Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 170 of 253
Found at i:55325319 original size:12 final size:12
Alignment explanation
Indices: 55325302--55325339 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
55325292 GCAACCCAAC
55325302 GGGAAGGGGAAA
1 GGGAAGGGGAAA
*
55325314 GGGAAGGGGAAG
1 GGGAAGGGGAAA
*
55325326 GGGAAGAGGAAA
1 GGGAAGGGGAAA
55325338 GG
1 GG
55325340 AGAGAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (12 bp):
GGGAAGGGGAAA
Found at i:55326644 original size:127 final size:127
Alignment explanation
Indices: 55326484--55326718 Score: 321
Period size: 127 Copynumber: 1.9 Consensus size: 127
55326474 AAAGGCGGAC
** * *
55326484 GAAATTTAAAAGGGAAATATGATTATCTAGACAAATAAAAGATCAAAACCCAACACATT-AGG-A
1 GAAATTTAAAAGGGAAATATGACAATCTAGACAAACAAAAGACCAAAACCCAACACATTGAGGTA
*
55326547 CACGATCCCTCAAATTTCTAAACATCAAACATCGCCTTCGTTTTAAGGTTTAGAAAATGCGCAT
66 CA--ATCCCTCAAATTTCTAAACATCAAACATCACCTTCGTTTTAAGGTTTAGAAAATGCGCAT
* * * * *
55326611 GAAATTTTAAAGGGAAATTTGACAATTTAGACAAACGAAAGACCGAAACCCAACACATTGAGGTA
1 GAAATTTAAAAGGGAAATATGACAATCTAGACAAACAAAAGACCAAAACCCAACACATTGAGGTA
* * *
55326676 CAATCTCTCGAATTTCTAAACATCAAACATCACTTTCGTTTTA
66 CAATCCCTCAAATTTCTAAACATCAAACATCACCTTCGTTTTA
55326719 TAAAGTCGAC
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
127 87 0.94
128 3 0.03
129 3 0.03
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (127 bp):
GAAATTTAAAAGGGAAATATGACAATCTAGACAAACAAAAGACCAAAACCCAACACATTGAGGTA
CAATCCCTCAAATTTCTAAACATCAAACATCACCTTCGTTTTAAGGTTTAGAAAATGCGCAT
Found at i:55327488 original size:34 final size:33
Alignment explanation
Indices: 55327426--55327498 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
55327416 AGAAGTAAAC
* *
55327426 TATATACATAATAGATTTGAAAGGAAATATATA
1 TATATACATAATAGATTTAAAAGAAAATATATA
* *
55327459 TATATATATAAATTGATTTAAAAGAAAATATATA
1 TATATACAT-AATAGATTTAAAAGAAAATATATA
55327493 TATATA
1 TATATA
55327499 AGACAACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
33 8 0.23
34 27 0.77
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.37
Consensus pattern (33 bp):
TATATACATAATAGATTTAAAAGAAAATATATA
Found at i:55327595 original size:40 final size:40
Alignment explanation
Indices: 55327509--55327595 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 40
55327499 AGACAACATG
**
55327509 AAAACAA-TATATATATATATAATAAAAAACAATTTTAAT
1 AAAACAACTATATATATATATAATAAAAAACAATAATAAT
*
55327548 -ATA-AACTATATATATA-ATAATATAAAAA-AATAATAAT
1 AAAACAACTATATATATATATAATA-AAAAACAATAATAAT
55327585 AAAAACAACTA
1 -AAAACAACTA
55327596 AATGAATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
37 15 0.38
38 17 0.44
39 2 0.05
40 5 0.13
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (40 bp):
AAAACAACTATATATATATATAATAAAAAACAATAATAAT
Found at i:55329173 original size:15 final size:16
Alignment explanation
Indices: 55329148--55329177 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55329138 TAATTGGACC
55329148 GTTTAATTTTTATTTG
1 GTTTAATTTTTATTTG
55329164 GTTT-ATTTTTATTT
1 GTTTAATTTTTATTT
55329178 AGTGGGTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (16 bp):
GTTTAATTTTTATTTG
Found at i:55331591 original size:404 final size:404
Alignment explanation
Indices: 55330842--55331652 Score: 1613
Period size: 404 Copynumber: 2.0 Consensus size: 404
55330832 GTCAACCAAG
55330842 GGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAATCC
1 GGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAATCC
55330907 AGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAATCA
66 AGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAATCA
55330972 ACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTTGTTTACAAGATGAGGGTAGG
131 ACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTTGTTTACAAGATGAGGGTAGG
55331037 GATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCGGC
196 GATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCGGC
55331102 TCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTGAC
261 TCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTGAC
*
55331167 TTTAATCACCTAATATCATCTCTGTTCTTTTTCTATGCAATGCCTAGAACAACTTATAACCCTCC
326 TTTAATCACCTAATATCATCTCTGTTCTTTTTCTATACAATGCCTAGAACAACTTATAACCCTCC
55331232 CTAATTATTAAATA
391 CTAATTATTAAATA
55331246 GGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAATCC
1 GGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAATCC
55331311 AGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAATCA
66 AGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAATCA
55331376 ACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTTGTTTACAAGATGAGGGTAGG
131 ACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTTGTTTACAAGATGAGGGTAGG
55331441 GATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCGGC
196 GATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCGGC
55331506 TCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTGAC
261 TCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTGAC
55331571 TTTAATCACCTAATATCATCTCTGTTCTTTTTCTATACAATGCCTAGAACAACTTATAACCCTCC
326 TTTAATCACCTAATATCATCTCTGTTCTTTTTCTATACAATGCCTAGAACAACTTATAACCCTCC
55331636 CTAATTATTAAATA
391 CTAATTATTAAATA
55331650 GGA
1 GGA
55331653 GGACAATGTG
Statistics
Matches: 406, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
404 406 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (404 bp):
GGAAAAAGACACACTGTTTTTCTTAGAGAAGGATATGAAAGGGGGTGTTTGATTGACCCAAATCC
AGTCTATAATGCAAGGAGAAAACTTCTAGATCTAGTTGTGCTGGGACGCCATGCCATGTTAATCA
ACAATGAATCAAGGTCAGTGGAAAATTGTCAGACTCAGAAACCTTGTTTACAAGATGAGGGTAGG
GATGAAAGTATTTAGTTCTTCATTTTTAAATCCCTGTTTTCTTATTCTTCCTCATGCACTTCGGC
TCTAACATGTTTGTGAACTTTGGGCTTTGTCTAGTAACTTTGAGCGTGTCCTATATTTTTTTGAC
TTTAATCACCTAATATCATCTCTGTTCTTTTTCTATACAATGCCTAGAACAACTTATAACCCTCC
CTAATTATTAAATA
Found at i:55333837 original size:21 final size:21
Alignment explanation
Indices: 55333804--55333843 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
55333794 GGGACAGGTG
*
55333804 ACGTGACCCGTTAACTAGCTA
1 ACGTGACCAGTTAACTAGCTA
* *
55333825 ACGTGACTAGTTAATTAGC
1 ACGTGACCAGTTAACTAGC
55333844 CACGTTGGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (21 bp):
ACGTGACCAGTTAACTAGCTA
Found at i:55339407 original size:3 final size:3
Alignment explanation
Indices: 55339401--55339439 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
55339391 ATTTCTTCTA
* * *
55339401 TTC TTC TTC TTC TTC TTT TTC TTC TGC TTC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
55339440 CATTAGCTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:55339424 original size:15 final size:15
Alignment explanation
Indices: 55339393--55339439 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
55339383 GTATCTCCAT
55339393 TTCTTCTATTCTTCTTC
1 TTCTTCT-TT-TTCTTC
55339410 TTCTTCTTTTTCTTC
1 TTCTTCTTTTTCTTC
*
55339425 TGCTTCTTTTTCTTC
1 TTCTTCTTTTTCTTC
55339440 CATTAGCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 20 0.69
16 2 0.07
17 7 0.24
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (15 bp):
TTCTTCTTTTTCTTC
Found at i:55339560 original size:30 final size:29
Alignment explanation
Indices: 55339524--55339604 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
55339514 AAAATGTCTA
* *
55339524 TTAGTGACTACTTTGTTATTTTTGTAAAGT
1 TTAGTGACTACTTTGTTATTTTT-CAAAAT
* * *
55339554 TTAGTGACTGA-GTTGTCACTTTTCAAAAT
1 TTAGTGACT-ACTTTGTTATTTTTCAAAAT
*
55339583 TTAGTGACTACTTTATTATTTT
1 TTAGTGACTACTTTGTTATTTT
55339605 AATAAAAGTT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
28 1 0.03
29 20 0.50
30 18 0.45
31 1 0.03
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.51
Consensus pattern (29 bp):
TTAGTGACTACTTTGTTATTTTTCAAAAT
Found at i:55346129 original size:20 final size:20
Alignment explanation
Indices: 55346106--55346161 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
55346096 AAAAAAATTC
*
55346106 AAATAATTTTAAAATATTTA
1 AAATAATTTTAAAATATTAA
*
55346126 AAATATTTTTCAAAA-ATTAA
1 AAATAATTTT-AAAATATTAA
55346146 AAATAAATTTTAAAAT
1 AAAT-AATTTTAAAAT
55346162 TCAAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATTTTAAAATATTAA
Found at i:55346141 original size:39 final size:37
Alignment explanation
Indices: 55346098--55346182 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 37
55346088 TCAACAAAAA
* *
55346098 AAAAATTCAAAT-AATTTTAAAATATTTAAAATATTTTT
1 AAAAATTCAAATAAATTTT-AAA-ATTCAAAATATTTAT
*
55346136 CAAAAATTAAAAATAAATTTTAAAATTCAAAATATTTAT
1 -AAAAATT-CAAATAAATTTTAAAATTCAAAATATTTAT
55346175 AAAAATTC
1 AAAAATTC
55346183 CAACATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
38 7 0.17
39 20 0.50
40 7 0.17
41 6 0.15
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (37 bp):
AAAAATTCAAATAAATTTTAAAATTCAAAATATTTAT
Found at i:55346182 original size:19 final size:19
Alignment explanation
Indices: 55346098--55346182 Score: 86
Period size: 19 Copynumber: 4.4 Consensus size: 19
55346088 TCAACAAAAA
55346098 AAAAATTC-AAATAATTTT
1 AAAAATTCAAAATAATTTT
* *
55346116 AAAATATTTAAAATATTTTT
1 AAAA-ATTCAAAATAATTTT
*
55346136 CAAAAATTAAAAATAAATTTT
1 -AAAAATTCAAAAT-AATTTT
55346157 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
55346175 AAAAATTC
1 AAAAATTC
55346183 CAACATTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.07
18 5 0.09
19 21 0.38
20 17 0.30
21 9 0.16
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:55347199 original size:14 final size:14
Alignment explanation
Indices: 55347180--55347209 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
55347170 CAAACGATAG
55347180 TAATTAAATTAGAT
1 TAATTAAATTAGAT
*
55347194 TAATTAAATTATAT
1 TAATTAAATTAGAT
55347208 TA
1 TA
55347210 TTAGTTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TAATTAAATTAGAT
Found at i:55349038 original size:41 final size:41
Alignment explanation
Indices: 55349022--55349181 Score: 191
Period size: 41 Copynumber: 3.9 Consensus size: 41
55349012 CATTTTTCTA
* *
55349022 CCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCTTTTAGGT
1 CCAAACGCCGCTAAAAGCTGAGCAATAGTGGCGTTTTAGGT
* *
55349063 CCAAACGCTGCTAAAAGTTGAGCAATAGTGGCGTTTTAGGT
1 CCAAACGCCGCTAAAAGCTGAGCAATAGTGGCGTTTTAGGT
* * *
55349104 CCAAACGTCGTTAAAAGCTGAGCAATAGTGGCGTTTTTGGT
1 CCAAACGCCGCTAAAAGCTGAGCAATAGTGGCGTTTTAGGT
* *
55349145 -CAAA-GCACTGC-AAAAGGTTGAGCTATAGTGGCGTTTT
1 CCAAACGC-C-GCTAAAA-GCTGAGCAATAGTGGCGTTTT
55349182 TTTATCCAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 9 0.09
41 93 0.90
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (41 bp):
CCAAACGCCGCTAAAAGCTGAGCAATAGTGGCGTTTTAGGT
Found at i:55349087 original size:82 final size:81
Alignment explanation
Indices: 55348993--55349197 Score: 243
Period size: 82 Copynumber: 2.5 Consensus size: 81
55348983 AAACGTCGCA
* *
55348993 AAAAGTTAAGCAATAGTGGCATTTTTCTACCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCTTT
1 AAAAGTTGAGCAATAGTGGCGTTTTTCTACCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCTTT
*
55349058 TAGGTCCAAA-CGCTGC
66 TAGGT-CAAAGCACTGC
** * * * *
55349074 TAAAAGTTGAGCAATAGTGGCGTTTTAGGT-CCAAACGTCGTTAAAAGCTGAGCAATAGTGGCGT
1 -AAAAGTTGAGCAATAGTGGCGTTTT-TCTACCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCT
*
55349138 TTTTGGTCAAAGCACTGC
64 TTTAGGTCAAAGCACTGC
* *
55349156 AAAAGGTTGAGCTATAGTGGCGTTTTTTTATCCAAACGCCGC
1 AAAA-GTTGAGCAATAGTGGCGTTTTTCTA-CCAAACGCCGC
55349198 AAATATGTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
81 9 0.09
82 84 0.82
83 10 0.10
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (81 bp):
AAAAGTTGAGCAATAGTGGCGTTTTTCTACCAAACGCCGCTAAAAGCTGAGAAATAGTGGCCTTT
TAGGTCAAAGCACTGC
Found at i:55349182 original size:41 final size:39
Alignment explanation
Indices: 55348993--55349181 Score: 157
Period size: 41 Copynumber: 4.6 Consensus size: 39
55348983 AAACGTCGCA
* * ** *
55348993 AAAAGTTAAGCAATAGTGGCATTTT-TCTACCAAACGCCGC
1 AAAAGTTGAGCAATAGTGGCGTTTTAGGT-CCAAAC-CTGC
* * *
55349033 TAAAAGCTGAGAAATAGTGGCCTTTTAGGTCCAAACGCTGC
1 -AAAAGTTGAGCAATAGTGGCGTTTTAGGTCCAAAC-CTGC
* *
55349074 TAAAAGTTGAGCAATAGTGGCGTTTTAGGTCCAAACGTCGTT
1 -AAAAGTTGAGCAATAGTGGCGTTTTAGGTCCAAACCT-G-C
* *
55349116 AAAAGCTGAGCAATAGTGGCGTTTTTGGT-CAAAGCACTGC
1 AAAAGTTGAGCAATAGTGGCGTTTTAGGTCCAAA-C-CTGC
*
55349156 AAAAGGTTGAGCTATAGTGGCGTTTT
1 AAAA-GTTGAGCAATAGTGGCGTTTT
55349182 TTTATCCAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
40 9 0.07
41 113 0.91
42 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (39 bp):
AAAAGTTGAGCAATAGTGGCGTTTTAGGTCCAAACCTGC
Found at i:55349737 original size:7 final size:7
Alignment explanation
Indices: 55349725--55349787 Score: 72
Period size: 7 Copynumber: 9.0 Consensus size: 7
55349715 ATCTGTTTAT
55349725 CCCTAAA
1 CCCTAAA
55349732 CCCTAAA
1 CCCTAAA
* *
55349739 CCATAAG
1 CCCTAAA
*
55349746 CCATAAA
1 CCCTAAA
*
55349753 CCATAAA
1 CCCTAAA
55349760 CCCTAAA
1 CCCTAAA
*
55349767 CTCTAAA
1 CCCTAAA
*
55349774 CCTTAAA
1 CCCTAAA
55349781 CCCTAAA
1 CCCTAAA
55349788 ATATATACAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (7 bp):
CCCTAAA
Found at i:55349773 original size:21 final size:20
Alignment explanation
Indices: 55349728--55349820 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 20
55349718 TGTTTATCCC
*
55349728 TAAACCCTAAACCATAAGCCA
1 TAAACCCTAAACC-TAAACCA
*
55349749 TAAACCATAAACCCTAAACTC-
1 TAAACCCTAAA-CCTAAAC-CA
* **
55349770 TAAACCTTAAACCCTAAAATA
1 TAAACCCTAAA-CCTAAACCA
* * *
55349791 TATACACTAAACCTAAAACA
1 TAAACCCTAAACCTAAACCA
55349811 TAAACCCTAA
1 TAAACCCTAA
55349821 TCTGTAAACC
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
20 16 0.28
21 39 0.67
22 3 0.05
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (20 bp):
TAAACCCTAAACCTAAACCA
Found at i:55349906 original size:41 final size:41
Alignment explanation
Indices: 55349848--55349942 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
55349838 CTAAATGACA
* *
55349848 CAAAAGGTCAACCAGTAGCGATGTTTGTGATAAAAACGCTG
1 CAAAAGGTCAAGCAGTAGCGACGTTTGTGATAAAAACGCTG
* *
55349889 CAAAAGGTCAAGTAGTAGCGGCGTTTGTGATAAAAACGCTG
1 CAAAAGGTCAAGCAGTAGCGACGTTTGTGATAAAAACGCTG
55349930 CTAAAA-GTCAAGC
1 C-AAAAGGTCAAGC
55349943 CGTAAAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 44 0.92
42 4 0.08
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (41 bp):
CAAAAGGTCAAGCAGTAGCGACGTTTGTGATAAAAACGCTG
Found at i:55350001 original size:7 final size:7
Alignment explanation
Indices: 55349964--55350045 Score: 58
Period size: 7 Copynumber: 11.6 Consensus size: 7
55349954 ATAATTTTAT
*
55349964 TTTAGGG
1 TTTAAGG
55349971 TTTAA-G
1 TTTAAGG
*
55349977 TTTCAAGA
1 TTT-AAGG
*
55349985 TTTAATG
1 TTTAAGG
55349992 TTTAAGG
1 TTTAAGG
55349999 TTTAAGG
1 TTTAAGG
* *
55350006 TCTATGG
1 TTTAAGG
*
55350013 TTTATGG
1 TTTAAGG
*
55350020 TTTTAATG
1 -TTTAAGG
*
55350028 TTTATGG
1 TTTAAGG
*
55350035 TTTAATG
1 TTTAAGG
55350042 TTTA
1 TTTA
55350046 GTATATTAGG
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
6 4 0.07
7 46 0.79
8 8 0.14
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (7 bp):
TTTAAGG
Found at i:55350033 original size:22 final size:21
Alignment explanation
Indices: 55349991--55350045 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
55349981 AAGATTTAAT
55349991 GTTTAAGGTTTAAGGTCTATG
1 GTTTAAGGTTTAAGGTCTATG
* * *
55350012 GTTTATGGTTTTAATGTTTATG
1 GTTTAAGG-TTTAAGGTCTATG
*
55350034 GTTTAATGTTTA
1 GTTTAAGGTTTA
55350046 GTATATTAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.53
Consensus pattern (21 bp):
GTTTAAGGTTTAAGGTCTATG
Found at i:55350157 original size:22 final size:23
Alignment explanation
Indices: 55350132--55350180 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
55350122 TATAGCCTTA
*
55350132 GTATTTAGGGTTT-AGGGTTAGG
1 GTATTTAGGGTTTAAAGGTTAGG
*
55350154 GTA-TTATGGTTTAAAGGTTAGG
1 GTATTTAGGGTTTAAAGGTTAGG
55350176 G-ATTT
1 GTATTT
55350181 TAATAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (23 bp):
GTATTTAGGGTTTAAAGGTTAGG
Found at i:55350423 original size:22 final size:22
Alignment explanation
Indices: 55350398--55350440 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55350388 TTTATGGTTT
55350398 AGAGT-TTAAGGATTTAAGGGTC
1 AGAGTATT-AGGATTTAAGGGTC
*
55350420 AGAGTATTAGGGTTTAAGGGT
1 AGAGTATTAGGATTTAAGGGT
55350441 TAGGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.30, C:0.02, G:0.35, T:0.33
Consensus pattern (22 bp):
AGAGTATTAGGATTTAAGGGTC
Found at i:55350638 original size:14 final size:14
Alignment explanation
Indices: 55350589--55350643 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
55350579 AATATAAGGT
*
55350589 TTTAGGGTTTAAGA
1 TTTAGGGTTTAGGA
*
55350603 TTTAGAGG-TTATG-
1 TTTAG-GGTTTAGGA
*
55350616 TTCTAGGGTCTAGGA
1 TT-TAGGGTTTAGGA
55350631 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
55350644 GTAAAATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 4 0.12
14 25 0.76
15 4 0.12
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.42
Consensus pattern (14 bp):
TTTAGGGTTTAGGA
Found at i:55351774 original size:19 final size:18
Alignment explanation
Indices: 55351742--55351783 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
55351732 TTAGATTTGC
*
55351742 TATTTCTGGTTGGCTTTA
1 TATTTCTGGATGGCTTTA
*
55351760 TATTTGCTGGATGGCTTTG
1 TATTT-CTGGATGGCTTTA
55351779 TATTT
1 TATTT
55351784 TCTATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.12, C:0.10, G:0.24, T:0.55
Consensus pattern (18 bp):
TATTTCTGGATGGCTTTA
Found at i:55355025 original size:43 final size:44
Alignment explanation
Indices: 55354973--55355097 Score: 175
Period size: 43 Copynumber: 2.9 Consensus size: 44
55354963 GTTTTTCACT
55354973 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTTGT-A-
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT-TTGTGAG
* *
55355016 AAAGTGCCGCTGAAGGTCATGTTCTATAGCGGCGTTTTTGTGAG
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTTGTGAG
* * *
55355060 AAA-CGCCACTAAAGGTCATGTTCTATAACGGCATTTTT
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTT
55355098 TCAAATAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 4 0.05
43 66 0.90
44 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTTGTGAG
Found at i:55355327 original size:13 final size:13
Alignment explanation
Indices: 55355309--55355335 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55355299 GTCTAGAGCA
55355309 ATTTAATTTTTTT
1 ATTTAATTTTTTT
55355322 ATTTAATTTTTTT
1 ATTTAATTTTTTT
55355335 A
1 A
55355336 ACTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTAATTTTTTT
Found at i:55355635 original size:46 final size:46
Alignment explanation
Indices: 55355534--55355643 Score: 116
Period size: 46 Copynumber: 2.4 Consensus size: 46
55355524 AATTAATTAA
*
55355534 TTTTATAAAATTTAAAATTTTAAAAAAATTAAAAGTATAGTATATAT
1 TTTTA-AAAATTTAAAATTTTAAAAAAATTAAAAATATAGTATATAT
* * * * *
55355581 TTTAAAAAATTTAAAATTTT-TAAAATTTAAAAATATA-TTTTTACTT
1 TTTTAAAAATTTAAAATTTTAAAAAAATTAAAAATATAGTATATA--T
*
55355627 TTTTAAAAATATAAAAT
1 TTTTAAAAATTTAAAAT
55355644 ATATATTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
44 4 0.08
45 14 0.26
46 31 0.58
47 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (46 bp):
TTTTAAAAATTTAAAATTTTAAAAAAATTAAAAATATAGTATATAT
Found at i:55355652 original size:29 final size:29
Alignment explanation
Indices: 55355597--55355652 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
55355587 AAATTTAAAA
* *
55355597 TTTTTAAAATTTAAAAATATATTTTTACT
1 TTTTTAAAATATAAAAATATATATTTACT
55355626 TTTTTAAAA-ATATAAAATATATATTTA
1 TTTTTAAAATATA-AAAATATATATTTA
55355653 AAAAATAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTTTAAAATATAAAAATATATATTTACT
Found at i:55357143 original size:13 final size:13
Alignment explanation
Indices: 55357117--55357152 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
55357107 CCACTTTAAC
55357117 ATAAAATCAAATAA
1 ATAAAAT-AAATAA
55357131 ATAAAATAAATAA
1 ATAAAATAAATAA
55357144 ATAAAATAA
1 ATAAAATAA
55357153 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAAAATAAATAA
Found at i:55365507 original size:21 final size:21
Alignment explanation
Indices: 55365481--55365521 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
55365471 ATATTAATGA
55365481 GTGCCCCCCACTTGCAGCATT
1 GTGCCCCCCACTTGCAGCATT
55365502 GTGCCCCCCACTTGCAGCAT
1 GTGCCCCCCACTTGCAGCAT
55365522 CTATCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.44, G:0.20, T:0.22
Consensus pattern (21 bp):
GTGCCCCCCACTTGCAGCATT
Found at i:55368091 original size:23 final size:24
Alignment explanation
Indices: 55368053--55368116 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
55368043 TTCTTGATTG
* *
55368053 AATTAAAACAATTATATAAAAATA
1 AATTAAAACAAATATAGAAAAATA
*
55368077 AATT-AAACAAATATAGAAATATA
1 AATTAAAACAAATATAGAAAAATA
* *
55368100 ATCTTAAAATAAATATA
1 A-ATTAAAACAAATATA
55368117 TTAGTTATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 17 0.52
24 6 0.18
25 10 0.30
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (24 bp):
AATTAAAACAAATATAGAAAAATA
Found at i:55369729 original size:58 final size:58
Alignment explanation
Indices: 55369639--55369812 Score: 294
Period size: 58 Copynumber: 3.0 Consensus size: 58
55369629 AAATTGCGTA
*
55369639 AGATATAAAATATTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACCAT
1 AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACCAT
* *
55369697 AGATATAAAATTTTGGGTCAAATTTGTAATTTTTGAGTTATAAGGGACACACGACTAT
1 AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACCAT
* * *
55369755 AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTTTAGGGGACACATGACCAT
1 AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACCAT
55369813 GTGATCGGAC
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 108 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (58 bp):
AGATATAAAATTTTGGGTCAAAATTGTAATTTTTGAGTTATAAGGGACACACGACCAT
Found at i:55371386 original size:21 final size:21
Alignment explanation
Indices: 55371347--55371401 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
55371337 TCATTTTAGA
**
55371347 TTAATTAA-TATAATAATAC-
1 TTAATTAATTATTTTAATACT
55371366 TTAATTATATTATTTTAATACT
1 TTAATTA-ATTATTTTAATACT
55371388 TTAATTAATTATTT
1 TTAATTAATTATTT
55371402 ATGACCTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.23
20 1 0.03
21 16 0.52
22 7 0.23
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTAATTATTTTAATACT
Found at i:55391245 original size:98 final size:98
Alignment explanation
Indices: 55391069--55391481 Score: 385
Period size: 98 Copynumber: 4.2 Consensus size: 98
55391059 GGAAGCCGCT
* * *
55391069 GCCATGTCCCAGACATGGTCTTACACTAGTTCACGTATCAAAGTCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAAGTCGATGCCATGTCCTAGACATG
* *
55391134 GTCTTACACTGACTATCATGTATTGAGGCCGAC
66 GTCTTACACTGACTATCATGTATCGAGGCCAAC
* *
55391167 GCCATGTCCCAGACAAGGTCTTACTCTAGCTCACATATCAAAGTCGATGCCATGTCCTAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAAGTCGATGCCATGTCCTAGACATG
* * * *
55391232 TTCTTATATTGACTATCATGTATCGAGGCTAAC
66 GTCTTACACTGACTATCATGTATCGAGGCCAAC
* * * * ** *
55391265 ACCATGTCCCAGACATGGTATTACACTAGCTCTCGTATGTTGAGGTCGATGCCATGTCCTAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCAC--ATATCAAAGTCGATGCCATGTCCTAGACA
* * * * *
55391330 TGGTATTACACT-AGCTCTCGTATGT-T-GAGGTCGAT
64 TGGTCTTACACTGA-CTATC--ATGTATCGAGGCCAAC
* * * *** *
55391365 GCCATGTCCTAGACATGGTCTTACACT-GACTCTCGTCCATCTGTGCCGATGCCATGTCCTAGAC
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTCACAT--ATCAAAGTCGATGCCATGTCCTAGAC
* * *
55391429 ATGGTCTTACACTGA-TA-CATCTTAT--A-GCCGAT
63 ATGGTCTTACACTGACTATCAT-GTATCGAGGCCAAC
55391461 GCCATGTCCCAGACATGGTCT
1 GCCATGTCCCAGACATGGTCT
55391482 GTAACACCCC
Statistics
Matches: 260, Mismatches: 44, Indels: 24
0.79 0.13 0.07
Matches are distributed among these distances:
96 27 0.10
97 2 0.01
98 119 0.46
99 3 0.01
100 103 0.40
101 2 0.01
102 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (98 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAAGTCGATGCCATGTCCTAGACATG
GTCTTACACTGACTATCATGTATCGAGGCCAAC
Found at i:55391320 original size:50 final size:50
Alignment explanation
Indices: 55391068--55391441 Score: 286
Period size: 50 Copynumber: 7.6 Consensus size: 50
55391058 AGGAAGCCGC
* * ** *
55391068 TGCCATGTCCCAGACATGGTCTTACACTAGTTCACGTA--TCAAAGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATGTTGAGGTCGA
* * * * *
55391116 TGCCATGTCCCAGACATGGTCTTACACT-GACTATCATGTATTGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCGTATGTTGAGGTCGA
* * * * * ** *
55391166 CGCCATGTCCCAGACAAGGTCTTACTCTAGCTCAC--ATATCAAAGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATGTTGAGGTCGA
* * * * * *
55391214 TGCCATGTCCTAGACATGTTCTTATA-TTGACTATC--ATGTATCGAGG-CTAA
1 TGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCGTATGT-T-GAGGTC-GA
** *
55391264 CACCATGTCCCAGACATGGTATTACACTAGCTCTCGTATGTTGAGGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATGTTGAGGTCGA
* *
55391314 TGCCATGTCCTAGACATGGTATTACACTAGCTCTCGTATGTTGAGGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATGTTGAGGTCGA
* * * *
55391364 TGCCATGTCCTAGACATGGTCTTACACT-GACTCTCGTCCAT-CTG-TGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCGT--ATGTTGAGGTCGA
*
55391414 TGCCATGTCCTAGACATGGTCTTACACT
1 TGCCATGTCCCAGACATGGTCTTACACT
55391442 GATACATCTT
Statistics
Matches: 262, Mismatches: 49, Indels: 28
0.77 0.14 0.08
Matches are distributed among these distances:
47 3 0.01
48 65 0.25
49 2 0.01
50 179 0.68
51 7 0.03
52 6 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATGTTGAGGTCGA
Found at i:55391344 original size:148 final size:149
Alignment explanation
Indices: 55391118--55391387 Score: 355
Period size: 148 Copynumber: 1.8 Consensus size: 149
55391108 AAAGTCGATG
* *
55391118 CCATGTCCCAGACATGGTCTTACACTGACTATCATGTATTGAGGCCGACGCCATGTCCCAGACAA
1 CCATGTCCCAGACATGGTATTACACTGACTATCATATATTGAGGCCGACGCCATGTCCCAGACAA
* * *
55391183 GGTCTTACTCTAGCTCAC-ATATCAAAGTCGATGCCATGTCCTAGACATGTTCTTATATTGACTA
66 GGTATTACACTAGCTCACGATATCAAAGTCGATGCCATGTCCTAGACATGGTCTTATATTGACTA
55391247 TCATGTATCGAGGCTAACA
131 TCATGTATCGAGGCTAACA
* * * * * *
55391266 CCATGTCCCAGACATGGTATTACACT-AGCTCTCGTATGTTGAGGTCGATGCCATGTCCTAGACA
1 CCATGTCCCAGACATGGTATTACACTGA-CTATCATATATTGAGGCCGACGCCATGTCCCAGACA
* * * ** *
55391330 TGGTATTACACTAGCTCTCGTATGTTGAGGTCGATGCCATGTCCTAGACATGGTCTTA
65 AGGTATTACACTAGCTCACG-ATATCAAAGTCGATGCCATGTCCTAGACATGGTCTTA
55391388 CACTGACTCT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
147 1 0.01
148 69 0.68
150 32 0.31
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (149 bp):
CCATGTCCCAGACATGGTATTACACTGACTATCATATATTGAGGCCGACGCCATGTCCCAGACAA
GGTATTACACTAGCTCACGATATCAAAGTCGATGCCATGTCCTAGACATGGTCTTATATTGACTA
TCATGTATCGAGGCTAACA
Found at i:55392831 original size:53 final size:54
Alignment explanation
Indices: 55392763--55392969 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
55392753 TTCCTTTTTA
* * *
55392763 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
55392816 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
55392870 TAGTTTATCAATGCCATGTCTTGACAAGGTCTTACATGATTTCCTTGCCTTTTCG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
55392925 AACTTACCAATGCCATGCCTTGGCATGGTTTTTCTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
55392970 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 40 0.33
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:55396408 original size:12 final size:12
Alignment explanation
Indices: 55396391--55396415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55396381 TTAATGACAC
55396391 TTTATAAATATT
1 TTTATAAATATT
55396403 TTTATAAATATT
1 TTTATAAATATT
55396415 T
1 T
55396416 ATGACTCAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATAAATATT
Found at i:55397034 original size:265 final size:268
Alignment explanation
Indices: 55396552--55397087 Score: 778
Period size: 265 Copynumber: 2.0 Consensus size: 268
55396542 AAAACTATAT
*
55396552 TTGACTCGTAAATATTAAATAATAATATTTACGAACTTACTCGTCAGTTTCGGTGGCCCTAAAAC
1 TTGACTCGTAAATATTAAATAATAATATTTACAAACTTACTCGTCAGTTTCGGTGGCCCTAAAAC
* * * * *
55396617 CACTGTTTCTAACATAATTAAAAATAGGCTGTTACAAGTTGTCACGGCCTAGCCACACGACTGTG
66 CACTATTTCCAACATAACTAAAAATA----G--ACAAGCTGTCACAGCCTAGCCACACGACTGTG
* *
55396682 TGCCTTATTGATTTTAGGTGCAGGATTTTTCACACGATCACAGTTAGTTACACGGTCTGAGCACA
125 TACCTTATTGATTTTAGGTGCAGGATTTTTCACACGATCACAGTTAGTTACACAGTCTGAGCACA
* * * *
55396747 TGGGTGTGTGGGGTGGCCACACGG-CTGTGTAACCTTTGTTTTCAAATTTTTCAAATTTTTCTAT
190 CGGGTGTGTGGGGTGGCCACACGGTC-GTGTAACCTTTGTTTTCAAAATTTTCAAAATATTCTAT
55396811 AATTTTCTATTTGAC
254 AATTTTCTATTTGAC
* *
55396826 TTGACTCGTAAATATTAAATAA-ATATATTTACAAACTTACTCGTCGGATTT-GGTGGCCCTGAA
1 TTGACTCGTAAATATTAAATAATA-ATATTTACAAACTTACTCGTCAG-TTTCGGTGGCCCTAAA
* * *
55396889 ACCACTATTTCCGACATCACT-GAAA-A-ACAAGCTGTCACAGCCTAGCCACACGACTGTGTACC
64 ACCACTATTTCCAACATAACTAAAAATAGACAAGCTGTCACAGCCTAGCCACACGACTGTGTACC
*
55396951 TTATTGATTTTAGGTGCAGGATTTTTCACACGGTCACAGTTAGTTACACAGTCTGAGCACACGGG
129 TTATTGATTTTAGGTGCAGGATTTTTCACACGATCACAGTTAGTTACACAGTCTGAGCACACGGG
*
55397016 TGTGTGGGGTGGCCACACGGTCGTGTGACCTTTGTTTTCAAAATTTTCAAAATATTCTATAATTT
194 TGTGTGGGGTGGCCACACGGTCGTGTAACCTTTGTTTTCAAAATTTTCAAAATATTCTATAATTT
55397081 TCTATTT
259 TCTATTT
55397088 TGTTTCAAAT
Statistics
Matches: 240, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
265 161 0.67
266 1 0.00
272 1 0.00
273 4 0.02
274 70 0.29
275 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (268 bp):
TTGACTCGTAAATATTAAATAATAATATTTACAAACTTACTCGTCAGTTTCGGTGGCCCTAAAAC
CACTATTTCCAACATAACTAAAAATAGACAAGCTGTCACAGCCTAGCCACACGACTGTGTACCTT
ATTGATTTTAGGTGCAGGATTTTTCACACGATCACAGTTAGTTACACAGTCTGAGCACACGGGTG
TGTGGGGTGGCCACACGGTCGTGTAACCTTTGTTTTCAAAATTTTCAAAATATTCTATAATTTTC
TATTTGAC
Found at i:55400086 original size:47 final size:47
Alignment explanation
Indices: 55400028--55400424 Score: 641
Period size: 47 Copynumber: 8.4 Consensus size: 47
55400018 CAGCCAAGAC
55400028 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
55400075 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
55400122 ATTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATA--TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
55400171 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
55400218 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
55400265 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
55400312 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * *
55400359 AGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
55400406 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
55400425 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 286 0.87
49 44 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:55400599 original size:37 final size:37
Alignment explanation
Indices: 55400543--55400621 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
55400533 CCGAGCTCTA
* *
55400543 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
55400580 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55400617 AAGAC
1 AAGAC
55400622 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55403554 original size:15 final size:16
Alignment explanation
Indices: 55403524--55403556 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55403514 GAAAGAAAAA
55403524 AGGAAAACAGTGAAAG
1 AGGAAAACAGTGAAAG
*
55403540 AGGAAAAGA-TGAAAG
1 AGGAAAACAGTGAAAG
55403555 AG
1 AG
55403557 AAATCGATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.33, T:0.06
Consensus pattern (16 bp):
AGGAAAACAGTGAAAG
Found at i:55411017 original size:28 final size:28
Alignment explanation
Indices: 55410974--55411029 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
55410964 GAGATAGTAA
* *
55410974 GACTGCATGGGGTTCCTGTTTCGATTAT
1 GACTGCATGAGGTTCCTGTTTCAATTAT
*
55411002 GACTGCATGAGTTTCCTGTTTCAATTAT
1 GACTGCATGAGGTTCCTGTTTCAATTAT
55411030 TTCTGATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (28 bp):
GACTGCATGAGGTTCCTGTTTCAATTAT
Found at i:55413205 original size:21 final size:20
Alignment explanation
Indices: 55413164--55413220 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
55413154 AACAAGGGAT
* * *
55413164 TATAAAAAATTTTGAGAATG
1 TATAAAAAAATGTGAAAATG
55413184 TATAAAAAAATGTGAAACATG
1 TATAAAAAAATGTGAAA-ATG
*
55413205 TACCAAAAAAATGTGA
1 TA-TAAAAAAATGTGA
55413221 TGGAATACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.45
21 5 0.16
22 12 0.39
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.26
Consensus pattern (20 bp):
TATAAAAAAATGTGAAAATG
Found at i:55423796 original size:17 final size:17
Alignment explanation
Indices: 55423776--55423814 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
55423766 TTAATTCGTA
55423776 GAATTCTTTAATTTTTT-
1 GAATT-TTTAATTTTTTC
*
55423793 GAATTTTTTATTTTTTC
1 GAATTTTTAATTTTTTC
55423810 GAATT
1 GAATT
55423815 ATGCATGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.64
Consensus pattern (17 bp):
GAATTTTTAATTTTTTC
Found at i:55425106 original size:42 final size:42
Alignment explanation
Indices: 55425022--55425106 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
55425012 GATTGAAATA
* *
55425022 TCTTAAAATAATATAACTTATTTTAAATACAGAAGGATATTT
1 TCTTAAAATAATATAACTTATTTTAAATACAGAAAGAAATTT
* ** * *
55425064 TCTTAGAATAATATAGTTTATTTTAAATATAGAAATAAATTT
1 TCTTAAAATAATATAACTTATTTTAAATACAGAAAGAAATTT
55425106 T
1 T
55425107 TGTAGTTTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (42 bp):
TCTTAAAATAATATAACTTATTTTAAATACAGAAAGAAATTT
Found at i:55425912 original size:17 final size:17
Alignment explanation
Indices: 55425882--55425933 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
55425872 CAATTAAGTT
**
55425882 AATTTTAAAGTTTTTAA
1 AATTTTAATTTTTTTAA
*
55425899 AATTTTAATTTTTTTTA
1 AATTTTAATTTTTTTAA
*
55425916 AATTATTCTATTTTTTTA
1 AATT-TT-AATTTTTTTA
55425934 TATAAATAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 18 0.64
18 2 0.07
19 8 0.29
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
AATTTTAATTTTTTTAA
Found at i:55429504 original size:24 final size:24
Alignment explanation
Indices: 55429464--55429543 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
55429454 AAGCTCCTCC
55429464 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
* * *
55429489 TGTGCTGAAAACAGTAAGTTTTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
*
55429513 TGAGCTG--AACAGTTAGCTCT-T
1 TGAGCTGAAAACAGTAAGCTCTAT
55429534 TCGAGCTGAA
1 T-GAGCTGAA
55429544 CGGTAAGCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.04
22 16 0.36
24 20 0.44
25 7 0.16
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:55434721 original size:20 final size:20
Alignment explanation
Indices: 55434696--55434736 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
55434686 GTTTTAAAAG
55434696 ATGGTCAAAAACTATTTAAA
1 ATGGTCAAAAACTATTTAAA
55434716 ATGGTCAAAAACTATTTAAA
1 ATGGTCAAAAACTATTTAAA
55434736 A
1 A
55434737 ACTAAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
ATGGTCAAAAACTATTTAAA
Found at i:55435764 original size:11 final size:11
Alignment explanation
Indices: 55435745--55435776 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
55435735 ATGTTGTGGA
*
55435745 ATGAAGGATGG
1 ATGAGGGATGG
55435756 ATGAGGGATGG
1 ATGAGGGATGG
55435767 ATGAGGGATG
1 ATGAGGGATG
55435777 CTTTGAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.50, T:0.19
Consensus pattern (11 bp):
ATGAGGGATGG
Found at i:55442731 original size:19 final size:20
Alignment explanation
Indices: 55442707--55442744 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55442697 GGTACCACCA
55442707 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
55442726 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
55442745 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:55443136 original size:46 final size:46
Alignment explanation
Indices: 55442968--55443137 Score: 130
Period size: 46 Copynumber: 3.7 Consensus size: 46
55442958 AACCCGCCCC
* * * * * * *
55442968 TAAGTGAACTCGAACTCAACTTAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
* * * * *
55443014 TAAATGAACTCGGACTCAACTCAACGAATTCGGATGCCGAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCA
* * * *
55443062 TCA-CGAACTCGGACTCAACCCAATGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
*
55443107 TAAGTGAACTCGGACTCAACTTAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
55443138 GGATGCTCAA
Statistics
Matches: 93, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 49 0.53
47 23 0.25
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
Found at i:55443597 original size:30 final size:30
Alignment explanation
Indices: 55443563--55443622 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55443553 ATTTAATACG
55443563 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** *
55443593 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
55443623 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:55451461 original size:24 final size:26
Alignment explanation
Indices: 55451406--55451461 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
55451396 GAGTCCTGGT
*
55451406 CAGTAAGCTCCTCCTGAGCTGATAAA
1 CAGTAAGCTCCTACTGAGCTGATAAA
*
55451432 CAGTAAGCT-CTATTGAGCTGA-AAA
1 CAGTAAGCTCCTACTGAGCTGATAAA
55451456 CAGTAA
1 CAGTAA
55451462 TGTAACGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.32
25 10 0.36
26 9 0.32
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (26 bp):
CAGTAAGCTCCTACTGAGCTGATAAA
Found at i:55451890 original size:24 final size:24
Alignment explanation
Indices: 55451858--55451948 Score: 146
Period size: 24 Copynumber: 3.8 Consensus size: 24
55451848 TCAGGAGAGA
*
55451858 ATTTAGGAGTTGATAAGGGATAGG
1 ATTTAGGAGCTGATAAGGGATAGG
*
55451882 ATTTAGGAGTTGATAAGGGATAGG
1 ATTTAGGAGCTGATAAGGGATAGG
*
55451906 ATTTAGGAGCTGATAAGGGAGAGG
1 ATTTAGGAGCTGATAAGGGATAGG
55451930 ATTTAGGAGCTGATTAAGG
1 ATTTAGGAGCTGA-TAAGG
55451949 AGAACAGTGT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 59 0.92
25 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.27
Consensus pattern (24 bp):
ATTTAGGAGCTGATAAGGGATAGG
Found at i:55453459 original size:26 final size:26
Alignment explanation
Indices: 55453352--55453462 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
55453342 AGGAAGCGTC
* *
55453352 CTGGTGGCTATGCCATATTTATCTGA-T
1 CTGGTGGCTCTGCCACA-TTATCT-ATT
*
55453379 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
55453406 ATGGTGGCTCTGCCACAATTATCTATT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* **
55453433 CTGGTGACTCTATCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTATT
55453459 CTGG
1 CTGG
55453463 CAGCAATGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 15 0.21
27 55 0.76
28 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:55456933 original size:23 final size:23
Alignment explanation
Indices: 55456906--55456980 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
55456896 CGAATGGCCA
55456906 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
55456929 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
55456953 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
55456976 ATGTG
1 ATGTG
55456981 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:55457452 original size:339 final size:339
Alignment explanation
Indices: 55456759--55457838 Score: 1839
Period size: 339 Copynumber: 3.2 Consensus size: 339
55456749 TTAGGATTTT
* *
55456759 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCATTGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
55456824 TGCGTATGTGTGATAAGGCCGAATGGGCAATGTGATGAATGTGAACCTGTATATATATATGCGTG
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGT-C-TG
55456889 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
129 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*** * *
55456954 TGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATAT
194 TGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * * *
55457013 GAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGATCATGCGTATGTGTGA
259 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
55457078 TAAGGCCGAATGGCCA
324 TAAGGCCGAATGGCCA
55457094 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
55457159 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTCTGAT
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTCTGAT
*
55457224 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATG
131 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
*
55457289 TGTTGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
196 TGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
55457354 ACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATA
261 ACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
55457419 AGGCCGAATGGCCA
326 AGGCCGAATGGCCA
* * * *
55457433 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCTACTGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
55457498 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGAT
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTCTGAT
55457563 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
131 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
*
55457628 TAATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
196 TGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
55457693 ACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
261 ACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
55457758 AGGCCGAATGGCCA
326 AGGCCGAATGGCCA
** * *
55457772 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
55457837 TG
66 TG
55457839 AATATATGTG
Statistics
Matches: 701, Mismatches: 38, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
333 80 0.11
334 2 0.00
335 120 0.17
339 499 0.71
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (339 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTCTGAT
AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
TGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
ACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCCGAATGGCCA
Found at i:55457463 original size:25 final size:25
Alignment explanation
Indices: 55457434--55457511 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
55457424 GAATGGCCAA
55457434 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* *
55457459 TGTGAT-AAGGTCG-A-ATG-GCTA-C
1 TGTGATGAATGT-GAACATGCG-TATG
*
55457481 TGTGATGGATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
55457506 TGTGAT
1 TGTGAT
55457512 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 10 0.24
25 14 0.34
ACGTcount: A:0.26, C:0.09, G:0.33, T:0.32
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:55457582 original size:24 final size:24
Alignment explanation
Indices: 55457554--55457628 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
55457544 CCGTATATAT
55457554 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
55457578 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
55457601 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
55457625 ATGT
1 ATGT
55457629 AATGAATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.33
24 16 0.44
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:55457705 original size:23 final size:23
Alignment explanation
Indices: 55457678--55457752 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
55457668 CGAATGGCCA
55457678 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
55457701 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
55457725 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
55457748 ATGTG
1 ATGTG
55457753 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:55457846 original size:47 final size:47
Alignment explanation
Indices: 55456759--55457838 Score: 1557
Period size: 47 Copynumber: 22.4 Consensus size: 47
55456749 TTAGGATTTT
*
55456759 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
55456806 TTGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGGCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
55456853 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
55456906 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55456953 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
55457000 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
55457047 ATGTGATGAATGTGATCATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55457094 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55457141 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
55457188 ATGTGATGAATGTGAACCCGTATATATATGTCTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
55457239 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *** *
55457286 ATGTGTTGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
55457339 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
55457386 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
55457433 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
55457480 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
55457527 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
55457578 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *** *
55457625 ATGTAATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
55457678 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55457725 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * *
55457772 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55457819 ATGTGATGAATGTGAACATG
1 ATGTGATGAATGTGAACATG
55457839 AATATATGTG
Statistics
Matches: 930, Mismatches: 77, Indels: 52
0.88 0.07 0.05
Matches are distributed among these distances:
47 713 0.77
48 3 0.00
49 4 0.00
51 85 0.09
52 3 0.00
53 122 0.13
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:55457939 original size:386 final size:383
Alignment explanation
Indices: 55456781--55457876 Score: 1617
Period size: 386 Copynumber: 2.9 Consensus size: 383
55456771 TGAACATGCG
*
55456781 TATGTGTGATAAGGCCGAATGGCCATTGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
*
55456846 ATGGGCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTG
66 ATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTG
55456911 ATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGT
131 ATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGT
*
55456976 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAA
196 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAA
* * *
55457041 TGGCCAATGTGATGAATGTGATCATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
261 TGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTAATGTGA--AACG
* ***
55457106 TG-AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT--GAACATGCG
324 TGTAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGAATATATA
*** *
55457163 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTCTGATAAGG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGG
*** * *
55457228 CCGAATGGCCAATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCTGAATGGCCAA
62 CCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAA
* *** *
55457287 TGTGTTGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
127 TGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
55457352 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGA
186 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGA
* *
55457417 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCTACT
251 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTAAT
**
55457482 GTG-ATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA-ACC
316 GTGAAACG-TGT-AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGA--
*
55457545 CGTATATA
377 -ATATATA
55457553 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
*
55457618 ATGGCCAATGTAATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTG
66 ATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTG
55457683 ATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGT
131 ATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGT
*
55457748 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAA
196 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAA
** * * *
55457813 TGGCCAATGTGATGAATGTGAACATGAATATATGTGGT-AGG-C-AATGGCTAATGCGAAACGTG
261 TGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTAATGTGAAACGTG
55457875 TA
326 TA
55457877 TTAGATGGAT
Statistics
Matches: 637, Mismatches: 52, Indels: 50
0.86 0.07 0.07
Matches are distributed among these distances:
380 40 0.06
381 1 0.00
382 41 0.06
383 16 0.03
384 6 0.01
385 4 0.01
386 442 0.69
387 2 0.00
388 1 0.00
390 43 0.07
391 1 0.00
392 40 0.06
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (383 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTG
ATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGT
ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAA
TGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCTAATGTGAAACGTG
TAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGAATATATA
Found at i:55458176 original size:37 final size:37
Alignment explanation
Indices: 55458068--55458176 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
55458058 TTGGAAATAT
*
55458068 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
55458105 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
55458142 TCCGGGTCAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55458177 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55459472 original size:41 final size:40
Alignment explanation
Indices: 55459418--55459724 Score: 344
Period size: 40 Copynumber: 7.8 Consensus size: 40
55459408 AGAATTGGAG
55459418 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55459458 AGTGGTATATTCCGGGCTAAGTCCCGAGGAGCA-TCGTGCT
1 AGTGATATA-TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
55459498 AGTG--ATATCCGAGCTAAGTACCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55459536 AGTGGTATATTCCGGGCTAAGTCCCGAGGAGCATTC-TGCT
1 AGTGATATA-TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55459576 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * ***
55459616 AGTGATGTATCCGAGCTAAGTTTGGAAGAGCATCTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCAT-TCGTGCT
* *
55459657 AGTGATATACTCCGTGC-AA-ACCCGAAGAGCATTC-TGCT
1 AGTGATATA-TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
55459695 -GGGTTATATCCGGGCTAGGT-CCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
55459725 ATCATGCTGG
Statistics
Matches: 231, Mismatches: 26, Indels: 23
0.82 0.09 0.08
Matches are distributed among these distances:
36 6 0.03
37 38 0.16
38 18 0.08
39 27 0.12
40 73 0.32
41 63 0.27
42 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55459553 original size:78 final size:79
Alignment explanation
Indices: 55459424--55459664 Score: 335
Period size: 78 Copynumber: 3.1 Consensus size: 79
55459414 GGAGAGTGAT
*
55459424 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGGTATATTCCGGGCTAAGTCCCGAGGAG
1 ATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGGTATATTCCGGGCTAAGTCCCGAGGAG
55459489 CA-TCGTGCTAGTG
66 CATTCGTGCTAGTG
* *
55459502 ATATCCGAGCTAAGTACCGAGGAGCATTCGTGCTAGTGGTATATTCCGGGCTAAGTCCCGAGGAG
1 ATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGGTATATTCCGGGCTAAGTCCCGAGGAG
55459567 CATTC-TGCTAGTG
66 CATTCGTGCTAGTG
* * * * *** *
55459580 ATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA-TCCGAGCTAAGTTTGGAAG
1 --ATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGGTATATTCCGGGCTAAGTCCCGAGG
55459644 AGCATCTCGTGCTAGTG
64 AGCAT-TCGTGCTAGTG
55459661 ATAT
1 ATAT
55459665 ACTCCGTGCA
Statistics
Matches: 145, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
78 72 0.50
79 25 0.17
80 40 0.28
81 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGGTATATTCCGGGCTAAGTCCCGAGGAG
CATTCGTGCTAGTG
Found at i:55459681 original size:80 final size:80
Alignment explanation
Indices: 55459418--55459724 Score: 303
Period size: 78 Copynumber: 3.9 Consensus size: 80
55459408 AGAATTGGAG
* * * *
55459418 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGGTATATTCCGGGCTAAGTCCC
1 AGTGATATATCCGGGCTAAGACCCGAGGAGCATTCGTGCTAGTGATATATTCCGAGCTAAGTCCC
*
55459483 GAGGAGCA-TCGTGCT
66 GAAGAGCATTC-TGCT
* * *
55459498 AGTG--ATATCCGAGCTAAGTA-CCGAGGAGCATTCGTGCTAGTGGTATATTCCGGGCTAAGTCC
1 AGTGATATATCCGGGCTAAG-ACCCGAGGAGCATTCGTGCTAGTGATATATTCCGAGCTAAGTCC
*
55459560 CGAGGAGCATTCTGCT
65 CGAAGAGCATTCTGCT
* * * ***
55459576 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA-TCCGAGCTAAGTTTG
1 AGTGATATATCCGGGCTAAGACCCGAGGAGCATTCGTGCTAGTGATATATTCCGAGCTAAGTCCC
55459640 GAAGAGCATCTCGTGCT
66 GAAGAGCAT-TC-TGCT
* * * * * *
55459657 AGTGATATACTCCGTGC-AA-ACCCGAAGAGCATTC-TGCT-GGGTTATA-TCCGGGCTAGGT-C
1 AGTGATATA-TCCGGGCTAAGACCCGAGGAGCATTCGTGCTAGTGATATATTCCGAGCTAAGTCC
55459716 CGAAGAGCA
65 CGAAGAGCA
55459725 ATCATGCTGG
Statistics
Matches: 195, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
77 8 0.04
78 86 0.44
79 25 0.13
80 56 0.29
81 15 0.08
82 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
AGTGATATATCCGGGCTAAGACCCGAGGAGCATTCGTGCTAGTGATATATTCCGAGCTAAGTCCC
GAAGAGCATTCTGCT
Found at i:55461952 original size:9 final size:9
Alignment explanation
Indices: 55461938--55461989 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
55461928 GGGCAATAAC
55461938 GAGAGAGAA
1 GAGAGAGAA
55461947 GAGAGAG--
1 GAGAGAGAA
55461954 GAGAGAGAA
1 GAGAGAGAA
*
55461963 GAGAGAGAG
1 GAGAGAGAA
55461972 GAG-GAGAA
1 GAGAGAGAA
55461980 -AGAGAAGAA
1 GAGAG-AGAA
55461989 G
1 G
55461990 GGAGTGGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 9 0.25
8 5 0.14
9 22 0.61
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (9 bp):
GAGAGAGAA
Found at i:55461983 original size:16 final size:17
Alignment explanation
Indices: 55461938--55461984 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
55461928 GGGCAATAAC
55461938 GAGAGAG-AAGAGAGAG
1 GAGAGAGAAAGAGAGAG
55461954 GAGAGAGAAGAGAGAGAG
1 GAGAGAGAA-AGAGAGAG
55461972 GAG-GAGAAAGAGA
1 GAGAGAGAAAGAGA
55461985 AGAAGGGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.41
17 6 0.21
18 11 0.38
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (17 bp):
GAGAGAGAAAGAGAGAG
Found at i:55462468 original size:54 final size:53
Alignment explanation
Indices: 55462350--55462547 Score: 217
Period size: 54 Copynumber: 3.8 Consensus size: 53
55462340 AAATTGTACA
* * *
55462350 GCACTAAGTGTGCGATTTGGCTATGTAGCACT-AGTGTGCGATTTGAC-TGTT
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACATGTG
* * * *
55462401 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTA-GCACTAAGTGTGCGATTTGA-CATGTG
* *
55462455 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGA-TTAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACAT-GTG
* * * *
55462508 GCACTAAGTGTGCGAGTTGATTA-ATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
55462548 GACTTAATAT
Statistics
Matches: 125, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 26 0.21
52 29 0.23
53 25 0.20
54 43 0.34
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (53 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACATGTG
Found at i:55462527 original size:26 final size:26
Alignment explanation
Indices: 55462349--55462547 Score: 188
Period size: 27 Copynumber: 7.6 Consensus size: 26
55462339 TAAATTGTAC
*
55462349 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTA-GT
55462376 AGCACT-AGTGTGCGATTTGACT-GT
1 AGCACTAAGTGTGCGATTTGACTAGT
* ** *
55462400 TGCACTAAGTGTGCGAAATGAATA-T
1 AGCACTAAGTGTGCGATTTGACTAGT
* * *
55462425 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTA-GT
* *
55462454 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTA-GT
*
55462481 AGCACTAAGTGTGCGATTTGATTAGT
1 AGCACTAAGTGTGCGATTTGACTAGT
* * * *
55462507 GGCACTAAGTGTGCGAGTTGATTAAT
1 AGCACTAAGTGTGCGATTTGACTAGT
*
55462533 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55462548 GACTTAATAT
Statistics
Matches: 144, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
24 7 0.05
25 14 0.10
26 53 0.37
27 70 0.49
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTTGACTAGT
Found at i:55467239 original size:47 final size:47
Alignment explanation
Indices: 55467188--55468199 Score: 1459
Period size: 47 Copynumber: 21.1 Consensus size: 47
55467178 TTAGGATTTT
*
55467188 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55467235 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
55467282 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
55467335 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55467382 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
55467429 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55467476 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
55467523 CTGTGATGGATGTGAACATGCCTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
55467570 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
55467617 ATGTGATGAATGTGAACCTGTATATATATATGCATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTG--TGATAAGGCCGAATGGCCA
55467670 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
55467717 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
55467764 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
55467811 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
55467858 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
55467909 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
55467956 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
55468009 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
55468056 ATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
55468103 ATGTGATGAATGTGAACATGCATATATGAT-ATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTG-TGATAAGGCCGAATGGCCA
** * * *
55468150 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
55468197 ATG
1 ATG
55468200 CGAAACGTGT
Statistics
Matches: 876, Mismatches: 65, Indels: 48
0.89 0.07 0.05
Matches are distributed among these distances:
46 1 0.00
47 689 0.79
48 4 0.00
49 9 0.01
51 51 0.06
52 3 0.00
53 119 0.14
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:55467362 original size:23 final size:23
Alignment explanation
Indices: 55467335--55467409 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
55467325 CGAATGGCCA
55467335 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
55467358 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
55467382 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
55467405 ATGTG
1 ATGTG
55467410 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:55467576 original size:22 final size:22
Alignment explanation
Indices: 55467549--55467623 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
55467539 CATGCCTATG
55467549 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
55467571 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
55467594 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
55467618 TGTGAT
1 TGTGAT
55467624 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:55467657 original size:241 final size:235
Alignment explanation
Indices: 55467188--55468199 Score: 1477
Period size: 241 Copynumber: 4.2 Consensus size: 235
55467178 TTAGGATTTT
*
55467188 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *** *
55467253 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTG
66 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-----ATGCGTATGTGTG
55467318 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
125 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
* * *
55467383 TGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
190 TGTGATGAATGTGAACATACATATATGTGATAAGGCCGAATGGCCA
* * * *
55467429 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * *
55467494 TGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACATGCCTATGTGTGATAAGG
66 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
*
55467559 CCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGAT
131 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
*
55467624 GAATGTGAACCTGTATATATATATGCATGATAAGGCCGAATGGCCA
196 GAATGTGAA-C---ATACATATATG--TGATAAGGCCGAATGGCCA
55467670 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
55467735 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGG
66 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
* *
55467800 CCGAATGGCCACTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
131 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
* *
55467865 GAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
196 GAATGTGAA--C--ATACATATATGTGATAAGGCCGAATGGCCA
55467909 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
** *
55467974 TGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
65 -----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
* *
55468039 ATAAGGCCGAATGACCAATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCAA
125 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAA
*
55468104 TGTGATGAATGTGAACATGCATATATGAT-ATAAGGCCGAATGGCCA
190 TGTGATGAATGTGAACATACATATATG-TGATAAGGCCGAATGGCCA
** * * *
55468150 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATG
55468200 CGAAACGTGT
Statistics
Matches: 708, Mismatches: 49, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
235 88 0.12
236 1 0.00
239 89 0.13
240 2 0.00
241 394 0.56
242 3 0.00
243 1 0.00
245 130 0.18
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (235 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
GAATGTGAACATACATATATGTGATAAGGCCGAATGGCCA
Found at i:55467678 original size:25 final size:25
Alignment explanation
Indices: 55467650--55467725 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
55467640 ATATATATGC
55467650 ATGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
* * **
55467675 ATGA-ATGTG--AACAT-GCGTATGTG
1 ATGATAAG-GCCGA-ATGGCCAATGTG
55467698 -TGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
55467722 ATGA
1 ATGA
55467726 ATGTGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.33
24 12 0.33
25 8 0.22
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.24
Consensus pattern (25 bp):
ATGATAAGGCCGAATGGCCAATGTG
Found at i:55467913 original size:24 final size:24
Alignment explanation
Indices: 55467885--55467960 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
55467875 CCGTATATAT
55467885 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
55467909 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
55467932 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
55467956 ATGTG
1 ATGTG
55467961 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:55468262 original size:46 final size:46
Alignment explanation
Indices: 55468173--55468263 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
55468163 GAACATGAAT
* * * *
55468173 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
55468219 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
55468264 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:55468516 original size:37 final size:37
Alignment explanation
Indices: 55468408--55468516 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
55468398 GGAAATATAT
* *
55468408 TCCGGGTAAGACCCGATGGCTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
55468445 TCCGGGTAAAACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
55468482 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55468517 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55469528 original size:22 final size:22
Alignment explanation
Indices: 55469503--55469578 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
55469493 GGTGTTACAG
55469503 GTAAGCTCTATTGAGCTGAACA
1 GTAAGCTCTATTGAGCTGAACA
* *
55469525 GTAAGCTAT-TTCGAGCTAAAC-
1 GTAAGCTCTATT-GAGCTGAACA
* * *
55469546 GATAAGCTCCAATGAGCTGAAATA
1 G-TAAGCTCTATTGAGCTG-AACA
55469570 GTAAGCTCT
1 GTAAGCTCT
55469579 TACGAGTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
21 3 0.07
22 27 0.66
23 10 0.24
24 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAACA
Found at i:55471071 original size:137 final size:138
Alignment explanation
Indices: 55470779--55471603 Score: 1131
Period size: 138 Copynumber: 6.1 Consensus size: 138
55470769 AGAAAAAAGG
* *
55470779 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTACATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
55470844 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATAAAATT
66 TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
55470909 CATATATT
131 CATATATT
* * * *
55470917 AATTATATT-TTTTCAAAAGAATATTAATTTTCATATCTGTTATATTTTGACCGATATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * * *
55470981 TATATCTGTTTATATTAGTAAATTCGATAAAATATATACAGTCAA-AATTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
55471045 -ACTATATT
131 CA-TATATT
55471053 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * *
55471118 CATAACTGTTTATATTAATGAATTC-AGTAAAATATATTCAATTAATATTTTTTATGAATCAAAT
66 TATAACTATTTATATTAATAAATTCGA-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
55471182 TCATATATT
130 TCATATATT
* * * *
55471191 AATTATATTCTTTCCAAAAGAAAATTAATTTCCATGTATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
** * * *
55471256 TATAACTATTTATATTAATAAA-T---T----T-GGT-CAATTACTATTTTATATAAATCAAATT
66 TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
55471311 CATATATT
131 CATATATT
* *
55471319 AATTATATTCTTTCTAGAAGAATATTAATTTTCATGTCTTTTATATTTTGACC-AGAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGA-AATTAATTA
* * * *
55471383 ATATAACTGTTTATATTAATAAGTTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
55471448 TCATATATT
130 TCATATATT
* * * * *
55471457 AATCATATTCTTTCCAAAAGAATATTAATTTCCCTGTATTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
55471522 TATAACTATTTATATTAATAAATTCGACAAAATATATTCAATTAATATTTTGTATGAATCAATTT
66 TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
55471587 TATATATT
131 CATATATT
55471595 AATTATATT
1 AATTATATT
55471604 TATGTTCTCT
Statistics
Matches: 603, Mismatches: 67, Indels: 34
0.86 0.10 0.05
Matches are distributed among these distances:
127 1 0.00
128 109 0.18
129 2 0.00
130 1 0.00
132 1 0.00
134 1 0.00
135 1 0.00
136 34 0.06
137 177 0.29
138 274 0.45
139 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:55471391 original size:266 final size:270
Alignment explanation
Indices: 55470779--55471603 Score: 1128
Period size: 266 Copynumber: 3.0 Consensus size: 270
55470769 AGAAAAAAGG
* *
55470779 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTACATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
55470844 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATAAAATT
66 TATAACTGTTTATATTAAT-AATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * * * * *
55470909 CATATATTAATTATATT-TTTTCAAAAGAATATTAATTTTCATATCTGTTATATTTTGACCGATA
130 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAA
* * * * *
55470973 TTAATTAATATATCTGTTTATATTAGTAAATTCGATAAAATATATACAGTCAAAATTTGTATGAA
195 TTAATTAATATAACTATTTATATTAATAAATTCGAT-AAATATATACA-T--AAATTTATATAAA
55471038 TCAAATTACTATATT
256 TCAAATTACTATATT
55471053 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
55471118 CATAACTGTTTATATTAATGAATTCAGTAAAATATATTCAATTAATATTTTTTATGAATCAAATT
66 TATAACTGTTTATATTAAT-AATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
55471183 CATATATTAATTATATTCTTTCCAAAAGAAAATTAATTTCCATGTATTTTATATTTTGATCGAAA
130 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAA
* * * *
55471248 TTAATTAATATAACTATTTATATTAATAAATTTGGT-CA-AT-TAC-T-ATTTTATATAAATCAA
195 TTAATTAATATAACTATTTATATTAATAAATTCGATAAATATATACATAAATTTATATAAATCAA
55471308 ATT-CATATATT
260 ATTAC-TATATT
* *
55471319 AATTATATTCTTTCTAGAAGAATATTAATTTTCATGTCTTTTATATTTTGACC-AGAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGA-AATTAATTA
*
55471383 ATATAACTGTTTATATTAATAAGTTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAA-TTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
* * *
55471448 TCATATATTAATCATATTCTTTCCAAAAGAATATTAATTTCCCTGTATTTTATATTTTGACCAAA
129 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAA
* * * *
55471513 ATTAATTAATATAACTATTTATATTAATAAATTCGACAAAATATATTCAATTAATATTTTGTATG
194 ATTAATTAATATAACTATTTATATTAATAAATTCGA-TAAATATATAC-A-TAA-A-TTTATATA
*
55471578 AATCAATTTTA-TATATT
254 AATCAA-ATTACTATATT
55471595 AATTATATT
1 AATTATATT
55471604 TATGTTCTCT
Statistics
Matches: 488, Mismatches: 47, Indels: 30
0.86 0.08 0.05
Matches are distributed among these distances:
265 4 0.01
266 233 0.48
268 1 0.00
269 3 0.01
270 2 0.00
271 3 0.01
272 2 0.00
273 2 0.00
274 139 0.28
275 70 0.14
276 27 0.06
277 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (270 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAAT
TAATTAATATAACTATTTATATTAATAAATTCGATAAATATATACATAAATTTATATAAATCAAA
TTACTATATT
Found at i:55477155 original size:27 final size:27
Alignment explanation
Indices: 55477116--55477180 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
55477106 CTTTAATCGA
*
55477116 TAAAATGATTGTTTTGCCCTTATGA-GG
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
*
55477143 TTAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
55477170 TAAAATGACTG
1 TAAAATGACTG
55477181 AAATGCCCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:55477187 original size:27 final size:27
Alignment explanation
Indices: 55477130--55477193 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
55477120 ATGATTGTTT
* ***
55477130 TGCCCTTATGAGGTTAAATGACTGTTT
1 TGCCCTTATGAGGTAAAATGACTGAAA
55477157 TGCCCTTAT-ATGGTAAAATGACTGAAA
1 TGCCCTTATGA-GGTAAAATGACTGAAA
*
55477184 TGCCCCTATG
1 TGCCCTTATG
55477194 TGAGGTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (27 bp):
TGCCCTTATGAGGTAAAATGACTGAAA
Found at i:55477570 original size:18 final size:18
Alignment explanation
Indices: 55477547--55477608 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
55477537 TACTGTTTAA
55477547 ACTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
*
55477565 ACTGTTATTGCACTGATT
1 ACTGTTACTGCACTGATT
* * *
55477583 ACTATCACTGCTCT-ATTT
1 ACTGTTACTGCACTGA-TT
55477601 ACTGTTAC
1 ACTGTTAC
55477609 CGCAATGGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 1 0.03
18 35 0.97
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:55481069 original size:16 final size:17
Alignment explanation
Indices: 55481036--55481070 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
55481026 TGAAAAGAGG
*
55481036 AAGTGAAATGTGGTATA
1 AAGTGAAATGTAGTATA
55481053 AAGTGAAAT-TAGTATA
1 AAGTGAAATGTAGTATA
55481069 AA
1 AA
55481071 AATATGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.29
Consensus pattern (17 bp):
AAGTGAAATGTAGTATA
Found at i:55481455 original size:25 final size:25
Alignment explanation
Indices: 55481407--55481455 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
55481397 CATGATTGAA
* * *
55481407 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
55481432 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
55481456 ATGTATTGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:55481919 original size:16 final size:17
Alignment explanation
Indices: 55481877--55481920 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
55481867 ATGAGAAATT
55481877 AATATGAG--ATGAGAA
1 AATATGAGAAATGAGAA
*
55481892 AATAT-TGAAATG-GAA
1 AATATGAGAAATGAGAA
55481907 AATATGAGAAATGA
1 AATATGAGAAATGA
55481921 TTATGGGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (17 bp):
AATATGAGAAATGAGAA
Found at i:55486143 original size:16 final size:16
Alignment explanation
Indices: 55486101--55486156 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
55486091 TTACGATATG
55486101 TTTT-TTATTTTTATT
1 TTTTATTATTTTTATT
***
55486116 TTTTACCCTTTTTATT
1 TTTTATTATTTTTATT
*
55486132 TCTTATTATTTTTATCT
1 TTTTATTATTTTTAT-T
55486149 TTTTATTA
1 TTTTATTA
55486157 CTGTTATTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
15 4 0.13
16 19 0.61
17 8 0.26
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTATTTTTATT
Found at i:55486911 original size:130 final size:130
Alignment explanation
Indices: 55486660--55486922 Score: 284
Period size: 131 Copynumber: 2.0 Consensus size: 130
55486650 GAAAGTTTTC
* * * *
55486660 AAAATAAAGGTAATATTTCGTATCTGGAACTTCGAGAAGTCATACCCTAACTTTCGGGGTTTCAA
1 AAAATAAAGGTAATATTCCGCATCTGAAACTTCAAGAAGTCATACCCTAACTTTCGGGGTTTCAA
* ** * *
55486725 TTTTCTCGTTGAATCTAAATAACCAAATATCCTTTCAAATTTTAAAATATATGAATTTT-AAATA
66 TTTTCTCGTTGAATCTAAACAACCAAATATCCTTTCAAAAATCAAAATATACGAATTTTAAAATA
* * *
55486789 AAAATAAAGGTAATATTCCGCATTTAGAAAC-TCAAGAAGGTCATGCCTTAACTTAT-GGGGTTT
1 AAAATAAAGGTAATATTCCGCATCT-GAAACTTCAAGAA-GTCATACCCTAACTT-TCGGGGTTT
* * ** * *
55486852 TAATTTTCCTTGTTGAATCTAAACAACTGAATATCCTTTTAGAAAATCAAAGT-T-CGAATTTTA
63 CAATTTT-CTCGTTGAATCTAAACAACCAAATATCCTTTCA-AAAATCAAAATATACGAATTTTA
55486915 AAATA
126 AAATA
55486920 AAA
1 AAA
55486923 TAATTGAAAG
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
129 28 0.25
130 37 0.34
131 38 0.35
132 7 0.06
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (130 bp):
AAAATAAAGGTAATATTCCGCATCTGAAACTTCAAGAAGTCATACCCTAACTTTCGGGGTTTCAA
TTTTCTCGTTGAATCTAAACAACCAAATATCCTTTCAAAAATCAAAATATACGAATTTTAAAATA
Found at i:55491446 original size:1 final size:1
Alignment explanation
Indices: 55491440--55491536 Score: 50
Period size: 1 Copynumber: 97.0 Consensus size: 1
55491430 ACTTTTATTC
* * * * * * * * * * *
55491440 AAAAAAAAGAAAAAAAGAAAAGAAAAAAAAATAAAAAAGAAAAAGAGAAAAGAGAAAAGAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
55491505 AAATAAAATAAAAAGAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
55491537 GGAGAGGCCA
Statistics
Matches: 64, Mismatches: 32, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (1 bp):
A
Found at i:55491454 original size:7 final size:7
Alignment explanation
Indices: 55491442--55491536 Score: 75
Period size: 7 Copynumber: 12.7 Consensus size: 7
55491432 TTTTATTCAA
55491442 AAAAAAG
1 AAAAAAG
55491449 AAAAAAAG
1 -AAAAAAG
*
55491457 AAAAGAAA
1 AAAA-AAG
*
55491465 AAAAAAT
1 AAAAAAG
55491472 AAAAAAG
1 AAAAAAG
55491479 AAAAAGAG
1 AAAAA-AG
*
55491487 AAAAGAG
1 AAAAAAG
55491494 AAAAGAA-
1 AAAA-AAG
*
55491501 AATAAAAT
1 AA-AAAAG
*
55491509 AAAATAAA
1 AAAA-AAG
55491517 AAGAAAAG
1 AA-AAAAG
55491525 AAAAAAG
1 AAAAAAG
55491532 AAAAA
1 AAAAA
55491537 GGAGAGGCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
7 39 0.53
8 32 0.44
9 2 0.03
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:55491460 original size:6 final size:6
Alignment explanation
Indices: 55491443--55491537 Score: 70
Period size: 6 Copynumber: 15.0 Consensus size: 6
55491433 TTTATTCAAA
*
55491443 AAAAAG AAAAAA AGAAAAG AAAAA- AAAATA- AAAAAG AAAAAG AGAAAAG
1 AAAAAG AAAAAG A-AAAAG AAAAAG AAAA-AG AAAAAG AAAAAG A-AAAAG
* *
55491492 AGAAAAG AAAATAAA ATAAAAT AAAAAG -AAAAG AAAAAAG AAAAAG
1 A-AAAAG -AAA-AAG A-AAAAG AAAAAG AAAAAG -AAAAAG AAAAAG
55491538 GAGAGGCCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
5 10 0.13
6 32 0.43
7 28 0.37
8 5 0.07
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:55491535 original size:5 final size:5
Alignment explanation
Indices: 55491440--55491528 Score: 57
Period size: 5 Copynumber: 18.8 Consensus size: 5
55491430 ACTTTTATTC
*
55491440 AAAA- AAAAG -AAA- AAAAG AAAAG AAAA- AAAA- ATAA- AAAAG AAAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG
* * * * *
55491485 AGAA- AAGAG AAAAG AAAAT AAAAT AAAATA AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAA
55491529 AAGAAAAAGG
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
4 22 0.32
5 38 0.55
6 9 0.13
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:55492737 original size:44 final size:44
Alignment explanation
Indices: 55492677--55493184 Score: 206
Period size: 44 Copynumber: 10.8 Consensus size: 44
55492667 ATGGTAGATA
* * *
55492677 TTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCC
* * * * **
55492721 TTAACTCCCTGAAGTTGCAGCGGAGCAGATTGAAGACAACGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACTAGCC
* * * * ** *
55492766 TTATTTTCCTGAACTTGTAGTGGAATAGATTGAAGCTACAAGTTATGGCGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C-A-CTA--GC----C
* * * * *
55492820 TTATCTTCCTGAAGTTACAGTGGAGCAAATTGAAACCACCAGCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCC
* * * * * **
55492864 TTATCTCCCTGAAGTTGTAGCGGAGTAGATTGAAGACAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAGCC
* * * *
55492909 TTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAAGTTATGGCGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C-A-CTA--GC----C
* * *
55492963 TTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCAACTAGCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCC
* * * * **
55493007 TTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGACAACGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACTAGCC
* * ** * * * *
55493052 TTATTTCCATGGCGTTGCAATGGAACAGATTAAAGCTACAAATTATGGCGGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--ACTA--GC----C
* * * * * *
55493106 TTATCTTCCTGAAGTTGTAATGGAGTAGATTGACGCCACCAGCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCC
* *
55493150 TTATCTCCCTGAAGTTGTAGCGGAGCAGATTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
55493185 ATAGCGAATC
Statistics
Matches: 334, Mismatches: 98, Indels: 64
0.67 0.20 0.13
Matches are distributed among these distances:
44 127 0.38
45 96 0.29
47 2 0.01
48 12 0.04
50 5 0.01
51 2 0.01
52 2 0.01
54 88 0.26
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCC
Found at i:55493225 original size:45 final size:49
Alignment explanation
Indices: 55493155--55493265 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 49
55493145 CAGCCTTATC
* * *
55493155 TCCCTGAAGTTGTAGCGGAGCAGATTGAAGA-T-AG-C-GAATCTCATT
1 TCCCTGAAGTTGCAGCGAAGAAGATTGAAGATTAAGACAGAATCTCATT
* *
55493200 TCCCTGAAGTTGCAGTGAAGAAGATTGCAGATTGAAGACAGTGAATCTCATT
1 TCCCTGAAGTTGCAGCGAAGAAGATTGAAGATT-AAGACA--GAATCTCATT
55493252 TCCCTGAAGTTGCA
1 TCCCTGAAGTTGCA
55493266 ATGGAGATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
45 26 0.48
46 1 0.02
48 2 0.04
49 1 0.02
52 24 0.44
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (49 bp):
TCCCTGAAGTTGCAGCGAAGAAGATTGAAGATTAAGACAGAATCTCATT
Found at i:55493225 original size:143 final size:143
Alignment explanation
Indices: 55492677--55493216 Score: 783
Period size: 143 Copynumber: 3.8 Consensus size: 143
55492667 ATGGTAGATA
* *
55492677 TTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTAACTCCCTGAAGTTGCAGC
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
* * * *
55492742 GGAGCAGATTGAAGACAACGAATCTTATTTTCCTGAACTTGTAGTGGAATAGATTGAAGCTACAA
66 GGAGCAGATTGAAGACAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAA
55492807 GTTATGGCGGATC
131 GTTATGGCGGATC
* * * *
55492820 TTATCTTCCTGAAGTTACAGTGGAGCAAATTGAAACCACCAGCCTTATCTCCCTGAAGTTGTAGC
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
* * *
55492885 GGAGTAGATTGAAGACAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTACAA
66 GGAGCAGATTGAAGACAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAA
55492950 GTTATGGCGGATC
131 GTTATGGCGGATC
* * * *
55492963 TTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCAACTAGCCTTATCTCCCTGAAGTTGCAGT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
* * * ** * *
55493028 GGAGTAGACTGAAGACAACGAATCTTATTTCCATGGCGTTGCAATGGAACAGATTAAAGCTACAA
66 GGAGCAGATTGAAGACAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAA
*
55493093 ATTATGGCGGATC
131 GTTATGGCGGATC
* * * * *
55493106 TTATCTTCCTGAAGTTGTAATGGAGTAGATTGACGCCACCAGCCTTATCTCCCTGAAGTTGTAGC
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
* * *
55493171 GGAGCAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAGTG
66 GGAGCAGATTGAAGACAACGAATCTTATTTCCCTGAAGTTGCAGTG
55493217 AAGAAGATTG
Statistics
Matches: 349, Mismatches: 48, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
143 349 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (143 bp):
TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
GGAGCAGATTGAAGACAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAA
GTTATGGCGGATC
Found at i:55501654 original size:42 final size:42
Alignment explanation
Indices: 55501595--55501679 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
55501585 TTTATAAGAC
*
55501595 TCCATTTTATTTATATTAGTATAATTAATATTAAGATAATTA
1 TCCATTTTATTTATATTAGGATAATTAATATTAAGATAATTA
55501637 TCCATTTTATTTATATTAGGATAATTAATATTAAGATAATTA
1 TCCATTTTATTTATATTAGGATAATTAATATTAAGATAATTA
55501679 T
1 T
55501680 TAGGATTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (42 bp):
TCCATTTTATTTATATTAGGATAATTAATATTAAGATAATTA
Found at i:55501669 original size:15 final size:15
Alignment explanation
Indices: 55501649--55501678 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55501639 CATTTTATTT
*
55501649 ATATTAGGATAATTA
1 ATATTAAGATAATTA
55501664 ATATTAAGATAATTA
1 ATATTAAGATAATTA
55501679 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:55501689 original size:42 final size:42
Alignment explanation
Indices: 55501601--55501701 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
55501591 AGACTCCATT
* **
55501601 TTATTTATATTAGTATAATTAATATTAAGATAATTATCCATT
1 TTATTTATATTAGGATAATTAATATTAAGATAATTATCCAGA
*
55501643 TTATTTATATTAGGATAATTAATATTAAGATAATTAT-TAGGA
1 TTATTTATATTAGGATAATTAATATTAAGATAATTATCCA-GA
*
55501685 TTATTTAATTTTAGGAT
1 TTATTT-ATATTAGGAT
55501702 TTAATTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 42 0.81
43 9 0.17
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.50
Consensus pattern (42 bp):
TTATTTATATTAGGATAATTAATATTAAGATAATTATCCAGA
Found at i:55510862 original size:5 final size:5
Alignment explanation
Indices: 55510846--55510909 Score: 62
Period size: 5 Copynumber: 12.6 Consensus size: 5
55510836 AGGCAACCCA
*
55510846 ATTTT CATTTT ATTTT ATTTTT ATTTTT ATTTT -TATTT ATTTT ATCTT
1 ATTTT -ATTTT ATTTT A-TTTT A-TTTT ATTTT AT-TTT ATTTT ATTTT
55510894 A--TT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATT
55510910 CAGATATTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 31 0.60
6 17 0.33
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:55510867 original size:6 final size:6
Alignment explanation
Indices: 55510853--55510883 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
55510843 CCAATTTTCA
55510853 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
55510884 ATTTTATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:55510879 original size:23 final size:24
Alignment explanation
Indices: 55510852--55510909 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 24
55510842 CCCAATTTTC
55510852 ATTTTATTTTATTTTTAT-TT-TT
1 ATTTTATTTTATTTTTATCTTATT
55510874 ATTTT-TATTTA-TTTTATCTTATT
1 ATTTTAT-TTTATTTTTATCTTATT
55510897 ATTTTATTTTATT
1 ATTTTATTTTATT
55510910 CAGATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 7 0.23
22 11 0.35
23 11 0.35
24 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (24 bp):
ATTTTATTTTATTTTTATCTTATT
Found at i:55510909 original size:27 final size:27
Alignment explanation
Indices: 55510854--55510906 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
55510844 CAATTTTCAT
55510854 TTTATTTTATTTTTATTTTTATTTTTA
1 TTTATTTTATTTTTATTTTTATTTTTA
55510881 TTTATTTTATCTTATTA-TTTTATTTT
1 TTTATTTTAT-TT-TTATTTTTATTTT
55510907 ATTCAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.42
28 11 0.46
29 3 0.12
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTATTTTATTTTTATTTTTATTTTTA
Found at i:55512415 original size:15 final size:15
Alignment explanation
Indices: 55512395--55512424 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55512385 CATTTTATTT
*
55512395 ATATTAGGATAATTA
1 ATATTAAGATAATTA
55512410 ATATTAAGATAATTA
1 ATATTAAGATAATTA
55512425 TTAAGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:55512468 original size:10 final size:10
Alignment explanation
Indices: 55512449--55512480 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
55512439 TTTTAGGATT
55512449 TTAT-TTTAA
1 TTATCTTTAA
55512458 TTATCTTTAA
1 TTATCTTTAA
55512468 TTATCTTTAA
1 TTATCTTTAA
55512478 TTA
1 TTA
55512481 AATGCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:55523454 original size:39 final size:40
Alignment explanation
Indices: 55523370--55523454 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
55523360 ACTTAATTCA
* * *
55523370 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
55523410 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
55523449 TCAGCA
1 CCAGCA
55523455 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:55523579 original size:45 final size:46
Alignment explanation
Indices: 55523525--55523633 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 46
55523515 TGCACACTTT
* *
55523525 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
*
55523571 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
55523618 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
55523634 ATCTTAAGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 25 0.44
46 5 0.09
47 27 0.47
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:55526226 original size:22 final size:20
Alignment explanation
Indices: 55526186--55526226 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
55526176 AGTCCTATTA
*
55526186 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
55526206 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
55526227 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:55527546 original size:34 final size:35
Alignment explanation
Indices: 55527472--55527549 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
55527462 CTGTTGCATT
* *
55527472 ACTGATACTGTTAGTGTAATGGGCTAAGGCCCATG
1 ACTGATACTGTTACTGTAATGGGCTAAGGCCCATC
55527507 A-TGATACTGTTACTGCT-ATGGGCTAAGGCCCA-C
1 ACTGATACTGTTACTG-TAATGGGCTAAGGCCCATC
55527540 ACTGATACTG
1 ACTGATACTG
55527550 GACTACCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 1 0.03
34 36 0.92
35 2 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (35 bp):
ACTGATACTGTTACTGTAATGGGCTAAGGCCCATC
Found at i:55529274 original size:79 final size:82
Alignment explanation
Indices: 55529163--55529347 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55529153 GCTACTCGTT
* * *
55529163 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
55529226 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
55529243 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
55529306 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
55529323 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55529348 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:55529347 original size:40 final size:40
Alignment explanation
Indices: 55529144--55529347 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55529134 CGGAATTTAA
** *
55529144 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55529184 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55529224 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55529263 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55529303 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55529343 CCGGA
1 CCGGA
55529348 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55536144 original size:42 final size:42
Alignment explanation
Indices: 55536079--55536232 Score: 186
Period size: 42 Copynumber: 3.6 Consensus size: 42
55536069 TAAGACTACA
* *
55536079 TGTAAGACCATACCTAGGG-TATGGCATCAATATGAGATTACG
1 TGTAAGACCATATCT-GGGATATGGCATCGATATGAGATTACG
*
55536121 TGTAAGACCATATTTGGGATATGGCATCGATATGAGAGTT-CG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTACG
* * * * * *
55536163 TGTTAGACCATAACTGTGCTATTGGCATCGATACGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTACG
55536206 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
55536233 TGGTATGGTA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.03
42 56 0.60
43 35 0.37
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTACG
Found at i:55542729 original size:15 final size:15
Alignment explanation
Indices: 55542701--55542747 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
55542691 TGCTATTAAT
55542701 TTATTAAGATAAAAAC
1 TTATTAA-ATAAAAAC
55542717 TTATTAAATAAAATA-
1 TTATTAAATAAAA-AC
* *
55542732 TGATTAAATTAAAAC
1 TTATTAAATAAAAAC
55542747 T
1 T
55542748 AATCCTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 1 0.04
15 18 0.67
16 8 0.30
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (15 bp):
TTATTAAATAAAAAC
Found at i:55544156 original size:40 final size:39
Alignment explanation
Indices: 55544093--55544172 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 39
55544083 TAACGACTTA
*
55544093 TCGGCTAAAATGGCACAGAGTGTGCAGTTCGAAATAGCT
1 TCGGCTAAAATGGCACAGAGTGTGCAATTCGAAATAGCT
* * *
55544132 TCGGCTAAAAGTGGCACTTG-GTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCAC-AGAGTGTGCAATTCGAAATAGCT
55544172 T
1 T
55544173 TGGCCATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 10 0.29
40 24 0.69
41 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (39 bp):
TCGGCTAAAATGGCACAGAGTGTGCAATTCGAAATAGCT
Found at i:55544227 original size:28 final size:28
Alignment explanation
Indices: 55544193--55544261 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
55544183 TATAAATGGA
*
55544193 ACTTAGTGTGC-AAAGTATCGAGAAT-GTC
1 ACTTAGTGTGCGAAA-CATCGAGAATAG-C
*
55544221 ACTTAGTGTACGAAACATCGAGAATAGC
1 ACTTAGTGTGCGAAACATCGAGAATAGC
*
55544249 ACTTAGCGTGCGA
1 ACTTAGTGTGCGA
55544262 GGTATTGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (28 bp):
ACTTAGTGTGCGAAACATCGAGAATAGC
Found at i:55547084 original size:141 final size:141
Alignment explanation
Indices: 55546903--55547192 Score: 463
Period size: 141 Copynumber: 2.1 Consensus size: 141
55546893 GTCTAGGATA
* * **
55546903 TGGCATTGGCCTCGATATAAGAGAGACAGTGTAAGACCATGTTTGGGACATGGCATCGACTCGAT
1 TGGCATCGGCCTCGATATAAGAGAGACAGTGTAAGACCATGTCTAAGACATGGCATCGACTCGAT
*
55546968 ATGTGATTAAATGTAAGACAAAGTCTGGGACATTGGCATTGTATTGTGATTTCGTGTAAGACCCT
66 ATGTGATTAAATGTAAGACAAAGTCTGGGACATTGGCATTGTATTGTGATTTCATGTAAGACCCT
55547033 GTGTCGGACAG
131 GTGTCGGACAG
* * *
55547044 TGGCATCGGCCTTGATATAAGAGAGTCAGTGTAAGACCATGTCTAAGACATGGCATCGACTCGGT
1 TGGCATCGGCCTCGATATAAGAGAGACAGTGTAAGACCATGTCTAAGACATGGCATCGACTCGAT
* * * *
55547109 ATGTGATTAAATGTAATACCATGTCTGGGACATTTGCATTGTATTGTGATTTCATGTAAGACCCT
66 ATGTGATTAAATGTAAGACAAAGTCTGGGACATTGGCATTGTATTGTGATTTCATGTAAGACCCT
*
55547174 GTGTGGGACAG
131 GTGTCGGACAG
55547185 TGGCATCG
1 TGGCATCG
55547193 ATATCTGATA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
141 136 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (141 bp):
TGGCATCGGCCTCGATATAAGAGAGACAGTGTAAGACCATGTCTAAGACATGGCATCGACTCGAT
ATGTGATTAAATGTAAGACAAAGTCTGGGACATTGGCATTGTATTGTGATTTCATGTAAGACCCT
GTGTCGGACAG
Found at i:55547141 original size:47 final size:47
Alignment explanation
Indices: 55546788--55547141 Score: 181
Period size: 49 Copynumber: 7.5 Consensus size: 47
55546778 TGTGAGCTAG
* * *
55546788 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTG--TCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATTAAA
* * * ** *
55546833 TGTAAGACCATGTCTGGGACATGGCATCGGTA-TAGA-AAGAGAAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-G-ACTCGATATGTGATTA---AA
* * * * * * *
55546883 TGTAAGACCA-GTCTAGGATATGGCATTGGCCTCGATATAAGAGA-GACAG
1 TGTAAGACCATGTCTGGGACATGGCA-TCGACTCGATAT--GTGATTA-AA
*
55546932 TGTAAGACCATGTTTGGGACATGGCATCGACTCGATATGTGATTAAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATTAAA
* * * ***
55546979 TGTAAGACAAAGTCTGGGACATTGGCATTG--T--AT-TGTGATTTCG
1 TGTAAGACCATGTCTGGGACA-TGGCATCGACTCGATATGTGATTAAA
* * * * * * * * *
55547022 TGTAAGACCCTGTGTCGGACAGTGGCATCGGCCTTGATATAAGAGAGTCAG
1 TGTAAGACCATGTCTGGGACA-TGGCATC-GACTCGATAT--GTGATTAAA
** *
55547073 TGTAAGACCATGTCTAAGACATGGCATCGACTCGGTATGTGATTAAA
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATTAAA
*
55547120 TGTAATACCATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
55547142 TTGCATTGTA
Statistics
Matches: 233, Mismatches: 53, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
43 29 0.12
44 3 0.01
45 31 0.13
46 6 0.03
47 46 0.20
48 10 0.04
49 48 0.21
50 32 0.14
51 24 0.10
52 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATTAAA
Done.