Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 177 of 444
Found at i:49277065 original size:27 final size:27
Alignment explanation
Indices: 49277000--49277065 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 27
49276990 GTTGGGTCGT
* *
49277000 TAATACCCCAGT-TTGTAAAATCACCA
1 TAATACCCCTGTAATGTAAAATCACCA
* ** * *
49277026 AAATACCTTTGTAATGTAAAATGACCG
1 TAATACCCCTGTAATGTAAAATCACCA
49277053 TAATACCCCTGTA
1 TAATACCCCTGTA
49277066 TGGTAGAATG
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.29
Consensus pattern (27 bp):
TAATACCCCTGTAATGTAAAATCACCA
Found at i:49277991 original size:34 final size:34
Alignment explanation
Indices: 49277953--49278034 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
49277943 CAAAACGATC
*
49277953 TGGGCCTTAGCCCATATA-AGT-CGCAATATTAGTG
1 TGGGCCTTAGCCCAT-TACAATAC-CAATATTAGTG
* * * *
49277987 TGGGCCCTAGCCTATTACAATACCAGTATTCGTG
1 TGGGCCTTAGCCCATTACAATACCAATATTAGTG
49278021 TGGGCCTTAGCCCA
1 TGGGCCTTAGCCCA
49278035 ATTCAGTACA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 2 0.05
34 36 0.92
35 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAATACCAATATTAGTG
Found at i:49285888 original size:50 final size:49
Alignment explanation
Indices: 49285820--49285949 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
49285810 AAAACTGTGA
* **
49285820 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGG
*
49285870 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGG
* *
49285919 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
49285950 TGCGTACTAG
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 31 0.42
50 41 0.56
51 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGG
Found at i:49288859 original size:28 final size:28
Alignment explanation
Indices: 49288777--49288862 Score: 136
Period size: 28 Copynumber: 3.1 Consensus size: 28
49288767 AAAAGCTTAG
* * *
49288777 TAAGCTTGTACCAAAAACATCAATAGGA
1 TAAGCTCGTACCAAAAACATCAACAGTA
49288805 TAAGCTCGTACCAAAAACATCAACAGTA
1 TAAGCTCGTACCAAAAACATCAACAGTA
*
49288833 TAAGCTCGTACCAAAATCATCAACAGTA
1 TAAGCTCGTACCAAAAACATCAACAGTA
49288861 TA
1 TA
49288863 TAAAATATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (28 bp):
TAAGCTCGTACCAAAAACATCAACAGTA
Found at i:49296145 original size:26 final size:26
Alignment explanation
Indices: 49296116--49296194 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 26
49296106 TTCAAAAGCT
* * *
49296116 TAGTAATCTTGTATCAAAAACATCAA
1 TAGTAAACTCGTACCAAAAACATCAA
49296142 TAGTATAAACTCGTACCAAAAACATCAA
1 TAG--TAAACTCGTACCAAAAACATCAA
* *
49296170 CAGTATAAGTTCGTACCAAAAACAT
1 TAGTA-AA-CTCGTACCAAAAACAT
49296195 TGACAGTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.11
27 2 0.05
28 37 0.84
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (26 bp):
TAGTAAACTCGTACCAAAAACATCAA
Found at i:49296162 original size:28 final size:28
Alignment explanation
Indices: 49296130--49296204 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
49296120 AATCTTGTAT
*
49296130 CAAAAACATCAATAGTATAAACTCGTAC
1 CAAAAACATCAACAGTATAAACTCGTAC
**
49296158 CAAAAACATCAACAGTATAAGTTCGTAC
1 CAAAAACATCAACAGTATAAACTCGTAC
**
49296186 CAAAAACATTGACAGTATA
1 CAAAAACATCAACAGTATA
49296205 TAAAATATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.21
Consensus pattern (28 bp):
CAAAAACATCAACAGTATAAACTCGTAC
Found at i:49302105 original size:6 final size:6
Alignment explanation
Indices: 49302096--49302134 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
49302086 TCAGAACTAG
* * *
49302096 AATCAA AATCAG AATCAA AATCAT AATCAG AATCAA AAT
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AAT
49302135 TAGGTGACAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.21
Consensus pattern (6 bp):
AATCAA
Found at i:49302106 original size:18 final size:18
Alignment explanation
Indices: 49302096--49302134 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
49302086 TCAGAACTAG
49302096 AATCAAAATCAGAATCAA
1 AATCAAAATCAGAATCAA
*
49302114 AATCATAATCAGAATCAA
1 AATCAAAATCAGAATCAA
49302132 AAT
1 AAT
49302135 TAGGTGACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.21
Consensus pattern (18 bp):
AATCAAAATCAGAATCAA
Found at i:49302159 original size:12 final size:12
Alignment explanation
Indices: 49302085--49302167 Score: 62
Period size: 12 Copynumber: 6.8 Consensus size: 12
49302075 AAGAAACATT
49302085 ATCAGAA-CTAGA
1 ATCAGAATC-AGA
*
49302097 ATCAAAATCAGA
1 ATCAGAATCAGA
* *
49302109 ATCAAAATCATA
1 ATCAGAATCAGA
*
49302121 ATCAGAATCAAA
1 ATCAGAATCAGA
* *
49302133 ATTAG-GTGACAGA
1 ATCAGAAT--CAGA
49302146 ATCAGAATCAGA
1 ATCAGAATCAGA
*
49302158 ATCAGTATCA
1 ATCAGAATCA
49302168 ATTAACAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
11 1 0.02
12 47 0.82
13 8 0.14
14 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.13, T:0.20
Consensus pattern (12 bp):
ATCAGAATCAGA
Found at i:49302635 original size:27 final size:27
Alignment explanation
Indices: 49302605--49302719 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 27
49302595 GGGGTAAAAT
* * * *
49302605 GGTAATTTTACCCCACAAGAGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49302632 GGTAATTCCACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49302659 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49302686 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
49302713 GGTAATT
1 GGTAATT
49302720 TCACAAATCA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:49302829 original size:27 final size:27
Alignment explanation
Indices: 49302704--49302844 Score: 120
Period size: 27 Copynumber: 5.2 Consensus size: 27
49302694 TACCCTACAG
* *** * *
49302704 GGGTATTTCGGTAATTTCACAAATCAT
1 GGGTATTTTGGTAATTTTGTAAACCAA
**
49302731 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
* * ** * *
49302758 GGGTATTTTGGTAATTCTATTGATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAA
49302785 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
* * *
49302812 GGGTATTTTAGTAATTTTTGTAAATCGA
1 GGGTATTTTGGTAA-TTTTGTAAACCAA
49302840 GGGTA
1 GGGTA
49302845 AAATAGTAAT
Statistics
Matches: 94, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
27 78 0.83
28 16 0.17
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACCAA
Found at i:49302865 original size:27 final size:27
Alignment explanation
Indices: 49302795--49302979 Score: 226
Period size: 27 Copynumber: 6.8 Consensus size: 27
49302785 GGGTATTTTG
* * ***
49302795 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTTTGTAAATCGAGGGTAAAATA
49302822 GTAATTTTTGTAAATCGAGGGTAAAATA
1 GTAA-TTTTGTAAATCGAGGGTAAAATA
* *
49302850 GTAATTTTGTCAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATA
* * *
49302877 GTAATTCTGTAAATTGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAATA
49302904 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAATA
* * * *
49302931 ATAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAATA
*
49302958 GTAATTTTGTAATTCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
49302980 CTTTGATAAT
Statistics
Matches: 134, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
27 112 0.84
28 22 0.16
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAATA
Found at i:49302989 original size:27 final size:27
Alignment explanation
Indices: 49302956--49303073 Score: 87
Period size: 27 Copynumber: 4.4 Consensus size: 27
49302946 AAGGGTAAAA
* *
49302956 CAGTAATTTTGTAATTCGAGGGTACTTT
1 CAGTAATTTTGCAAGTCGAGGGTA-TTT
* *
49302984 GA-TAATTTTACAAGTCGAGGGTATTT
1 CAGTAATTTTGCAAGTCGAGGGTATTT
* *
49303010 CAGTAATTTTGCAA-ACTGAAGGTATTT
1 CAGTAATTTTGCAAGTC-GAGGGTATTT
** * * *
49303037 TGGTAATTTTACAAATCGAGGATATTT
1 CAGTAATTTTGCAAGTCGAGGGTATTT
**
49303064 GGGTAATTTT
1 CAGTAATTTT
49303074 ATAAACCAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.07
27 65 0.90
28 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
CAGTAATTTTGCAAGTCGAGGGTATTT
Found at i:49302990 original size:81 final size:81
Alignment explanation
Indices: 49302795--49303006 Score: 221
Period size: 81 Copynumber: 2.6 Consensus size: 81
49302785 GGGTATTTTG
** * * * *
49302795 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTTGTAAATCGAGGGTAAAATAGTAATTTTGT
1 GTAATTTTGTAATTCGAGGGTATTTCAGTAA-TTTTGTAAATCGAGGGTAAAATAATAATTCTGT
* * **
49302860 CAATCGAGGGTAAAATG
65 AAATCAAGGGTAAAACA
* ***
49302877 GTAATTCTGTAAATT-GAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTGT
1 GTAATTTTGT-AATTCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTGT
49302941 AAATCAAGGGTAAAACA
65 AAATCAAGGGTAAAACA
* ** *
49302958 GTAATTTTGTAATTCGAGGGTACTTTGA-TAATTTTACAAGTCGAGGGTA
1 GTAATTTTGTAATTCGAGGGTA-TTTCAGTAATTTTGTAAATCGAGGGTA
49303007 TTTCAGTAAT
Statistics
Matches: 105, Mismatches: 22, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
80 4 0.04
81 78 0.74
82 21 0.20
83 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (81 bp):
GTAATTTTGTAATTCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTGTA
AATCAAGGGTAAAACA
Found at i:49303014 original size:54 final size:52
Alignment explanation
Indices: 49302704--49303132 Score: 204
Period size: 54 Copynumber: 8.0 Consensus size: 52
49302694 TACCCTACAG
* ** ** *
49302704 GGGTA-TTTCGGTAATTTCACAAATC-ATGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTACTTT-GGTAATTTTAC-AATCGA-GGGTATTTCAGTAATTTTGTAAA-CGA
* * ** ** *
49302758 GGGTATTTTGGTAATTCTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTACTTTGGTAATTTTA-CAATCGAGGGTATTTCAGTAATTTTGTAAA-CGA
* * ** *
49302812 GGGTATTTTAGTAATTTTTGTA-AATCGAGGGTAAAAT-AGTAATTTTGTCAATCGA
1 GGGTACTTTGGTAA--TTT-TACAATCGAGGGT-ATTTCAGTAATTTTGT-AAACGA
*** * ***
49302867 GGGTAAAATGGTAATTCTGTA-AATTGAGGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTACTTTGGTAATT-T-TACAATCGAGGGTATTTCAGTAATTTTGTAAA-CGA
*** ** * *** *
49302921 GGGTAAAATAATAATTCTGTA-AATCAAGGGTAAAACAGTAATTTTGTAATTCGA
1 GGGTACTTTGGTAATT-T-TACAATCGAGGGTATTTCAGTAATTTTGTAA-ACGA
* *
49302975 GGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTACTTTGGTAATTTTACAA-TCGAGGGTATTTCAGTAATTTTGTAAAC-GA
* * * ** * *
49303029 AGGTATTTTGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCA
1 GGGTACTTTGGTAATTTTAC-AATCGAGGGTATTTCAGTAATTTTGTAAACGA
* * *
49303082 GGGGTACTTTGGTAATTTTACAATTGGGGGTATTTCAGTAATTTGGTAAAC
1 -GGGTACTTTGGTAATTTTACAATCGAGGGTATTTCAGTAATTTTGTAAAC
49303133 TAAAGTATTC
Statistics
Matches: 304, Mismatches: 54, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.01
53 35 0.12
54 222 0.73
55 37 0.12
56 6 0.02
57 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (52 bp):
GGGTACTTTGGTAATTTTACAATCGAGGGTATTTCAGTAATTTTGTAAACGA
Found at i:49303122 original size:26 final size:26
Alignment explanation
Indices: 49302971--49303125 Score: 116
Period size: 27 Copynumber: 5.8 Consensus size: 26
49302961 ATTTTGTAAT
*
49302971 TCGAGGGTACTTT-GATAATTTTACAA
1 TCGAGGGTA-TTTCGGTAATTTTACAA
* *
49302997 GTCGAGGGTATTTCAGTAATTTTGCAA
1 -TCGAGGGTATTTCGGTAATTTTACAA
* * *
49303024 ACTGAAGGTATTTTGGTAATTTTACAAA
1 TC-GAGGGTATTTCGGTAATTTTAC-AA
* * *
49303052 TCGAGGATATTTGGGTAATTTTATAA
1 TCGAGGGTATTTCGGTAATTTTACAA
* *
49303078 ACCAGGGGTACTTT-GGTAATTTTACAA
1 TCGA-GGGTA-TTTCGGTAATTTTACAA
* * *
49303105 TTGGGGGTATTTCAGTAATTT
1 TCGAGGGTATTTCGGTAATTT
49303126 GGTAAACTAA
Statistics
Matches: 100, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
25 3 0.03
26 20 0.20
27 71 0.71
28 6 0.06
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (26 bp):
TCGAGGGTATTTCGGTAATTTTACAA
Found at i:49312375 original size:23 final size:23
Alignment explanation
Indices: 49312345--49312404 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
49312335 GTTTAAGCCT
49312345 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
49312368 CACACGCCCATGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
49312391 CACACGACCGTGTG
1 CACACGCCCGTGTG
49312405 CATTAGGACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.23, C:0.32, G:0.32, T:0.13
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:49318296 original size:28 final size:28
Alignment explanation
Indices: 49318198--49318296 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
49318188 TCACAAATTG
* * *
49318198 GCACTAAGTGTGCGGGTTCAAATCGTATA
1 GCACTAAGTGTGCGAGTTCGAAT-ATATA
* * *
49318227 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGAATATATA
*
49318255 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGAATATAT-A
49318283 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49318297 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.68
29 18 0.30
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGAATATATA
Found at i:49321296 original size:28 final size:28
Alignment explanation
Indices: 49321264--49321362 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
49321254 GCAATAAGCC
*
49321264 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
49321292 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
49321320 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
49321349 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49321363 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:49327193 original size:28 final size:28
Alignment explanation
Indices: 49327161--49327259 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
49327151 GCAATAAGCC
*
49327161 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
49327189 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
49327217 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
49327246 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49327260 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:49334752 original size:28 final size:29
Alignment explanation
Indices: 49334654--49334752 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
49334644 TCACAAATTG
* *
49334654 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
49334683 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
49334711 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
49334739 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49334753 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:49343176 original size:24 final size:24
Alignment explanation
Indices: 49343152--49343458 Score: 546
Period size: 24 Copynumber: 12.9 Consensus size: 24
49343142 GACTATAGCA
* **
49343152 AATCGCACACATAGTGCTATAGCA
1 AATCGCACACATAGTGCCATAGTG
*
49343176 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
*
49343200 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
49343224 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
49343248 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
*
49343272 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
49343296 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
49343320 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
49343344 AATCGCACACATAGTGCCATAGT-
1 AATCGCACACATAGTGCCATAGTG
49343367 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
49343391 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
49343415 AATCGCACACATAGTGCCATAGT-
1 AATCGCACACATAGTGCCATAGTG
49343438 AATCGCACACATAGTGCCATA
1 AATCGCACACATAGTGCCATA
49343459 TGGTCTTTGC
Statistics
Matches: 277, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
23 44 0.16
24 233 0.84
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
AATCGCACACATAGTGCCATAGTG
Found at i:49350337 original size:40 final size:39
Alignment explanation
Indices: 49350271--49350413 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 39
49350261 AAATTGAATG
* * *
49350271 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGCCCGAAGGCAATTATGCTAGAAACT
* * ***
49350310 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAG-CCCGAAGGCAATTATGCTAGAAACT
* * **
49350350 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTA-T
1 ATATCCGGGCTAA-GCCCGAAGGCAATT-ATGCTAGAAACT
*
49350389 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGGCA
49350414 TTTGTGCACG
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 38 0.44
40 46 0.53
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTATGCTAGAAACT
Found at i:49350399 original size:39 final size:39
Alignment explanation
Indices: 49350309--49350436 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 39
49350299 TGCTGGAAAT
* * *
49350309 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGGA
* *
49350349 TATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGT-TA
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGGA
*
49350388 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGT-GA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGGA
49350427 TTATATCCGG
1 -TATATCCGG
49350437 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 34 0.45
40 40 0.53
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGGA
Found at i:49358320 original size:40 final size:40
Alignment explanation
Indices: 49358254--49358420 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49358244 AAATTGAATG
* * *
49358254 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49358293 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
49358333 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49358373 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49358413 ATATCCGG
1 ATATCCGG
49358421 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49364703 original size:40 final size:40
Alignment explanation
Indices: 49364533--49364696 Score: 262
Period size: 40 Copynumber: 4.2 Consensus size: 40
49364523 AACCCAAGTA
* * *
49364533 CCTTCGGGATTTAG-CCGGATATA-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
49364571 CCTTC-GGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
49364610 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
49364650 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
49364690 CCTTCGG
1 CCTTCGG
49364697 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
37 7 0.06
38 14 0.12
39 17 0.15
40 79 0.68
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:49366092 original size:13 final size:13
Alignment explanation
Indices: 49366074--49366099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49366064 ATTTTTATTT
49366074 TTAACATAAAATA
1 TTAACATAAAATA
49366087 TTAACATAAAATA
1 TTAACATAAAATA
49366100 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:49368897 original size:29 final size:29
Alignment explanation
Indices: 49368836--49368925 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
49368826 CACATACCTG
* *
49368836 TATATAGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
49368864 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
49368893 TATATGACCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
49368922 TATA
1 TATA
49368926 GTCATGTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 17 0.30
29 39 0.70
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:49369154 original size:16 final size:16
Alignment explanation
Indices: 49369130--49369172 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
49369120 GTAGTTAAAC
*
49369130 TTTTAGCTTTTCGATA
1 TTTTAGCTTTTCGACA
* *
49369146 TTTTGGCTTTTCGGCA
1 TTTTAGCTTTTCGACA
*
49369162 TTTTTGCTTTT
1 TTTTAGCTTTT
49369173 GTCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.14, G:0.16, T:0.60
Consensus pattern (16 bp):
TTTTAGCTTTTCGACA
Found at i:49369787 original size:10 final size:9
Alignment explanation
Indices: 49369771--49369795 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49369761 ATATTTATAC
49369771 TAAAAAAAA
1 TAAAAAAAA
49369780 TAAAAAAAA
1 TAAAAAAAA
49369789 TAAAAAA
1 TAAAAAA
49369796 TACACCTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:49375903 original size:25 final size:24
Alignment explanation
Indices: 49375817--49375980 Score: 114
Period size: 24 Copynumber: 6.7 Consensus size: 24
49375807 TGGACACACC
* *
49375817 ATGGCTCTCACGAGCTTCCCAATTA
1 ATGGCTCTCATGAGCTTCCCGA-TA
* * *
49375842 ATGGCTCTCTTGAGCTTCCCGTTT
1 ATGGCTCTCATGAGCTTCCCGATA
* *
49375866 ATGGCT-TGTATGAGCTTCCTGATA
1 ATGGCTCT-CATGAGCTTCCCGATA
* **
49375890 ATTGGCTCTCATGAGATTCTTGATTA
1 A-TGGCTCTCATGAGCTTCCCGA-TA
* * *
49375916 ATGGCTCTTAAGAGCTACCCGATA
1 ATGGCTCTCATGAGCTTCCCGATA
* * * * *
49375940 TTGGCTCGCACGACCTTCCCGATT
1 ATGGCTCTCATGAGCTTCCCGATA
*
49375964 ATGGCTCGCATGAGCTT
1 ATGGCTCTCATGAGCTT
49375981 TGTAACAACC
Statistics
Matches: 106, Mismatches: 29, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
23 1 0.01
24 52 0.49
25 49 0.46
26 4 0.04
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
ATGGCTCTCATGAGCTTCCCGATA
Found at i:49376587 original size:21 final size:21
Alignment explanation
Indices: 49376562--49376601 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49376552 TGAAACTATG
*
49376562 AGTATTAT-GAAGTTTGATGAT
1 AGTA-TATGGAAGATTGATGAT
49376583 AGTATATGGAAGATTGATG
1 AGTATATGGAAGATTGATG
49376602 TTTGGTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (21 bp):
AGTATATGGAAGATTGATGAT
Found at i:49386674 original size:40 final size:40
Alignment explanation
Indices: 49386619--49386840 Score: 376
Period size: 40 Copynumber: 5.6 Consensus size: 40
49386609 TATTCGAATG
49386619 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
49386659 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
49386699 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
49386739 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
49386779 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
49386819 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
49386841 TACTTGGGTT
Statistics
Matches: 173, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.08
40 156 0.90
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:49394926 original size:40 final size:40
Alignment explanation
Indices: 49394827--49395047 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
49394817 TATTCGAATG
49394827 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
49394867 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
49394906 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
49394946 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
49394986 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
49395026 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
49395048 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 53 0.31
40 115 0.67
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:49403196 original size:39 final size:40
Alignment explanation
Indices: 49403138--49403238 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
49403128 AAATTGAATG
* *
49403138 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
49403177 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
49403217 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
49403239 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:49403231 original size:40 final size:40
Alignment explanation
Indices: 49403138--49403320 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
49403128 AAATTGAATG
* * * * *
49403138 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
49403177 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
49403217 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
49403257 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
49403297 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
49403321 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:49408790 original size:39 final size:40
Alignment explanation
Indices: 49408612--49408794 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
49408602 CCGCACCAAG
* * * * * * * *
49408612 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
49408652 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
49408692 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
49408732 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
49408771 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49408795 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:49410961 original size:25 final size:27
Alignment explanation
Indices: 49410927--49410985 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
49410917 CTTATGAGCA
*
49410927 TCCCGATTAA-AGGTTCTTTGTGAACT
1 TCCCGATTAATAGGCTCTTTGTGAACT
* *
49410953 TCCCG-TTAATTGGCTCTTTGTGAGCT
1 TCCCGATTAATAGGCTCTTTGTGAACT
49410979 TCCCGAT
1 TCCCGAT
49410986 AGTGCTTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 23 0.82
27 1 0.04
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (27 bp):
TCCCGATTAATAGGCTCTTTGTGAACT
Found at i:49411067 original size:24 final size:25
Alignment explanation
Indices: 49411035--49411108 Score: 100
Period size: 24 Copynumber: 3.1 Consensus size: 25
49411025 TTCCTGTTAC
49411035 ATGGCTCTTTATGAGCTTCCCGA-T
1 ATGGCTCTTTATGAGCTTCCCGATT
* * *
49411059 ATGGTTCTTTGTGAACTTCCCGATT
1 ATGGCTCTTTATGAGCTTCCCGATT
49411084 ATGGCTC-TTATGAGCTTCCC-ATT
1 ATGGCTCTTTATGAGCTTCCCGATT
49411107 AT
1 AT
49411109 ATAGACCAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
23 5 0.12
24 31 0.72
25 7 0.16
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.41
Consensus pattern (25 bp):
ATGGCTCTTTATGAGCTTCCCGATT
Found at i:49412569 original size:43 final size:41
Alignment explanation
Indices: 49412478--49412572 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 41
49412468 ATGTAATCGA
* * *
49412478 CATGTAAGACCATATCTAGGATATGGCATCGATATTAGGCT
1 CATGTAAGACCATAGCTAGGATATGGCATCGATATAAGGCC
* * * *
49412519 TACTGTAAGACCATAGCTGGGCTATTGGCATCGATATAAGATCC
1 CA-TGTAAGACCATAGCTAGGATA-TGGCATCGATATAAG-GCC
49412563 CATGTAAGAC
1 CATGTAAGAC
49412573 AATATTTGGG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 18 0.42
43 22 0.51
44 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (41 bp):
CATGTAAGACCATAGCTAGGATATGGCATCGATATAAGGCC
Found at i:49425010 original size:21 final size:21
Alignment explanation
Indices: 49424986--49425055 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
49424976 TGATCTAAAA
49424986 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * * *
49425007 TCA-TGATATATGTGACATCTAAGC
1 TCATTGA-GT-TGTG--GTCTGAGT
49425031 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
49425052 TCAT
1 TCAT
49425056 GATGTATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 4 0.11
23 4 0.11
24 9 0.25
25 3 0.08
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:49432319 original size:40 final size:40
Alignment explanation
Indices: 49432245--49432454 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
49432235 ATCTTGGGAT
** * *
49432245 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
49432283 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
49432323 TTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
49432363 TTAGCCCGGATATAG-CAACT-GCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
49432402 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
49432442 TTAGCCCGGATAT
1 TTAGCCCGGATAT
49432455 CATTCGAATA
Statistics
Matches: 146, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 4 0.03
39 51 0.35
40 91 0.62
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:49432394 original size:79 final size:79
Alignment explanation
Indices: 49432240--49432454 Score: 267
Period size: 79 Copynumber: 2.7 Consensus size: 79
49432230 CAAGTATCTT
* * * * *
49432240 GGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTCACTA
1 GGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
*
49432304 GCATAAATGCCTTC
66 GCACAAATGCCTTC
* *
49432318 GGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAAC
1 GGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTC-AC
49432382 T-GCACAAATGCCTTC
64 TAGCACAAATGCCTTC
* * *
49432397 -GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
49432455 CATTCGAATA
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
78 11 0.09
79 79 0.66
80 30 0.25
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (79 bp):
GGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
GCACAAATGCCTTC
Found at i:49443439 original size:40 final size:40
Alignment explanation
Indices: 49443365--49443575 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
49443355 TCTTCAGGAT
** * *
49443365 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
49443403 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* **
49443443 TTAGCCCGGATATAATTTCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
49443483 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
49443523 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
49443563 TTAACCCGGATAT
1 TTAGCCCGGATAT
49443576 CATTCGAATA
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
38 4 0.03
39 15 0.10
40 123 0.86
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:49445401 original size:40 final size:40
Alignment explanation
Indices: 49445346--49445488 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
49445336 GGGCTGTCAC
*
49445346 ACTATATCCGGGCTAAGTCCCGAATGCATTTGTGCTAGTG
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG
**
49445386 ACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTG
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG
* * *
49445426 ACTATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TG
*
49445467 --TATATCC-GGCTAAATCCCGAAG
1 ACTATATCCGGGCTAAGTCCCGAAG
49445489 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 13 0.14
39 6 0.07
40 70 0.77
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG
Found at i:49463405 original size:50 final size:50
Alignment explanation
Indices: 49463327--49463429 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
49463317 TATTCACAAG
49463327 CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
1 CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
*
49463377 CATAGTATACATTTCAAACGTACTTGATTCAGATACACATTTCATATATT
1 CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
49463427 CAT
1 CAT
49463430 TCTTTTCTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (50 bp):
CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
Found at i:49463611 original size:42 final size:43
Alignment explanation
Indices: 49463503--49463663 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 43
49463493 GCTCGTACAC
* * * *
49463503 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCA-AATATCGA
1 TGCCAACGTCCCAGACATGGTCTTACACGAAATCATAA-GTCGA
* * * * *
49463546 TGCC-ACTATTCGAGATAGGGTCTTACACGAAATCA-AA-TACGA
1 TGCCAAC-GTCCCAGACATGGTCTTACACGAAATCATAAGT-CGA
* * * *
49463588 TGTCGATGTCTCAGACATGGTCTTACACGTAAATCATAAGTCGA
1 TGCCAACGTCCCAGACATGGTCTTACACG-AAATCATAAGTCGA
**
49463632 TGCCAACGTCCCAGATGTGGTCTTACACGAAA
1 TGCCAACGTCCCAGACATGGTCTTACACGAAA
49463664 ACACATATTG
Statistics
Matches: 90, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
41 1 0.01
42 24 0.27
43 36 0.40
44 28 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
TGCCAACGTCCCAGACATGGTCTTACACGAAATCATAAGTCGA
Found at i:49465906 original size:13 final size:13
Alignment explanation
Indices: 49465888--49465912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49465878 CATTATCAAC
49465888 TCAAAATTCAAAA
1 TCAAAATTCAAAA
49465901 TCAAAATTCAAA
1 TCAAAATTCAAA
49465913 TCACACTGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TCAAAATTCAAAA
Found at i:49469055 original size:28 final size:28
Alignment explanation
Indices: 49468994--49469091 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49468984 TCACAAATTG
** * *
49468994 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49469023 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49469051 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49469079 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49469092 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49476736 original size:28 final size:28
Alignment explanation
Indices: 49476675--49476772 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
49476665 TCACAAATTG
** * *
49476675 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
49476704 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
49476732 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
49476760 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49476773 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:49482323 original size:24 final size:24
Alignment explanation
Indices: 49482288--49482449 Score: 119
Period size: 24 Copynumber: 6.6 Consensus size: 24
49482278 CAATCGATTT
**
49482288 CGCACACATAGTGTTATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
* * * *
49482312 CGCACACTTAGTGCCATGCTAACC
1 CGCACACATAGTGCCATTCAAATC
* *
49482336 CACACACATAGTGCC-TTAGAAATC
1 CGCACACATAGTGCCATT-CAAATC
* * * *
49482360 CACACACTCGTATTGACATTCAAATC
1 CGCACA--CATAGTGCCATTCAAATC
** * * *
49482386 AACACACGTAGTGCTATTCAATTC
1 CGCACACATAGTGCCATTCAAATC
49482410 CGCACACATAGTGCCATTCAAAATC
1 CGCACACATAGTGCCATTC-AAATC
*
49482435 CGCACACTTAGTGCC
1 CGCACACATAGTGCC
49482450 TATGTCATTT
Statistics
Matches: 106, Mismatches: 27, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
23 1 0.01
24 69 0.65
25 18 0.17
26 16 0.15
27 2 0.02
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:49487989 original size:7 final size:8
Alignment explanation
Indices: 49487961--49487988 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
49487951 TTCAAACTAC
49487961 TTTTTATT
1 TTTTTATT
49487969 TTTTTATT
1 TTTTTATT
49487977 TTTTTATT
1 TTTTTATT
49487985 TTTT
1 TTTT
49487989 AACAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:49491703 original size:39 final size:39
Alignment explanation
Indices: 49491619--49491771 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
49491609 TATGGTAACC
** * *
49491619 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
49491659 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
49491698 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
49491737 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
49491772 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:49491744 original size:78 final size:79
Alignment explanation
Indices: 49491588--49491770 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
49491578 TCGTTCAAAC
* * **
49491588 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
49491653 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
49491668 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
49491732 CAATTTGCACAATT
66 CAATTTGCACAATT
49491746 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
49491771 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:49499772 original size:39 final size:39
Alignment explanation
Indices: 49499657--49499838 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 39
49499647 TCGTTCAAAC
* * ** * **
49499657 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
49499697 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
49499737 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * *
49499776 GCCTTCGGGCTTAGCCCGGATATCA-CATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
49499814 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
49499839 CTCGAACATT
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
38 35 0.28
39 51 0.41
40 38 0.31
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:49499819 original size:38 final size:38
Alignment explanation
Indices: 49499697--49499839 Score: 223
Period size: 39 Copynumber: 3.7 Consensus size: 38
49499687 CCGCACAAAG
*
49499697 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCAC-ATTTGCACAATT
* * *
49499737 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCA-CATTTGCACAATT
49499776 GCCTTCGGGCTTAGCCCGGATATCACATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACATTTGCACAATT
49499814 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
49499840 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
38 36 0.38
39 50 0.53
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (38 bp):
GCCTTCGGGCTTAGCCCGGATATCACATTTGCACAATT
Found at i:49499825 original size:77 final size:79
Alignment explanation
Indices: 49499657--49499838 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
49499647 TCGTTCAAAC
* * **
49499657 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
49499722 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
49499737 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
49499801 C-ATTTGCACAATT
66 CAATTTGCACAATT
49499814 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
49499839 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 37 0.39
78 16 0.17
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:49506244 original size:42 final size:43
Alignment explanation
Indices: 49506134--49506293 Score: 119
Period size: 44 Copynumber: 3.7 Consensus size: 43
49506124 TCATACAATT
* * * * * * *
49506134 CCAACGTCCTAGACGTGGTCTTACATG-TAATCAAATATCAATG
1 CCAATGTCCCAGACATGGTCTTACACGAAAATCAAA-GTCGATG
* * * * *
49506177 CCACTATCCCAGACAGGGTCCTACAC-AAAATC-AAGTATGATG
1 CCAATGTCCCAGACATGGTCTTACACGAAAATCAAAGT-CGATG
* *
49506219 CCAATGTCCCAGACATGGACTTACACGTAAATCATAAGTCGATG
1 CCAATGTCCCAGACATGGTCTTACACGAAAATCA-AAGTCGATG
* * *
49506263 CCAACGTCCCAGACGTGGTCTTACATGAAAA
1 CCAATGTCCCAGACATGGTCTTACACGAAAA
49506294 CATATATTGG
Statistics
Matches: 88, Mismatches: 24, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
41 1 0.01
42 26 0.30
43 27 0.31
44 30 0.34
45 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGAAAATCAAAGTCGATG
Found at i:49506251 original size:43 final size:43
Alignment explanation
Indices: 49506134--49506287 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
49506124 TCATACAATT
* * * * *
49506134 CCAACGTCCTAGACGTGGTCTTACATGT-AATCAAATATCAATG
1 CCAACGTCCCAGACATGGTCTTACACGTAAATCAAGTAT-GATG
* * * *
49506177 CC-ACTATCCCAGACAGGGTCCTACAC-AAAATCAAGTATGATG
1 CCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAGTATGATG
* * *
49506219 CCAATGTCCCAGACATGGACTTACACGTAAATCATAAGT-CGATG
1 CCAACGTCCCAGACATGGTCTTACACGTAAATC--AAGTATGATG
*
49506263 CCAACGTCCCAGACGTGGTCTTACA
1 CCAACGTCCCAGACATGGTCTTACA
49506288 TGAAAACATA
Statistics
Matches: 86, Mismatches: 19, Indels: 11
0.74 0.16 0.09
Matches are distributed among these distances:
42 24 0.28
43 32 0.37
44 26 0.30
45 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
CCAACGTCCCAGACATGGTCTTACACGTAAATCAAGTATGATG
Found at i:49522852 original size:29 final size:29
Alignment explanation
Indices: 49522819--49522949 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
49522809 TGACGAGATC
*
49522819 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
49522848 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
49522877 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
49522906 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
49522935 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
49522950 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:49530817 original size:29 final size:29
Alignment explanation
Indices: 49530784--49530914 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
49530774 TGACGAGATC
*
49530784 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
49530813 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
49530842 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
49530871 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
49530900 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
49530915 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:49535217 original size:40 final size:40
Alignment explanation
Indices: 49535160--49535345 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
49535150 TCGAATGATG
* * * *
49535160 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
49535200 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49535240 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** * *
49535280 TCCGGGTTAAGTGCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
49535321 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
49535346 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49535352 original size:80 final size:79
Alignment explanation
Indices: 49535213--49535368 Score: 183
Period size: 80 Copynumber: 2.0 Consensus size: 79
49535203 GGACTAAGAT
* **
49535213 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCAAAGGCATTTGAACGAG-TAGCT
49535277 AAATCCGGGTTAAGTG
65 AAATCC-GGTTAAGTG
* * * *
49535293 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCAAAGGCATTTGAACGAGTAGC
*
49535356 TATATCCGGTTAA
64 TAAATCCGGTTAA
49535369 ACTCCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
79 9 0.14
80 54 0.83
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCAAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTG
Found at i:49537276 original size:26 final size:27
Alignment explanation
Indices: 49537236--49537295 Score: 104
Period size: 26 Copynumber: 2.2 Consensus size: 27
49537226 AAATAAGTGA
49537236 AAAGTTAGGATAAAATGGTAATTTTACC
1 AAAG-TAGGATAAAATGGTAATTTTACC
49537264 AAAGTAGG-TAAAATGGTAATTTTACC
1 AAAGTAGGATAAAATGGTAATTTTACC
49537290 AAAGTA
1 AAAGTA
49537296 TGTGTTATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 24 0.75
27 4 0.12
28 4 0.12
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (27 bp):
AAAGTAGGATAAAATGGTAATTTTACC
Found at i:49537678 original size:53 final size:53
Alignment explanation
Indices: 49537616--49537721 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
49537606 TGAGCATTGA
49537616 AATCGACGTTACGAGCAAGTTCAACAAAAATATGGTATCGAAGAATCTCGTTT
1 AATCGACGTTACGAGCAAGTTCAACAAAAATATGGTATCGAAGAATCTCGTTT
49537669 AATCGACGTTACGAGCAAGTTCAACAAAAATATGGTATCGAAGAATCTCGTTT
1 AATCGACGTTACGAGCAAGTTCAACAAAAATATGGTATCGAAGAATCTCGTTT
49537722 GAACTTTAGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (53 bp):
AATCGACGTTACGAGCAAGTTCAACAAAAATATGGTATCGAAGAATCTCGTTT
Found at i:49541347 original size:45 final size:45
Alignment explanation
Indices: 49541278--49541391 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
49541268 AAAATCCAAA
*
49541278 CTCAATGAGTTGGTCCGGGTTCATGATATGTATGAGACATCCGAG
1 CTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGACATCCGAG
* *
49541323 CTCGTTGAGTTGGTCCGGGTTCATGATATGTATGAGACATCTGAG
1 CTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGACATCCGAG
* *
49541368 CTCATTGACTTGGTCCGAGTTCAT
1 CTCATTGAGTTGGTCCGGGTTCAT
49541392 TATGGATGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (45 bp):
CTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGACATCCGAG
Found at i:49544337 original size:108 final size:110
Alignment explanation
Indices: 49544193--49544393 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
49544183 ATCCTTTTGA
* * *
49544193 AACTTACCATTGCCATGTCTCGACATGGCCTTACATGGTATCATTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGACCTGACATGGTATCATTGCCTTA-GAAACCTCACCAA
*
49544256 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * * *
49544301 AACTTATCAATGCCATGTCTTGACATGATCTGACATGGTGTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGACCTGACATGGTATCATTGCCTTAGAAACCTCACCAAT
49544366 TACCATGCCTTGGCATGGTCTTACATGG
66 TACCATGCCTTGGCATGGTCTTACATGG
49544394 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 45 0.56
109 7 0.09
110 27 0.34
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGACCTGACATGGTATCATTGCCTTAGAAACCTCACCAAT
TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:49544394 original size:55 final size:53
Alignment explanation
Indices: 49544167--49544400 Score: 228
Period size: 55 Copynumber: 4.4 Consensus size: 53
49544157 CATGAATTCT
* * *
49544167 CATGGTCTTACATGGTATCCTT---TT-GAAACTTACCATTGCCATGTCTCGA
1 CATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGCCATGCCTTGA
* * * *
49544216 CATGGCCTTACATGGTATCATTGCCTTATG-AACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTA-GAAACTTACCAATGCCATGCCTTGA
* * * *
49544269 CATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTGCC-T-TAGAAACTTACCAATGCCATGCCTTGA
* * * * *
49544324 CATGATCTGACATGGTGTCCTTGCCTTAGAAACCTTACCAATTACCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTAGAAA-CTTACCAA-TGCCATGCCTTGA
49544379 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
49544401 AAACCCTAAT
Statistics
Matches: 147, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
49 20 0.14
52 3 0.02
53 43 0.29
54 11 0.07
55 68 0.46
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (53 bp):
CATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGCCATGCCTTGA
Found at i:49546392 original size:41 final size:41
Alignment explanation
Indices: 49546331--49546948 Score: 604
Period size: 41 Copynumber: 15.1 Consensus size: 41
49546321 ACGCCACTAT
* *
49546331 AAGTC-GAGAAATAGTGGCGTTTTTAGAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
*
49546371 AAGTCCGAGAATTAGCGGCGTTTTTCA-AGAAAA-GCCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTT-AGA-AAAACGCCGCCAA
* *
49546412 AAGTCTGAGAATTAGCGGCGTTTTTCA-AGAAACGCCGGCAA
1 AAGTCTGAGAATTAGCGGCGTTTTT-AGAAAAACGCCGCCAA
* * * * ** *
49546453 AATTCTGAGAATTCGCGACATTTTTCCAAAAACGCCGGCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* * * **
49546494 AATTCTGAGAATTCGCGGCATTTTTCCAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
** *
49546535 AAGTCTGAGAATTAGCGGTATTTTTAGAAAAACACCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* ** *
49546576 AAGTCTGAGCATTAGCAACGTTTTTAGAAAAACGTCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* * ** ** *
49546617 AGGTTTGAGCGTTAGCGGCGTTTTTCCAAAAACGCCGCTAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* ** * **
49546658 AGGTCTGAGCGTTAGCGGCGTTGTT-GAAAAAACGTAGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAG-AAAAACGCCGCCAA
* * * * *
49546699 AAGTCTGAGCATTTGCGGCTTTTTTGGAAAAACGCCGCTAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* *
49546740 AAGTCTGAGAATTAGCGGCGTTTTTCGGAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* * * *
49546781 AA-TATTGAGCATTAGCGGCGTTTTTGGGAAAACGCCGCC-A
1 AAGT-CTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* * * *
49546821 AAGTCTAAGTATTCGCGGCGTTTTTGGAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* *
49546862 AAGTCTGAGTATTCGCGGCGTTTTT-GAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
* * * *
49546902 AAGTCTGAGCATTAGCGGCGTTTTTGGAGAAACGCCGCTAA
1 AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
*
49546943 ACGTCT
1 AAGTCT
49546949 TTTTTGAATT
Statistics
Matches: 498, Mismatches: 69, Indels: 21
0.85 0.12 0.04
Matches are distributed among these distances:
40 80 0.16
41 412 0.83
42 6 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (41 bp):
AAGTCTGAGAATTAGCGGCGTTTTTAGAAAAACGCCGCCAA
Found at i:49547073 original size:35 final size:35
Alignment explanation
Indices: 49547002--49547083 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
49546992 TTATTTTTTG
* **
49547002 GGTTTACGGTTTAATATTTAAGGTTTAAGGTCTAT
1 GGTTTAGGGTTTAATATTTAAAATTTAAGGTCTAT
* *
49547037 GGTTTAGGGTTTAATATTTAAAATGTTAA-TTTTAT
1 GGTTTAGGGTTTAATATTTAAAAT-TTAAGGTCTAT
49547072 GGTTTAGGGTTT
1 GGTTTAGGGTTT
49547084 TGTTATTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (35 bp):
GGTTTAGGGTTTAATATTTAAAATTTAAGGTCTAT
Found at i:49547166 original size:8 final size:8
Alignment explanation
Indices: 49547153--49547256 Score: 50
Period size: 8 Copynumber: 14.1 Consensus size: 8
49547143 GCGGTATTAA
49547153 GGGTTTAT
1 GGGTTTAT
49547161 GGGTTTA-
1 GGGTTTAT
*
49547168 -GGTTTAA
1 GGGTTTAT
*
49547175 GGGTTCAT
1 GGGTTTAT
49547183 -GGTTTAT
1 GGGTTTAT
*
49547190 --GTTTTT
1 GGGTTTAT
49547196 GTGGTTTA-
1 G-GGTTTAT
*
49547204 GGGTTTAG
1 GGGTTTAT
*
49547212 GGGTTTAA
1 GGGTTTAT
49547220 GGG-TTA-
1 GGGTTTAT
49547226 GTGG-TTA-
1 G-GGTTTAT
*
49547233 GGG-TTAG
1 GGGTTTAT
*
49547240 GGGTTCAT
1 GGGTTTAT
49547248 GGGTTTAT
1 GGGTTTAT
49547256 G
1 G
49547257 TTTTTTTTGC
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
6 17 0.22
7 24 0.31
8 33 0.42
9 4 0.05
ACGTcount: A:0.14, C:0.02, G:0.39, T:0.44
Consensus pattern (8 bp):
GGGTTTAT
Found at i:49547176 original size:22 final size:22
Alignment explanation
Indices: 49547149--49547259 Score: 79
Period size: 22 Copynumber: 5.1 Consensus size: 22
49547139 TTTAGCGGTA
49547149 TTAAGGGTTTATGGGTTTAGGT
1 TTAAGGGTTTATGGGTTTAGGT
* *
49547171 TTAAGGGTTCAT-GGTTTATGT
1 TTAAGGGTTTATGGGTTTAGGT
**
49547192 TTTTGTGGTTTA-GGGTTTAGGGGT
1 TTAAG-GGTTTATGGGTTTA--GGT
*
49547216 TTAAGGG-TTA-GTGG-TTAGGG
1 TTAAGGGTTTATG-GGTTTAGGT
* * *
49547236 TTAGGGGTTCATGGGTTTATGT
1 TTAAGGGTTTATGGGTTTAGGT
49547258 TT
1 TT
49547260 TTTTTGCGAT
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
20 8 0.12
21 15 0.22
22 36 0.53
23 4 0.06
24 5 0.07
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (22 bp):
TTAAGGGTTTATGGGTTTAGGT
Found at i:49547210 original size:7 final size:7
Alignment explanation
Indices: 49547101--49547241 Score: 56
Period size: 7 Copynumber: 19.3 Consensus size: 7
49547091 TTGGGTTTGA
49547101 GGTTTAG
1 GGTTTAG
*
49547108 TGTTTAG
1 GGTTTAG
*
49547115 TGTTTAG
1 GGTTTAG
* *
49547122 TGTTTAT
1 GGTTTAG
* *
49547129 GATCTTAA
1 GGT-TTAG
*
49547137 TGTTTAG
1 GGTTTAG
49547144 CGGTATTAAG
1 -GGT-TT-AG
49547154 GGTTTATG
1 GGTTTA-G
49547162 GGTTTA-
1 GGTTTAG
49547168 GGTTTAAG
1 GGTTT-AG
* *
49547176 GGTTCAT
1 GGTTTAG
*
49547183 GGTTTAT
1 GGTTTAG
* *
49547190 GTTTTTG
1 GGTTTAG
49547197 TGGTTTAG
1 -GGTTTAG
49547205 GGTTTAGG
1 GGTTTA-G
49547213 GGTTTAAG
1 GGTTT-AG
49547221 GG-TTAG
1 GGTTTAG
49547227 TGG-TTAG
1 -GGTTTAG
49547234 GG-TTAG
1 GGTTTAG
49547240 GG
1 GG
49547242 GTTCATGGGT
Statistics
Matches: 106, Mismatches: 17, Indels: 23
0.73 0.12 0.16
Matches are distributed among these distances:
6 15 0.14
7 50 0.47
8 33 0.31
9 6 0.06
10 2 0.02
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:49547216 original size:15 final size:14
Alignment explanation
Indices: 49547198--49547244 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
49547188 ATGTTTTTGT
49547198 GGTTTAGGGTTTAGG
1 GGTTTAGGG-TTAGG
*
49547213 GGTTTAAGGGTTAGT
1 GGTTT-AGGGTTAGG
49547228 GG-TTAGGGTTAGG
1 GGTTTAGGGTTAGG
49547241 GGTT
1 GGTT
49547245 CATGGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 10 0.36
14 3 0.11
15 11 0.39
16 4 0.14
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.38
Consensus pattern (14 bp):
GGTTTAGGGTTAGG
Found at i:49547993 original size:14 final size:14
Alignment explanation
Indices: 49547951--49547994 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
49547941 GCGGTATTAA
49547951 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
49547965 TGG-TTAGGGGTTAG
1 -GGTTTAAGGGTTAG
*
49547979 GGTTTAAGGGATAG
1 GGTTTAAGGGTTAG
49547993 GG
1 GG
49547995 GATAAGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:49548474 original size:22 final size:22
Alignment explanation
Indices: 49548449--49548503 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
49548439 TATCTAGAAT
49548449 TTAGGGTTTAAT-GTTTATAAGG
1 TTAGGGTTTAATGGTTTA-AAGG
* *
49548471 TTAGGGGTTT-ATGGTTTAGAGT
1 TTA-GGGTTTAATGGTTTAAAGG
49548493 TTAGGGTTTAA
1 TTAGGGTTTAA
49548504 GATTTAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 6 0.21
22 11 0.39
23 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTAATGGTTTAAAGG
Found at i:49548486 original size:7 final size:7
Alignment explanation
Indices: 49548475--49548520 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
49548465 ATAAGGTTAG
49548475 GGGTTTA
1 GGGTTTA
*
49548482 TGGTTTA
1 GGGTTTA
*
49548489 GAGTTTA
1 GGGTTTA
49548496 GGGTTTA
1 GGGTTTA
* *
49548503 AGATTTA
1 GGGTTTA
49548510 GGGTTTA
1 GGGTTTA
49548517 GGGT
1 GGGT
49548521 CTGATTTTGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:49548501 original size:21 final size:21
Alignment explanation
Indices: 49548443--49548520 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
49548433 ATTTAGTATC
*
49548443 TAGAATTTAGGGTTTAAT-GTT
1 TAGAGTTTAGGGTTT-ATGGTT
* *
49548464 TATAAGGTTAGGGGTTTATGGTT
1 TA-GAGTTTA-GGGTTTATGGTT
* *
49548487 TAGAGTTTAGGGTTTAAGATT
1 TAGAGTTTAGGGTTTATGGTT
*
49548508 TAGGGTTTAGGGT
1 TAGAGTTTAGGGT
49548521 CTGATTTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 24 0.52
22 11 0.24
23 11 0.24
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (21 bp):
TAGAGTTTAGGGTTTATGGTT
Found at i:49549855 original size:24 final size:26
Alignment explanation
Indices: 49549828--49549882 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
49549818 AATTTTTTTA
*
49549828 ATTAAT-CGAAATTTTT-TATCTAAT
1 ATTAATCCGAAATTTTTATATATAAT
* *
49549852 ATT-ATCCTAAATTTTTATATATTAT
1 ATTAATCCGAAATTTTTATATATAAT
49549877 ATTAAT
1 ATTAAT
49549883 TTAATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 12 0.48
25 9 0.36
26 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTAATCCGAAATTTTTATATATAAT
Found at i:49551826 original size:9 final size:9
Alignment explanation
Indices: 49551785--49551921 Score: 112
Period size: 9 Copynumber: 14.6 Consensus size: 9
49551775 ATTGATCATT
*
49551785 ACTTAAATA
1 ACTTACATA
*
49551794 AGTTACATA
1 ACTTACATA
* *
49551803 ACTCACGTA
1 ACTTACATA
49551812 ACTTACATA
1 ACTTACATA
*
49551821 ATTTACATAACA
1 ACTTACAT---A
*
49551833 ACCTACATA
1 ACTTACATA
49551842 ACTTACATA
1 ACTTACATA
49551851 ACTTACATA
1 ACTTACATA
* *
49551860 ATTTATATA
1 ACTTACATA
*
49551869 ACTCACATA
1 ACTTACATA
* *
49551878 ACGTATATAACA
1 AC-T-TA-CATA
49551890 ACTTACATA
1 ACTTACATA
*
49551899 ACTCACATA
1 ACTTACATA
49551908 ACTTACATA
1 ACTTACATA
49551917 ACTTA
1 ACTTA
49551922 ACTAATACAT
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
9 83 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:49551859 original size:57 final size:57
Alignment explanation
Indices: 49551785--49551919 Score: 162
Period size: 57 Copynumber: 2.4 Consensus size: 57
49551775 ATTGATCATT
* * * * **
49551785 ACTTAAATAAGTTACATAACTCACGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
* * * * *
49551842 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
*
49551899 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
49551920 TAACTAATAC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
Found at i:49551877 original size:48 final size:48
Alignment explanation
Indices: 49551790--49551919 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
49551780 TCATTACTTA
* * * * *
49551790 AATAAGTTACATAACTCACGTAACTTACATAATTTACATAAC-AACCT
1 AATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
* * * * *
49551837 ACATAACTTACATAACTTACATAATTTATATAACTCACATAACGTATAT
1 A-ATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
*
49551886 AACAACTTACATAACTCACATAACTTACATAACT
1 AATAACTTACATAACTCACATAACTTACATAACT
49551920 TAACTAATAC
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
47 1 0.01
48 63 0.94
49 3 0.04
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (48 bp):
AATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
Found at i:49557517 original size:21 final size:22
Alignment explanation
Indices: 49557492--49557540 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
49557482 TCTAGCCGAT
49557492 GCAGCAGA-GAGGGAGGCAGCG
1 GCAGCAGATGAGGGAGGCAGCG
49557513 GCAGCA-ATGAGGGAGGCAGCG
1 GCAGCAGATGAGGGAGGCAGCG
49557534 GCAGCAG
1 GCAGCAG
49557541 CAAGAGAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (22 bp):
GCAGCAGATGAGGGAGGCAGCG
Found at i:49557549 original size:21 final size:21
Alignment explanation
Indices: 49557504--49557550 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
49557494 AGCAGAGAGG
** *
49557504 GAGGCAGCGGCAGCAATGAGG
1 GAGGCAGCGGCAGCAACAAGA
*
49557525 GAGGCAGCGGCAGCAGCAAGA
1 GAGGCAGCGGCAGCAACAAGA
49557546 GAGGC
1 GAGGC
49557551 GGAGCAGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.21, G:0.47, T:0.02
Consensus pattern (21 bp):
GAGGCAGCGGCAGCAACAAGA
Found at i:49557951 original size:43 final size:44
Alignment explanation
Indices: 49557888--49557995 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
49557878 TTTAGCGGCG
*
49557888 TTTGTGGGGAAAGCGCCGCT-AAAGGACTCTACTTTTGGCAGCA
1 TTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTGGCAGCA
* * * *
49557931 TTTGTGGAGAAAGCGTCGCTAAAAGGTCTGTACTTTTGGCGGCA
1 TTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTGGCAGCA
* * * *
49557975 TTTTTGGTGTAAGCACCGCTA
1 TTTGTGGAGAAAGCGCCGCTA
49557996 TAGGTCTGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 18 0.33
44 36 0.67
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (44 bp):
TTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTGGCAGCA
Found at i:49557976 original size:44 final size:42
Alignment explanation
Indices: 49557878--49558272 Score: 267
Period size: 43 Copynumber: 9.2 Consensus size: 42
49557868 AATCTGTAAA
* * *
49557878 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGACTCTACT
1 TTTAGCGGCATTTGT-GGGAAAGCGCCGCTAAAGGTCTGTACT
* * *
49557921 TTTGGCAGCATTTGTGGAGAAAGCGTCGCTAAAAGGTCTGTACT
1 TTTAGCGGCATTTGTGG-GAAAGCGCCGCT-AAAGGTCTGTACT
* * * * * **
49557965 TTTGGCGGCATTTTTGGTGTAAGCACCGCTATAGGTCTGTAAA
1 TTTAGCGGCATTTGTGG-GAAAGCGCCGCTAAAGGTCTGTACT
* *
49558008 TTTAGCGGC-TTTTTGGGCAAAAGCTCCGCTAAAGGTCTGTACT
1 TTTAGCGGCATTTGTGGG--AAAGCGCCGCTAAAGGTCTGTACT
* *** * *
49558051 TTTAGCGGCGCTTTG-CAAACAAACGCCGCTAAAGGTCTGCACT
1 TTTAGCGGC-ATTTGTGGGA-AAGCGCCGCTAAAGGTCTGTACT
* * * ** *
49558094 TTTAGCGGCGCTTT-TCCCGGAAA-CGCCGCTGAAGGTCTACACC
1 TTTAGCGGC-ATTTGT--GGGAAAGCGCCGCTAAAGGTCTGTACT
* * * * * *
49558137 TTTAGCGGCGTTTTTGGGTAAGCGTCGCTAAAGGTATGTGCT
1 TTTAGCGGCATTTGTGGGAAAGCGCCGCTAAAGGTCTGTACT
* ** *
49558179 TTTAGCGGCATTTGTTTGCTAAGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGCATTTG-TGGGAAAGCGCCGCTAAAGGTCTGTACT
* * * * * *
49558222 ATTAGCGGCGTTTATGGTAAAGCGCCGCTAAAGGTATCTACT
1 TTTAGCGGCATTTGTGGGAAAGCGCCGCTAAAGGTCTGTACT
49558264 TTTAGCGGC
1 TTTAGCGGC
49558273 GTTTTTCGTT
Statistics
Matches: 279, Mismatches: 60, Indels: 27
0.76 0.16 0.07
Matches are distributed among these distances:
41 5 0.02
42 69 0.25
43 163 0.58
44 37 0.13
45 5 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCATTTGTGGGAAAGCGCCGCTAAAGGTCTGTACT
Found at i:49558183 original size:42 final size:41
Alignment explanation
Indices: 49557878--49558321 Score: 180
Period size: 43 Copynumber: 10.4 Consensus size: 41
49557868 AATCTGTAAA
* * *
49557878 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGG-ACTCTACT
1 TTTAGCGGCGTTT-T-TGGTAAGCGCCGCTAAAGGTA-TATACT
* * * * * * * *
49557921 TTTGGCAGCATTTGTGGAGAAAGCGTCGCTAAAAGGTCTGTACT
1 TTTAGCGGCGTTT-TTG-GTAAGCGCCGCT-AAAGGTATATACT
* * * * * * **
49557965 TTTGGCGGCATTTTTGGTGTAAGCACCGCTATAGGTCTGTAAA
1 TTTAGCGGCGTTTTT-G-GTAAGCGCCGCTAAAGGTATATACT
* * * *
49558008 TTTAGCGGC-TTTTTGGGCAAAAGCTCCGCTAAAGGTCTGTACT
1 TTTAGCGGCGTTTTT-GG--TAAGCGCCGCTAAAGGTATATACT
* ** * * **
49558051 TTTAGCGGCG-CTTTGCAAACAAACGCCGCTAAAGGTCTGCACT
1 TTTAGCGGCGTTTTTG---GTAAGCGCCGCTAAAGGTATATACT
* * * * * *
49558094 TTTAGCGGCGCTTTTCCCGG-AAACGCCGCTGAAGGTCTACACC
1 TTTAGCGGCG-TTTT--TGGTAAGCGCCGCTAAAGGTATATACT
* * *
49558137 TTTAGCGGCGTTTTTGGGTAAGCGTCGCTAAAGGTATGTGCT
1 TTTAGCGGCGTTTTT-GGTAAGCGCCGCTAAAGGTATATACT
* * *
49558179 TTTAGCGGCATTTGTTTGCTAAGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGC-GTT-TTTGGTAAGCGCCGCTAAAGGTATATACT
* * *
49558222 ATTAGCGGCGTTTATGGTAAAGCGCCGCTAAAGGTATCTACT
1 TTTAGCGGCGTTTTTGGT-AAGCGCCGCTAAAGGTATATACT
* * *
49558264 TTTAGCGGCGTTTTTCGTTCAAACGCCGCTAAA--AATGATGACT
1 TTTAGCGGCGTTTTT-GGT-AAGCGCCGCTAAAGGTAT-AT-ACT
*
49558307 TTTAGTGGCGTTTTT
1 TTTAGCGGCGTTTTT
49558322 TCACATAAAT
Statistics
Matches: 317, Mismatches: 62, Indels: 44
0.75 0.15 0.10
Matches are distributed among these distances:
41 9 0.03
42 75 0.24
43 195 0.62
44 35 0.11
45 2 0.01
47 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGTAAGCGCCGCTAAAGGTATATACT
Found at i:49558291 original size:85 final size:82
Alignment explanation
Indices: 49557878--49558296 Score: 252
Period size: 85 Copynumber: 4.9 Consensus size: 82
49557868 AATCTGTAAA
* * * * * * **
49557878 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGG-ACTCTACTTTTGGCAGCATTTGTGGAGAA
1 TTTAGCGGCGTTT-T-GGTAAAGCGCCGCTAAAGGTA-TCTACTTTTAGCGGCGTTTTTCGCTAA
* *
49557942 AGCGTCGCTAAAAGGTCTGTAC
63 A-CGCCGCT-AAAGGTCTATAC
* * * * * * * ** * *
49557964 TTTTGGCGGCATTTTTGGTGTAAGCACCGCTATAGGTCTGTAAATTTAGCGGC-TTTTTGGGCAA
1 -TTTAGCGGC-GTTTTGGT-AAAGCGCCGCTAAAGGTATCTACTTTTAGCGGCGTTTTT-CGCTA
* *
49558028 AAGCTCCGCTAAAGGTCTGTAC
62 AA-CGCCGCTAAAGGTCTATAC
* ** * * * * *
49558050 TTTTAGCGGCGCTTTGCAAACAAACGCCGCTAAAGGTCTGC-ACTTTTAGCGGCGCTTTTCCCGG
1 -TTTAGCGGCGTTTTG-GTA-AAGCGCCGCTAAAGGTAT-CTACTTTTAGCGGCGTTTTTCGC-T
* *
49558114 AAACGCCGCTGAAGGTCTACACC
61 AAACGCCGCTAAAGGTCTATA-C
* * * * *
49558137 TTTAGCGGCGTTTTTGGGT-AAGCGTCGCTAAAGGTATGTGCTTTTAGCGGCATTTGTTTGCTAA
1 TTTAGCGGCG-TTTT-GGTAAAGCGCCGCTAAAGGTATCTACTTTTAGCGGCGTTT-TTCGCTAA
*
49558201 GCGCCGCTAAAGGTCTATAC
63 ACGCCGCTAAAGGTCTATAC
*
49558221 TATTAGCGGCGTTTATGGTAAAGCGCCGCTAAAGGTATCTACTTTTAGCGGCGTTTTTCGTTCAA
1 T-TTAGCGGCGTTT-TGGTAAAGCGCCGCTAAAGGTATCTACTTTTAGCGGCGTTTTTCGCT-AA
49558286 ACGCCGCTAAA
63 ACGCCGCTAAA
49558297 AATGATGACT
Statistics
Matches: 254, Mismatches: 60, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
84 12 0.05
85 104 0.41
86 80 0.31
87 54 0.21
88 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (82 bp):
TTTAGCGGCGTTTTGGTAAAGCGCCGCTAAAGGTATCTACTTTTAGCGGCGTTTTTCGCTAAACG
CCGCTAAAGGTCTATAC
Found at i:49558317 original size:85 final size:85
Alignment explanation
Indices: 49558137--49558319 Score: 201
Period size: 85 Copynumber: 2.2 Consensus size: 85
49558127 GGTCTACACC
* * * * * *
49558137 TTTAGCGGCGTTTTTGGGTAAGCGTCGCTAAAGGTATGTGCTTTTAGCGGCATTTGTTTGCTAAG
1 TTTAGCGGCGTTTATGGGTAAGCGCCGCTAAAGGTATCTACTTTTAGCGGCATTTGTTCGCTAAA
** *
49558202 CGCCGCTAAAGGTCTATACT
66 CGCCGCTAAAAATCGATACT
* * *
49558222 ATTAGCGGCGTTTAT-GGTAAAGCGCCGCTAAAGGTATCTACTTTTAGCGGCGTTT-TTCGTTCA
1 TTTAGCGGCGTTTATGGGT-AAGCGCCGCTAAAGGTATCTACTTTTAGCGGCATTTGTTCGCT-A
49558285 AACGCCGCTAAAAAT-GATGACT
64 AACGCCGCTAAAAATCGAT-ACT
*
49558307 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
49558320 TTTCACATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
84 9 0.11
85 72 0.89
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (85 bp):
TTTAGCGGCGTTTATGGGTAAGCGCCGCTAAAGGTATCTACTTTTAGCGGCATTTGTTCGCTAAA
CGCCGCTAAAAATCGATACT
Found at i:49565107 original size:29 final size:29
Alignment explanation
Indices: 49565073--49565262 Score: 274
Period size: 29 Copynumber: 6.6 Consensus size: 29
49565063 TACTCGATTT
** * *
49565073 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
49565102 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
49565131 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49565160 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49565189 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49565218 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49565247 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49565263 ATCTCGTCAC
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
28 2 0.01
29 145 0.99
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49567800 original size:19 final size:19
Alignment explanation
Indices: 49567776--49567816 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
49567766 GTATGAAACA
49567776 TCCGAGCTCATTGAGTTGG
1 TCCGAGCTCATTGAGTTGG
*
49567795 TCCGAGTTCATTGAGTTGG
1 TCCGAGCTCATTGAGTTGG
49567814 TCC
1 TCC
49567817 AAGTTCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.34
Consensus pattern (19 bp):
TCCGAGCTCATTGAGTTGG
Found at i:49567821 original size:19 final size:19
Alignment explanation
Indices: 49567783--49567825 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
49567773 ACATCCGAGC
*
49567783 TCATTGAGTTGGTCCGAGT
1 TCATTGAGTTGGTCCAAGT
49567802 TCATTGAGTTGGTCCAAGT
1 TCATTGAGTTGGTCCAAGT
49567821 TCATT
1 TCATT
49567826 ATGGATGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.40
Consensus pattern (19 bp):
TCATTGAGTTGGTCCAAGT
Found at i:49570117 original size:18 final size:18
Alignment explanation
Indices: 49570061--49570123 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
49570051 CATTCTATAA
*
49570061 CAGTAGCAGTGGCAGTAAT
1 CAGT-GCAGTAGCAGTAAT
* *
49570080 CAGTGCAGTAACCA-TGAT
1 CAGTGCAGT-AGCAGTAAT
*
49570098 CAATGCAGTAGCAGTAAT
1 CAGTGCAGTAGCAGTAAT
49570116 CAGTGCAG
1 CAGTGCAG
49570124 AATACAAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 3 0.09
18 26 0.74
19 6 0.17
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (18 bp):
CAGTGCAGTAGCAGTAAT
Found at i:49570424 original size:23 final size:23
Alignment explanation
Indices: 49570375--49570424 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
49570365 ACCCCATGCA
*
49570375 ATGCAACATAATATCATACATGG
1 ATGCAACACAATATCATACATGG
49570398 ATGCAACACACATAT-A-ACATGG
1 ATGCAACACA-ATATCATACATGG
49570420 CATGC
1 -ATGC
49570425 TCAAATACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (23 bp):
ATGCAACACAATATCATACATGG
Found at i:49570553 original size:27 final size:27
Alignment explanation
Indices: 49570491--49570572 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
49570481 TTACAGTCAG
**
49570491 TTTACCCTACAGGGGTA-TTCGATCAT
1 TTTACCCTATGGGGGTATTTCGATCAT
*
49570517 TCTACCCTATGGGGGTATTTCGATCAT
1 TTTACCCTATGGGGGTATTTCGATCAT
* * *
49570544 TTTACTCTATGAGGGTATTTCGATAAT
1 TTTACCCTATGGGGGTATTTCGATCAT
49570571 TT
1 TT
49570573 GATCACATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 14 0.29
27 34 0.71
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTACCCTATGGGGGTATTTCGATCAT
Found at i:49570585 original size:27 final size:27
Alignment explanation
Indices: 49570529--49570585 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
49570519 TACCCTATGG
* * * *
49570529 GGGTATTTCGATCATTTTACTCTATGA
1 GGGTATTTCGATAATTTGACTCCATAA
49570556 GGGTATTTCGATAATTTGA-TCACATAA
1 GGGTATTTCGATAATTTGACTC-CATAA
49570583 GGG
1 GGG
49570586 CAAAATTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTGACTCCATAA
Found at i:49570599 original size:27 final size:27
Alignment explanation
Indices: 49570569--49570908 Score: 511
Period size: 27 Copynumber: 12.6 Consensus size: 27
49570559 TATTTCGATA
* *
49570569 ATTTGATCACATAAGGGCAAAATTGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
49570596 ATTTTATCACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* * *
49570623 ATTTTATCACATAAGGACTAAATGGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
49570650 ATTTTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
49570677 ATTTTATCACATAAGGGCAAAATCTTC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
49570704 ATTTTATCATATAAGGGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* * *
49570731 ATTTTATCATATAAGGGTAAAATAGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
49570758 ATTTTATCACATAAGGGCGAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* *
49570785 ATTTTATCACATAAGGG-TAAATTGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
49570811 ATTTTATCACATAAGGGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
49570838 ATTTTATCACATAAGGGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* *
49570865 ATTTTATCACATAAGAGAAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
49570892 ATTTTATCACATGAGGG
1 ATTTTATCACATAAGGG
49570909 TTCAGGTATG
Statistics
Matches: 283, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 24 0.08
27 259 0.92
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATCGTC
Found at i:49573901 original size:37 final size:37
Alignment explanation
Indices: 49573837--49573923 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
49573827 ACATTGATAT
*
49573837 TCCAACCGA-AACACACTAGATACTCATAAGAGCTAA
1 TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
* ** * *
49573873 TCCACCCGATAACACGCTAGATGTTCATAAGAGTTAG
1 TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
*
49573910 TCCACCTGATAACA
1 TCCACCCGATAACA
49573924 TACCAATGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 8 0.19
37 35 0.81
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (37 bp):
TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
Found at i:49575356 original size:21 final size:20
Alignment explanation
Indices: 49575324--49575364 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
49575314 ATACATCAAT
49575324 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
49575344 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
49575365 TTATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:49579078 original size:40 final size:39
Alignment explanation
Indices: 49579041--49579224 Score: 230
Period size: 40 Copynumber: 4.7 Consensus size: 39
49579031 GCTACTCGTT
* * *
49579041 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
49579081 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
49579121 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
49579159 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
49579200 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49579225 CATCATTCGA
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
37 2 0.02
38 24 0.19
39 21 0.17
40 68 0.54
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:49579184 original size:78 final size:81
Alignment explanation
Indices: 49579041--49579224 Score: 243
Period size: 78 Copynumber: 2.3 Consensus size: 81
49579031 GCTACTCGTT
* * **
49579041 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCGTAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
49579106 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
**
49579121 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
49579183 GATATAGTCACTTAGCA
65 GATATAGTAACTTAGCA
49579200 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49579225 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
77 3 0.03
78 46 0.50
79 29 0.32
80 14 0.15
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:49587226 original size:40 final size:39
Alignment explanation
Indices: 49587196--49587379 Score: 221
Period size: 40 Copynumber: 4.7 Consensus size: 39
49587186 GCTACTCGTT
* * *
49587196 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
49587236 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
49587276 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * * *
49587314 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
49587355 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49587380 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
37 2 0.02
38 24 0.19
39 20 0.16
40 67 0.54
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:49587363 original size:78 final size:80
Alignment explanation
Indices: 49587196--49587379 Score: 232
Period size: 78 Copynumber: 2.3 Consensus size: 80
49587186 GCTACTCGTT
* * ** *
49587196 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCGTAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* *
49587261 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
**
49587276 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
*
49587338 GATATAGTCACTTAGCA
65 GATATAGTAAC-TAGCA
49587355 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49587380 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
77 3 0.03
78 45 0.49
79 29 0.32
80 14 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCA
Found at i:49592494 original size:43 final size:44
Alignment explanation
Indices: 49592442--49592528 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 44
49592432 CAGCATTTCG
*
49592442 CCTGTTAGGCTCG-AGGCCTGATATCAG-T-TCACCGGCATTATAT
1 CCTGTTAGGCTCGAAGGCCCGA-AT-AGATCTCACCGGCATTATAT
49592485 CCTGTTAGGCTCGAAGGCCCGAATAGTATCTCACCGGCATTATA
1 CCTGTTAGGCTCGAAGGCCCGAATAG-ATCTCACCGGCATTATA
49592529 GTTTGCTAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 2 0.05
43 15 0.38
44 8 0.21
45 14 0.36
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (44 bp):
CCTGTTAGGCTCGAAGGCCCGAATAGATCTCACCGGCATTATAT
Found at i:49592945 original size:43 final size:43
Alignment explanation
Indices: 49592884--49593077 Score: 334
Period size: 43 Copynumber: 4.5 Consensus size: 43
49592874 CCGGCATTAC
*
49592884 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
49592927 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
49592970 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
49593013 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
49593056 GCTTGCTAGGCACGAATGCCCG
1 GCCTGCTAGGCACGAAGGCCCG
49593078 TATATAATAC
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:49593016 original size:86 final size:86
Alignment explanation
Indices: 49592884--49593102 Score: 334
Period size: 86 Copynumber: 2.6 Consensus size: 86
49592874 CCGGCATTAC
* *
49592884 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAAGCCTGCTAGGCACGAAGGCCCA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCA
49592949 AATACACATCACCGGCACGAA
66 AATACACATCACCGGCACGAA
*
49592970 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCA
*
49593035 AATACACATCACCGGCACTAA
66 AATACACATCACCGGCACGAA
* * * * * *
49593056 GCTTGCTAGGCACGAATGCCCGTATATA-AT-ACCAGCACTACGCCTGC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTGC
49593103 GGGATTTATC
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
84 15 0.12
85 2 0.02
86 106 0.86
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.13
Consensus pattern (86 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCA
AATACACATCACCGGCACGAA
Found at i:49593122 original size:38 final size:38
Alignment explanation
Indices: 49593074--49593153 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
49593064 GGCACGAATG
* * * *
49593074 CCCGTATATAATACCAGCACTACGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
49593112 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
49593150 CCCG
1 CCCG
49593154 AATACACATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:49595761 original size:43 final size:43
Alignment explanation
Indices: 49595700--49595917 Score: 309
Period size: 43 Copynumber: 5.1 Consensus size: 43
49595690 CCTGCATTAC
49595700 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
*
49595743 GCCTGCTAGGCACGAAGGCCTGAATACACATCAC-GGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
* *
49595785 GCCTGCTAGGCACGAAGGCCCGAACACACATCACAGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
* *
49595828 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
* * * * *
49595871 GCTTCCTAGGCACGAATGCCCGTATATA-AT-ACCA-GCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-CAGGCACGAA
49595912 GCCTGC
1 GCCTGC
49595918 GGGATTTAAC
Statistics
Matches: 158, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
41 11 0.07
42 43 0.27
43 104 0.66
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
Found at i:49595843 original size:85 final size:86
Alignment explanation
Indices: 49595700--49595892 Score: 316
Period size: 85 Copynumber: 2.3 Consensus size: 86
49595690 CCTGCATTAC
* *
49595700 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAAGCCTGCTAGGCACGAAGGCCTG
1 GCCTGCTAGGCACGAAGGCCCGAACACACATCACAGGCACGAAGCCTGCTAGGCACGAAGGCCCG
49595765 AATACACATCA-CGGCACGAA
66 AATACACATCACCGGCACGAA
*
49595785 GCCTGCTAGGCACGAAGGCCCGAACACACATCACAGGCACTAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAACACACATCACAGGCACGAAGCCTGCTAGGCACGAAGGCCCG
*
49595850 AATACACATCACCGGCACTAA
66 AATACACATCACCGGCACGAA
* * *
49595871 GCTTCCTAGGCACGAATGCCCG
1 GCCTGCTAGGCACGAAGGCCCG
49595893 TATATAATAC
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
85 73 0.73
86 27 0.27
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.11
Consensus pattern (86 bp):
GCCTGCTAGGCACGAAGGCCCGAACACACATCACAGGCACGAAGCCTGCTAGGCACGAAGGCCCG
AATACACATCACCGGCACGAA
Found at i:49604878 original size:121 final size:120
Alignment explanation
Indices: 49604664--49604886 Score: 308
Period size: 120 Copynumber: 1.9 Consensus size: 120
49604654 CACAATAACA
* * *
49604664 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTTCTAATCTCAATTGAACACGGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTGAACACGGAATGT
*
49604729 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
* * ** *
49604784 ATGAGAATAAGCATA-ATAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACAC-GAA
1 ATGAGAATAAGAATAGA-AATGTAATGGGTATGAGGTGTTCCTAAT--CTCAATTGAACACGGAA
49604847 TGTATGATAACTAA-CTAAAGAATGCAAATTAAATGATAGA
63 TGTATGATAACTAACCT-AAGAATGCAAATTAAATGATAGA
49604887 AGAATAAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
119 1 0.01
120 40 0.44
121 39 0.43
122 10 0.11
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTGAACACGGAATGT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
Found at i:49608880 original size:47 final size:47
Alignment explanation
Indices: 49608811--49608933 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
49608801 AACAGCTCGT
49608811 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
49608858 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
49608905 AGTGTATATATGTGGTAAAGCCGAATGGC
1 AGTGTATATATGTGATAAGGCCTAATGGC
49608934 TAATGTGAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:49608970 original size:48 final size:48
Alignment explanation
Indices: 49608911--49609178 Score: 437
Period size: 48 Copynumber: 5.6 Consensus size: 48
49608901 TGAAAGTGTA
49608911 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
49608959 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
49609007 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
49609055 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * * * *
49609103 TATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
49609151 AATATGTGGTAAAGCCGAATGGCTAATG
1 TATATGTGGTAAAGCCGAATGGCTAATG
49609179 AGAATGTTGT
Statistics
Matches: 207, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 207 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:49609277 original size:37 final size:37
Alignment explanation
Indices: 49609227--49609312 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
49609217 AGAAATATAT
* *
49609227 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
49609264 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
49609301 TCCGGGTAAGAC
1 TCCGGGTAAGAC
49609313 TTCGTAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
Found at i:49618403 original size:21 final size:20
Alignment explanation
Indices: 49618364--49618404 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
49618354 ATACATTAGT
49618364 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
* *
49618384 ATTTTGAATTTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
49618405 TTATACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:49626454 original size:94 final size:94
Alignment explanation
Indices: 49626330--49626502 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
49626320 GCATGAAGCT
* * * *
49626330 TAGCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACGCTGATGCCATCTCCCA
1 TAGCCGATGCATGTCCCAGACACGTATTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCA
49626395 GACATAGTCTTACATTGGCTATCGTAATG
66 GACATAGTCTTACATTGGCTATCGTAATG
* * * * * *
49626424 TAGCTGATGCATGTCCCAGACATGTATTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCA
1 TAGCCGATGCATGTCCCAGACACGTATTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCA
*
49626489 GACATGGTCTTACA
66 GACATAGTCTTACA
49626503 CTAGCTCTCA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (94 bp):
TAGCCGATGCATGTCCCAGACACGTATTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCA
GACATAGTCTTACATTGGCTATCGTAATG
Found at i:49630557 original size:43 final size:43
Alignment explanation
Indices: 49630457--49630557 Score: 98
Period size: 43 Copynumber: 2.3 Consensus size: 43
49630447 TATGATTTCG
* * ** * *
49630457 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGAAATATTG
1 TGTAAGACCATGTCTAGGACACTGGCATCGACTTGAAAGATTA
**
49630500 TGTAAGACTGTGTCTAGGACACTGGCATCGA-TT-AAAGATTACA
1 TGTAAGACCATGTCTAGGACACTGGCATCGACTTGAAAGATT--A
49630543 TGTAAGACCATGTCT
1 TGTAAGACCATGTCT
49630558 GGAACATCAG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
41 6 0.13
42 2 0.04
43 38 0.83
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACACTGGCATCGACTTGAAAGATTA
Found at i:49633195 original size:27 final size:27
Alignment explanation
Indices: 49633165--49633217 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
49633155 GTAGTCCTAC
*
49633165 CCTATAGGGGTATTTTACTAATTCTAT
1 CCTACAGGGGTATTTTACTAATTCTAT
**
49633192 CCTACAGGGGTATTTTGGTAATTCTA
1 CCTACAGGGGTATTTTACTAATTCTA
49633218 CAACTTATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (27 bp):
CCTACAGGGGTATTTTACTAATTCTAT
Found at i:49635017 original size:22 final size:23
Alignment explanation
Indices: 49634992--49635037 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
49634982 CAACCAAATC
49634992 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
49635014 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
49635037 A
1 A
49635038 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:49635043 original size:23 final size:23
Alignment explanation
Indices: 49634999--49635043 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49634989 ATCAATTCAA
*
49634999 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
49635022 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
49635044 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:49635837 original size:15 final size:15
Alignment explanation
Indices: 49635817--49635848 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49635807 TCTTTGGGAG
49635817 GGCTATATCAGGATA
1 GGCTATATCAGGATA
49635832 GGCTATATCAGGATA
1 GGCTATATCAGGATA
49635847 GG
1 GG
49635849 ATCACCCGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.25
Consensus pattern (15 bp):
GGCTATATCAGGATA
Done.