTTAGAGGTCAAAAATGTAATTTTTAGAAGTTTTAAGGTAAAAATGGAATTTTTGAAAGTTT
AAGGGCAAAAATGTAATTTTTGG
Found at i:35681124 original size:5 final size:6
Alignment explanation
Indices: 35681101--35681166 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
35681091 CAAATTTATT
* **
35681101 TTTATA TTTAAA TTTAAA -TTAAA TTTAAA TTTTAAA -ACAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
*
35681148 CTTAAGA --TAAA TTTAAA TT
1 TTTAA-A TTTAAA TTTAAA TT
35681167 CAAAATAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
4 1 0.02
5 11 0.23
6 29 0.60
7 7 0.15
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:35681128 original size:17 final size:17
Alignment explanation
Indices: 35681106--35681178 Score: 92
Period size: 17 Copynumber: 4.2 Consensus size: 17
35681096 TTATTTTTAT
*
35681106 ATTTAAATTTAAATTAA
1 ATTTAAATTTAAAATAA
*
35681123 ATTTAAATTTTAAAACAA
1 ATTTAAA-TTTAAAATAA
* *
35681141 ATTTAAACTTAAGATAA
1 ATTTAAATTTAAAATAA
*
35681158 ATTTAAATTCAAAATAA
1 ATTTAAATTTAAAATAA
35681175 ATTT
1 ATTT
35681179 GATCTTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
17 32 0.68
18 15 0.32
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:35681186 original size:34 final size:35
Alignment explanation
Indices: 35681106--35681178 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
35681096 TTATTTTTAT
* *
35681106 ATTTAAATTTAA-ATTAAATTTAAATTTTAAAACAA
1 ATTTAAACTTAAGA-TAAATTTAAATTTCAAAACAA
*
35681141 ATTTAAACTTAAGATAAATTTAAA-TTCAAAATAA
1 ATTTAAACTTAAGATAAATTTAAATTTCAAAACAA
35681175 ATTT
1 ATTT
35681179 GATCTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 12 0.35
35 21 0.62
36 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (35 bp):
ATTTAAACTTAAGATAAATTTAAATTTCAAAACAA
Found at i:35681188 original size:17 final size:17
Alignment explanation
Indices: 35681114--35681198 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 17
35681104 ATATTTAAAT
* *
35681114 TTAAATTAAATTTAAATT
1 TTAAAATAAATTT-AATC
* *
35681132 TTAAAACAAATTTAAAC
1 TTAAAATAAATTTAATC
*
35681149 TTAAGATAAATTTAAAT-
1 TTAAAATAAATTT-AATC
* *
35681166 TCAAAATAAATTTGATC
1 TTAAAATAAATTTAATC
*
35681183 TTAAAAGAAATCTTAA
1 TTAAAATAAAT-TTAA
35681199 AAATGGGTTC
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
16 2 0.04
17 33 0.65
18 16 0.31
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (17 bp):
TTAAAATAAATTTAATC
Found at i:35681199 original size:35 final size:35
Alignment explanation
Indices: 35681106--35681199 Score: 91
Period size: 35 Copynumber: 2.7 Consensus size: 35
35681096 TTATTTTTAT
* ** *
35681106 ATTTAAATTTAAATTAAATTTAAATTTTAAAACAA
1 ATTTAAACTTAAAAGAAATTTAAATTTCAAAACAA
* * *
35681141 ATTTAAACTTAAGATAAATTTAAA-TTCAAAATAA
1 ATTTAAACTTAAAAGAAATTTAAATTTCAAAACAA
* *
35681175 ATTTGATCTTAAAAGAAATCTTAAA
1 ATTTAAACTTAAAAGAAAT-TTAAA
35681200 AATGGGTTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 23 0.47
35 26 0.53
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (35 bp):
ATTTAAACTTAAAAGAAATTTAAATTTCAAAACAA
Found at i:35682786 original size:25 final size:24
Alignment explanation
Indices: 35682735--35682783 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
35682725 GGAGTTGTGT
*
35682735 TTTATAAAAAATATTTCTATTTAA
1 TTTATAAAAAATATTTCTATATAA
*
35682759 TTTATGAAAAAATATATTTTATATA
1 TTTAT-AAAAAATAT-TTCTATATA
35682784 TTTGTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTATAAAAAATATTTCTATATAA
Found at i:35683827 original size:19 final size:19
Alignment explanation
Indices: 35683760--35683828 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
35683750 TAAGGTTATA
*
35683760 TATTAATAATATTAATAA-
1 TATTAATAACATTAATAAT
* * *
35683778 TGTTATTAACAATAAATAAT
1 TATTAATAAC-ATTAATAAT
*
35683798 GGTAATAAATAACATTAATAAT
1 --T-ATTAATAACATTAATAAT
35683820 TATTAATAA
1 TATTAATAA
35683829 AAATATTATT
Statistics
Matches: 37, Mismatches: 9, Indels: 9
0.67 0.16 0.16
Matches are distributed among these distances:
18 7 0.19
19 14 0.38
20 1 0.03
22 9 0.24
23 6 0.16
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (19 bp):
TATTAATAACATTAATAAT
Found at i:35684950 original size:29 final size:30
Alignment explanation
Indices: 35684907--35685215 Score: 207
Period size: 29 Copynumber: 10.6 Consensus size: 30
35684897 CCCTACACTA
*
35684907 TCCAAAAATTACATTTTTACCCCTGAACTT
1 TCCAAAAATTCCATTTTTACCCCTGAACTT
* * *
35684937 TCC-AAAACTCCATTTTGACCCC-G-ATTT
1 TCCAAAAATTCCATTTTTACCCCTGAACTT
* * *
35684964 CTCCAAAAATTACA-TTTTACCCCAGAACCT
1 -TCCAAAAATTCCATTTTTACCCCTGAACTT
* * *
35684994 TCCAAAAATTCCATTTTAACCTC-G-ATTT
1 TCCAAAAATTCCATTTTTACCCCTGAACTT
* *
35685022 TCCAAAAATTACATTTTTACCCCTAAACTT
1 TCCAAAAATTCCATTTTTACCCCTGAACTT
* * * * * *
35685052 TTC-AAAACTCTATTTTTAACTC-G-ATTT
1 TCCAAAAATTCCATTTTTACCCCTGAACTT
* * *
35685079 TCCAAAAAATACATTTTTA-CCCTCGAACCT
1 TCCAAAAATTCCATTTTTACCCCT-GAACTT
* * **
35685109 TCCAAAAATTCCATTTTTAACCTTGATTTT
1 TCCAAAAATTCCATTTTTACCCCTGAACTT
*
35685139 TCCAAAAATTACCA-TTTTA-CCCTCAAAC-T
1 TCCAAAAATT-CCATTTTTACCCCT-GAACTT
35685168 TCCAAAAATTCCATTTTTA-CCCTCGAAC-T
1 TCCAAAAATTCCATTTTTACCCCT-GAACTT
* *
35685197 TCTAAAAACTACCATTTTT
1 TCCAAAAA-TTCCATTTTT
35685216 CCCTCGGGTA
Statistics
Matches: 216, Mismatches: 47, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
27 10 0.05
28 49 0.23
29 87 0.40
30 64 0.30
31 6 0.03
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (30 bp):
TCCAAAAATTCCATTTTTACCCCTGAACTT
Found at i:35685007 original size:58 final size:58
Alignment explanation
Indices: 35684907--35685193 Score: 322
Period size: 57 Copynumber: 4.9 Consensus size: 58
35684897 CCCTACACTA
* * * * *
35684907 TCCAAAAATTACATTTTTACCCCTGAACTTTCC-AAAACTCCATTTTGACCCCGATTT
1 TCCAAAAATTACATTTTTACCCCAGAACCTTCCAAAAATTCCATTTTAACCTCGATTT
35684964 CTCCAAAAATTACA-TTTTACCCCAGAACCTTCCAAAAATTCCATTTTAACCTCGATTT
1 -TCCAAAAATTACATTTTTACCCCAGAACCTTCCAAAAATTCCATTTTAACCTCGATTT
* * * *
35685022 TCCAAAAATTACATTTTTACCCCTA-AACTTTTC-AAAACTCTATTTTTAA-CTCGATTT
1 TCCAAAAATTACATTTTTACCCC-AGAACCTTCCAAAAATTCCA-TTTTAACCTCGATTT
* *
35685079 TCCAAAAAATACATTTTTACCCTC-GAACCTTCCAAAAATTCCATTTTTAACCTTGATTTT
1 TCCAAAAATTACATTTTTACCC-CAGAACCTTCCAAAAATTCCA-TTTTAACCTCGA-TTT
*
35685139 TCCAAAAATTACCA-TTTTACCCTCA-AA-CTTCCAAAAATTCCATTTTTACCCTCGA
1 TCCAAAAATTA-CATTTTTACCC-CAGAACCTTCCAAAAATTCCA-TTTTAACCTCGA
35685194 ACTTCTAAAA
Statistics
Matches: 200, Mismatches: 18, Indels: 21
0.84 0.08 0.09
Matches are distributed among these distances:
57 72 0.36
58 70 0.35
59 31 0.16
60 25 0.12
61 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (58 bp):
TCCAAAAATTACATTTTTACCCCAGAACCTTCCAAAAATTCCATTTTAACCTCGATTT
Found at i:35685109 original size:115 final size:117
Alignment explanation
Indices: 35684907--35685184 Score: 381
Period size: 115 Copynumber: 2.4 Consensus size: 117
35684897 CCCTACACTA
* *
35684907 TCCAAAAATTACATTTTTACCCCTGAACTTTCCAAAACTCCATTTTGACCCCGATTTCTCCAAAA
1 TCCAAAAATTACATTTTTACCCCTAAACTTTCCAAAACTCCATTTTGAACCCGATTTCTCCAAAA
*
35684972 ATTACATTTTACCCCAGAACCTTCCAAAAATTCCA-TTTTAACCTCGA-TTT
66 AATACATTTTACCCCAGAACCTTCCAAAAATTCCATTTTTAACCTCGATTTT
* * * *
35685022 TCCAAAAATTACATTTTTACCCCTAAACTTTTCAAAACTCTATTTTTAACTCGATTT-TCCAAAA
1 TCCAAAAATTACATTTTTACCCCTAAACTTTCCAAAACTCCATTTTGAACCCGATTTCTCCAAAA
*
35685086 AATACATTTTTACCCTC-GAACCTTCCAAAAATTCCATTTTTAACCTTGATTTT
66 AATACA-TTTTACCC-CAGAACCTTCCAAAAATTCCATTTTTAACCTCGATTTT
*
35685139 TCCAAAAATTACCA-TTTTA-CCCTCAAAC-TTCCAAAAATTCCATTTT
1 TCCAAAAATTA-CATTTTTACCCCT-AAACTTTCC-AAAACTCCATTTT
35685185 TACCCTCGAA
Statistics
Matches: 145, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
114 12 0.08
115 78 0.54
116 19 0.13
117 34 0.23
118 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (117 bp):
TCCAAAAATTACATTTTTACCCCTAAACTTTCCAAAACTCCATTTTGAACCCGATTTCTCCAAAA
AATACATTTTACCCCAGAACCTTCCAAAAATTCCATTTTTAACCTCGATTTT
Found at i:35685234 original size:58 final size:59
Alignment explanation
Indices: 35684965--35685220 Score: 228
Period size: 58 Copynumber: 4.4 Consensus size: 59
35684955 CCCCGATTTC
* *
35684965 TCCAAAAATTA-CATTTTACCC-CAGAACCTTCCAAAAATTCCA-TTTTAACCTCGAT-TT
1 TCCAAAAACTACCATTTTACCCTCA-AA-CTTCCAAAAATTCCATTTTTAACCTCGATACT
* * * * *
35685022 TCCAAAAATTA-CATTTTTACCC-CTAAACTTTTC-AAAACTCTATTTTTAA-CTCGAT-TT
1 TCCAAAAACTACCA-TTTTACCCTC-AAAC-TTCCAAAAATTCCATTTTTAACCTCGATACT
* * * **
35685079 TCCAAAAAATA-CATTTTTACCCTCGAACCTTCCAAAAATTCCATTTTTAACCTTGATTTT
1 TCCAAAAACTACCA-TTTTACCCTC-AAACTTCCAAAAATTCCATTTTTAACCTCGATACT
* *
35685139 TCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTACCCTCGA-ACT
1 TCCAAAAACTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCTCGATACT
* *
35685197 TCTAAAAACTACCATTTTTCCCTC
1 TCCAAAAACTACCATTTTACCCTC
35685221 GGGTATCCAA
Statistics
Matches: 171, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
57 53 0.31
58 60 0.35
59 34 0.20
60 22 0.13
61 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (59 bp):
TCCAAAAACTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCTCGATACT
Found at i:35688534 original size:21 final size:21
Alignment explanation
Indices: 35688495--35688534 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35688485 CTTCTTTATT
*
35688495 TATTTTTAGGTTCTAATATGG
1 TATTTTTAGGTTATAATATGG
35688516 TATTTTTA-GTTATATATAT
1 TATTTTTAGGTTATA-ATAT
35688535 TTGTGCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (21 bp):
TATTTTTAGGTTATAATATGG
Found at i:35689106 original size:20 final size:21
Alignment explanation
Indices: 35689060--35689106 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
35689050 CTGAACCCAA
35689060 ACCCTAAATCCTTAAACCTTG
1 ACCCTAAATCCTTAAACCTTG
*
35689081 AGCCTAAAT-CTTAAA-CTTG
1 ACCCTAAATCCTTAAACCTTG
35689100 TACCCTA
1 -ACCCTA
35689107 TTATCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 11 0.48
21 8 0.35
ACGTcount: A:0.34, C:0.30, G:0.06, T:0.30
Consensus pattern (21 bp):
ACCCTAAATCCTTAAACCTTG
Found at i:35689130 original size:7 final size:7
Alignment explanation
Indices: 35689118--35689176 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
35689108 TATCCAAAAC
35689118 CCTTAAA
1 CCTTAAA
35689125 CCTTAAA
1 CCTTAAA
*
35689132 -CTCAAA
1 CCTTAAA
*
35689138 TCTTAAA
1 CCTTAAA
*
35689145 CCTCAAAA
1 CCT-TAAA
*
35689153 CCTTGAA
1 CCTTAAA
*
35689160 CCCTAAA
1 CCTTAAA
35689167 CC-TAAA
1 CCTTAAA
35689173 CCTT
1 CCTT
35689177 GAACATTGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
6 11 0.27
7 24 0.59
8 6 0.15
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.25
Consensus pattern (7 bp):
CCTTAAA
Found at i:35690273 original size:30 final size:30
Alignment explanation
Indices: 35690179--35690274 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
35690169 ACCCGGGGGC
* *
35690179 AAAATGGTCAATTTTGGTGAAATCGGGGTTA
1 AAAATGGT-AATTTTAGTGAAATCGAGGTTA
* * ** *
35690210 AAAATGG-GA-TTTAGGGAGGTTTGAGGGTT-
1 AAAATGGTAATTTTAGTGA-AATCGA-GGTTA
35690239 -AAATGGTAATTTTAGTGAAATCGAGGTTA
1 AAAATGGTAATTTTAGTGAAATCGAGGTTA
35690268 AAAATGG
1 AAAATGG
35690275 GATTTAGGAA
Statistics
Matches: 47, Mismatches: 12, Indels: 13
0.65 0.17 0.18
Matches are distributed among these distances:
28 16 0.34
29 7 0.15
30 17 0.36
31 7 0.15
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (30 bp):
AAAATGGTAATTTTAGTGAAATCGAGGTTA
Found at i:35690290 original size:58 final size:59
Alignment explanation
Indices: 35690180--35690295 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 59
35690170 CCCGGGGGCA
* * * *
35690180 AAATGGTCAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTAGGGAGGTTTGAGGGTT
1 AAATGGTCAATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAGGAAAGTTTGAGGGTT
*
35690239 AAATGGT-AATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAGGAAAGTTTGGGGGT
1 AAATGGTCAATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAGGAAAGTTTGAGGGT
35690296 AAAACAGTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
58 45 0.87
59 7 0.13
ACGTcount: A:0.32, C:0.03, G:0.34, T:0.32
Consensus pattern (59 bp):
AAATGGTCAATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAGGAAAGTTTGAGGGTT
Found at i:35692075 original size:5 final size:6
Alignment explanation
Indices: 35691994--35692104 Score: 72
Period size: 6 Copynumber: 19.3 Consensus size: 6
35691984 TTTGGTCTTT
* * * * * * *
35691994 AATTTA AA-TTA ATTTTA AATTTA AA-ATA GATTTA GACTCA AATTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
35692040 AATTTA AAGTTT- AATTTA AATTTA AATTTA AA-TT- AATCTA AATTTA
1 AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
35692086 TA-TCA AATTTA ATTTTA AA
1 AATTTA AATTTA AATTTA AA
35692105 ATAAATTAAG
Statistics
Matches: 80, Mismatches: 18, Indels: 14
0.71 0.16 0.12
Matches are distributed among these distances:
4 2 0.03
5 16 0.20
6 59 0.74
7 3 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:35692509 original size:92 final size:92
Alignment explanation
Indices: 35692352--35692897 Score: 934
Period size: 92 Copynumber: 5.9 Consensus size: 92
35692342 AAAAGTAGGT
*
35692352 TTGATGCTTCATTTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
1 TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
35692417 CAATTTCAAGAGGATAGGAAAATGACG
66 CAATTTCAAGAGGATAGGAAAATGACG
35692444 TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
1 TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
35692509 CAATTTCAAGAGGATAGGAAAATGACG
66 CAATTTCAAGAGGATAGGAAAATGACG
35692536 TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
1 TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
35692601 CAATTTCAAGAGGATAGGAAAATGACG
66 CAATTTCAAGAGGATAGGAAAATGACG
* * * *
35692628 TTGATGCATCATCTTTCTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATTCAGCTTTTCTT
1 TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
35692693 CAATTTCAAGAGGATAGGAAAATGACG
66 CAATTTCAAGAGGATAGGAAAATGACG
*
35692720 TTGATACTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
1 TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
35692785 CAATTTCAAGAGGATAGGAAAATGACG
66 CAATTTCAAGAGGATAGGAAAATGACG
* * ** * *
35692812 TTGATGCTTCATCTTACTCCTACTTCAATTTCAG-AGATATAAAGACTTGTTATCCA-CTCTACT
1 TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAG-GACGAAGGCTTGTTATCCAGCTTTACT
* * *
35692875 CCAATTTCAAGCGGACAGGAAAA
65 TCAATTTCAAGAGGATAGGAAAA
35692898 GATCTTTGCT
Statistics
Matches: 433, Mismatches: 20, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
91 28 0.06
92 405 0.94
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (92 bp):
TTGATGCTTCATCTTACTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTT
CAATTTCAAGAGGATAGGAAAATGACG
Found at i:35692990 original size:76 final size:75
Alignment explanation
Indices: 35692822--35693202 Score: 451
Period size: 76 Copynumber: 5.1 Consensus size: 75
35692812 TTGATGCTTC
* *
35692822 ATCTTACTCCTACTTCAATTTCAGAGATATAAAGACTTGTTATCC-ACTCTACTCCAATTTCAAG
1 ATCTTGCTCCTACTTCAATTTCAGAG--ATAAAGAC-TGTTATCCAACTCTACTTCAATTTCAAG
*
35692886 CGGACAGGAAAAG
63 CGGATAGGAAAAG
*
35692899 ATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACTCGTTATCCAACTTTACTTCAATTTCAAGC
1 ATC-TTGCTCCTACTTCAATTTCAGAGATAAAGACT-GTTATCCAACTCTACTTCAATTTCAAGC
*
35692964 GGATAAGAAAAG
64 GGATAGGAAAAG
* *
35692976 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTCCAATTTCAAGCG
1 ATCTTGCTCCTACTTCAATTTCAGAGATAAAGAC-TGTTATCCAACTCTACTTCAATTTCAAGCG
*
35693040 GACAGGAAAAG
65 GATAGGAAAAG
*
35693051 ATCTTTGCTCCTACTTCAATTTCAGAG-TCAAAGACTTGATATCCAACTCTACTTCAATTTCAAG
1 ATC-TTGCTCCTACTTCAATTTCAGAGAT-AAAGAC-TGTTATCCAACTCTACTTCAATTTCAAG
*
35693115 CGGAT--G--ACG
63 CGGATAGGAAAAG
** * * *
35693124 ---TTAATCTTACTTCAACTTCAGAGATAAAGA-TGTTTTATCCAACTCTACTTTAATTTCAAGC
1 ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACTG--TTATCCAACTCTACTTCAATTTCAAGC
35693185 GGATAGGAAAAG
64 GGATAGGAAAAG
35693197 ATCTTG
1 ATCTTG
35693203 TTCGGTCTGA
Statistics
Matches: 263, Mismatches: 24, Indels: 35
0.82 0.07 0.11
Matches are distributed among these distances:
67 2 0.01
69 53 0.20
70 1 0.00
71 1 0.00
73 4 0.02
75 34 0.13
76 89 0.34
77 57 0.22
78 22 0.08
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (75 bp):
ATCTTGCTCCTACTTCAATTTCAGAGATAAAGACTGTTATCCAACTCTACTTCAATTTCAAGCGG
ATAGGAAAAG
Found at i:35693104 original size:152 final size:148
Alignment explanation
Indices: 35692822--35693201 Score: 534
Period size: 152 Copynumber: 2.5 Consensus size: 148
35692812 TTGATGCTTC
* *
35692822 ATCTTACTCCTACTTCAATTTCAGAGATATAAAGACTTGTTATCCACTCTACTCCAATTTCAAGC
1 ATCTTACTCTTACTTCAATTTCAGAG--ATAAAGACGTGTTATCCACTCTACTCCAATTTCAAGC
* *
35692887 GGACAGGAAAAGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACTCGTTATCCAACTTTACT
64 GGACAGGAAAAGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACTCGATATCCAACTCTACT
35692952 TCAATTTCAAGCGGATAAGAAAAG
129 TCAATTTCAAGCGGAT--G--AAG
*
35692976 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTCCAATTTCAAGCGG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTCCAATTTCAAGCGG
*
35693041 ACAGGAAAAGATCTTTGCTCCTACTTCAATTTCAGAG-TCAAAGACTTGATATCCAACTCTACTT
66 ACAGGAAAAGATCTTTGCTCCTACTTCAATTTCAGAGAT-AAAGACTCGATATCCAACTCTACTT
*
35693105 CAATTTCAAGCGGATGACG
130 CAATTTCAAGCGGATGAAG
* * * * **
35693124 ---TTAATCTTACTTCAACTTCAGAGATAAAGATGTTTTATCCAACTCTACTTTAATTTCAAGCG
1 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTCCAATTTCAAGCG
*
35693186 GATAGGAAAAGATCTT
65 GACAGGAAAAGATCTT
35693202 GTTCGGTCTG
Statistics
Matches: 209, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
145 35 0.17
146 34 0.16
148 2 0.01
150 1 0.00
151 1 0.00
152 112 0.54
154 24 0.11
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (148 bp):
ATCTTACTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTCCAATTTCAAGCGG
ACAGGAAAAGATCTTTGCTCCTACTTCAATTTCAGAGATAAAGACTCGATATCCAACTCTACTTC
AATTTCAAGCGGATGAAG
Found at i:35704964 original size:58 final size:58
Alignment explanation
Indices: 35704878--35705008 Score: 217
Period size: 58 Copynumber: 2.2 Consensus size: 58
35704868 ACCCGGGGGC
* * *
35704878 AAAATGGTAAATTTTGGTGAAATTGAGGTTAAAAATGGGATTTAGGGAGGTTTGAGGGT
1 AAAATGGT-AATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGT
*
35704937 AAAATGGTAATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAGGGAAGTTTGGGGGT
1 AAAATGGTAATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGT
35704995 AAAATGGTAATTTT
1 AAAATGGTAATTTT
35705009 TGAAAGTTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
58 60 0.88
59 8 0.12
ACGTcount: A:0.35, C:0.01, G:0.31, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGT
Found at i:35704971 original size:30 final size:30
Alignment explanation
Indices: 35704878--35704973 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 30
35704868 ACCCGGGGGC
*
35704878 AAAATGGTAAATTTTGGTGAAATTGAGGTTA
1 AAAATGGT-AATTTTAGTGAAATTGAGGTTA
* * ** *
35704909 AAAATGG-GA-TTTAGGGAGGTTTGAGGGT-
1 AAAATGGTAATTTTAGTGA-AATTGAGGTTA
*
35704937 AAAATGGTAATTTTAGTGAAATCGAGGTTA
1 AAAATGGTAATTTTAGTGAAATTGAGGTTA
35704967 AAAATGG
1 AAAATGG
35704974 GATTTAGGGA
Statistics
Matches: 49, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
28 13 0.27
29 15 0.31
30 14 0.29
31 7 0.14
ACGTcount: A:0.38, C:0.01, G:0.30, T:0.31
Consensus pattern (30 bp):
AAAATGGTAATTTTAGTGAAATTGAGGTTA
Found at i:35704997 original size:29 final size:29
Alignment explanation
Indices: 35704900--35704998 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
35704890 TTTGGTGAAA
* *
35704900 TTGAGGTTAAAAATGGGATTTAGGGAGGT
1 TTGAGGGTAAAAATGGGATTTAGGGAAGT
* * *
35704929 TTGAGGGT-AAAATGGTAATTTTAGTGAA-A
1 TTGAGGGTAAAAATGG-GA-TTTAGGGAAGT
* *
35704958 TCGAGGTTAAAAATGGGATTTAGGGAAGT
1 TTGAGGGTAAAAATGGGATTTAGGGAAGT
*
35704987 TTGGGGGTAAAA
1 TTGAGGGTAAAA
35704999 TGGTAATTTT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
28 15 0.28
29 24 0.45
30 14 0.26
ACGTcount: A:0.34, C:0.01, G:0.34, T:0.30
Consensus pattern (29 bp):
TTGAGGGTAAAAATGGGATTTAGGGAAGT
Found at i:35704998 original size:28 final size:28
Alignment explanation
Indices: 35704900--35705001 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
35704890 TTTGGTGAAA
* *
35704900 TTGAGGTTAAAAATGGGATTTAGGGAGGT
1 TTGAGGGT-AAAATGGGATTTAGGGAAGT
* * *
35704929 TTGAGGGTAAAATGGTAATTTTAGTGAA-A
1 TTGAGGGTAAAATGG-GA-TTTAGGGAAGT
* *
35704958 TCGAGGTTAAAAATGGGATTTAGGGAAGT
1 TTGAGGGT-AAAATGGGATTTAGGGAAGT
*
35704987 TTGGGGGTAAAATGG
1 TTGAGGGTAAAATGG
35705002 TAATTTTTGA
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
28 22 0.39
29 20 0.36
30 14 0.25
ACGTcount: A:0.33, C:0.01, G:0.35, T:0.30
Consensus pattern (28 bp):
TTGAGGGTAAAATGGGATTTAGGGAAGT
Found at i:35705007 original size:29 final size:28
Alignment explanation
Indices: 35704900--35705030 Score: 84
Period size: 29 Copynumber: 4.5 Consensus size: 28
35704890 TTTGGTGAAA
* * *
35704900 TTGAGGTTAAAAATGGGATTTAGGGAGGT
1 TTGAGGGT-AAAATGGAATTTAGGGAAGT
* *
35704929 TTGAGGGTAAAATGGTAATTTTAGTGAA-A
1 TTGAGGGTAAAATGG-AA-TTTAGGGAAGT
* * *
35704958 TCGAGGTTAAAAATGGGATTTAGGGAAGT
1 TTGAGGGT-AAAATGGAATTTAGGGAAGT
* ** *
35704987 TTGGGGGTAAAATGGTAATTTTTGAAAGT
1 TTGAGGGTAAAATGG-AATTTAGGGAAGT
*
35705016 TTTAGGGTTAAAATG
1 TTGAGGG-TAAAATG
35705031 TATTTTTTTG
Statistics
Matches: 77, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
28 22 0.29
29 34 0.44
30 21 0.27
ACGTcount: A:0.34, C:0.01, G:0.32, T:0.34
Consensus pattern (28 bp):
TTGAGGGTAAAATGGAATTTAGGGAAGT
Found at i:35705037 original size:29 final size:29
Alignment explanation
Indices: 35704983--35705166 Score: 201
Period size: 30 Copynumber: 6.2 Consensus size: 29
35704973 GGATTTAGGG
* * *
35704983 AAGTTTGGGGGT-AAAATGGTAATTTTTGA
1 AAGTTTTGGGGTCAAAAT-ATAATTTTGGA
* * **
35705012 AAGTTTTAGGGTTAAAATGTATTTTTTTGGA
1 AAGTTTTGGGGTCAAAA--TATAATTTTGGA
*
35705043 AA-TTTTGGGGTCAAAATATACTTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGG-A
35705072 AAGTTTTGGGGTCAAAATATAATTTTGGA
1 AAGTTTTGGGGTCAAAATATAATTTTGGA
* *
35705101 AAGTTTTAGGGTTAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGG-A
*
35705131 AAGTTTTGGGGTCAAAATATAATTCTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGG-A
35705161 AAGTTT
1 AAGTTT
35705167 AGGGACTTAC
Statistics
Matches: 133, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.07
29 40 0.30
30 74 0.56
31 9 0.07
32 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (29 bp):
AAGTTTTGGGGTCAAAATATAATTTTGGA
Found at i:35705095 original size:89 final size:89
Alignment explanation
Indices: 35704983--35705166 Score: 257
Period size: 89 Copynumber: 2.1 Consensus size: 89
35704973 GGATTTAGGG
* * **
35704983 AAGTTTGGGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTTAAAATGTATTTTTTTGG-AAA-T
1 AAGTTTGGGGGTAAAATGATAATTTTGGAAAGTTTTAGGGTTAAAA--TATAATTTTGGAAAAGT
* *
35705046 TTTGGGGTCAAAATATACTTTTGGAA
64 TTTGGGGTCAAAATATAATTCTGGAA
*
35705072 AAGTTTTGGGGTCAAAAT-ATAATTTTGGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTT
1 AAGTTTGGGGGT-AAAATGATAATTTTGGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTT
35705136 TTGGGGTCAAAATATAATTCTGGAA
65 TTGGGGTCAAAATATAATTCTGGAA
35705161 AAGTTT
1 AAGTTT
35705167 AGGGACTTAC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
87 9 0.11
88 3 0.04
89 68 0.80
90 5 0.06
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (89 bp):
AAGTTTGGGGGTAAAATGATAATTTTGGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTT
TGGGGTCAAAATATAATTCTGGAA
Found at i:35705127 original size:59 final size:59
Alignment explanation
Indices: 35705036--35705170 Score: 211
Period size: 59 Copynumber: 2.3 Consensus size: 59
35705026 AAATGTATTT
* *
35705036 TTTTGGAAA-TTTTGGGGTCAAAATATACTTTTGGAAAAGTTTTGGGGTCAAAATATAA
1 TTTTGGAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATATAA
*
35705094 TTTTGGAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATATAA
1 TTTTGGAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATATAA
*
35705153 TTCTGGAAAAG-TTTAGGG
1 TTTTGG-AAAGTTTTAGGG
35705171 ACTTACAGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
58 9 0.13
59 58 0.82
60 4 0.06
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (59 bp):
TTTTGGAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATATAA
Found at i:35707098 original size:6 final size:6
Alignment explanation
Indices: 35707081--35707191 Score: 63
Period size: 6 Copynumber: 19.3 Consensus size: 6
35707071 TTTGGTCTTT
* * * * * * *
35707081 AATTTA AA-TTA ATTTTA AATTTA AA-ATA GATTTA GACTCA AATTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
35707127 AATTTA AAGTTT- AATTTT AATTTA AATTTA AA--TA AATCTA AATTTA
1 AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
35707173 TA-TCA AATTTA ATTTTA AA
1 AATTTA AATTTA AATTTA AA
35707192 ATAAATTAAG
Statistics
Matches: 80, Mismatches: 18, Indels: 14
0.71 0.16 0.12
Matches are distributed among these distances:
4 4 0.05
5 13 0.16
6 60 0.75
7 3 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:35707103 original size:17 final size:17
Alignment explanation
Indices: 35707081--35707198 Score: 94
Period size: 17 Copynumber: 6.9 Consensus size: 17
35707071 TTTGGTCTTT
*
35707081 AATTTAAATTAATTTTA
1 AATTTAAATTAAATTTA
* *
35707098 AATTTAAAATAGATTTA
1 AATTTAAATTAAATTTA
* * *
35707115 GACTCAAATTCAAATTTA
1 AATTTAAATT-AAATTTA
* *
35707133 AAGTTTAATTTTAATTTA
1 AA-TTTAAATTAAATTTA
*
35707151 AATTTAAA-TAAATCTA
1 AATTTAAATTAAATTTA
* *
35707167 AATTTATATCAAATTTA
1 AATTTAAATTAAATTTA
* *
35707184 ATTTTAAAATAAATT
1 AATTTAAATTAAATT
35707199 AAGAAAGGGC
Statistics
Matches: 75, Mismatches: 23, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
16 13 0.17
17 42 0.56
18 15 0.20
19 5 0.07
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (17 bp):
AATTTAAATTAAATTTA
Found at i:35707743 original size:6 final size:6
Alignment explanation
Indices: 35707725--35707813 Score: 80
Period size: 6 Copynumber: 15.0 Consensus size: 6
35707715 TTAAATTGAT
*
35707725 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTATTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTA--AA
* *
35707772 TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
35707814 ACAAATTTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
4 6 0.09
5 5 0.07
6 46 0.68
7 6 0.09
8 5 0.07
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:35707743 original size:17 final size:16
Alignment explanation
Indices: 35707725--35707813 Score: 110
Period size: 17 Copynumber: 5.4 Consensus size: 16
35707715 TTAAATTGAT
35707725 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
35707741 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
35707758 TTTAAATTTATTT--A
1 TTTAAATTTATTTAAA
*
35707772 TTTAAATTTACCTTAAA
1 TTTAAATTTA-TTTAAA
35707789 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
35707807 TTATAAA
1 TT-TAAA
35707814 ACAAATTTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.17
15 2 0.03
16 13 0.20
17 26 0.41
18 7 0.11
19 5 0.08
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:35707756 original size:11 final size:11
Alignment explanation
Indices: 35707742--35707792 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
35707732 TTATTTAAAT
35707742 TTAAATTTATC
1 TTAAATTTATC
**
35707753 TTAAATTTAAA
1 TTAAATTTATC
*
35707764 TT-TATTTAT-
1 TTAAATTTATC
*
35707773 TTAAATTTACC
1 TTAAATTTATC
35707784 TTAAATTTA
1 TTAAATTTA
35707793 AATTTAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 2 0.06
10 10 0.31
11 20 0.62
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAAATTTATC
Found at i:35707778 original size:31 final size:32
Alignment explanation
Indices: 35707725--35707798 Score: 123
Period size: 31 Copynumber: 2.3 Consensus size: 32
35707715 TTAAATTGAT
*
35707725 TTTAAATTTATTTAAATTTAAATTTATCTTAAA
1 TTTAAATTTATTT-AATTTAAATTTACCTTAAA
35707758 TTTAAATTTATTT-ATTTAAATTTACCTTAAA
1 TTTAAATTTATTTAATTTAAATTTACCTTAAA
35707789 TTTAAATTTA
1 TTTAAATTTA
35707799 AATTTAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 27 0.68
33 13 0.32
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (32 bp):
TTTAAATTTATTTAATTTAAATTTACCTTAAA
Found at i:35707780 original size:37 final size:37
Alignment explanation
Indices: 35707730--35707804 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
35707720 TTGATTTTAA
*
35707730 ATTTATTTAAATTTAAATT-TATCTTAAATTTAAATTT
1 ATTTATTTAAATTTAAATTAAAT-TTAAATTTAAATTT
**
35707767 ATTTATTTAAATTTACCTTAAATTTAAATTTAAATTT
1 ATTTATTTAAATTTAAATTAAATTTAAATTTAAATTT
35707804 A
1 A
35707805 AATTATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (37 bp):
ATTTATTTAAATTTAAATTAAATTTAAATTTAAATTT
Found at i:35708546 original size:3 final size:3
Alignment explanation
Indices: 35708538--35708582 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
35708528 TGAAAGACAT
*
35708538 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35708583 AAAAAAACTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35708832 original size:22 final size:23
Alignment explanation
Indices: 35708804--35708846 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
35708794 TCTGGGTTTC
*
35708804 GAAATCAAAATAAA-AAAAAACA
1 GAAATCAAAAGAAAGAAAAAACA
35708826 GAAATCAAAAGAAAGAAAAAA
1 GAAATCAAAAGAAAGAAAAAA
35708847 GGAGATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (23 bp):
GAAATCAAAAGAAAGAAAAAACA
Found at i:35708862 original size:22 final size:20
Alignment explanation
Indices: 35708837--35708880 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
35708827 AAATCAAAAG
35708837 AAAGAAAAAAGGAGATAATGGA
1 AAAGAAAAAAGGA-ATAA-GGA
*
35708859 AAAGGAAAAAGGAATAAGGA
1 AAAGAAAAAAGGAATAAGGA
35708879 AA
1 AA
35708881 GGATGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.66, C:0.00, G:0.27, T:0.07
Consensus pattern (20 bp):
AAAGAAAAAAGGAATAAGGA
Found at i:35709605 original size:30 final size:30
Alignment explanation
Indices: 35709569--35709766 Score: 344
Period size: 30 Copynumber: 6.6 Consensus size: 30
35709559 AAGTTGTCCA
*
35709569 AAAATTATATTTTGACCCCGAACCTTTTCC
1 AAAATTATATTTTGACCCCGAAACTTTTCC
35709599 AAAATTATATTTTGACCCCGAAACTTTTCC
1 AAAATTATATTTTGACCCCGAAACTTTTCC
35709629 AAAATTATATTTTGACCCCGAAACTTTTCC
1 AAAATTATATTTTGACCCCGAAACTTTTCC
*
35709659 AAAATTATATTTTGACCCCGAAACTCTTCC
1 AAAATTATATTTTGACCCCGAAACTTTTCC
35709689 AAAATTATATTTTGACCCCGAAACTTTTCC
1 AAAATTATATTTTGACCCCGAAACTTTTCC
*
35709719 AAAATTATATTTTGACCCC-AAAATTTTCC
1 AAAATTATATTTTGACCCCGAAACTTTTCC
* *
35709748 AAAATTACATTTTAACCCC
1 AAAATTATATTTTGACCCC
35709767 AATTTCACCG
Statistics
Matches: 162, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
29 26 0.16
30 136 0.84
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAATTATATTTTGACCCCGAAACTTTTCC
Found at i:35709790 original size:59 final size:57
Alignment explanation
Indices: 35709717--35710089 Score: 292
Period size: 59 Copynumber: 6.4 Consensus size: 57
35709707 CGAAACTTTT
* * * *
35709717 CCAAAATTA-TATTTTGACCCCAAAATTTTCCAAAATTACATTTTAACCCCAATTTCA
1 CCAAAATTACCATTTT-ACCCCAGAATTTTCTAAAATTCCATTTTAACCCCAATTTCA
* * *
35709774 CCGAAAATTACCATTTTATCCCC-GAATCTTT-TACAATTCCGTTTTTAACCCCGATTTCA
1 CC-AAAATTACCATTTTA-CCCCAGAAT-TTTCTAAAATTCC-ATTTTAACCCCAATTTCA
* * * **
35709833 TCGAAAATTACCATTTTACCCTC-GAATCTTT-TAAAATCCCATTTTTAACACTGATTTCA
1 -CCAAAATTACCATTTTACCC-CAGAAT-TTTCTAAAATTCCA-TTTTAACCCCAATTTCA
* * ** * * *
35709892 TCACAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCTAATGTCA
1 CCA-AAATTACCATTTTACCCCAGAATTTTCTAAAATTCC-ATTTTAACCCCAATTTCA
* * ** *
35709951 TCGC-AAATTACCGTTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
1 -C-CAAAATTACCATTTTACCCCAGAATTTTCTAAAATTCCA-TTTTAACCCCAATTTCA
* * *
35710010 CCAAAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCTCGATTTCA
1 CC-AAAATTACCATTTTACCCCAGAAT-TTTCTAAAATTCCA-TTTTAACCCCAATTTCA
*
35710069 CCAAAATTACCATTTTGCCCC
1 CCAAAATTACCATTTTACCCC
35710090 CGGGTATCCA
Statistics
Matches: 265, Mismatches: 33, Indels: 35
0.80 0.10 0.11
Matches are distributed among these distances:
57 3 0.01
58 43 0.16
59 215 0.81
60 3 0.01
61 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (57 bp):
CCAAAATTACCATTTTACCCCAGAATTTTCTAAAATTCCATTTTAACCCCAATTTCA
Found at i:35709811 original size:29 final size:28
Alignment explanation
Indices: 35709569--35710054 Score: 97
Period size: 30 Copynumber: 16.5 Consensus size: 28
35709559 AAGTTGTCCA
* *
35709569 AAAATTA-TATTTTGACCCCGAACCTTTT
1 AAAATTACCATTTT-ACCCCGAATCTTTT
* *
35709597 CCAAAATTA-TATTTTGACCCCGAAACTTTT
1 --AAAATTACCATTTT-ACCCCGAATCTTTT
* *
35709627 CCAAAATTA-TATTTTGACCCCGAAACTTTT
1 --AAAATTACCATTTT-ACCCCGAATCTTTT
* **
35709657 CCAAAATTA-TATTTTGACCCCGAAACTCTTCC
1 --AAAATTACCATTTT-ACCCCG-AA-TCTTTT
* *
35709689 AAAATTA-TATTTTGACCCCGAAACTTTT
1 AAAATTACCATTTT-ACCCCGAATCTTTT
* * *
35709717 CCAAAATTA-TATTTTGACCCCAAAAT-TTTCC
1 --AAAATTACCATTTT-ACCCC-GAATCTTT-T
**
35709748 AAAATTA-CATTTTAACCCC-AAT-TTCACCG
1 AAAATTACCATTTT-ACCCCGAATCTT---TT
35709777 AAAATTACCATTTTATCCCCGAATCTTTT
1 AAAATTACCATTTTA-CCCCGAATCTTTT
* * * * **
35709806 ACAATT-CCGTTTTTAACCCCGATTTCATCG
1 AAAATTACC-ATTTT-ACCCCGA-ATCTTTT
35709836 AAAATTACCATTTTACCCTCGAATCTTTT
1 AAAATTACCATTTTACCC-CGAATCTTTT
* * * *
35709865 AAAA-TCCCATTTTTAACACTG-AT-TTCATC
1 AAAATTACCA-TTTT-ACCCCGAATCTT--TT
* *
35709894 ACAAATTACCATTTTACCCCCGAAGCTTCT
1 A-AAATTACCATTTTA-CCCCGAATCTTTT
* * * * **
35709924 AAAATT-CCGTTTTTAACCCTAATGTCATCG
1 AAAATTACC-ATTTTACCCCGAA--TCTTTT
* * * *
35709954 CAAATTACCGTTTTACCCCCGAAGCTTCT
1 AAAATTACCATTTTA-CCCCGAATCTTTT
* ****
35709983 AAAATT-CCATTTTTAACCCCGATTTCACCA
1 AAAATTACCA-TTTT-ACCCCGA-ATCTTTT
35710013 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTA-CCCCGAATCTTTT
35710042 AAAATT-CCATTTT
1 AAAATTACCATTTT
35710055 TAACCTCGAT
Statistics
Matches: 356, Mismatches: 63, Indels: 76
0.72 0.13 0.15
Matches are distributed among these distances:
27 7 0.02
28 27 0.08
29 98 0.28
30 193 0.54
31 24 0.07
32 7 0.02
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAATCTTTT
Found at i:35709879 original size:118 final size:117
Alignment explanation
Indices: 35709757--35710091 Score: 447
Period size: 118 Copynumber: 2.8 Consensus size: 117
35709747 CAAAATTACA
* * *
35709757 TTTTAACCCCAATTTCACCGAAAATTACCATTTTATCCCCGAATCTTTTACAATTCCGTTTTTAA
1 TTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAA
* * *
35709822 CCCCGATTTCATCGAAAATTACCATTTTACCCTCGAATCTTTTAAAATCCCAT
65 CCCCGATTTCATCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATCCCAT
* * * * *
35709875 TTTTAACACTGATTTCATCACAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAA
1 TTTTAACCCCGATTTCACCA-AAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAA
** * * * *
35709940 CCCTAATGTCATCGCAAATTACCGTTTTACCCCCGAAGCTTCTAAAATTCCAT
65 CCCCGATTTCATCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATCCCAT
*
35709993 TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAA
1 TTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAA
* * *
35710058 CCTCGATTTCA-CCAAAATTACCATTTTGCCCCCG
65 CCCCGATTTCATCGAAAATTACCATTTTACCCCCG
35710092 GGTATCCATA
Statistics
Matches: 184, Mismatches: 31, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
117 20 0.11
118 163 0.89
119 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.36
Consensus pattern (117 bp):
TTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCGTTTTTAAC
CCCGATTTCATCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATCCCAT
Found at i:35710002 original size:177 final size:176
Alignment explanation
Indices: 35709757--35710091 Score: 501
Period size: 177 Copynumber: 1.9 Consensus size: 176
35709747 CAAAATTACA
* * * * * *
35709757 TTTTAACCCCAATTTCACCGAAAATTACCATTTTATCCCCGAATCTTTTACAATTCCGTTTTTAA
1 TTTTAACCCCAATGTCACCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAA
* * *
35709822 CCCCGATTTCATCGAAAATTACCATTTTACCCTCGAATCTTTTAAAATCCCATTTTTAACACT-G
66 CCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATCCCATTTTTAAC-CTCG
*
35709886 ATTTCATCACAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGT
130 ATTTCACCA-AAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGT
* * * *
35709934 TTTTAACCCTAATGTCATCGCAAATTACCGTTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAA
1 TTTTAACCCCAATGTCACCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAA
*
35709999 CCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGA
66 CCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATCCCATTTTTAACCTCGA
*
35710064 TTTCACCAAAATTACCATTTTGCCCCCG
131 TTTCACCAAAATTACCATTTTACCCCCG
35710092 GGTATCCATA
Statistics
Matches: 141, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
176 21 0.15
177 120 0.85
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.36
Consensus pattern (176 bp):
TTTTAACCCCAATGTCACCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAA
CCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATCCCATTTTTAACCTCGA
TTTCACCAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGT
Found at i:35710074 original size:29 final size:30
Alignment explanation
Indices: 35709746--35710084 Score: 107
Period size: 29 Copynumber: 11.5 Consensus size: 30
35709736 CCAAAATTTT
*
35709746 CCAAAATTA-CA-TTTTAACCCCAATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
* *
35709774 CCGAAAATTACCA-TTTTATCCCCGAATCTTTTA
1 CC-AAAATTACCATTTTTAACCCCG-A--TTTCA
*
35709807 -C--AATT-CCGTTTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
*
35709833 TCGAAAATTACCA-TTTT-ACCCTCGAATCTT--
1 -CCAAAATTACCATTTTTAACCC-CG-AT-TTCA
** * * *
35709863 TTAAAA-TCCCATTTTTAACACTGATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
* * *
35709892 TCACAAATTACCA-TTTTACCCCCGAAGCTT--
1 CCA-AAATTACCATTTTTAACCCCG-A-TTTCA
* * ** *
35709922 CTAAAATT-CCGTTTTTAACCCTAATGTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
* * *
35709951 TCGC-AAATTACC-GTTTTACCCCCGAAGCTT--
1 -C-CAAAATTACCATTTTTAACCCCG-A-TTTCA
*
35709981 CTAAAATT-CCATTTTTAACCCCGATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
*
35710010 CCAAAAATTACCA-TTTTACCCCCGAATCTT--
1 CC-AAAATTACCATTTTTAACCCCG-AT-TTCA
** *
35710040 TTAAAATT-CCATTTTTAACCTCGATTTCA
1 CCAAAATTACCATTTTTAACCCCGATTTCA
35710069 CCAAAATTACCATTTT
1 CCAAAATTACCATTTT
35710085 GCCCCCGGGT
Statistics
Matches: 223, Mismatches: 46, Indels: 82
0.64 0.13 0.23
Matches are distributed among these distances:
26 4 0.02
27 7 0.03
28 22 0.10
29 87 0.39
30 73 0.33
31 18 0.08
32 8 0.04
33 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (30 bp):
CCAAAATTACCATTTTTAACCCCGATTTCA
Found at i:35710084 original size:30 final size:29
Alignment explanation
Indices: 35709983--35710084 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 29
35709973 CGAAGCTTCT
35709983 AAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTCCATTTTTAACCCCGATTTCACC
* **
35710012 AAAAATTACCA-TTTTACCCCCGAATCTT--TT
1 -AAAATT-CCATTTTTAACCCCG-AT-TTCACC
*
35710042 AAAATTCCATTTTTAACCTCGATTTCACC
1 AAAATTCCATTTTTAACCCCGATTTCACC
35710071 AAAATTACCATTTT
1 AAAATT-CCATTTT
35710085 GCCCCCGGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.03
28 5 0.09
29 21 0.36
30 23 0.40
31 5 0.09
32 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCGATTTCACC
Found at i:35710114 original size:59 final size:59
Alignment explanation
Indices: 35709757--35710127 Score: 306
Period size: 59 Copynumber: 6.3 Consensus size: 59
35709747 CAAAATTACA
* * * * ** * * *
35709757 TTTTAACCCCAATTTCACCGAAAATTACCATTTTATCCCCGAATCTTTTACAATTCCGT
1 TTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCAT
* * * * **
35709816 TTTTAACCCCGATTTCATCGAAAATTACCATTTTACCCTCGAATCTTTTAAAATCCCAT
1 TTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCAT
* * * * *
35709875 TTTTAACACT-GATTTCATCACAAATTACCATTTTACCCCCGAAGCTTC-TAAAATTCCGT
1 TTTTAAC-CTCGATTTCACCAAAAATTACCATTTTACCCCCGAATC-TCATAAAATCCCAT
* * * ** * * *
35709934 TTTTAACC-CTAATGTCATCGCAAATTACCGTTTTACCCCCGAAGCTTC-TAAAATTCCAT
1 TTTTAACCTC-GATTTCACCAAAAATTACCATTTTACCCCCGAATC-TCATAAAATCCCAT
* ** *
35709993 TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCAT
1 TTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCAT
* * *
35710052 TTTTAACCTCGATTTCACC-AAAATTACCATTTTGCCCCCGGGTATC-CAT-AAGTCCCATT
1 TTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC--GAATCTCATAAAATCCCA-T
*
35710111 TTTTCACCTCGATTTCA
1 TTTTAACCTCGATTTCA
35710128 TCATTTATCA
Statistics
Matches: 267, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
58 27 0.10
59 233 0.87
60 7 0.03
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.36
Consensus pattern (59 bp):
TTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTCATAAAATCCCAT
Found at i:35722335 original size:175 final size:175
Alignment explanation
Indices: 35722038--35722840 Score: 907
Period size: 175 Copynumber: 4.6 Consensus size: 175
35722028 CTACAGGTCT
* *
35722038 CAACGACATCCCCTTGAAATTGAATTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
*
35722103 GAGCAACTTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACAACGTCATCCCCTTGAAATTGA
66 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACAACGTCATCCCCTTGAAATTGA
35722168 AGTAGAGTGGATAACTCATCCTCGTCTCTGAAATTGAAGTAAGAG
131 AGTAGAGTGGATAACTCATCCTCGTCTCTGAAATTGAAGTAAGAG
*
35722213 CAACGTCATCCCCTTGAAATTGAAGAAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
*
35722278 GAGCAACTTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACAACGTCATCCCCTTGAAATTGA
66 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACAACGTCATCCCCTTGAAATTGA
35722343 AGTAGAGTGGATAACTCATCCTCGTCTCTGAAATTGAAGTAAGAG
131 AGTAGAGTGGATAACTCATCCTCGTCTCTGAAATTGAAGTAAGAG
*
35722388 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTA
* ***
35722453 AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGAT-A-ACAA-GTCTTAATCTCTGAAATT
65 AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACAACGTCATCCCCT-TGAAATT
* * * *
35722515 GAAGTA-AG-AG-CAACGTCAT-C-C-TCT-TGAAATTGAAATAGAGTTGGG
129 GAAGTAGAGTGGATAAC-TCATCCTCGTCTCTGAAATTGAAGTA-A---GAG
* * *** ** * *
35722560 TAACAAGTCTTAATCTCTGAAATTGAAGTA-A---GAGCA-ACGTCATCCTCT-TGAAATTGAAG
1 CAAC--GTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
** * *** * *
35722619 TAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA-A---G---A-GCAACGTCATCCTC
63 TA-A----GAGCA-ACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACAACGTCATCCCC
* * * * *
35722676 TTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAAAG
121 TTGAAATTGAAGTAGAG-TGGATAACTCATCCTCGTCTCTGAAATTGAAGTAAGAG
* * *
35722732 CAACGTCATCCCCTTGAAACTGAAGTAGAGTGGATAATACGTCTTGATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
*
35722797 GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAC
66 GAGCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACAC
35722841 GTCTTCATCT
Statistics
Matches: 530, Mismatches: 57, Indels: 80
0.79 0.09 0.12
Matches are distributed among these distances:
168 38 0.07
169 54 0.10
170 23 0.04
171 5 0.01
172 17 0.03
173 18 0.03
174 45 0.08
175 244 0.46
176 85 0.16
177 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (175 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACAACGTCATCCCCTTGAAATTGA
AGTAGAGTGGATAACTCATCCTCGTCTCTGAAATTGAAGTAAGAG
Found at i:35722457 original size:69 final size:69
Alignment explanation
Indices: 35722320--35723009 Score: 1053
Period size: 69 Copynumber: 10.0 Consensus size: 69
35722310 GTGGATAACA
* * * **
35722320 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACTCATCCTCGTCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722384 AGAG
66 AGAG
* *
35722388 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722453 AGAG
66 AGAG
*
35722457 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTAATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722521 AGAG
66 AGAG
* * * *
35722525 CAACGTCATCCTCTTGAAATTGAAATAGAGTTGGGTAACAAGTCTTAATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722590 AGAG
66 AGAG
*
35722594 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722659 AGAG
66 AGAG
* *
35722663 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
*
35722728 AAAG
66 AGAG
* * *
35722732 CAACGTCATCCCCTTGAAACTGAAGTAGAG-TGGATAATACGTCTTGATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722796 AGAG
66 AGAG
* *
35722800 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722865 AGAG
66 AGAG
* * * * *
35722869 CAACGTCGTCCCCTTTAAATCGAAATAGAGTTGGATAACAAGTCTTAATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722934 AGAG
66 AGAG
* * * * * * * *
35722938 CAACGTCGTCCCCTTTAAATCGAAATAGGGTTGGATAACACGCCTTTATTTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35723003 AGAG
66 AGAG
35723007 CAA
1 CAA
35723010 GATCATTTCC
Statistics
Matches: 582, Mismatches: 37, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
68 156 0.27
69 426 0.73
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (69 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
AGAG
Found at i:35722583 original size:206 final size:206
Alignment explanation
Indices: 35722320--35723009 Score: 1078
Period size: 206 Copynumber: 3.3 Consensus size: 206
35722310 GTGGATAACA
* * * **
35722320 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACTCA-TCCTCGTCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAAC-AAGTCTTAATCTCTGAAATTGAAGTA
35722384 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
65 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
35722449 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTAATCTCTGAAA
130 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTAATCTCTGAAA
35722513 TTGAAGTAAGAG
195 TTGAAGTAAGAG
* *
35722525 CAACGTCATCCTCTTGAAATTGAAATAGAGTTGGGTAACAAGTCTTAATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAATAGAG-TGGATAACAAGTCTTAATCTCTGAAATTGAAGTA
*
35722590 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGA
65 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
* * *
35722655 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAA
130 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTAATCTCTGAAA
*
35722720 TTGAAGTAAAAG
195 TTGAAGTAAGAG
* * * * *
35722732 CAACGTCATCCCCTTGAAACTGAAGTAGAGTGGATAATACGTCTTGATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAACAAGTCTTAATCTCTGAAATTGAAGTAA
35722797 GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAA
66 GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAA
* * * *
35722862 GTAAGAGCAACGTCGTCCCCTTTAAATCGAAATAGAGTTGGATAACAAGTCTTAATCTCTGAAAT
131 GTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTAATCTCTGAAAT
35722927 TGAAGTAAGAG
196 TGAAGTAAGAG
* * * * * * * *
35722938 CAACGTCGTCCCCTTTAAATCGAAATAGGGTTGGATAACACGCCTTTATTTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAATAGAG-TGGATAACAAGTCTTAATCTCTGAAATTGAAGTA
35723003 AGAGCAA
65 AGAGCAA
35723010 GATCATTTCC
Statistics
Matches: 443, Mismatches: 38, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
205 29 0.07
206 315 0.71
207 99 0.22
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (206 bp):
CAACGTCATCCCCTTGAAATTGAAATAGAGTGGATAACAAGTCTTAATCTCTGAAATTGAAGTAA
GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAA
GTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTAATCTCTGAAAT
TGAAGTAAGAG
Found at i:35722667 original size:275 final size:275
Alignment explanation
Indices: 35722320--35723009 Score: 1112
Period size: 275 Copynumber: 2.5 Consensus size: 275
35722310 GTGGATAACA
* * * **
35722320 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACTCATCCTCGTCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722384 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
66 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
*
35722449 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAAT
131 AGTAAGAGCAACGTCATCCCCTTGAAACTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAAT
*
35722514 TGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAATAGAGTTGGGTAACAAGTCTTAATCTCTG
196 TGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAATAGAGTTGGATAACAAGTCTTAATCTCTG
35722579 AAATTGAAGTAAGAG
261 AAATTGAAGTAAGAG
*
35722594 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
35722659 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
66 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
* * * *
35722724 AGTAAAAGCAACGTCATCCCCTTGAAACTGAAGTAGAGTGGATAATACGTCTTGATCTCTGAAAT
131 AGTAAGAGCAACGTCATCCCCTTGAAACTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAAT
* * *
35722789 TGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTG
196 TGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAATAGAGTTGGATAACAAGTCTTAATCTCTG
35722854 AAATTGAAGTAAGAG
261 AAATTGAAGTAAGAG
* * * * *
35722869 CAACGTCGTCCCCTTTAAATCGAAATAGAGTTGGATAACAAGTCTTAATCTCTGAAATTGAAGTA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
* * * * * * * * *
35722934 AGAGCAACGTCGTCCCCTTTAAATCGAAATAGGGTTGGATAACACGCCTTTATTTCTGAAATTGA
66 AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
35722999 AGTAAGAGCAA
131 AGTAAGAGCAA
35723010 GATCATTTCC
Statistics
Matches: 384, Mismatches: 31, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
274 29 0.08
275 355 0.92
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (275 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTAATCTCTGAAATTGAAGTA
AGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGA
AGTAAGAGCAACGTCATCCCCTTGAAACTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAAT
TGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAATAGAGTTGGATAACAAGTCTTAATCTCTG
AAATTGAAGTAAGAG
Found at i:35723384 original size:6 final size:6
Alignment explanation
Indices: 35723366--35723477 Score: 110
Period size: 6 Copynumber: 19.0 Consensus size: 6
35723356 TTAAATTGAT
35723366 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A
* * * *
35723413 TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA TTT-AC CTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
35723459 TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TT-TAAA
35723478 ACAAATTTAA
Statistics
Matches: 88, Mismatches: 8, Indels: 19
0.77 0.07 0.17
Matches are distributed among these distances:
4 6 0.07
5 8 0.09
6 62 0.70
7 6 0.07
8 6 0.07
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:35723384 original size:17 final size:16
Alignment explanation
Indices: 35723366--35723472 Score: 103
Period size: 17 Copynumber: 6.5 Consensus size: 16
35723356 TTAAATTGAT
35723366 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
35723382 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
*
35723399 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
35723413 TTTAAATTTACCTTAAA
1 TTTAAATTTA-TTTAAA
*
35723430 TTTAAATTTAAATTT-AC
1 TTTAAATTT--ATTTAAA
*
35723447 CTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
35723465 TTTAAATT
1 TTTAAATT
35723473 ATAAAACAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
14 11 0.14
15 2 0.03
16 13 0.17
17 40 0.52
18 10 0.13
19 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:35723397 original size:11 final size:11
Alignment explanation
Indices: 35723383--35723456 Score: 64
Period size: 11 Copynumber: 6.8 Consensus size: 11
35723373 TTATTTAAAT
35723383 TTAAATTTATC
1 TTAAATTTATC
**
35723394 TTAAATTTAAA
1 TTAAATTTATC
*
35723405 TTTAA-TTAT-
1 TTAAATTTATC
*
35723414 TTAAATTTACC
1 TTAAATTTATC
35723425 TTAAATTTAAAT-
1 TTAAATTT--ATC
*
35723437 TTAAATTTACC
1 TTAAATTTATC
35723448 TTAAATTTA
1 TTAAATTTA
35723457 AATTTAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
9 4 0.08
10 7 0.14
11 30 0.60
12 8 0.16
13 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAAATTTATC
Found at i:35724226 original size:3 final size:3
Alignment explanation
Indices: 35724218--35724247 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
35724208 TGAAAGACAT
*
35724218 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35724248 AAAAAACTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35724494 original size:22 final size:23
Alignment explanation
Indices: 35724466--35724508 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
35724456 TCTGGGTTTC
*
35724466 GAAATCAAAATAAA-AAAAAACA
1 GAAATCAAAAGAAAGAAAAAACA
35724488 GAAATCAAAAGAAAGAAAAAA
1 GAAATCAAAAGAAAGAAAAAA
35724509 GGAGATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (23 bp):
GAAATCAAAAGAAAGAAAAAACA
Found at i:35724524 original size:22 final size:20
Alignment explanation
Indices: 35724499--35724542 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
35724489 AAATCAAAAG
35724499 AAAGAAAAAAGGAGATAATGGA
1 AAAGAAAAAAGGA-ATAA-GGA
*
35724521 AAAGGAAAAAGGAATAAGGA
1 AAAGAAAAAAGGAATAAGGA
35724541 AA
1 AA
35724543 GGATGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.66, C:0.00, G:0.27, T:0.07
Consensus pattern (20 bp):
AAAGAAAAAAGGAATAAGGA
Found at i:35725330 original size:29 final size:30
Alignment explanation
Indices: 35725226--35725336 Score: 179
Period size: 30 Copynumber: 3.7 Consensus size: 30
35725216 CCCTAAGTTA
35725226 TCCAGAAATTATATTTTGACCCCGAAACTTT
1 TCCA-AAATTATATTTTGACCCCGAAACTTT
35725257 TCCAAAATTATATTTTGACCCCGAAACTTT
1 TCCAAAATTATATTTTGACCCCGAAACTTT
*
35725287 TCCAAAATTATATTTTGACCCC-AAAATTT
1 TCCAAAATTATATTTTGACCCCGAAACTTT
* *
35725316 TCCAAAATTACATTTTAACCC
1 TCCAAAATTATATTTTGACCC
35725337 TAATTTCACC
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 25 0.32
30 48 0.62
31 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.36
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCGAAACTTT
Found at i:35725361 original size:59 final size:57
Alignment explanation
Indices: 35725288--35725601 Score: 269
Period size: 59 Copynumber: 5.4 Consensus size: 57
35725278 CGAAACTTTT
* * * *
35725288 CCAAAATTA-TATTTTGACCCCAAAATTTTCCAAAATTACATTTTAACCCTAATTTCA
1 CCAAAATTACCATTTT-ACCCCAGAATTTTCTAAAATTCCATTTTAACCCTAATTTCA
* * **
35725345 CCGAAAATTACCATTTTACCCCTGAATCTTT-TAAAATTCCGTTTTTAACCCCGATTTCA
1 CC-AAAATTACCATTTTACCCCAGAAT-TTTCTAAAATTCC-ATTTTAACCCTAATTTCA
* ** *
35725404 TCGC-AAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCTAATTTCA
1 -C-CAAAATTACCATTTTACCCCAGAATTTTCTAAAATTCC-ATTTTAACCCTAATTTCA
* * * ** **
35725463 TCACAAATTACCGTTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA
1 CCA-AAATTACCATTTTACCCCAGAATTTTCTAAAATTCCA-TTTTAACCCTAATTTCA
** *
35725522 CCAAAAATTACCATTTTACCCTTGAATCTTT-TAAAATTCCATTTTTAA-CCTCGATTTCA
1 CC-AAAATTACCATTTTACCCCAGAAT-TTTCTAAAATTCCA-TTTTAACCCT-AATTTCA
*
35725581 CCAAAATTACCATTTTGCCCC
1 CCAAAATTACCATTTTACCCC
35725602 CGGGTATCCA
Statistics
Matches: 217, Mismatches: 27, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
57 3 0.01
58 43 0.20
59 166 0.76
60 4 0.02
61 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (57 bp):
CCAAAATTACCATTTTACCCCAGAATTTTCTAAAATTCCATTTTAACCCTAATTTCA
Found at i:35725380 original size:29 final size:28
Alignment explanation
Indices: 35725348--35725566 Score: 113
Period size: 29 Copynumber: 7.5 Consensus size: 28
35725338 AATTTCACCG
*
35725348 AAAATTACCATTTTACCCCTGAATCTTTT
1 AAAATT-CCATTTTACCCCTGAATCTTCT
* * * *
35725377 AAAATTCCGTTTTTAACCCC-GATTTCATCG
1 AAAATTCC-ATTTT-ACCCCTGA-ATCTTCT
* * *
35725407 CAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATT-CCATTTTACCCCTGAATCTTCT
* *
35725436 AAAATTCCGTTTTTAACCCT-AAT-TTCAT
1 AAAATTCC-ATTTTACCCCTGAATCTTC-T
* * *
35725464 CACAAATTACCGTTTTACCCCCGAAGCTTCT
1 -A-AAATT-CCATTTTACCCCTGAATCTTCT
* ** *
35725495 AAAATTCCATTTTTAACCCC-GATTTCACCA
1 AAAATTCCA-TTTT-ACCCCTGA-ATCTTCT
* *
35725525 AAAATTACCATTTTACCCTTGAATCTTTT
1 AAAATT-CCATTTTACCCCTGAATCTTCT
35725554 AAAATTCCATTTT
1 AAAATTCCATTTT
35725567 TAACCTCGAT
Statistics
Matches: 141, Mismatches: 32, Indels: 35
0.68 0.15 0.17
Matches are distributed among these distances:
27 3 0.02
28 16 0.11
29 57 0.40
30 52 0.37
31 10 0.07
32 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.37
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCTGAATCTTCT
Found at i:35725412 original size:30 final size:30
Alignment explanation
Indices: 35725376--35725530 Score: 104
Period size: 30 Copynumber: 5.2 Consensus size: 30
35725366 CTGAATCTTT
35725376 TAAAATTCCGTTTTTAACCCCGATTTCATC
1 TAAAATTCCGTTTTTAACCCCGATTTCATC
** * * ** *
35725406 GCAAATTACC-ATTTTACCCCCGA-AGCTTC
1 TAAAATT-CCGTTTTTAACCCCGATTTCATC
**
35725435 TAAAATTCCGTTTTTAACCCTAATTTCATC
1 TAAAATTCCGTTTTTAACCCCGATTTCATC
* ** *
35725465 -ACAAATTACCG-TTTTACCCCCGA-AGCTTC
1 TA-AAATT-CCGTTTTTAACCCCGATTTCATC
* *
35725494 TAAAATTCCATTTTTAACCCCGATTTCACC
1 TAAAATTCCGTTTTTAACCCCGATTTCATC
*
35725524 AAAAATT
1 TAAAATT
35725531 ACCATTTTAC
Statistics
Matches: 88, Mismatches: 29, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
28 4 0.05
29 37 0.42
30 42 0.48
31 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.35
Consensus pattern (30 bp):
TAAAATTCCGTTTTTAACCCCGATTTCATC
Found at i:35725450 original size:118 final size:117
Alignment explanation
Indices: 35725319--35725603 Score: 376
Period size: 118 Copynumber: 2.4 Consensus size: 117
35725309 AAAATTTTCC
* * * *
35725319 AAAATTACA-TTTTAACCCTAATTTCACCGAAAATTACCATTTTACCCCTGAATCTTTTAAAATT
1 AAAATTCCATTTTTAACCCTAATTTCACC-AAAATTACCATTTTACCCCCGAAGCTTCTAAAATT
* * **
35725383 CCGTTTTTAACCCCGATTTCATCGCAAATTACCATTTTACCCCCGAAGCTTCT
65 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCT
* * *
35725436 AAAATTCCGTTTTTAACCCTAATTTCATCACAAATTACCGTTTTACCCCCGAAGCTTCTAAAATT
1 AAAATTCCATTTTTAACCCTAATTTCACCA-AAATTACCATTTTACCCCCGAAGCTTCTAAAATT
** * *
35725501 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTTGAATCTTTT
65 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCT
* *
35725554 AAAATTCCATTTTTAA-CCTCGATTTCACCAAAATTACCATTTTGCCCCCG
1 AAAATTCCATTTTTAACCCT-AATTTCACCAAAATTACCATTTTACCCCCG
35725604 GGTATCCATA
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
117 29 0.20
118 116 0.80
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (117 bp):
AAAATTCCATTTTTAACCCTAATTTCACCAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTC
CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCT
Found at i:35725586 original size:29 final size:30
Alignment explanation
Indices: 35725495--35725596 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 30
35725485 CGAAGCTTCT
*
35725495 AAAATT-CCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTTAACCTCGATTTCACC
* * **
35725524 AAAAATTACCA-TTTTACCCTTGAATCTT--TT
1 -AAAATTACCATTTTTAACCTCG-AT-TTCACC
35725554 AAAATT-CCATTTTTAACCTCGATTTCACC
1 AAAATTACCATTTTTAACCTCGATTTCACC
35725583 AAAATTACCATTTT
1 AAAATTACCATTTT
35725597 GCCCCCGGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
27 2 0.04
28 5 0.09
29 21 0.38
30 21 0.38
31 5 0.09
32 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATTACCATTTTTAACCTCGATTTCACC
Found at i:35725626 original size:118 final size:117
Alignment explanation
Indices: 35725319--35725639 Score: 328
Period size: 118 Copynumber: 2.7 Consensus size: 117
35725309 AAAATTTTCC
* * * **
35725319 AAAATTACA-TTTTAACCCTAATTTCACCGA-AAATTACCATTTTACCCCTGAATCTTTTAAAAT
1 AAAATTCCATTTTTAACCCTAATTTCACC-ACAAATTACCATTTTACCCCCG-AGCTTCCAAAAT
* * * **
35725382 TCCGTTTTTAACCCCGATTTCATCGCAAATTACCATTTTACCCCCGAAGCTTCT
64 CCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCT
* * * * *
35725436 AAAATTCCGTTTTTAACCCTAATTTCATCACAAATTACCGTTTTACCCCCGAAGCTTCTAAAATT
1 AAAATTCCATTTTTAACCCTAATTTCACCACAAATTACCATTTTACCCCCG-AGCTTCCAAAATC
** * *
35725501 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTTGAATCTTTT
65 CCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCT
* * * *
35725554 AAAATTCCATTTTTAA-CCTCGATTTCACCA-AAATTACCATTTTGCCCCCG-GGTATCCATAAG
1 AAAATTCCATTTTTAACCCT-AATTTCACCACAAATTACCATTTTACCCCCGAGCT-TCCA-AAA
*
35725616 TCCCATTTTTTCACCCCGATTTCA
63 TCCCA-TTTTTAACCCCGATTTCA
35725640 TCATTTATCA
Statistics
Matches: 173, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
115 2 0.01
116 3 0.02
117 35 0.20
118 133 0.77
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (117 bp):
AAAATTCCATTTTTAACCCTAATTTCACCACAAATTACCATTTTACCCCCGAGCTTCCAAAATCC
CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCT
Found at i:35729055 original size:54 final size:55
Alignment explanation
Indices: 35728997--35729119 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 55
35728987 ACAATTTTTT
** * *
35728997 TTTATATGTTTAAGTCAATTGTCATGTTGAAAGAC-AATTTTTTTGAATCAATTG
1 TTTATATGTTTAAGTCAATTGTCATAATGAAAGACTAATTCTTTTGAATCAATTA
* * * * * *
35729051 TTTATATATTTAAATCGATTGTCATAATGAAATACTACTTCTTTTGAATCGATTA
1 TTTATATGTTTAAGTCAATTGTCATAATGAAAGACTAATTCTTTTGAATCAATTA
35729106 TTTATATG-TTAAGT
1 TTTATATGTTTAAGT
35729120 ATGGAGTTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 34 0.61
55 22 0.39
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (55 bp):
TTTATATGTTTAAGTCAATTGTCATAATGAAAGACTAATTCTTTTGAATCAATTA
Found at i:35732411 original size:16 final size:16
Alignment explanation
Indices: 35732390--35732445 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
35732380 TGTTTAGTTC
*
35732390 GCTGTAATGAAATAAA
1 GCTGTAATAAAATAAA
*
35732406 GCTGTAATAAAATAGA
1 GCTGTAATAAAATAAA
* * *
35732422 GCTATAATAGAATAGA
1 GCTGTAATAAAATAAA
*
35732438 GATGTAAT
1 GCTGTAAT
35732446 CAGTAATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.27
Consensus pattern (16 bp):
GCTGTAATAAAATAAA
Found at i:35735704 original size:21 final size:21
Alignment explanation
Indices: 35735656--35735706 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
35735646 CTTTTTCACT
*
35735656 TTGTTTTTTAAAATCTTTTAA
1 TTGTTTTTTAAAATCTTGTAA
* *
35735677 TTTTTTTTTAAAAT-TTGGTCA
1 TTGTTTTTTAAAATCTT-GTAA
35735698 TTGTTTTTT
1 TTGTTTTTT
35735707 TGTTTTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.67
Consensus pattern (21 bp):
TTGTTTTTTAAAATCTTGTAA
Found at i:35735870 original size:21 final size:20
Alignment explanation
Indices: 35735832--35735870 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
35735822 TATTTATGTC
*
35735832 ATGTCATATTGTATTATTAT
1 ATGTCATATTGTACTATTAT
*
35735852 ATGTACATATTGTGCTATT
1 ATGT-CATATTGTACTATT
35735871 TCATTTTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (20 bp):
ATGTCATATTGTACTATTAT
Found at i:35738076 original size:42 final size:38
Alignment explanation
Indices: 35737993--35738082 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 38
35737983 TTTAGAAAAA
* * *
35737993 TTTTAAAATTTTAACTTTTTTTATATATTATTTAGAAT
1 TTTTAAAATTTTAAATTTTTTTAAATATAATTTAGAAT
* *
35738031 TTTTAAAAGTTATTATAATTTTTTTAAATATAAATTTGGACT
1 TTTTAAAA-TT-TTA-AATTTTTTTAAATAT-AATTTAGAAT
35738073 TTTTATAAAT
1 TTTTA-AAAT
35738083 ATTTTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
38 8 0.19
39 2 0.05
40 3 0.07
41 13 0.31
42 13 0.31
43 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (38 bp):
TTTTAAAATTTTAAATTTTTTTAAATATAATTTAGAAT
Found at i:35743185 original size:18 final size:18
Alignment explanation
Indices: 35743162--35743208 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
35743152 ATTATTTAAA
*
35743162 TATAAATTTTGAAAATTT
1 TATAAATTTTGAAAAATT
*
35743180 TATAAATATTTTAAAAATT
1 TATAAAT-TTTGAAAAATT
*
35743199 TAAAAATTTT
1 TATAAATTTT
35743209 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAAATTTTGAAAAATT
Found at i:35750946 original size:11 final size:11
Alignment explanation
Indices: 35750926--35750979 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
35750916 GTTTAAATGG
35750926 ATTTTAAATTT
1 ATTTTAAATTT
35750937 ATTTTAAATTT
1 ATTTTAAATTT
* *
35750948 AAATTT--ACTT
1 -ATTTTAAATTT
35750958 A-TTTAAATTT
1 ATTTTAAATTT
*
35750968 ACTTTAAATTT
1 ATTTTAAATTT
35750979 A
1 A
35750980 ATCAAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 3 0.08
9 1 0.03
10 7 0.19
11 21 0.58
12 4 0.11
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:35750963 original size:14 final size:14
Alignment explanation
Indices: 35750944--35750971 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35750934 TTTATTTTAA
35750944 ATTTAAATTTACTT
1 ATTTAAATTTACTT
35750958 ATTTAAATTTACTT
1 ATTTAAATTTACTT
35750972 TAAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTAAATTTACTT
Found at i:35752834 original size:30 final size:30
Alignment explanation
Indices: 35752800--35752893 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
35752790 AAAATCCCAT
35752800 TTTTAACCTCGATTTCACCAAAAATTACCA
1 TTTTAACCTCGATTTCACCAAAAATTACCA
* *
35752830 TTTTACCCCTAC-ACTTT--CC-AAAA-TCCCA
1 TTTTA-ACCT-CGA-TTTCACCAAAAATTACCA
35752858 TTTTTAACCTCGATTTCACCAAAAATTACCA
1 -TTTTAACCTCGATTTCACCAAAAATTACCA
35752889 TTTTA
1 TTTTA
35752894 CCCCAAAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
27 4 0.08
28 8 0.16
29 11 0.22
30 16 0.31
31 8 0.16
32 4 0.08
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (30 bp):
TTTTAACCTCGATTTCACCAAAAATTACCA
Found at i:35752999 original size:58 final size:59
Alignment explanation
Indices: 35752760--35753130 Score: 567
Period size: 59 Copynumber: 6.3 Consensus size: 59
35752750 TGGACTGTTT
35752760 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAA-CCTCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCT-GATTTCACC
*
35752819 AAAAATTACCATTTTACCCCTACACTTTCCAAAATCCCATTTTTAA-CCTCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCT-GATTTCACC
* * *
35752878 AAAAATTACCATTTTACCCCAAAACTTTCCAAAATCTCATTTTTAACCCTAATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC
* *
35752937 AAAAATTACCATTTTACCCCTAAACATTCC-AAATCCCATTTTTAACCCTAATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC
* *
35752995 AAAAATTACCATTTTACCCCCAAAC-TTCCTAAAATACCATTTTTAACCCTGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCC-AAAATCCCATTTTTAACCCTGATTTCACC
*
35753054 -AAAATTACCATTTTACCCCTAAA-TTTCCTAAAATCCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCC-AAAATCCCATTTTTAACCCTGATTTCACC
35753112 AAAAATTA-CATTTTTACCC
1 AAAAATTACCA-TTTTACCC
35753131 TCGAAAGTTA
Statistics
Matches: 292, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
57 4 0.01
58 107 0.37
59 178 0.61
60 3 0.01
ACGTcount: A:0.35, C:0.30, G:0.01, T:0.34
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC
Found at i:35753036 original size:117 final size:117
Alignment explanation
Indices: 35752760--35753130 Score: 558
Period size: 117 Copynumber: 3.2 Consensus size: 117
35752750 TGGACTGTTT
*
35752760 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAA-CCTCGATTTCACCAAAAA
1 AAAAATTACCATTTTACCCCAAAACTTTCCAAAAT-CCATTTTTAACCCT-GATTTCACCAAAAA
*
35752824 TTACCATTTTACCCCTACACTTTCCAAAATCCCATTTTTAA-CCTCGATTTCACC
64 TTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCT-GATTTCACC
*
35752878 AAAAATTACCATTTTACCCCAAAACTTTCCAAAATCTCATTTTTAACCCTAATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCAAAACTTTCCAAAATC-CATTTTTAACCCTGATTTCACCAAAAAT
* *
35752943 TACCATTTTACCCCTAAACATTCC-AAATCCCATTTTTAACCCTAATTTCACC
65 TACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC
*
35752995 AAAAATTACCATTTTACCCCCAAAC-TTCCTAAAATACCATTTTTAACCCTGATTTCACC-AAAA
1 AAAAATTACCATTTTACCCCAAAACTTTCC-AAAAT-CCATTTTTAACCCTGATTTCACCAAAAA
*
35753058 TTACCATTTTACCCCTAAA-TTTCCTAAAATCCCATTTTTAACCCCGATTTCACC
64 TTACCATTTTACCCCTAAACTTTCC-AAAATCCCATTTTTAACCCTGATTTCACC
35753112 AAAAATTA-CATTTTTACCC
1 AAAAATTACCA-TTTTACCC
35753131 TCGAAAGTTA
Statistics
Matches: 235, Mismatches: 10, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
115 4 0.02
116 29 0.12
117 116 0.49
118 83 0.35
119 3 0.01
ACGTcount: A:0.35, C:0.30, G:0.01, T:0.34
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCCAAAACTTTCCAAAATCCATTTTTAACCCTGATTTCACCAAAAATT
ACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC
Found at i:35756150 original size:12 final size:13
Alignment explanation
Indices: 35756120--35756166 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 13
35756110 CCATCACCGT
*
35756120 CACGTCAGCACCGC
1 CACGTCAGC-CTGC
35756134 CACGTCAGCCT-C
1 CACGTCAGCCTGC
35756146 CACGTCAG--TGC
1 CACGTCAGCCTGC
35756157 CACGTCAGCC
1 CACGTCAGCC
35756167 ACGTGACCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 1 0.03
11 9 0.31
12 9 0.31
13 1 0.03
14 9 0.31
ACGTcount: A:0.19, C:0.47, G:0.21, T:0.13
Consensus pattern (13 bp):
CACGTCAGCCTGC
Found at i:35759201 original size:41 final size:40
Alignment explanation
Indices: 35759113--35759202 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 40
35759103 TTTTCATAAA
* *
35759113 CGTCGCAAAAGGTAAAGCATTAGCGACACTTATGGGAAAG
1 CGTCGCTAAAGGTAAAGCATTAGCGACACTTACGGGAAAG
** * * * *
35759153 CACCGCTAAAGGTCAGAGCATTAGCGGCGCTTGCGGGAAAG
1 CGTCGCTAAAGGT-AAAGCATTAGCGACACTTACGGGAAAG
35759194 CGTCGCTAA
1 CGTCGCTAA
35759203 GCAGGAAAGC
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
40 10 0.26
41 29 0.74
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (40 bp):
CGTCGCTAAAGGTAAAGCATTAGCGACACTTACGGGAAAG
Found at i:35759238 original size:58 final size:59
Alignment explanation
Indices: 35759147--35759260 Score: 176
Period size: 58 Copynumber: 1.9 Consensus size: 59
35759137 GACACTTATG
* * * *
35759147 GGAAAGCACCGCTAAAGGTCAGAGCATTAGCGGCGCTTGCGGGAAAGCGTCGCTAAGCA
1 GGAAAGCACCGCTAAAGATCAGAGCATTAGCGGCACTTGCGAGAAAGCGCCGCTAAGCA
*
35759206 GGAAAGCGCCGCT-AAGATCAGAGCATTAGCGGCACTTGCGAGAAAGCGCCGCTAA
1 GGAAAGCACCGCTAAAGATCAGAGCATTAGCGGCACTTGCGAGAAAGCGCCGCTAA
35759261 AGGTCAGATC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 38 0.76
59 12 0.24
ACGTcount: A:0.30, C:0.25, G:0.32, T:0.13
Consensus pattern (59 bp):
GGAAAGCACCGCTAAAGATCAGAGCATTAGCGGCACTTGCGAGAAAGCGCCGCTAAGCA
Found at i:35759278 original size:41 final size:41
Alignment explanation
Indices: 35759207--35759425 Score: 253
Period size: 41 Copynumber: 5.4 Consensus size: 41
35759197 CGCTAAGCAG
*
35759207 GAAAGCGCCGCT-AAGATCAGAGCATTAGCGGCACTTGCGA
1 GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* *
35759247 GAAAGCGCCGCTAAAGGTCAGATCATTAGCGGCGCTTGC-A
1 GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* * * *
35759287 GGAAAGCACCGTTAAAGGTCAGAGCATTAGCAGCGCTTGCGA
1 -GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* * * * * *
35759329 TAAAGCGCAGCTAAAGGTCAGAGAATTAACGGCACTTGTGG
1 GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
* * * *
35759370 GAAAACGCCGCTAAAGATCAGAGCATTAGCGGCACTTGTGG
1 GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
*
35759411 GGAAGCGCCGCTAAA
1 GAAAGCGCCGCTAAA
35759426 AGTGGATTTT
Statistics
Matches: 151, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
40 13 0.09
41 137 0.91
42 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.16
Consensus pattern (41 bp):
GAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCACTTGCGA
Found at i:35764028 original size:43 final size:43
Alignment explanation
Indices: 35763954--35764305 Score: 415
Period size: 43 Copynumber: 8.3 Consensus size: 43
35763944 TTTGTTAATG
* * * *
35763954 TTAGTGGCGTTTGTGGG-AAAGCGTCGCTAAAGATCATATCCT
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
* *
35763996 TTAGCGGCGTTTGTGAGAAAAGTGTCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
* * *
35764039 TTAGAGACGTTTGTGGGAAAAGTGTCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
* * * * *
35764082 TTAGCAGCGTTTGTGGAAAAAGGGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
** * * *
35764125 TTAGCGGCGTTTGTATGAAAAGCGCCGCTAAAGA-TATGTTAT
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
* * * * * * *
35764167 TTAGCGACATTTATGGGGAAAGCGCCACTAAAGACCTTGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
* *
35764210 TTAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGACCAT-TTTT
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
35764252 TTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
*
35764294 ATAGCGGCGTTT
1 TTAGCGGCGTTT
35764306 TTTTTAATAA
Statistics
Matches: 264, Mismatches: 43, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
41 13 0.05
42 88 0.33
43 163 0.62
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCT
Found at i:35764111 original size:86 final size:86
Alignment explanation
Indices: 35763954--35764305 Score: 408
Period size: 85 Copynumber: 4.1 Consensus size: 86
35763944 TTTGTTAATG
* * * *
35763954 TTAGTGGCGTTTGTGGG-AAAGCGTCGCTAAAGATCATATCCTTTAGCGGCGTTTGT-GAGAAAA
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGA-AAAA
* *
35764017 GTGTCGCTAAAGACCATGTTCT
65 GCGCCGCTAAAGACCATGTTCT
* * * *
35764039 TTAGAGACGTTTGTGGGAAAAGTGTCGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGGAAAAAG
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
* *
35764104 GGCCGCTAAAGATCATGTTCT
66 CGCCGCTAAAGACCATGTTCT
** * * * * * * **
35764125 TTAGCGGCGTTTGTATGAAAAGCGCCGCTAAAGA-TATGTTATTTAGCGACATTTATGGGGAAAG
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
* *
35764189 CGCCACTAAAGACCTTGTTCT
66 CGCCGCTAAAGACCATGTTCT
* * *
35764210 TTAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGACCAT-TTTTTTAGCGGCGTTTGTGGGAAAAG
1 TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
35764274 CG-CGCTAAAGACCATGTTCT
66 CGCCGCTAAAGACCATGTTCT
*
35764294 ATAGCGGCGTTT
1 TTAGCGGCGTTT
35764306 TTTTTAATAA
Statistics
Matches: 223, Mismatches: 41, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
84 27 0.12
85 107 0.48
86 87 0.39
87 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
TTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGAAAAAG
CGCCGCTAAAGACCATGTTCT
Found at i:35764829 original size:16 final size:16
Alignment explanation
Indices: 35764808--35764871 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
35764798 TAATTTATTT
*
35764808 TAAAATTAAATTTGATA
1 TAAATTTAAATTT-ATA
* *
35764825 TAAATTTAGATTTATT
1 TAAATTTAAATTTATA
*
35764841 TAAATTTAAATTTAAA
1 TAAATTTAAATTTATA
35764857 TTAAACTTTAAATTT
1 -TAAA-TTTAAATTT
35764872 GAATTTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 15 0.38
17 15 0.38
18 9 0.23
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (16 bp):
TAAATTTAAATTTATA
Found at i:35764847 original size:6 final size:6
Alignment explanation
Indices: 35764806--35764921 Score: 84
Period size: 6 Copynumber: 20.3 Consensus size: 6
35764796 CTTAATTTAT
* * * *
35764806 TTTAAA ATTAAA TTT-GA TATAAA TTTAGA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
35764851 TTTAAA -TTAAA CTTTAAA TTTGAA TTT-AA TTTGAG TCTAAA TTT-AT
1 TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
35764897 TTTAAA TTTAAA ATT-AA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
35764922 AAAGTCCAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
4 4 0.05
5 21 0.25
6 55 0.65
7 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:35764855 original size:12 final size:12
Alignment explanation
Indices: 35764806--35764921 Score: 84
Period size: 11 Copynumber: 10.2 Consensus size: 12
35764796 CTTAATTTAT
*
35764806 TTTAAAATTAAA
1 TTTAAATTTAAA
* *
35764818 TTT-GATATAAA
1 TTTAAATTTAAA
*
35764829 TTTAGATTT--A
1 TTTAAATTTAAA
35764839 TTTAAATTTAAA
1 TTTAAATTTAAA
35764851 TTTAAA-TTAAA
1 TTTAAATTTAAA
*
35764862 CTTTAAATTTGAA
1 -TTTAAATTTAAA
* *
35764875 TTT-AATTTGAG
1 TTTAAATTTAAA
* *
35764886 TCTAAATTT-AT
1 TTTAAATTTAAA
35764897 TTTAAATTTAAA
1 TTTAAATTTAAA
*
35764909 ATT-AATTTAAA
1 TTTAAATTTAAA
35764920 TT
1 TT
35764922 AAAGTCCAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
10 9 0.11
11 40 0.48
12 31 0.37
13 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:35764908 original size:17 final size:17
Alignment explanation
Indices: 35764799--35764921 Score: 95
Period size: 17 Copynumber: 6.9 Consensus size: 17
35764789 GCCCTTTCTT
* *
35764799 AATTTATTTTAAAATTA
1 AATTTAATTTAAATTTA
* *
35764816 AATTTGATATAAATTTA
1 AATTTAATTTAAATTTA
*
35764833 GATTT-ATTTAAATTTA
1 AATTTAATTTAAATTTA
*
35764849 AATTTAAATTAAACTTTA
1 AATTTAATTTAAA-TTTA
*
35764867 AATTTGAATTTAATTTGAGTCTA
1 AATTT-AATTTAA----A-TTTA
*
35764890 AATTTATTTTAAATTTA
1 AATTTAATTTAAATTTA
*
35764907 AAATTAATTTAAATT
1 AATTTAATTTAAATT
35764922 AAAGTCCAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
16 14 0.17
17 39 0.46
18 10 0.12
19 6 0.07
22 6 0.07
23 9 0.11
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
AATTTAATTTAAATTTA
Found at i:35765658 original size:19 final size:18
Alignment explanation
Indices: 35765634--35765669 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35765624 TAGTAATGAT
*
35765634 AATAATAAATATATTTTTA
1 AATAAT-AATAAATTTTTA
35765653 AATAATAATAAATTTTT
1 AATAATAATAAATTTTT
35765670 GGTTTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATAATAATAAATTTTTA
Found at i:35766965 original size:28 final size:26
Alignment explanation
Indices: 35766889--35766966 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 26
35766879 TAAATTTTAG
*
35766889 AAAATTACATTTTGACCCCAAAACTTCT
1 AAAATTACATTTT-ACCCC-AAACTTCC
*
35766917 AAAACTTATCATTTTATCCCAAACTTTCC
1 AAAA-TTA-CATTTTACCCCAAAC-TTCC
*
35766946 AAAATTCCATTTTAACCCCAA
1 AAAATTACATTTT-ACCCCAA
35766967 TTTCACCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
27 6 0.14
28 16 0.38
29 14 0.33
30 6 0.14
ACGTcount: A:0.38, C:0.27, G:0.01, T:0.33
Consensus pattern (26 bp):
AAAATTACATTTTACCCCAAACTTCC
Found at i:35767023 original size:44 final size:43
Alignment explanation
Indices: 35766942--35767030 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 43
35766932 ATCCCAAACT
*
35766942 TTCCAAAATTCCATTTTAACCCCAATTTCACCAAAAATTACCA
1 TTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACCA
* * ** *
35766985 TTCCAAAATCCCATTTTTAACCTCGATTTCACTGAAAATTATCA
1 TTCCAAAATCCCA-TTTTAACCCCAATTTCACCAAAAATTACCA
35767029 TT
1 TT
35767031 TTATCCCCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 12 0.31
44 27 0.69
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (43 bp):
TTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACCA
Found at i:35767053 original size:29 final size:28
Alignment explanation
Indices: 35767019--35767287 Score: 162
Period size: 29 Copynumber: 9.2 Consensus size: 28
35767009 GATTTCACTG
*
35767019 AAAATTATCATTTTATCCCCGAACTTTCC
1 AAAATTACCATTTTA-CCCCGAACTTTCC
35767048 AAAATT-CCATTTTAACCCCG-A-TTTCATC
1 AAAATTACCATTTT-ACCCCGAACTTTC--C
* *
35767076 AAAAATTACCGTTTTACCCTCAAACTTTCC
1 -AAAATTACCATTTTACCC-CGAACTTTCC
* * *
35767106 AAAA-TCCCATTTTTAACCCTAA-TTTCATC
1 AAAATTACCA-TTTTACCCCGAACTTTC--C
* **
35767135 GAAATTACCATTTTATCCCTAAACTTTCC
1 AAAATTACCATTTTA-CCCCGAACTTTCC
35767164 AAAATT-CCATTTTTAACCCC-AA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCGAACTTT--CC
35767193 AAAAATTACCATTTTACCCCTGAACTTTCC
1 -AAAATTACCATTTTACCCC-GAACTTTCC
* **
35767223 AAAA-TCCCATTTTTAACCCCGATA-TCACC
1 AAAATTACCA-TTTT-ACCCCGA-ACTTTCC
*
35767252 AAAAATTACCATTTTACCCTCAAACTTTCC
1 -AAAATTACCATTTTACCC-CGAACTTTCC
35767282 AAAATT
1 AAAATT
35767288 CGATTTTTAA
Statistics
Matches: 189, Mismatches: 21, Indels: 60
0.70 0.08 0.22
Matches are distributed among these distances:
26 4 0.02
27 8 0.04
28 27 0.14
29 81 0.43
30 48 0.25
31 14 0.07
32 7 0.04
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAACTTTCC
Found at i:35767081 original size:58 final size:59
Alignment explanation
Indices: 35766985--35767359 Score: 440
Period size: 59 Copynumber: 6.4 Consensus size: 59
35766975 AAAATTACCA
* * * * *
35766985 TTCCAAAATCCCATTTTTAACCTCGATTTCA-CTGAAAATTATCATTTTATCCC-CGAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCATC-AAAAATTACCATTTTA-CCCTCAAACT
*
35767044 TTCCAAAATTCCA-TTTTAACCCCGATTTCATCAAAAATTACCGTTTTACCCTCAAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCTCAAACT
* ** *
35767102 TTCCAAAATCCCATTTTTAACCCTAATTTCATC-GAAATTACCATTTTATCCCT-AAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCATTTTA-CCCTCAAACT
* * *
35767160 TTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCC-CTGAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCTC-AAACT
* * *
35767219 TTCCAAAATCCCATTTTTAACCCCGATATCACCAAAAATTACCATTTTACCCTCAAACT
1 TTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCTCAAACT
* * * ** * * *
35767278 TTCCAAAATTCGATTTTTAACCCTGGTTTCATCGTAAATTACCGTTTTACCCTCGAACC
1 TTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCTCAAACT
35767337 TTCCAAAA-TCTCATTTTTAACCC
1 TTCCAAAATTC-CATTTTTAACCC
35767360 TAAATTTTCC
Statistics
Matches: 275, Mismatches: 32, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
57 3 0.01
58 99 0.36
59 172 0.63
60 1 0.00
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
TTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCTCAAACT
Found at i:35767196 original size:117 final size:117
Alignment explanation
Indices: 35766985--35767383 Score: 488
Period size: 117 Copynumber: 3.4 Consensus size: 117
35766975 AAAATTACCA
* * * **
35766985 TTCCAAAATCCCATTTTTAA-CCTCGATTTCACTGAAAATTATCATTTTATCCCCGAACTTTCCA
1 TTCCAAAATCCCATTTTTAACCCT-AATTTCACAG-AAATTACCATTTTATCCCTAAACTTTCCA
*
35767049 AAATTCCA-TTTTAACCCCGATTTCATCAAAAATTACCGTTTTACCCTCAAACT
64 AAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCGTTTTACCCTCGAACT
35767102 TTCCAAAATCCCATTTTTAACCCTAATTTCATC-GAAATTACCATTTTATCCCTAAACTTTCCAA
1 TTCCAAAATCCCATTTTTAACCCTAATTTCA-CAGAAATTACCATTTTATCCCTAAACTTTCCAA
* * *
35767166 AATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCC-CTGAACT
65 AATTCCATTTTTAACCCCGATTTCATCAAAAATTACCGTTTTACCCTC-GAACT
** * *
35767219 TTCCAAAATCCCATTTTTAACCCCGATATCACCAAAAATTACCATTTTA-CCCTCAAACTTTCCA
1 TTCCAAAATCCCATTTTTAACCCTAATTTCA-CAGAAATTACCATTTTATCCCT-AAACTTTCCA
* * * ** *
35767283 AAATTCGATTTTTAACCCTGGTTTCATCGTAAATTACCGTTTTACCCTCGAACC
64 AAATTCCATTTTTAACCCCGATTTCATCAAAAATTACCGTTTTACCCTCGAACT
* *
35767337 TTCCAAAATCTCATTTTTAACCCTAAATTTTCCCA-AAATTA-CATTTT
1 TTCCAAAATCCCATTTTTAACCCT-AA-TTTCACAGAAATTACCATTTT
35767384 TGCCCCTCGA
Statistics
Matches: 246, Mismatches: 27, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
116 35 0.14
117 105 0.43
118 99 0.40
119 4 0.02
120 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (117 bp):
TTCCAAAATCCCATTTTTAACCCTAATTTCACAGAAATTACCATTTTATCCCTAAACTTTCCAAA
ATTCCATTTTTAACCCCGATTTCATCAAAAATTACCGTTTTACCCTCGAACT
Found at i:35767429 original size:28 final size:29
Alignment explanation
Indices: 35767369--35767430 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
35767359 CTAAATTTTC
*
35767369 CCAAAATTACATTTTTGCCCCTCGAGAGT
1 CCAAAATTACATTTTTGCCCCTCGAGAAT
35767398 -CAAAATTACCA-TTTTGCCCC-CG-GATAT
1 CCAAAATTA-CATTTTTGCCCCTCGAGA-AT
35767425 CCAAAA
1 CCAAAA
35767431 GTCTCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 2 0.07
27 3 0.10
28 22 0.76
29 2 0.07
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.27
Consensus pattern (29 bp):
CCAAAATTACATTTTTGCCCCTCGAGAAT
Found at i:35780442 original size:76 final size:76
Alignment explanation
Indices: 35779549--35780445 Score: 1395
Period size: 76 Copynumber: 11.8 Consensus size: 76
35779539 ATCAGACCGC
* * *
35779549 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTACAG-TCGGATAACAAGTCTTTAGCTCTGA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCT-GGATATCAAGTCTTTATCTCTGA
35779613 AATTGAAGTAAG
65 AATTGAAGTAAG
* * * * * *
35779625 AGCAACG-TCATTTCCTAACCGCTTGAAGTTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
1 AGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGA
35779689 AATTGAAGTAAG
65 AATTGAAGTAAG
* * *
35779701 AGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35779766 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
35779777 AGCAAGATCATTTCCTATCCTTTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35779842 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
35779853 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTACCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35779918 ATTGAAGTAAG
66 ATTGAAGTAAG
*
35779929 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTGTCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35779994 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
35780005 AGCGAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTGTCTTTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35780070 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
35780081 AGCGAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTGTCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35780146 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
35780157 AGCGAGATCCTTTCCTATCCTCTTGAAATTGAAGTAAACCTAGATATCAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35780222 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
35780233 AGCAAGATCGTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTGTCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35780298 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * *
35780309 AGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
35780374 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
35780385 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAG-CATTTATCTC
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC-TTTATCTC
35780446 ACTAAAAGGG
Statistics
Matches: 768, Mismatches: 49, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
75 1 0.00
76 765 1.00
77 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:35781373 original size:16 final size:16
Alignment explanation
Indices: 35781352--35781415 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
35781342 TAATTTATTT
*
35781352 TAAAATTAAATTTGATA
1 TAAATTTAAATTT-ATA
* *
35781369 TAAATTTAGATTTATT
1 TAAATTTAAATTTATA
*
35781385 TAAATTTAAATTTAAA
1 TAAATTTAAATTTATA
35781401 TTAAACTTTAAATTT
1 -TAAA-TTTAAATTT
35781416 GAATTTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 15 0.38
17 15 0.38
18 9 0.23
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (16 bp):
TAAATTTAAATTTATA
Found at i:35781391 original size:6 final size:6
Alignment explanation
Indices: 35781350--35781465 Score: 84
Period size: 6 Copynumber: 20.3 Consensus size: 6
35781340 CTTAATTTAT
* * * *
35781350 TTTAAA ATTAAA TTT-GA TATAAA TTTAGA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
35781395 TTTAAA -TTAAA CTTTAAA TTTGAA TTT-AA TTTGAG TCTAAA TTT-AT
1 TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
35781441 TTTAAA TTTAAA ATT-AA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
35781466 AAAGTCCAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
4 4 0.05
5 21 0.25
6 55 0.65
7 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:35781399 original size:12 final size:12
Alignment explanation
Indices: 35781350--35781465 Score: 84
Period size: 11 Copynumber: 10.2 Consensus size: 12
35781340 CTTAATTTAT
*
35781350 TTTAAAATTAAA
1 TTTAAATTTAAA
* *
35781362 TTT-GATATAAA
1 TTTAAATTTAAA
*
35781373 TTTAGATTT--A
1 TTTAAATTTAAA
35781383 TTTAAATTTAAA
1 TTTAAATTTAAA
35781395 TTTAAA-TTAAA
1 TTTAAATTTAAA
*
35781406 CTTTAAATTTGAA
1 -TTTAAATTTAAA
* *
35781419 TTT-AATTTGAG
1 TTTAAATTTAAA
* *
35781430 TCTAAATTT-AT
1 TTTAAATTTAAA
35781441 TTTAAATTTAAA
1 TTTAAATTTAAA
*
35781453 ATT-AATTTAAA
1 TTTAAATTTAAA
35781464 TT
1 TT
35781466 AAAGTCCAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
10 9 0.11
11 40 0.48
12 31 0.37
13 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:35781452 original size:17 final size:17
Alignment explanation
Indices: 35781343--35781465 Score: 95
Period size: 17 Copynumber: 6.9 Consensus size: 17
35781333 GCCCTTTCTT
* *
35781343 AATTTATTTTAAAATTA
1 AATTTAATTTAAATTTA
* *
35781360 AATTTGATATAAATTTA
1 AATTTAATTTAAATTTA
*
35781377 GATTT-ATTTAAATTTA
1 AATTTAATTTAAATTTA
*
35781393 AATTTAAATTAAACTTTA
1 AATTTAATTTAAA-TTTA
*
35781411 AATTTGAATTTAATTTGAGTCTA
1 AATTT-AATTTAA----A-TTTA
*
35781434 AATTTATTTTAAATTTA
1 AATTTAATTTAAATTTA
*
35781451 AAATTAATTTAAATT
1 AATTTAATTTAAATT
35781466 AAAGTCCAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
16 14 0.17
17 39 0.46
18 10 0.12
19 6 0.07
22 6 0.07
23 9 0.11
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
AATTTAATTTAAATTTA
Found at i:35783462 original size:30 final size:29
Alignment explanation
Indices: 35783428--35783493 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
35783418 AATAGTCTAG
*
35783428 AAATTGCATTTTGACCCCCAAAATTTTAGA
1 AAATTACATTTTGACCCCCAAAATTTT-GA
* * * *
35783458 AAATTATATTTTGACCTCGAAACTTTTGA
1 AAATTACATTTTGACCCCCAAAATTTTGA
35783487 AAATTAC
1 AAATTAC
35783494 CGTTTTATCC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTGACCCCCAAAATTTTGA
Found at i:35783627 original size:59 final size:59
Alignment explanation
Indices: 35783486--35784002 Score: 578
Period size: 59 Copynumber: 8.8 Consensus size: 59
35783476 GAAACTTTTG
* ** * * *
35783486 AAAATTACCGTTTTATCCCCAAACTTTCCAAAATTCCATTTTT-ACTCCGGTTTCACCA
1 AAAATTACCATTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * * *
35783544 AAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCG
1 AAAATTACCATTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * * * * *
35783603 AAAATTATCGTTTTATACCTGAACTTTCCAAAATTCCATTTTTAACCCC-AGTTTCATCG
1 AAAATTACCATTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGA-TTTCACCA
*
35783662 AAAATTACCATTTTA-CCCTCGAACTTTCCAAAATCCCATTTTTAGCCCCGATTTCACCA
1 AAAATTACCATTTTATCCCT-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * ** *
35783721 AAAATTACCGTTTTATCCCTAAACTTTCCAAAATCCCATTTTTAACCTTGATTTAACCA
1 AAAATTACCATTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * *
35783780 AAAATTACCATTTTA-CCCTCGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCATCG
1 AAAATTACCATTTTATCCCT-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
** * *
35783839 AAAATTACCATTTTATTACTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTA
1 AAAATTACCATTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
* * * * * * *
35783898 AAAATTACTATTTTACCCCCGAACTTTCCAAAATTCCATTCTTAA-CCCTAGTTTCCCCA
1 AAAATTACCATTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGA-TTTCACCA
* * * * *
35783957 AAAATTATCGTTTTA-CCCTTGAACCTTCTAAAATCTCATTTTTAAC
1 AAAATTACCATTTTATCCC-TGAACTTTCCAAAATCCCATTTTTAAC
35784003 TCTAAATTTT
Statistics
Matches: 387, Mismatches: 62, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
58 54 0.14
59 326 0.84
60 7 0.02
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCA
Found at i:35783702 original size:118 final size:118
Alignment explanation
Indices: 35783485--35784002 Score: 668
Period size: 118 Copynumber: 4.4 Consensus size: 118
35783475 CGAAACTTTT
** * *
35783485 GAAAATTACCGTTTTATCCCCAAACTTTCCAAAATTCCATTTTT-ACTCCGGTTTCACCAAAAAT
1 GAAAATTACCGTTTTATCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
*
35783549 TACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACC
66 TACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * *
35783602 GAAAATTATCGTTTTATACCTGAACTTTCCAAAATTCCATTTTTAACCCC-AGTTTCATCGAAAA
1 GAAAATTACCGTTTTATCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACCAAAAA
* *
35783666 TTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAGCCCCGATTTCACC
65 TTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * ** *
35783720 AAAAATTACCGTTTTATCCCTAAACTTTCCAAAATCCCATTTTTAACCTTGATTTAACCAAAAAT
1 GAAAATTACCGTTTTATCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
* * *
35783785 TACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCATC
66 TACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* ** *
35783838 GAAAATTACCATTTTATTACTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTAAAAAT
1 GAAAATTACCGTTTTATCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
* * * * *
35783903 TACTATTTTACCCCCGAACTTTCCAAAATTCCATTCTTAA-CCCTAGTTTCCCC
66 TACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGA-TTTCACC
* * * *
35783956 AAAAATTATCGTTTTA-CCCTTGAACCTTCTAAAA-TCTCATTTTTAAC
1 GAAAATTACCGTTTTATCCC-TGAACTTTCCAAAATTC-CATTTTTAAC
35784003 TCTAAATTTT
Statistics
Matches: 347, Mismatches: 48, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
117 47 0.14
118 299 0.86
119 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (118 bp):
GAAAATTACCGTTTTATCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
TACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
Found at i:35783786 original size:177 final size:176
Alignment explanation
Indices: 35783485--35784002 Score: 695
Period size: 177 Copynumber: 2.9 Consensus size: 176
35783475 CGAAACTTTT
* * * *
35783485 GAAAATTACCGTTTTATCCC-CAAACTTTCCAAAATTCCATTTTTACTCCGGTTTCACCAAAAAT
1 GAAAATTACCATTTTATCCCTCGAACTTTCCAAAATTCCATTTTTACCCCGATTTCACCAAAAAT
* *
35783549 TACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCGAAAATTATCGT
66 TACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTTGATTTCACCAAAAATTATCGT
* *
35783614 TTTATACCTGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCATC
131 TTTA-CCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
*
35783661 GAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATCCCATTTTTAGCCCCGATTTCACCAAAAA
1 GAAAATTACCATTTTATCCCTCGAACTTTCCAAAATTCCATTTTTA-CCCCGATTTCACCAAAAA
* * ** * * *
35783725 TTACCGTTTTATCCCTAAACTTTCCAAAATCCCATTTTTAACCTTGATTTAACCAAAAATTACCA
65 TTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTTGATTTCACCAAAAATTATCG
*
35783790 TTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCATC
130 TTTTACCCT-GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
** *
35783838 GAAAATTACCATTTTATTACT-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTAAAAA
1 GAAAATTACCATTTTATCCCTCGAACTTTCCAAAATTCCATTTTT-ACCCCGATTTCACCAAAAA
* * * * *
35783902 TTACTATTTTACCCCCGAACTTTCCAAAATTCCATTCTTAACCCT-AGTTTCCCCAAAAATTATC
65 TTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTTGA-TTTCACCAAAAATTATC
* *
35783966 GTTTTACCCTTGAACCTTCTAAAA-TCTCATTTTTAAC
129 GTTTTACCC-TGAACTTTCCAAAATTC-CATTTTTAAC
35784003 TCTAAATTTT
Statistics
Matches: 298, Mismatches: 36, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
175 3 0.01
176 43 0.14
177 248 0.83
178 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (176 bp):
GAAAATTACCATTTTATCCCTCGAACTTTCCAAAATTCCATTTTTACCCCGATTTCACCAAAAAT
TACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCTTGATTTCACCAAAAATTATCGT
TTTACCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
Found at i:35786838 original size:29 final size:29
Alignment explanation
Indices: 35786768--35786838 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
35786758 CTTAATGGCA
*
35786768 AAAAT-GTAATTTCGAGAAAATTTAGGGTT
1 AAAATGGTAATTT-TAGAAAATTTAGGGTT
*
35786797 AAAATGG-AATTTTAGAAAGTTTGAGGG-T
1 AAAATGGTAATTTTAGAAAATTT-AGGGTT
35786825 AAAATGGTAATTTT
1 AAAATGGTAATTTT
35786839 TGGTGAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 16 0.43
29 20 0.54
30 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAAATTTAGGGTT
Found at i:35786882 original size:29 final size:29
Alignment explanation
Indices: 35786767--35786925 Score: 80
Period size: 29 Copynumber: 5.5 Consensus size: 29
35786757 TCTTAATGGC
* * *
35786767 AAAAATGTAATTTCGAGAAAATTTAGGGT
1 AAAAATGAAATTTTGAGAAAGTTTAGGGT
* *
35786796 TAAAATGGAATTTT-AGAAAGTTTGAGGGT
1 AAAAATGAAATTTTGAGAAAGTTT-AGGGT
* * **
35786825 -AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAAAT-G-AAATTTT-GAGAAAGTTTAGGG-T
35786855 AAAAATGAAATTTTG-GAAAGTTTAGGGT
1 AAAAATGAAATTTTGAGAAAGTTTAGGGT
* * *
35786883 -AAAACGATAATTTTTAG-AAGTTTCGGGGT
1 AAAAATGA-AATTTTGAGAAAGTTT-AGGGT
* *
35786912 CAAAATGTAATTTT
1 AAAAATGAAATTTT
35786926 TTGAAGTTTT
Statistics
Matches: 100, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
27 10 0.10
28 27 0.27
29 41 0.41
30 13 0.13
31 5 0.05
32 4 0.04
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAAATGAAATTTTGAGAAAGTTTAGGGT
Found at i:35786903 original size:28 final size:29
Alignment explanation
Indices: 35786872--35786934 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
35786862 AAATTTTGGA
35786872 AAGTTT-AGGGT-AAAACGATAATTTTTAG
1 AAGTTTCAGGGTCAAAACG-TAATTTTTAG
* * *
35786900 AAGTTTCGGGGTCAAAATGTAATTTTTTG
1 AAGTTTCAGGGTCAAAACGTAATTTTTAG
35786929 AAGTTT
1 AAGTTT
35786935 TGGGATCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 6 0.20
29 19 0.63
30 5 0.17
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (29 bp):
AAGTTTCAGGGTCAAAACGTAATTTTTAG
Found at i:35786909 original size:58 final size:57
Alignment explanation
Indices: 35786792--35786925 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 57
35786782 AGAAAATTTA
* * * *
35786792 GGGTTAAAATGGAATTTTAGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAATCG
1 GGGTTAAAATGAAATTTTAGAAAGTTTGAGGGTAAAACGATAATTTTT-GAGAAATCG
* *
35786850 GGGTTAAAAATGAAATTTTGGAAAGTTT-AGGGTAAAACGATAATTTTT-AGAAGTTTCG
1 GGGTT-AAAATGAAATTTTAGAAAGTTTGAGGGTAAAACGATAATTTTTGAGAA--ATCG
* *
35786908 GGGTCAAAATGTAATTTT
1 GGGTTAAAATGAAATTTT
35786926 TTGAAGTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 3 0.05
57 12 0.18
58 30 0.46
59 20 0.31
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (57 bp):
GGGTTAAAATGAAATTTTAGAAAGTTTGAGGGTAAAACGATAATTTTTGAGAAATCG
Found at i:35786923 original size:87 final size:88
Alignment explanation
Indices: 35786767--35786926 Score: 204
Period size: 87 Copynumber: 1.8 Consensus size: 88
35786757 TCTTAATGGC
* *
35786767 AAAAATGTAATTTCGAGAAAATTTAGGGTTAAAATGGAATTTTAGAAAGTTTGAGGGTAAAATGG
1 AAAAATGAAATTTCGAGAAAATTTAGGGTTAAAACGGAATTTTAGAAAGTTTGAGGGTAAAATGG
35786832 TAATTTTTGGTGAAATCGGGGTT
66 TAATTTTTGGTGAAATCGGGGTT
* * *
35786855 AAAAATGAAATTTTG-GAAAGTTTAGGG-TAAAACGATAATTTTTAG-AAGTTTCG-GGGTCAAA
1 AAAAATGAAATTTCGAGAAAATTTAGGGTTAAAACG-GAA-TTTTAGAAAGTTT-GAGGGT-AAA
35786916 AT-GTAATTTTT
62 ATGGTAATTTTT
35786927 TGAAGTTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
86 6 0.10
87 32 0.51
88 25 0.40
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (88 bp):
AAAAATGAAATTTCGAGAAAATTTAGGGTTAAAACGGAATTTTAGAAAGTTTGAGGGTAAAATGG
TAATTTTTGGTGAAATCGGGGTT
Found at i:35786926 original size:29 final size:30
Alignment explanation
Indices: 35786889--35786954 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
35786879 GGGTAAAACG
*
35786889 ATAATTTTTAGAAGTTTCGGGGTCA-AAAT
1 ATAATTTTTAGAAGTTTCGGGATCATAAAT
* * *
35786918 GTAATTTTTTGAAGTTTTGGGATCATAAAT
1 ATAATTTTTAGAAGTTTCGGGATCATAAAT
35786948 ATAATTT
1 ATAATTT
35786955 ATGAACAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (30 bp):
ATAATTTTTAGAAGTTTCGGGATCATAAAT
Found at i:35788002 original size:25 final size:23
Alignment explanation
Indices: 35787962--35788012 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
35787952 TTTCATTTTT
* *
35787962 TTATTTTATTATTATAAATATTA
1 TTATTTTATTACTATAAATATCA
35787985 TTATTATTAATTACTATAAATATCA
1 TTATT-TT-ATTACTATAAATATCA
35788010 TTA
1 TTA
35788013 ATTAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 2 0.08
25 17 0.71
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATTTTATTACTATAAATATCA
Found at i:35788022 original size:25 final size:24
Alignment explanation
Indices: 35787968--35788022 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
35787958 TTTTTTATTT
* * *
35787968 TATTATTATAAATATTATTATTAT
1 TATTACTATAAATATCATTATTAA
35787992 TAATTACTATAAATATCATTAATTAA
1 T-ATTACTATAAATATCATT-ATTAA
35788018 TATTA
1 TATTA
35788023 TTAGTGATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 20 0.77
26 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTACTATAAATATCATTATTAA
Found at i:35788916 original size:27 final size:28
Alignment explanation
Indices: 35788886--35788949 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
35788876 GTTTCAAATT
**
35788886 ATTTTAAATGTATTTAAATTTAAAA-CA
1 ATTTTAAATGTAAATAAATTTAAAATCA
* *
35788913 ATTTTAAATTTAAATACATTTAAAATCA
1 ATTTTAAATGTAAATAAATTTAAAATCA
*
35788941 ATTTAAAAT
1 ATTTTAAAT
35788950 CCAAATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
ATTTTAAATGTAAATAAATTTAAAATCA
Found at i:35788938 original size:17 final size:16
Alignment explanation
Indices: 35788897--35788936 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
35788887 TTTTAAATGT
35788897 ATTTAAATTTAAAACA
1 ATTTAAATTTAAAACA
35788913 ATTTTAAATTTAAATAC-
1 A-TTTAAATTTAAA-ACA
35788930 ATTTAAA
1 ATTTAAA
35788937 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 13 0.59
18 2 0.09
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAATTTAAAACA
Found at i:35788955 original size:28 final size:27
Alignment explanation
Indices: 35788903--35788955 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
35788893 ATGTATTTAA
* **
35788903 ATTTAAAACAATTTTAAATTTAAATAC
1 ATTTAAAACAATTTAAAATCCAAATAC
35788930 ATTTAAAATCAATTTAAAATCCAAAT
1 ATTTAAAA-CAATTTAAAATCCAAAT
35788956 TTTGATCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (27 bp):
ATTTAAAACAATTTAAAATCCAAATAC
Found at i:35794138 original size:58 final size:58
Alignment explanation
Indices: 35794084--35794342 Score: 401
Period size: 58 Copynumber: 4.4 Consensus size: 58
35794074 TTTTGGATAC
*
35794084 TCGGGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTGGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTGGAAAGT
* *
35794143 TCGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTTGGAAAGT
* **
35794202 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGGATTTTCAAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGT
** * *
35794260 TTAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAATGGGATTTTGGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGT
*
35794318 TTGGGGGTAAAATGGTAATTTTTGG
1 TCGGGGGTAAAATGGTAATTTTTGG
35794343 ACAATCCAGG
Statistics
Matches: 185, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
58 94 0.51
59 91 0.49
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (58 bp):
TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGGAAAGT
Found at i:35794280 original size:117 final size:117
Alignment explanation
Indices: 35794084--35794342 Score: 405
Period size: 117 Copynumber: 2.2 Consensus size: 117
35794074 TTTTGGATAC
* ** *
35794084 TCGGGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTGGAAAGTTCGAGG
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTCAAAAGTTAGAGG
*
35794149 GTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
66 GTAAAATGGTAATTTTTGGTAAAATCGAGGTT-AAAATGGAATTTTGGAAAGT
*
35794202 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGGATTTTCAAAAGTTTAG-G
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTCAAAAG-TTAGAG
* *
35794265 GGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAATGGGATTTTGGAAAGT
65 GGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAAGT
*
35794318 TTGGGGGTAAAATGGTAATTTTTGG
1 TCGGGGGTAAAATGGTAATTTTTGG
35794343 ACAATCCAGG
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
116 43 0.33
117 49 0.37
118 39 0.30
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (117 bp):
TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTGAAAATGGGATTTTCAAAAGTTAGAGG
GTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAAGT
Found at i:35794343 original size:30 final size:30
Alignment explanation
Indices: 35794084--35794343 Score: 181
Period size: 30 Copynumber: 8.9 Consensus size: 30
35794074 TTTTGGATAC
*
35794084 TCGGGGGCAAAATGGTAATTTTTGGTGAAA--
1 TCGGGGGTAAAATGGTAATTTTT-G-GAAAGT
* * *
35794114 TCGAGGTTGAAAATGG-GA-TTTTGGAAAGT
1 TCGGGGGT-AAAATGGTAATTTTTGGAAAGT
*
35794143 TCGAGGGTAAAATGGTAATTTTTGGTGAAA--
1 TCGGGGGTAAAATGGTAATTTTT-G-GAAAGT
* *
35794173 TCGAGGTTAAAAATGG-AA-TTTTGGAAAGT
1 TCGGGGGT-AAAATGGTAATTTTTGGAAAGT
35794202 TCGGGGGTAAAATGGTAATTTTTGGTGAAA--
1 TCGGGGGTAAAATGGTAATTTTT-G-GAAAGT
* * **
35794232 TCGGGGTTAAAATGG-GA-TTTTCAAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGAAAGT
** *
35794260 TTAGGGGTAAAATGGTAATTTTTGGTAAA-A
1 TCGGGGGTAAAATGGTAATTTTTGG-AAAGT
* *
35794290 TCGGGGTTAAAATGG-GA-TTTTGGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGAAAGT
*
35794318 TTGGGGGTAAAATGGTAATTTTTGGA
1 TCGGGGGTAAAATGGTAATTTTTGGA
35794344 CAATCCAGGG
Statistics
Matches: 180, Mismatches: 28, Indels: 44
0.71 0.11 0.17
Matches are distributed among these distances:
26 3 0.02
27 11 0.06
28 51 0.28
29 28 0.16
30 60 0.33
31 19 0.11
32 8 0.04
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (30 bp):
TCGGGGGTAAAATGGTAATTTTTGGAAAGT
Found at i:35795058 original size:17 final size:18
Alignment explanation
Indices: 35795035--35795077 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
35795025 TTCCTTTAAC
35795035 TTTTCTTTTCTC-CTTT-
1 TTTTCTTTTCTCTCTTTA
35795051 TTTATC-TTTCTCTCTTTA
1 TTT-TCTTTTCTCTCTTTA
35795069 TTTTCTTTT
1 TTTTCTTTT
35795078 TTAAAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCTTTTCTCTCTTTA
Found at i:35795062 original size:16 final size:17
Alignment explanation
Indices: 35795035--35795076 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
35795025 TTCCTTTAAC
35795035 TTTTCTTT-TCTCCTTT-
1 TTTTCTTTCTCT-CTTTA
35795051 TTTATCTTTCTCTCTTTA
1 TTT-TCTTTCTCTCTTTA
35795069 TTTTCTTT
1 TTTTCTTT
35795077 TTTAAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTTTCTCTCTTTA
Found at i:35796213 original size:6 final size:6
Alignment explanation
Indices: 35796198--35796256 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
35796188 TTAAATTTGA
* * *
35796198 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
35796246 ATAAAT TTAAA
1 TTAAAT TTAAA
35796257 ACCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Done.