Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 169 of 333
Found at i:55657979 original size:55 final size:54
Alignment explanation
Indices: 55657892--55658146 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
55657882 ATTAGGGTTT
*
55657892 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
55657947 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
55658002 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
55658055 AAGGATACCTTGTAAGACCATGTCAAGACATGG-AAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* ** *
55658104 AAGGATACCACGTAAGACCATGAAAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
55658147 GTACCCACGT
Statistics
Matches: 167, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 35 0.21
50 2 0.01
52 7 0.04
53 40 0.24
54 11 0.07
55 68 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:55658098 original size:108 final size:110
Alignment explanation
Indices: 55657899--55658099 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
55657889 TTTAAGGATA
*
55657899 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
55657964 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
* * *
55658009 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCTTGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
55658071 ACCATGTCAAGACATGGAAATGGTAAGTT
65 ACCATGTCAAGACATGGAAATGATAAGTT
55658100 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.55
109 7 0.08
110 27 0.33
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:55658359 original size:16 final size:16
Alignment explanation
Indices: 55658338--55658368 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55658328 ATAAATTTGA
55658338 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
55658354 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
55658369 AGTGAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:55664258 original size:47 final size:47
Alignment explanation
Indices: 55664189--55664370 Score: 203
Period size: 47 Copynumber: 3.9 Consensus size: 47
55664179 TGGGTAAGGT
*
55664189 GTCGATGCCATATCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATCTCAA
* * * * **
55664236 GTCGATGCCATGTCCGAGACATGGTTTTACACTGACTGTCATCTTGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-TCAA
* *
55664284 G-CAGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAA
*
55664329 TGCCGATGCCATGTCCCA-ACATGGTCTTACACTGGCTCTCAT
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
55664371 AATGTGGCTG
Statistics
Matches: 111, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.02
46 25 0.23
47 77 0.69
48 7 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAA
Found at i:55664361 original size:93 final size:93
Alignment explanation
Indices: 55664192--55664413 Score: 277
Period size: 93 Copynumber: 2.4 Consensus size: 93
55664182 GTAAGGTGTC
* * * *
55664192 GATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCGAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACA
* * **
55664257 TGGTTTTACACTGACTGTCATCTTGTAGCA
64 TGGTCTTACACTGACTCTCATAATGTAGCA
*
55664287 GATGCATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCA-ACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAGACA
* * *
55664350 TGGTCTTACACTGGCTCTCATAATGTGGCT
64 TGGTCTTACACTGACTCTCATAATGTAGCA
*
55664380 GATGCATGTCCTAGACATGTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCA
55664414 CAAACAAATG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
92 1 0.01
93 78 0.70
94 28 0.25
95 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATG
GTCTTACACTGACTCTCATAATGTAGCA
Found at i:55664384 original size:47 final size:46
Alignment explanation
Indices: 55664191--55664412 Score: 183
Period size: 47 Copynumber: 4.8 Consensus size: 46
55664181 GGTAAGGTGT
*
55664191 CGATGCCATATCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCA--TCAAGTG
* * * * **
55664238 CGATGCCATGTCCGAGACATGGTTTTACACTGACTGTCATCTTGTAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAAGT-G
* *
55664285 CAGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA-TG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATCAAGTG
55664331 CCGATGCCATGTCCCA-ACATGGTCTTACACTGGCTCTCAT-AATGTGG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAA-GT-G
* *
55664378 CTGATG-CATGTCCTAGACAT-GTCTTACACTAGCTC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTC
55664413 ACAAACAAAT
Statistics
Matches: 142, Mismatches: 19, Indels: 29
0.75 0.10 0.15
Matches are distributed among these distances:
44 2 0.01
45 5 0.04
46 47 0.33
47 82 0.58
48 6 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAAGTG
Found at i:55666030 original size:33 final size:33
Alignment explanation
Indices: 55665958--55666022 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
55665948 AAGATCTTGA
*
55665958 AGAAAATGGAAGGAAAATAAAAAAAGAACCATAG
1 AGAAGATGGAAGGAAAATAAAAAAAGAA-CATAG
55665992 AGAAGATGGAAGGAAAAT-AAAAAAGAA-ATAG
1 AGAAGATGGAAGGAAAATAAAAAAAGAACATAG
55666023 GGAGAAGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 4 0.13
33 9 0.30
34 17 0.57
ACGTcount: A:0.65, C:0.03, G:0.23, T:0.09
Consensus pattern (33 bp):
AGAAGATGGAAGGAAAATAAAAAAAGAACATAG
Found at i:55668022 original size:30 final size:30
Alignment explanation
Indices: 55667977--55668036 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55667967 ATTTAATACG
*
55667977 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
55668007 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
55668037 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:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:55671204 original size:2 final size:2
Alignment explanation
Indices: 55671197--55671235 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
55671187 CCCTCATCCT
55671197 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
55671236 TTGTCTTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:55672388 original size:16 final size:17
Alignment explanation
Indices: 55672350--55672381 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55672340 AATAGATAAT
55672350 TTAAAATATATAAAAAA
1 TTAAAATATATAAAAAA
55672367 TTAAAAT-TATAAAAA
1 TTAAAATATATAAAAA
55672382 TTCAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAATATATAAAAAA
Found at i:55672393 original size:15 final size:15
Alignment explanation
Indices: 55672350--55672404 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
55672340 AATAGATAAT
55672350 TTAAAATATATAAAAAA
1 TTAAAATA-AT-AAAAA
*
55672367 TTAAAATTATAAAAA
1 TTAAAATAATAAAAA
55672382 TTCAAAA-AAT-AAAA
1 TT-AAAATAATAAAAA
55672396 -TAAAATAAT
1 TTAAAATAAT
55672405 GTTAAGTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.12
13 4 0.12
14 4 0.12
15 9 0.26
16 6 0.18
17 7 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
TTAAAATAATAAAAA
Found at i:55673918 original size:16 final size:17
Alignment explanation
Indices: 55673897--55673937 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
55673887 ACTCATCAAA
*
55673897 ATTTTA-AAAAGGAATT
1 ATTTTATAAAAGAAATT
*
55673913 ATTTTATAAAATAAATT
1 ATTTTATAAAAGAAATT
55673930 ATTTTATA
1 ATTTTATA
55673938 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
ATTTTATAAAAGAAATT
Found at i:55677785 original size:31 final size:31
Alignment explanation
Indices: 55677724--55677807 Score: 114
Period size: 31 Copynumber: 2.6 Consensus size: 31
55677714 GTTATAATTT
**
55677724 TTAGAGATTGATTAATATAAATTCTTGAAGAAA
1 TTAGA-ATTGATTAATA-AAAACCTTGAAGAAA
55677757 TTAGAATTGATTAATAAAAACCTTGAAGAAA
1 TTAGAATTGATTAATAAAAACCTTGAAGAAA
* *
55677788 TTAAAATTGATTAAAAAAAA
1 TTAGAATTGATTAATAAAAA
55677808 TTAGCATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
31 31 0.66
32 11 0.23
33 5 0.11
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (31 bp):
TTAGAATTGATTAATAAAAACCTTGAAGAAA
Found at i:55682699 original size:48 final size:48
Alignment explanation
Indices: 55682635--55682947 Score: 443
Period size: 48 Copynumber: 6.5 Consensus size: 48
55682625 TGTGCCTATA
*
55682635 TAAGACCATGTCTGGGACATGGGATCGGCGATGATATATGTGCCTA-TG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCC-AGTG
*
55682683 TAAGACCATGTTTGGGACATGGCATCGGCGATGATATATGTGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAGTG
* * *
55682731 TAAAACCATGTCTGGGACATGGCATCGGCGATGATATGTGTACCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAGTG
* * * * *
55682779 TAAGACCATGTTTGGGACATGGTATTGTCAATGATATATGTGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAGTG
* *
55682827 TAAGACCATGTCTGGGACATGGCATCGGCAATGATATGTGTGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAGTG
* *
55682875 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGAAT-TCA-TG
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATATG--TGCCAGTG
*
55682923 TAAGACCATGTCGGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
55682948 TGGTACTCTA
Statistics
Matches: 240, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 1 0.00
48 236 0.98
49 2 0.01
50 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCAGTG
Found at i:55683905 original size:28 final size:28
Alignment explanation
Indices: 55683874--55683930 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
55683864 CCATCACAGA
* * *
55683874 AACAGTATCAGGTAGGCCTTAGCCCAAT
1 AACAGAATCAGGTAGGCCTAAACCCAAT
*
55683902 AACAGAATCAGGTGGGCCTAAACCCAAT
1 AACAGAATCAGGTAGGCCTAAACCCAAT
55683930 A
1 A
55683931 CAAACTAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (28 bp):
AACAGAATCAGGTAGGCCTAAACCCAAT
Found at i:55684384 original size:26 final size:27
Alignment explanation
Indices: 55684355--55684413 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
55684345 CAGCATAATC
* *
55684355 GTCATTCTACCATACA-GGGTATTACG
1 GTCATTCTACCATACAGGGGCATTACA
* *
55684381 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTCTACCATACAGGGGCATTACA
55684408 GTCATT
1 GTCATT
55684414 TTACACTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (27 bp):
GTCATTCTACCATACAGGGGCATTACA
Found at i:55684413 original size:27 final size:26
Alignment explanation
Indices: 55684355--55684423 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
55684345 CAGCATAATC
* * * *
55684355 GTCATTCTACCATACAGGGTATTACG
1 GTCATTTTACCCTACAGGGCATTACA
55684381 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACA-GGGCATTACA
*
55684408 GTCATTTTACACTACA
1 GTCATTTTACCCTACA
55684424 ATCGTATTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 14 0.38
27 23 0.62
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGCATTACA
Found at i:55688042 original size:40 final size:40
Alignment explanation
Indices: 55687987--55688208 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
55687977 TATTCGAATG
55687987 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
55688027 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
* *
55688067 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
55688107 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
* * * *
55688147 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTA-TTGACT
*
55688187 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
55688209 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 13 0.08
40 154 0.91
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
Found at i:55691095 original size:27 final size:27
Alignment explanation
Indices: 55691034--55691103 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
55691024 GAGCATAATC
* * *
55691034 ATCATTCTACCATACAGAGGTATTACG
1 ATCATTTTACCCTACAGAGGCATTACG
* *
55691061 GTCATTTTACCCTACAGGGGCATTACG
1 ATCATTTTACCCTACAGAGGCATTACG
* *
55691088 ATCGTTTTACACTACA
1 ATCATTTTACCCTACA
55691104 AGAGTATTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
ATCATTTTACCCTACAGAGGCATTACG
Found at i:55696975 original size:42 final size:42
Alignment explanation
Indices: 55696897--55696976 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
55696887 GTGTAGGGTT
* *
55696897 CACACGGCTAACACACACGCCTGTGTTCTAGGCCGTGTATCA
1 CACACGGCTAACACACACGCCCGTGTTCTAGCCCGTGTATCA
* *
55696939 CACACGGCTGAGACACACGCCCGTGTCTCT-GCCCGTGT
1 CACACGGCTAACACACACGCCCGTGT-TCTAGCCCGTGT
55696977 GCCAAATCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.91
43 3 0.09
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.20
Consensus pattern (42 bp):
CACACGGCTAACACACACGCCCGTGTTCTAGCCCGTGTATCA
Found at i:55705917 original size:40 final size:40
Alignment explanation
Indices: 55705866--55706610 Score: 1267
Period size: 40 Copynumber: 18.6 Consensus size: 40
55705856 CATTTGAATG
55705866 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55705906 ATATCCGGGCTATGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55705946 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55705986 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55706026 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55706066 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55706106 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55706146 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55706186 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55706226 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55706266 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55706306 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55706346 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55706386 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55706426 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55706466 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55706506 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
55706546 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55706586 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
55706611 ATTGAGCTTG
Statistics
Matches: 674, Mismatches: 29, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 671 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:55720899 original size:25 final size:25
Alignment explanation
Indices: 55720851--55720908 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
55720841 ATAAAACCTA
*
55720851 AAAATGAAATAGTATTAAATGAAGAT
1 AAAAT-AAAAAGTATTAAATGAAGAT
55720877 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAGAT
55720902 -AAATAAA
1 AAAATAAA
55720909 GATAAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 13 0.43
26 10 0.33
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAGAT
Found at i:55720925 original size:18 final size:17
Alignment explanation
Indices: 55720902--55720949 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
55720892 TAAAGAAGAT
* *
55720902 AAATAAAGATAAAATTGA
1 AAATAAAAATAAAAAT-A
55720920 AAATAAAAATAAAAATA
1 AAATAAAAATAAAAATA
55720937 AAATAAAAA-AAAA
1 AAATAAAAATAAAA
55720950 GTCTTTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.14
17 10 0.36
18 14 0.50
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (17 bp):
AAATAAAAATAAAAATA
Found at i:55720928 original size:6 final size:6
Alignment explanation
Indices: 55720902--55720949 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
55720892 TAAAGAAGAT
* * *
55720902 AAATAA AGATAA AATTGA AAATAA AAATAA AAAT-A AAATAA AAA-AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
55720948 AA
1 AA
55720950 GTCTTTAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:55735546 original size:27 final size:27
Alignment explanation
Indices: 55735516--55735623 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
55735506 AATCTCATAT
* *
55735516 CTATAGGCTAGTATTACTGAAATACCC
1 CTATAGGGTAGAATTACTGAAATACCC
*
55735543 CTATAGGGTAGAATTACTGAAATGCCC
1 CTATAGGGTAGAATTACTGAAATACCC
* * * * *
55735570 TTGTAGGATAGAATTACTAAAATACCT
1 CTATAGGGTAGAATTACTGAAATACCC
55735597 CTATAGGGTAGAATTACTGAAATACCC
1 CTATAGGGTAGAATTACTGAAATACCC
55735624 TTGGTTACAA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (27 bp):
CTATAGGGTAGAATTACTGAAATACCC
Found at i:55735610 original size:54 final size:54
Alignment explanation
Indices: 55735519--55735626 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
55735509 CTCATATCTA
* * * *
55735519 TAGGCTAGTATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATGCCCTTG
1 TAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTG
*
55735573 TAGGATAGAATTACTAAAATACCTCTATAGGGTAGAATTACTGAAATACCCTTG
1 TAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTG
55735627 GTTACAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (54 bp):
TAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTG
Found at i:55735652 original size:25 final size:27
Alignment explanation
Indices: 55735608--55735676 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
55735598 TATAGGGTAG
*
55735608 AATTACTGAAATACCCTTGG-TTACAA
1 AATTACTGAAATACACTTGGTTTACAA
*
55735634 AATTACTG-AATACATTTGGTTTACAA
1 AATTACTGAAATACACTTGGTTTACAA
**
55735660 AATTACCAAAATACACT
1 AATTACTGAAATACACT
55735677 CGATTAGCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.25
26 20 0.56
27 7 0.19
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTGAAATACACTTGGTTTACAA
Found at i:55735763 original size:27 final size:26
Alignment explanation
Indices: 55735658--55735944 Score: 191
Period size: 27 Copynumber: 10.7 Consensus size: 26
55735648 TTTGGTTTAC
* * * *
55735658 AAAATTACCAAAATACACTCGATTAGC
1 AAAATTACCAAAATACCCT-AATTTGT
*
55735685 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAATTTGT
* *
55735712 AAAATTACCAAAATACCCCTGATTTAT
1 AAAATTACCAAAATA-CCCTAATTTGT
*
55735739 GAAATTACCAAAATACTCCTAATTTGT
1 AAAATTACCAAAATAC-CCTAATTTGT
* * * * ** *
55735766 GAAATTATCGAAATACCCTCGACCTAT
1 AAAATTACCAAAATACCCT-AATTTGT
*
55735793 AAAATTACCGAAATACCCTCAACTTT-T
1 AAAATTACCAAAATACCCT-AA-TTTGT
* *
55735820 AAAATTACCAAATTACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TAATTTGT
* *
55735847 AAAATTACCAAAATACCTCTGATTTGG
1 AAAATTACCAAAATACC-CTAATTTGT
* * * * *
55735874 GAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCC-TAATTTGT
* * **
55735901 AAAATTACAAAAATACCCCTGATTTAC
1 AAAATTACCAAAATA-CCCTAATTTGT
55735928 AAAATTA-CAGAAATACC
1 AAAATTACCA-AAATACC
55735945 TTTAACTTTA
Statistics
Matches: 213, Mismatches: 37, Indels: 21
0.79 0.14 0.08
Matches are distributed among these distances:
26 11 0.05
27 193 0.91
28 9 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAATTTGT
Found at i:55735771 original size:81 final size:79
Alignment explanation
Indices: 55735659--55735944 Score: 238
Period size: 81 Copynumber: 3.5 Consensus size: 79
55735649 TTGGTTTACA
* * * *
55735659 AAATTACCAAAATACACTCGATTAGCAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCGA
55735723 AATACCCCTGATTTATG
64 AATACCCCTGATTT-TG
* * * * ** *
55735740 AAATTACCAAAATACTCCTAATTTGTGAAATTATCGAAATA-CCCTCGACCTATAAAATTACCGA
1 AAATTACCAAAATAC-CCTGATTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCGA
* *
55735804 AATA-CCCTCAACTTTTA
64 AATACCCCT-GA-TTTTG
* * ** *
55735821 AAATTACCAAATTACCCTTGATTTGTAAAATTACCAAAATACCTCTGATTTGGGAAATTATCGAA
1 AAATTACCAAAATACCC-TGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCGAA
* *
55735886 ATACCCTTGATTTGG
65 ATACCCCTGATTTTG
* **
55735901 AAAATTACAAAAATACCCCTGATTTACAAAATTA-CAGAAATACC
1 -AAATTACCAAAATA-CCCTGATTTGTAAAATTACCA-AAATACC
55735945 TTTAACTTTA
Statistics
Matches: 161, Mismatches: 33, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
80 15 0.09
81 131 0.81
82 15 0.09
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (79 bp):
AAATTACCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCGAAA
TACCCCTGATTTTG
Found at i:55735923 original size:54 final size:54
Alignment explanation
Indices: 55735658--55736027 Score: 246
Period size: 54 Copynumber: 6.8 Consensus size: 54
55735648 TTTGGTTTAC
* * * * * * *
55735658 AAAATTACCAAAATACACTCGATTAGCAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTATCGAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTAATTTGT
* * * * *
55735712 AAAATTACCAAAATACCCCTGATTTATG-AAATTACCAAAATACTCCTAATTTGT
1 AAAATTATCGAAATACCCTTGATTT-GGAAAATTACCAAAATACCCCTAATTTGT
* * ** ** *
55735766 GAAATTATCGAAATACCCTCGACCTATAAAATTACCGAAATA-CCCTCAACTTT-T
1 AAAATTATCGAAATACCCTTGATTTGGAAAATTACCAAAATACCCCT-AA-TTTGT
* * * * *
55735820 AAAATTA-CCAAATTACCCTTGATTTGTAAAATTACCAAAATACCTCTGATTTGG
1 AAAATTATCGAAA-TACCCTTGATTTGGAAAATTACCAAAATACCCCTAATTTGT
* * * **
55735874 GAAATTATCGAAATACCCTTGATTTGGAAAATTACAAAAATACCCCTGATTTAC
1 AAAATTATCGAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTAATTTGT
* * ** ** * ** * *
55735928 AAAATTA-CAGAAATACCTTTAACTTTAAAAAATTACTGAAGTACCATTGATTTGC
1 AAAATTATC-GAAATACCCTTGA-TTTGGAAAATTACCAAAATACCCCTAATTTGT
* * * * *
55735983 AAAATTATCGAAATACCATTGGTTTGTAAATTTACCAAAACACCC
1 AAAATTATCGAAATACCCTTGATTTGGAAAATTACCAAAATACCC
55736028 TTGTAGGGTG
Statistics
Matches: 247, Mismatches: 58, Indels: 22
0.76 0.18 0.07
Matches are distributed among these distances:
53 11 0.04
54 184 0.74
55 51 0.21
56 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTATCGAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTAATTTGT
Found at i:55735935 original size:108 final size:107
Alignment explanation
Indices: 55735659--55735920 Score: 303
Period size: 108 Copynumber: 2.4 Consensus size: 107
55735649 TTGGTTTACA
* * * * *
55735659 AAATTACCAAAATACACTCGA-TTAGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAATTATCGAAATACCCTCGACCTAG-AAAATTACCAAAATACCCCTACTTT-TAAAATTACCAA
* *
55735723 AATACCCCTGATTTATGAAATTACCAAAATACTCCTAATTTGTG
64 AATACCCCTGATTTATAAAATTACCAAAATACTCCTAATTTGGG
* * *
55735767 AAATTATCGAAATACCCTCGACCTATAAAATTACCGAAATACCCTCAACTTTTAAAATTACCAAA
1 AAATTATCGAAATACCCTCGACCTAGAAAATTACCAAAATACCC-CTACTTTTAAAATTACCAAA
* * * *
55735832 TTACCCTTGATTTGTAAAATTACCAAAATAC-CTCTGATTTGGG
65 ATACCCCTGATTTATAAAATTACCAAAATACTC-CTAATTTGGG
* ** * *
55735875 AAATTATCGAAATACCCTTGATTTGGAAAATTACAAAAATACCCCT
1 AAATTATCGAAATACCCTCGACCTAGAAAATTACCAAAATACCCCT
55735921 GATTTACAAA
Statistics
Matches: 129, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
107 2 0.02
108 120 0.93
109 7 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (107 bp):
AAATTATCGAAATACCCTCGACCTAGAAAATTACCAAAATACCCCTACTTTTAAAATTACCAAAA
TACCCCTGATTTATAAAATTACCAAAATACTCCTAATTTGGG
Found at i:55735999 original size:27 final size:26
Alignment explanation
Indices: 55735608--55736017 Score: 157
Period size: 27 Copynumber: 15.2 Consensus size: 26
55735598 TATAGGGTAG
* *
55735608 AATTACTGAAATACCCTTG-GTTACAA
1 AATTAC-GAAATACCCTTGATTTGCAA
** * *
55735634 AATTACTG-AATACATTTGGTTTACAA
1 AATTAC-GAAATACCCTTGATTTGCAA
* * * *
55735660 AATTACCAAAATACACTCGATTAGCAA
1 AATTA-CGAAATACCCTTGATTTGCAA
* * *
55735687 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTA-CGAAATACCCTTGA-TTTGCAA
* * ***
55735714 AATTACCAAAATACCCCTGATTTATGA
1 AATTA-CGAAATACCCTTGATTTGCAA
* * **
55735741 AATTACCAAAATACTCC-TAATTTGTGA
1 AATTA-CGAAATAC-CCTTGATTTGCAA
* ** **
55735768 AATTATCGAAATACCCTCGACCTATAA
1 AATTA-CGAAATACCCTTGATTTGCAA
** *
55735795 AATTACCGAAATACCCTCAACTTT-TAA
1 AATTA-CGAAATACCCTTGA-TTTGCAA
* *
55735822 AATTACCAAATTACCCTTGATTTGTAA
1 AATTACGAAA-TACCCTTGATTTGCAA
* **
55735849 AATTACCAAAATA-CCTCTGATTTGGGA
1 AATTA-CGAAATACCCT-TGATTTGCAA
*
55735876 AATTATCGAAATACCCTTGATTTGGAA
1 AATTA-CGAAATACCCTTGATTTGCAA
* * *
55735903 AATTACAAAAATACCCCTGATTTACAA
1 AATTAC-GAAATACCCTTGATTTGCAA
* * **
55735930 AATTACAGAAATACCTTTAACTTTAAAA
1 AATTAC-GAAATACCCTTGA-TTTGCAA
* *
55735958 AATTACTGAAGTACCATTGATTTGCAA
1 AATTAC-GAAATACCCTTGATTTGCAA
* * *
55735985 AATTATCGAAATACCATTGGTTTGTAA
1 AATTA-CGAAATACCCTTGATTTGCAA
*
55736012 ATTTAC
1 AATTAC
55736018 CAAAACACCC
Statistics
Matches: 310, Mismatches: 58, Indels: 32
0.77 0.14 0.08
Matches are distributed among these distances:
25 8 0.03
26 34 0.11
27 234 0.75
28 34 0.11
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (26 bp):
AATTACGAAATACCCTTGATTTGCAA
Found at i:55736297 original size:41 final size:41
Alignment explanation
Indices: 55736248--55736370 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 41
55736238 GGAGGGAGAA
*
55736248 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCGCCG
1 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
55736289 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCG
1 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
** *
55736330 ATTAAGGATCTTATGGTTGCTTGATG-CTCGTGGATCCACCG
1 ATTAAGGATCGCATGGTTGCTTGACGAC-CGTGGATCCACCG
55736371 GTGGCTTTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 72 0.99
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (41 bp):
ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:55736564 original size:22 final size:23
Alignment explanation
Indices: 55736514--55736576 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
55736504 CAATTGTTTT
* *
55736514 GATTATGGCTTTGCGCCAACCTA
1 GATTATGGCTCTGTGCCAACCTA
*
55736537 CA-TATGGCTCTGTGCCAACC-A
1 GATTATGGCTCTGTGCCAACCTA
*
55736558 GATTATGGCTGTGTGCCAA
1 GATTATGGCTCTGTGCCAA
55736577 ATGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.06
22 31 0.91
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (23 bp):
GATTATGGCTCTGTGCCAACCTA
Found at i:55739726 original size:45 final size:46
Alignment explanation
Indices: 55739629--55739737 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 46
55739619 AGCTTAAGAT
*
55739629 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
55739676 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
55739721 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
55739738 AAAGTGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 6 0.11
47 24 0.42
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:55742903 original size:15 final size:15
Alignment explanation
Indices: 55742874--55742913 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
55742864 AAAGATGACA
* *
55742874 AGAAAACCAAGATAG
1 AGAAATCCAAAATAG
*
55742889 AGTAATCCAAAATAG
1 AGAAATCCAAAATAG
55742904 AGAAATCCAA
1 AGAAATCCAA
55742914 GATACGATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
AGAAATCCAAAATAG
Found at i:55750695 original size:46 final size:46
Alignment explanation
Indices: 55750558--55750778 Score: 189
Period size: 46 Copynumber: 4.7 Consensus size: 46
55750548 GGGTTATTGT
* * * *
55750558 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GACGA
* * * *
55750604 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCTGCATCGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGA
* *
55750652 GTGCTAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACG-A
* * * ***
55750699 -AGCTAGGGTAAGACATGTC-AGGGACATGCATCAG-CTTGAGATTT
1 GAGCTAGTGTAAGACATGTCTA-GGACATGCATCGGCCTCGAGACGA
* *
55750743 GAGCTAGCGTAAGACCATGTCTGGGACATTGCATCG
1 GAGCTAGTGTAAGA-CATGTCTAGGACA-TGCATCG
55750779 ACACCTTACG
Statistics
Matches: 141, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
45 19 0.13
46 67 0.48
47 32 0.23
48 22 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGA
Found at i:55765640 original size:27 final size:27
Alignment explanation
Indices: 55765610--55765786 Score: 160
Period size: 27 Copynumber: 6.5 Consensus size: 27
55765600 ATATTGAGCC
* *
55765610 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
55765637 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55765664 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
55765692 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55765719 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
55765746 CACACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
55765773 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55765787 CGCACAATTT
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 100 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55765752 original size:82 final size:81
Alignment explanation
Indices: 55765631--55765790 Score: 223
Period size: 82 Copynumber: 2.0 Consensus size: 81
55765621 TGCTATATAA
* * * *
55765631 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCACACACTTAGTGCAACATAGTC-GAATCGCA
55765696 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55765713 TCAATTCGCACACTTAGTG-CATCATATTCATTTCACACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCACACACTTAGTGCAACATAGTCGAATCGCA
55765777 CACTTAGTGCCGCA
65 CACTTAGTGCCGCA
55765791 CAATTTAATC
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 23 0.33
82 46 0.67
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCACACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55773733 original size:27 final size:27
Alignment explanation
Indices: 55773703--55773879 Score: 169
Period size: 27 Copynumber: 6.5 Consensus size: 27
55773693 ATATTGAGCC
* *
55773703 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
55773730 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55773757 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
55773785 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55773812 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
55773839 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
55773866 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55773880 CGCACAATTT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55773842 original size:82 final size:81
Alignment explanation
Indices: 55773724--55773883 Score: 232
Period size: 82 Copynumber: 2.0 Consensus size: 81
55773714 TGCTATATAA
* * *
55773724 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
55773789 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55773806 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
55773870 CACTTAGTGCCGCA
65 CACTTAGTGCCGCA
55773884 CAATTTAATC
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
81 23 0.33
82 47 0.67
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55779268 original size:50 final size:50
Alignment explanation
Indices: 55779153--55779293 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
55779143 CATGTAATAA
* * *
55779153 GATGCCAAGGCCATATCCCAAATATGGTCTTACATGGGA--TCACATACC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATACC
* *
55779201 GATGCCAATGCCATGTCCCAGACATGGTCCTACATGGGATCTCACATATCC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATA-CC
* *
55779252 -ATGCGAATTCCATGTCCCAAACATGGTCTTACAT-GGATCTCA
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCA
55779294 TTACTCATGG
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
48 34 0.42
49 8 0.10
50 37 0.46
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATACC
Found at i:55779476 original size:20 final size:20
Alignment explanation
Indices: 55779451--55779508 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
55779441 GTCACCTATA
* *
55779451 TCATGAACTCAGACCACAAC
1 TCATGAGCTCAGATCACAAC
55779471 TCATGAGCTCAGATCACAAC
1 TCATGAGCTCAGATCACAAC
55779491 TCATGAGCTCAGATCACA
1 TCATGAGCTCAGATCACA
55779509 TATTTTCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (20 bp):
TCATGAGCTCAGATCACAAC
Found at i:55781845 original size:6 final size:6
Alignment explanation
Indices: 55781827--55781946 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
55781817 AAGAAACATT
* *
55781827 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
55781876 ATTAGA ATCAGT ATCAGGTA A-CCGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
55781927 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
55781947 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.74
7 13 0.15
8 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:55781872 original size:31 final size:31
Alignment explanation
Indices: 55781836--55781946 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
55781826 TATCAGAACT
* * * *
55781836 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
55781867 AGAATCAGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
55781898 CGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
55781929 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
55781947 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 60 0.85
32 11 0.15
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:55782146 original size:27 final size:27
Alignment explanation
Indices: 55782083--55782184 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
55782073 GCTCAGTTAT
* * * *
55782083 CAGATATTGTGACAAAGTCACTAGATA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
55782110 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
55782136 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAGAAA
*
55782164 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
55782185 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 48 0.74
28 9 0.14
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGAAA
Found at i:55782371 original size:22 final size:21
Alignment explanation
Indices: 55782343--55782407 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
55782333 GCAAATACGT
55782343 TTGGCACACGGCCATAATCAGG
1 TTGGCACA-GGCCATAATCAGG
*
55782365 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAG-GCCATAAT-CAGG
* *
55782387 TTGACACAAAGCCATAATCAG
1 TTGGCAC-AGGCCATAATCAG
55782408 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.09
22 29 0.83
23 3 0.09
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAGGCCATAATCAGG
Found at i:55782891 original size:27 final size:27
Alignment explanation
Indices: 55782852--55783028 Score: 239
Period size: 27 Copynumber: 6.6 Consensus size: 27
55782842 TACCCCACAA
*
55782852 GGTATCTT-GGTAATTCCACCCTACAGG
1 GGTAT-TTCGGTAATTCTACCCTACAGG
**
55782879 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
55782906 GGTATTTCGGTAATTCTACCCTACAGT
1 GGTATTTCGGTAATTCTACCCTACAGG
* * **
55782933 TGTATTGCAATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
55782960 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
55782987 GGTATTTTGGTATTTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
55783014 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
55783029 TTGTAAATCG
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 2 0.02
27 128 0.98
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:55783043 original size:27 final size:27
Alignment explanation
Indices: 55783013--55783407 Score: 230
Period size: 27 Copynumber: 14.6 Consensus size: 27
55783003 TACCCTATAG
* *
55783013 GGGTATTTCGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** * * *
55783040 GGGTAAAACGATAATTCTGTAAATC-A
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
55783066 GGGGTACTTTGGTAATTTTACAAGTCGA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* ** * **
55783094 TGGTATTTTAATAATTTTTTAGGTCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*
55783121 GGGTATTTCT-GTAATTTCATAAATC-A
1 GGGTATTT-TGGTAATTTTATAAATCGA
* *
55783147 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
55783174 GAGGTATTTTGATAATTTTACAAA-CCA
1 G-GGTATTTTGGTAATTTTATAAATCGA
* * *
55783201 TGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * * *
55783229 GGGTATTTTGGTAATTATGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
55783256 GGGTATTTTAGTAATTTTACAAAATAG-
1 GGGTATTTTGGTAATTTTA-TAAATCGA
* * *
55783283 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
55783310 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
55783336 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * * *
55783364 AGGTATTTTTGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTATAAATCGA
*
55783390 GGGGTATATTGGTAATTT
1 -GGGTATTTTGGTAATTT
55783408 GGTAAACTAA
Statistics
Matches: 290, Mismatches: 64, Indels: 28
0.76 0.17 0.07
Matches are distributed among these distances:
26 12 0.04
27 268 0.92
28 10 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:55783180 original size:54 final size:54
Alignment explanation
Indices: 55783121--55783414 Score: 401
Period size: 54 Copynumber: 5.4 Consensus size: 54
55783111 TTTAGGTCGA
** * * *
55783121 GGGTATTTCT-GTAATTTCATAAATCAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTT-TGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * ** * * *
55783175 AGGTATTTTGATAATTTTACAAACCATGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* **
55783229 GGGTATTTTGGTAATTATGTAAACCAAGGGTATTTTAGTAATTTTACAAAATAG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
55783283 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
55783337 GGGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
55783391 GGGTATATTGGTAATTTGGTAAAC
1 GGGTATTTTGGTAATTTTGTAAAC
55783415 TAAAGTATTC
Statistics
Matches: 215, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 214 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:55783180 original size:81 final size:82
Alignment explanation
Indices: 55783059--55783407 Score: 325
Period size: 81 Copynumber: 4.3 Consensus size: 82
55783049 GATAATTCTG
* * ** * * **
55783059 TAAATCAGGGGTACTTTGGTAATTTTACAAGTC-GATGGTATTTTAATAATTTTTTAGGTCGAGG
1 TAAACCAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTAATAATTTTATAAATCGAGG
*
55783123 GTATTTCT-GTAATTTCA
66 GTATTT-TGGTAATTTTA
* * * *
55783140 TAAATCAGGGGTATTTTGGTAATTTTACAAACCAGA-GGTATTTTGATAATTTTACAAA-CCATG
1 TAAACCAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTAATAATTTTATAAATCGA-G
55783203 GGTATTTTGGTAATTTTA
65 GGTATTTTGGTAATTTTA
* * * ** * * *
55783221 CAAACCAAGGGTATTTTGGTAATTATGTAAACCA-AGGGTATTTTAGTAATTTTACAAAATAG-G
1 TAAACCAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTAATAATTTTA-TAAATCGAG
*
55783284 GGTATTTTGGTAATTTTG
65 GGTATTTTGGTAATTTTA
* * ** * * * *
55783302 TAAACCAAGGGTATTTTAGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTGTAAACCAAAG
1 TAAACCAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTAATAATTTTATAAATCGAGG
*
55783366 GTATTTTTGTAATTTTA
66 GTATTTTGGTAATTTTA
* *
55783383 CAAACCAGGGGTATATTGGTAATTT
1 TAAACCAGGGGTATTTTGGTAATTT
55783408 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 40, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
80 7 0.03
81 208 0.95
82 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (82 bp):
TAAACCAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTAATAATTTTATAAATCGAGG
GTATTTTGGTAATTTTA
Found at i:55783414 original size:27 final size:27
Alignment explanation
Indices: 55783121--55783407 Score: 342
Period size: 27 Copynumber: 10.6 Consensus size: 27
55783111 TTTAGGTCGA
* * *
55783121 GGGTATTTCT-GTAATTTCATAAATCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
55783148 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
55783175 AGGTATTTTGATAATTTTACAAACCAT
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55783202 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
55783229 GGGTATTTTGGTAATTATGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
55783256 GGGTATTTTAGTAATTTTACAAAATAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
55783283 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55783310 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
55783337 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
55783364 AGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
55783391 GGGTATATTGGTAATTT
1 GGGTATTTTGGTAATTT
55783408 GGTAAACTAA
Statistics
Matches: 218, Mismatches: 41, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
26 1 0.00
27 217 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:55789293 original size:13 final size:13
Alignment explanation
Indices: 55789275--55789299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55789265 AAGTAATTGA
55789275 ACACGGGCGTGTT
1 ACACGGGCGTGTT
55789288 ACACGGGCGTGT
1 ACACGGGCGTGT
55789300 CTCTACTGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:55802811 original size:27 final size:27
Alignment explanation
Indices: 55802781--55802833 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
55802771 GAAGTAAACC
55802781 CAATGTAATCATAAATACAT-AATTCAA
1 CAAT-TAATCATAAATACATGAATTCAA
* * *
55802808 CAATTGATTATAAGTACATGAATTCA
1 CAATTAATCATAAATACATGAATTCA
55802834 CATCAACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (27 bp):
CAATTAATCATAAATACATGAATTCAA
Found at i:55804829 original size:50 final size:50
Alignment explanation
Indices: 55804759--55804995 Score: 242
Period size: 50 Copynumber: 4.7 Consensus size: 50
55804749 TAAAATGGTT
* * * *
55804759 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACATGTACTAGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * *
55804809 TTAGGTTGCATGTGTCGTACTAAGTGCAGGCTACTA-AGTGTACCCGATAG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACA-TGTACCAGATTG
* * * * * * * * *
55804859 CTTCGGTCACGTGTATAGGACTAAGTGCAGGCTACTACGTGTATCTGATGG
1 -TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* *** *
55804910 TCAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
*
55804960 TTAGCTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
55804996 TGCGTATCGA
Statistics
Matches: 152, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 1 0.01
50 113 0.74
51 38 0.25
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
Found at i:55804894 original size:101 final size:99
Alignment explanation
Indices: 55804759--55804995 Score: 289
Period size: 101 Copynumber: 2.4 Consensus size: 99
55804749 TAAAATGGTT
* * *
55804759 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACATGTA-CTAGATTGTTAGGTTGCA-TGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCT-GATGGTCAGG-T-CAGTGT
* *
55804822 GTCGTACTAAGTGCAGGCTACTAAGTGTACCCGATAG
63 GTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAG
* * * *
55804859 CTTCGGTCACGTGTATAGGACTAAGTGCAGGCTACTACGTGTATCTGATGGTCAGGTCATGTGTG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCTGATGGTCAGGTCA-GTGTG
* *
55804924 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
64 TAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAG
* * *
55804960 TTAGCTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
55804996 TGCGTATCGA
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
99 2 0.02
100 31 0.27
101 81 0.70
102 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (99 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCTGATGGTCAGGTCAGTGTGTA
GTACTAAGTGCAGGCTACTAAGTGTACCAGATAG
Found at i:55804992 original size:151 final size:143
Alignment explanation
Indices: 55804760--55805132 Score: 416
Period size: 151 Copynumber: 2.7 Consensus size: 143
55804750 AAAATGGTTT
* * * * * *
55804760 TAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACATGTACTAGATTGTTAGGTTGCATGTGTC
1 TAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTA
*
55804825 GTACTAAGTGCAGGCTACTAAGTGTACCCGATAGCTTCGGTCACGTGTATAGGACTAAGTGCAGG
66 GTACTAAGTGCAGGCTACTAAGTGTACCCG-TA---TCGATCACGTGTATAGGACTAAGTGCAGG
* *
55804890 CTACTACGTGTATCTGATGG
127 CTACTACGTGTATC-CA--A
*
55804910 TCAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGCTCGCATGTGT
1 T-AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
* *
55804975 AGTACTAAGTGCAGGCTACT-A-TG----CGTATCGATCACGTGTCTAGTACTAAGTGCAGGCTA
65 AGTACTAAGTGCAGGCTACTAAGTGTACCCGTATCGATCACGTGTATAGGACTAAGTGCAGGCTA
55805034 CTACGTGTATCCAA
130 CTACGTGTATCCAA
* * *
55805048 T-GGT--TG-G-GT--CAC-AAGTGCAGGCTGCTACGTGTACCAGATTGTTAGGTCGTATGTGTA
1 TAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTA
*
55805105 GTACTAAGTGCTA-GCTACTATGTGTACC
66 GTACTAAGTGC-AGGCTACTAAGTGTACC
55805133 ATAGAGCTTC
Statistics
Matches: 198, Mismatches: 17, Indels: 31
0.80 0.07 0.13
Matches are distributed among these distances:
129 59 0.30
130 3 0.02
131 2 0.01
132 2 0.01
133 1 0.01
134 2 0.01
136 3 0.02
138 1 0.01
140 1 0.01
141 40 0.20
144 2 0.01
145 2 0.01
149 2 0.01
150 2 0.01
151 76 0.38
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (143 bp):
TAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTA
GTACTAAGTGCAGGCTACTAAGTGTACCCGTATCGATCACGTGTATAGGACTAAGTGCAGGCTAC
TACGTGTATCCAA
Found at i:55805913 original size:16 final size:16
Alignment explanation
Indices: 55805892--55805922 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
55805882 GTAACGCCAC
55805892 AAAAATCCCGAAATCA
1 AAAAATCCCGAAATCA
55805908 AAAAATCCCGAAATC
1 AAAAATCCCGAAATC
55805923 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAAATCCCGAAATCA
Found at i:55807039 original size:24 final size:24
Alignment explanation
Indices: 55807006--55807056 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
55806996 ATGTATCGAC
*
55807006 AAAAGCTGAAATGCCGAAAAGCTG
1 AAAAGCTGAAATGCCGAAAAGCCG
*
55807030 AAAAGTTGAAATGCCGAAAAGCCG
1 AAAAGCTGAAATGCCGAAAAGCCG
55807054 AAA
1 AAA
55807057 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.12
Consensus pattern (24 bp):
AAAAGCTGAAATGCCGAAAAGCCG
Found at i:55807040 original size:16 final size:16
Alignment explanation
Indices: 55807006--55807056 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
55806996 ATGTATCGAC
*
55807006 AAAAGCTGAAATGCCG
1 AAAAGCTGAAAAGCCG
**
55807022 AAAAGCTGAAAAGTTG
1 AAAAGCTGAAAAGCCG
* *
55807038 AAATGCCGAAAAGCCG
1 AAAAGCTGAAAAGCCG
55807054 AAA
1 AAA
55807057 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.12
Consensus pattern (16 bp):
AAAAGCTGAAAAGCCG
Found at i:55807189 original size:19 final size:19
Alignment explanation
Indices: 55807165--55807218 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
55807155 ATTTGGCCAT
55807165 ATGGGCCGGAATGGGCTAA
1 ATGGGCCGGAATGGGCTAA
*
55807184 ATGGGCCGGAATAGGCTAA
1 ATGGGCCGGAATGGGCTAA
*
55807203 ATGGGCCCG-ATGGGCT
1 ATGGGCCGGAATGGGCT
55807219 GTATGGCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.24, C:0.19, G:0.41, T:0.17
Consensus pattern (19 bp):
ATGGGCCGGAATGGGCTAA
Found at i:55807371 original size:58 final size:57
Alignment explanation
Indices: 55807299--55807409 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 57
55807289 TGAATGTGAC
*
55807299 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATAGGCCA-TATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATAGGCCAGT-TACAGGTGATT
* * * *
55807357 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGTTACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATAGGCCAGTTACAGGT
55807410 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATAGGCCAGTTACAGGTGATT
Found at i:55807396 original size:28 final size:29
Alignment explanation
Indices: 55807286--55807400 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
55807276 GTGAGCATGA
* *
55807286 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
55807314 ATATAAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
55807343 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
55807372 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
55807400 A
1 A
55807401 GTTACAGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:55808899 original size:40 final size:40
Alignment explanation
Indices: 55808801--55809103 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
55808791 TCCTCGTTCA
* * * * *
55808801 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
55808840 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
55808880 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55808920 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
55808960 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
55809000 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
55809040 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
55809080 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55809104 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:55816862 original size:40 final size:40
Alignment explanation
Indices: 55816764--55817065 Score: 380
Period size: 40 Copynumber: 7.6 Consensus size: 40
55816754 TCCTCGTTCA
* * * ** *
55816764 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
55816803 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
55816843 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
55816883 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
55816923 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
55816962 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
55817002 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
55817042 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55817066 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
39 75 0.32
40 155 0.65
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:55816956 original size:119 final size:119
Alignment explanation
Indices: 55816762--55817065 Score: 389
Period size: 119 Copynumber: 2.5 Consensus size: 119
55816752 GCTCCTCGTT
* * * ** * *
55816762 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
55816827 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
66 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
55816881 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
55816946 ATTTAA-AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
65 ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * * *
55817000 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
55817063 GGA
63 GGA
55817066 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
118 3 0.02
119 125 0.77
120 34 0.21
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:55817049 original size:159 final size:159
Alignment explanation
Indices: 55816764--55817065 Score: 387
Period size: 159 Copynumber: 1.9 Consensus size: 159
55816754 TCCTCGTTCA
* * *
55816764 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGAAACTCACACAATGCCTTCGGGACATAACCCGGATT
* * * * *
55816829 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGG
66 TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAACAACTAGCACGAAAGCCTTCGG
55816894 GACTTAACCCGGATTTAACAACTCGCACG
131 GACTTAACCCGGATTTAACAACTCGCACG
* * *
55816923 AATGCCTTCGGGACTTAACCCGGATTTA-AAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAGAAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
** * * *
55816987 TTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-AAAGCCT
65 TTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATA-ACAAC-TAGCACGAAAGCCT
*
55817049 TCGGGACTTAGCCCGGA
127 TCGGGACTTAACCCGGA
55817066 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
158 11 0.09
159 105 0.86
160 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (159 bp):
AATGCCTTCGGGACATAACCCGGATTTAGAAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAACAACTAGCACGAAAGCCTTCGG
GACTTAACCCGGATTTAACAACTCGCACG
Found at i:55822514 original size:40 final size:40
Alignment explanation
Indices: 55822470--55822814 Score: 530
Period size: 40 Copynumber: 8.6 Consensus size: 40
55822460 CAAGCTCAAT
* * * * * * *
55822470 TGCCTTCGAGACTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* *
55822510 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTATCCCGGATATATCAA-TTCGCACAAA
*
55822550 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
** * * *
55822590 CACCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
55822630 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
55822670 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
55822710 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
55822750 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
55822790 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTATCCCGGATAT
55822815 CATTCAAATG
Statistics
Matches: 284, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 281 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
Found at i:55838380 original size:21 final size:21
Alignment explanation
Indices: 55838351--55838390 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55838341 GTTTTTATAT
*
55838351 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
55838372 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
55838391 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:55838837 original size:21 final size:21
Alignment explanation
Indices: 55838808--55838847 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55838798 GTTTTTATAT
* *
55838808 TTTGGTTCAGCTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
55838829 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
55838848 GAATTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:55839296 original size:21 final size:21
Alignment explanation
Indices: 55839267--55839306 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55839257 GTTTTTATAT
* *
55839267 TTTGGTTCAGCTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
55839288 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
55839307 GAATTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:55839331 original size:459 final size:460
Alignment explanation
Indices: 55837972--55840122 Score: 4116
Period size: 459 Copynumber: 4.7 Consensus size: 460
55837962 TTCTCTCCAA
*
55837972 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
55838037 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
55838102 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
55838167 CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
55838232 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
*
55838297 TTTTTCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
326 TTTTTCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAGC
55838362 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
391 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
55838427 CCATT
456 CCATT
*
55838432 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAC-GGTTGCCTTGTAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
55838496 CGAGCTGCAAGATATAATGGATCCT-CCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
*
55838559 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTAAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
* *
55838624 CTTTACTTATGAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTCGT
196 CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
55838689 TATATTAAACATGTTTGATTTTAATATTTATTA-TTTTAAATGTCTTTAAAATTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAA-T
*
55838753 TTTTTTCAAAATAGTATTATTAATTATTGTTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAG
325 TTTTTTCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAG
55838818 CTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTG
390 CTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTG
55838883 TCCATT
455 TCCATT
* *
55838889 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCGGGAAACCTGACGGGTTGCCTTGTAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
55838954 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
55839019 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
* *
55839084 GTTTACTGATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
55839149 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAA-T
261 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
55839213 TTTTTCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAGC
326 TTTTTCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAGC
55839278 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
391 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
55839343 CCATT
456 CCATT
*
55839348 CTTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
*
55839413 CGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
*
55839478 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTGTTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
55839543 CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
55839608 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAA-T
55839673 TTTTTTCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAG
325 TTTTTTCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAG
55839738 CTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTG
390 CTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTG
55839803 TCCATT
455 TCCATT
55839809 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
55839874 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
55839938 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
55840003 CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
55840068 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTT
261 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTT
55840123 TGTTATATTA
Statistics
Matches: 1660, Mismatches: 24, Indels: 14
0.98 0.01 0.01
Matches are distributed among these distances:
456 29 0.02
457 349 0.21
458 72 0.04
459 522 0.31
460 400 0.24
461 288 0.17
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (460 bp):
CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
CTTTACTTATAAAAAGTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
TTTTTCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAGC
TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
CCATT
Found at i:55839757 original size:21 final size:21
Alignment explanation
Indices: 55839728--55839767 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55839718 GTTTTTATAT
* *
55839728 TTTGGTTCAGCTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
55839749 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
55839768 GAATTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:55845954 original size:21 final size:21
Alignment explanation
Indices: 55845924--55845968 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
55845914 ACTTAGAGCA
*
55845924 GAGGCGGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
55845945 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
55845966 GAG
1 GAG
55845969 CAGAACAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.60, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCG
Found at i:55846339 original size:43 final size:43
Alignment explanation
Indices: 55846266--55846425 Score: 196
Period size: 43 Copynumber: 3.7 Consensus size: 43
55846256 CTGGGCAAAT
* * *
55846266 TAGCGGCGTTTTTTTAAAAAAGTGCTGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * *
55846310 TAGCAGTGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
*
55846353 TAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* *
55846397 TAGTGGCATTTTTTATAAAAGCGCCGCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTA
55846426 TAGACCAAGA
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 6 0.06
43 49 0.50
44 37 0.38
45 6 0.06
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:55846384 original size:87 final size:87
Alignment explanation
Indices: 55846266--55846425 Score: 257
Period size: 87 Copynumber: 1.8 Consensus size: 87
55846256 CTGGGCAAAT
* * **
55846266 TAGCGGCGTTTTTTTAAAAAAGTGCTGCTAAAAGTACAGGTCTATAGCAGTGTTTTTTATAAAAG
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCAGCATTTTTTATAAAAG
55846331 CGCCGCTAAAGTTCTTGGTCTA
66 CGCCGCTAAAGTTCTTGGTCTA
* **
55846353 TAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGTGGCATTTTTTATAAAAG
1 TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCAGCATTTTTTATAAAAG
55846418 CGCCGCTA
66 CGCCGCTA
55846426 TAGACCAAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (87 bp):
TAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCAGCATTTTTTATAAAAG
CGCCGCTAAAGTTCTTGGTCTA
Found at i:55846444 original size:87 final size:87
Alignment explanation
Indices: 55846265--55846469 Score: 248
Period size: 87 Copynumber: 2.4 Consensus size: 87
55846255 ACTGGGCAAA
* * **
55846265 TTAGCGGCGTTTTTTTAAAAAAGTGCTGCTAAAAGTACAGGTCTATAGCAGTGTTTTTTATAAAA
1 TTAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCAGCATTTTTTATAAAA
** ** **
55846330 GCGCCGCTAAAGTTCTTGGTCT
66 GCGCCGCTAAAGACCAAGAACT
* * **
55846352 ATAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGTGGCATTTTTTATAAAA
1 TTAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCAGCATTTTTTATAAAA
*
55846417 GCGCCGCTATAGACCAAGAACT
66 GCGCCGCTAAAGACCAAGAACT
* * *
55846439 TTAGCGGCGCTTTTGTAAAAAACCGCCGCTA
1 TTAGCGGCGTTTTTTTAAAAAAGCGCCGCTA
55846470 TAGACCAAGA
Statistics
Matches: 98, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
87 98 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (87 bp):
TTAGCGGCGTTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCAGCATTTTTTATAAAA
GCGCCGCTAAAGACCAAGAACT
Found at i:55846473 original size:44 final size:43
Alignment explanation
Indices: 55846407--55846512 Score: 160
Period size: 44 Copynumber: 2.5 Consensus size: 43
55846397 TAGTGGCATT
* *
55846407 TTTTAT-AAAAGCGCCGCTATAGACCAAGAACTTTAGCGGCGC
1 TTTTATAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCAC
*
55846449 TTTTGTAAAAAACCGCCGCTATAGACCAAGAACTTTAGCGGCAC
1 TTTTATAAAAAA-CGCCGCTATAGACCAAGAACTTTAGCGGCAC
*
55846493 TTTTATAAAAAATGCCGCTA
1 TTTTATAAAAAACGCCGCTA
55846513 AAGGTCCTGG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
42 5 0.09
43 11 0.19
44 41 0.72
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (43 bp):
TTTTATAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCAC
Found at i:55849196 original size:46 final size:46
Alignment explanation
Indices: 55849078--55849257 Score: 227
Period size: 46 Copynumber: 3.9 Consensus size: 46
55849068 CAGTACTCAT
*
55849078 TTTC-TGTCAGGTTGCCATGGCATCTTTCAACCATGGTCTTATTCA
1 TTTCATGTCATGTTGCCATGGCATCTTTCAACCATGGTCTTATTCA
* * * *
55849123 TTTCCCTGTCATATTTCCATGGCATCTTTCAACCAAGGTCTTATTCA
1 TTT-CATGTCATGTTGCCATGGCATCTTTCAACCATGGTCTTATTCA
* * * **
55849170 TTTTATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TTTCATGTCATGTTGCCATGGCATCTTTCAACCATGGTCTTATTCA
* * *
55849216 TTTCATATCATGTGGCCATGGTATCTTTCAACCATGGTCTTA
1 TTTCATGTCATGTTGCCATGGCATCTTTCAACCATGGTCTTA
55849258 CACATTTGAA
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
45 3 0.03
46 73 0.63
47 40 0.34
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TTTCATGTCATGTTGCCATGGCATCTTTCAACCATGGTCTTATTCA
Found at i:55849298 original size:45 final size:45
Alignment explanation
Indices: 55849183--55849352 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 45
55849173 TATGTCACGT
* * * *
55849183 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG-
1 TGCCATAGTGTCTTTCAACCATGGTCTTACACATTTGA-ATCGTGA
* *
55849228 TGGCCATGGTATCTTTCAACCATGGTCTTACACATTTGAATCGTGA
1 T-GCCATAGTGTCTTTCAACCATGGTCTTACACATTTGAATCGTGA
* * * * * *
55849274 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTACACATTTGAATCGTGA
* *
55849319 TGCCATAGTGTCTTTCAGCTATGGTCTTACACAT
1 TGCCATAGTGTCTTTCAACCATGGTCTTACACAT
55849353 ATATTTCCAT
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 73 0.66
46 37 0.34
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTACACATTTGAATCGTGA
Found at i:55855595 original size:75 final size:75
Alignment explanation
Indices: 55855510--55855662 Score: 306
Period size: 75 Copynumber: 2.0 Consensus size: 75
55855500 TGTAGCTTAA
55855510 TCTTAAATACGGGAATAAAATCAAATTGGTAGGGATTTAACATGTCTTTATCGAGTAAGCGTTTC
1 TCTTAAATACGGGAATAAAATCAAATTGGTAGGGATTTAACATGTCTTTATCGAGTAAGCGTTTC
55855575 GTCTATTTTT
66 GTCTATTTTT
55855585 TCTTAAATACGGGAATAAAATCAAATTGGTAGGGATTTAACATGTCTTTATCGAGTAAGCGTTTC
1 TCTTAAATACGGGAATAAAATCAAATTGGTAGGGATTTAACATGTCTTTATCGAGTAAGCGTTTC
55855650 GTCTATTTTT
66 GTCTATTTTT
55855660 TCT
1 TCT
55855663 ATCATAATTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (75 bp):
TCTTAAATACGGGAATAAAATCAAATTGGTAGGGATTTAACATGTCTTTATCGAGTAAGCGTTTC
GTCTATTTTT
Found at i:55859627 original size:21 final size:20
Alignment explanation
Indices: 55859603--55859652 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
55859593 CTAAGATGTG
55859603 AATTTGACTAAATTGA-GTTTA
1 AATTT-ACTAAATTGATG-TTA
*
55859624 AATTATATTAAATTGATGTTA
1 AATT-TACTAAATTGATGTTA
55859645 AATTTACT
1 AATTTACT
55859653 TGTTTAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.12
21 20 0.80
22 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (20 bp):
AATTTACTAAATTGATGTTA
Found at i:55867702 original size:13 final size:13
Alignment explanation
Indices: 55867684--55867708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55867674 CCCCAAATTT
55867684 CATTGCCTGGGAG
1 CATTGCCTGGGAG
55867697 CATTGCCTGGGA
1 CATTGCCTGGGA
55867709 CAGAGCATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (13 bp):
CATTGCCTGGGAG
Found at i:55869458 original size:40 final size:40
Alignment explanation
Indices: 55869403--55869624 Score: 344
Period size: 40 Copynumber: 5.6 Consensus size: 40
55869393 GATGATAACG
*
55869403 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
*
55869443 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
*
55869483 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
55869523 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTAAT-TCC
**
55869563 GGGCTAAGTCCCGAAGGCA-TTGTGCTAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCC
55869602 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
55869625 AGCGAGTAGC
Statistics
Matches: 173, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
39 37 0.21
40 136 0.79
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
Found at i:55869536 original size:80 final size:80
Alignment explanation
Indices: 55869403--55869657 Score: 376
Period size: 80 Copynumber: 3.2 Consensus size: 80
55869393 GATGATAACG
*
55869403 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
55869468 CGAGTTACTA-ATTCC
66 CGAGTTACTATA-TCC
*
55869483 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
*
55869548 TGAGTTACTATATCC
66 CGAGTTACTATATCC
** *
55869563 GGGCTAAGTCCCGAAGGCA-TTGTGCTAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
55869626 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
55869642 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
55869658 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
78 18 0.11
79 49 0.30
80 94 0.58
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:55872318 original size:27 final size:26
Alignment explanation
Indices: 55872270--55872329 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
55872260 GCGAAGCTGC
*
55872270 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
55872297 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
55872323 CAGATAT
1 CAGATAT
55872330 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:55875399 original size:40 final size:40
Alignment explanation
Indices: 55875334--55875419 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
55875324 CAGGCTAAGC
* * *
55875334 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGG
1 CATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCAAAGG
* *
55875374 CATTTGTGCGAGTTAC-AATAACCGGGCTATGTCCCGAAGG
1 CATTTGTGCGAGTTACTAA-AACCGGGCTAAGTCCCAAAGG
55875414 CATTTG
1 CATTTG
55875420 AACGAGTAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCAAAGG
Found at i:55877519 original size:39 final size:39
Alignment explanation
Indices: 55877474--55877553 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
55877464 TTTGTTGTAA
55877474 ATTACAAATTGAAAAAGGACTATGAATAAATTGTAACAT
1 ATTACAAATTGAAAAAGGACTATGAATAAATTGTAACAT
55877513 ATTACAAATTGAAAAAGGACTATGAATAAATTGTAACAT
1 ATTACAAATTGAAAAAGGACTATGAATAAATTGTAACAT
55877552 AT
1 AT
55877554 GAGATGTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (39 bp):
ATTACAAATTGAAAAAGGACTATGAATAAATTGTAACAT
Found at i:55883839 original size:39 final size:40
Alignment explanation
Indices: 55883739--55883923 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
55883729 TCGAATGATG
* * *
55883739 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
55883778 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
55883819 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
55883858 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
55883897 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
55883924 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:55883945 original size:79 final size:79
Alignment explanation
Indices: 55883792--55883956 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
55883782 GGACTAAGAT
* **
55883792 CCGAAGGCATTTGTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
55883857 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * *
55883871 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
55883934 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
55883950 CCGAAGG
1 CCGAAGG
55883957 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:55886314 original size:49 final size:49
Alignment explanation
Indices: 55886089--55886326 Score: 269
Period size: 49 Copynumber: 4.8 Consensus size: 49
55886079 TGAGGTCATG
* * *
55886089 TGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACA
* * * * * *
55886138 CGTGTAGTACTAAGTGCAAGCTACTATGTATACCTGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA--TTGGTCACA
* * * ** *
55886189 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGTCACA
* * *
55886239 TGTGTAGTACTAAGTGCTGGCTACTATGTCTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACA
* *
55886288 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
55886327 GCTTTGGCTA
Statistics
Matches: 154, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 76 0.49
50 40 0.26
51 38 0.25
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACA
Found at i:55888344 original size:22 final size:26
Alignment explanation
Indices: 55888314--55888362 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 26
55888304 TACATGTGTA
55888314 TATTCTTTATATA-GT-AT-TATTAT
1 TATTCTTTATATATGTCATATATTAT
55888337 TATT-TTTATATATGTCATATATTAT
1 TATTCTTTATATATGTCATATATTAT
55888362 T
1 T
55888363 GTACTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 6 0.26
24 2 0.09
25 7 0.30
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TATTCTTTATATATGTCATATATTAT
Found at i:55894703 original size:43 final size:43
Alignment explanation
Indices: 55894599--55894695 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
55894589 TGTGATTTCG
* * * *
55894599 TGTAAGACCATGTCTGGGACACTGGCATCAATGTGAGATTACA
1 TGTAAGACCATGTCTGGGACACAGGAATCAATATGAGATAACA
* * *
55894642 TGTAAGACCCTGTCTGGGACAGAGGAATCAATATGTGATAACA
1 TGTAAGACCATGTCTGGGACACAGGAATCAATATGAGATAACA
55894685 TGTAAGACCAT
1 TGTAAGACCAT
55894696 ATATGGGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGAATCAATATGAGATAACA
Found at i:55895510 original size:31 final size:31
Alignment explanation
Indices: 55895475--55895582 Score: 162
Period size: 31 Copynumber: 3.5 Consensus size: 31
55895465 CAGCATATAA
*
55895475 TGGGCCGAAGCCTTTGCATTATTCATATCAC
1 TGGGCCGAAGCCTTTTCATTATTCATATCAC
* *
55895506 TGGGCCGAAGACTTTTCATTATTCATATCTC
1 TGGGCCGAAGCCTTTTCATTATTCATATCAC
*
55895537 TGGGCCGAAGTCTTTTCATTATTCATATCAC
1 TGGGCCGAAGCCTTTTCATTATTCATATCAC
* *
55895568 TGGGTCAAAGCCTTT
1 TGGGCCGAAGCCTTT
55895583 ACTGTAACAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATTATTCATATCAC
Found at i:55895832 original size:50 final size:49
Alignment explanation
Indices: 55895789--55895895 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 49
55895779 CTGGAGGCCT
* *
55895789 AGCCTCTTTT-AAT-AACTGGGGTAAAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTAGGGCAAAGCCCTTTTCGGT-AACTGGGGCAA
**
55895838 AGCCCTTTTCGGTAAACTAGGGCAAAGCCCTTTTCGGTAACTGGGGCAA
1 AGCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTCGGTAACTGGGGCAA
55895887 AGCCCTTTT
1 AGCCCTTTT
55895896 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
48 5 0.10
49 25 0.48
50 22 0.42
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (49 bp):
AGCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTCGGTAACTGGGGCAA
Found at i:55895884 original size:24 final size:25
Alignment explanation
Indices: 55895802--55895895 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
55895792 CTCTTTTAAT
*
55895802 AACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
55895827 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
55895852 AACTAGGGCAAAGCCCTTTTCGGT-
1 AACTGGGGCAAAGCCCTTTTCGGTA
55895876 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55895896 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
24 19 0.29
25 47 0.71
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:55895973 original size:11 final size:11
Alignment explanation
Indices: 55895942--55895979 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
55895932 AAATGAATAC
55895942 ATCATGTGCAT
1 ATCATGTGCAT
*
55895953 ATCA--TACAT
1 ATCATGTGCAT
55895962 ATCATGTGCAT
1 ATCATGTGCAT
55895973 ATCATGT
1 ATCATGT
55895980 CAATTCATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:55896054 original size:25 final size:25
Alignment explanation
Indices: 55896026--55896073 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55896016 ATAATTAAAC
* **
55896026 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
55896051 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
55896074 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:55899174 original size:46 final size:45
Alignment explanation
Indices: 55899124--55899296 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
55899114 TGGTTGAGCA
*
55899124 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
55899170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAC--ATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATG-GA-T-GCGAAG
*
55899217 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
55899263 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55899297 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 9, Indels: 22
0.78 0.07 0.16
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 62 0.58
47 32 0.30
48 1 0.01
49 5 0.05
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:55899280 original size:93 final size:93
Alignment explanation
Indices: 55899121--55899291 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55899111 GGATGGTTGA
* * *
55899121 GCATCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55899186 TGAGTCCGAGTTCGTGACATGTAACTAG
66 TGAGTCCGAGTTCGTGACATGTAACTAG
* *
55899214 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55899279 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55899292 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGACATGTAACTAG
Found at i:55907686 original size:47 final size:47
Alignment explanation
Indices: 55907634--55908106 Score: 462
Period size: 47 Copynumber: 9.6 Consensus size: 47
55907624 GATAATTGTG
*
55907634 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
55907681 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
55907728 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
55907777 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
55907824 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** * * * *
55907871 ATGTGAAAGTGTATATATATGTGATAAAGTGTATATATATG-TGATAAGGCCTAATGGCCG
1 ATGTGAAA--GTATATATATGTGAT-AAG-GCCTA-AT-GGCCGAT---G--TGAT-G--A
*
55907931 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGA--AA-GT---A---TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
55907987 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
55908034 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
55908081 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTATATATATGTGATAAG
55908107 TCCCGAAGGG
Statistics
Matches: 360, Mismatches: 41, Indels: 50
0.80 0.09 0.11
Matches are distributed among these distances:
47 236 0.66
49 58 0.16
50 3 0.01
51 2 0.01
52 4 0.01
53 3 0.01
54 2 0.01
55 1 0.00
56 6 0.02
57 3 0.01
58 2 0.01
59 3 0.01
60 6 0.02
61 4 0.01
62 2 0.01
63 1 0.00
64 6 0.02
65 3 0.01
66 3 0.01
67 12 0.03
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:55907741 original size:96 final size:96
Alignment explanation
Indices: 55907634--55907897 Score: 437
Period size: 96 Copynumber: 2.8 Consensus size: 96
55907624 GATAATTGTG
55907634 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
55907697 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATAGCCAATGTGATGA
55907728 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
55907793 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATAGCCAATGTGATGA
* *
55907824 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
55907887 ATATGTGATAA
64 ATATGTGATAA
55907898 AGTGTATATA
Statistics
Matches: 161, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
94 50 0.31
95 2 0.01
96 109 0.68
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATAGCCAATGTGATGA
Found at i:55907894 original size:18 final size:18
Alignment explanation
Indices: 55907871--55907914 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 18
55907861 AATGTGATGA
55907871 ATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATAT
55907889 ATGTGATAAAGTGTATATAT
1 ATGTG--AAAGTGTATATAT
55907909 ATGTGA
1 ATGTGA
55907915 TAAGGCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
20 18 0.75
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (18 bp):
ATGTGAAAGTGTATATAT
Found at i:55907901 original size:20 final size:20
Alignment explanation
Indices: 55907876--55907917 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
55907866 GATGAATGTG
55907876 AAAGTGTATATATATGTGAT
1 AAAGTGTATATATATGTGAT
55907896 AAAGTGTATATATATGTGAT
1 AAAGTGTATATATATGTGAT
55907916 AA
1 AA
55907918 GGCCTAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (20 bp):
AAAGTGTATATATATGTGAT
Found at i:55907909 original size:69 final size:67
Alignment explanation
Indices: 55907835--55907964 Score: 224
Period size: 69 Copynumber: 1.9 Consensus size: 67
55907825 TGTGAAAGTG
55907835 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAAG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAAG
55907900 TGTA
64 TGTA
* *
55907904 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
55907965 GGCCTAATAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 14 0.24
69 45 0.76
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (67 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAAGTG
TA
Found at i:55907917 original size:163 final size:163
Alignment explanation
Indices: 55907733--55908051 Score: 611
Period size: 163 Copynumber: 2.0 Consensus size: 163
55907723 GATGAATGTG
55907733 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
55907798 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
66 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
55907863 TGTGATGAATGTGAAAGTGTATATATATGTGAT
131 TGTGATGAATGTGAAAGTGTATATATATGTGAT
55907896 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
* * *
55907961 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGA
66 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
55908026 TGTGATGAATGTGAAAGTGTATATAT
131 TGTGATGAATGTGAAAGTGTATATAT
55908052 GTGACAGGGC
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 153 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (163 bp):
AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
TGTGATGAATGTGAAAGTGTATATATATGTGAT
Found at i:55907918 original size:116 final size:116
Alignment explanation
Indices: 55907788--55908004 Score: 398
Period size: 116 Copynumber: 1.9 Consensus size: 116
55907778 TGTGAAAGTG
55907788 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
55907853 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAAGTGTA
66 GAATAGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAAGTGTA
*
55907904 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
55907969 TAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
66 GAATAGCCAATGTGATGAATGTGAAAGTGTATATAT
55908005 GTGATGAGGC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (116 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
GAATAGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAAGTGTA
Found at i:55911462 original size:46 final size:45
Alignment explanation
Indices: 55911412--55911584 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
55911402 TGGTTGAGCA
* * *
55911412 TCCGAAGTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAA-G
*
55911458 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAC--ATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATG-AA-T-GCGAAG
*
55911505 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAA-G
* *
55911551 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55911585 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 1 0.01
46 62 0.57
47 32 0.30
48 1 0.01
49 5 0.05
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAAG
Found at i:55911568 original size:93 final size:93
Alignment explanation
Indices: 55911409--55911579 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
55911399 GGATGGTTGA
* * * *
55911409 GCATCCGAAGTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAACTCGTTGAGT
55911474 TGAGTCCGAGTTCGTGACATGTAACTAG
66 TGAGTCCGAGTTCGTGACATGTAACTAG
* *
55911502 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAACTCGTTGAGT
55911567 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55911580 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGACATGTAACTAG
Found at i:55913086 original size:1 final size:1
Alignment explanation
Indices: 55913032--55913067 Score: 63
Period size: 1 Copynumber: 36.0 Consensus size: 1
55913022 TCTCCATGAA
*
55913032 TTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
55913068 AAATTTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:55927183 original size:36 final size:36
Alignment explanation
Indices: 55927131--55927204 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
55927121 GTATGTGATA
55927131 GTTTAAAGTTTAGTAGCTTAGCATAATGCTTGGTAT
1 GTTTAAAGTTTAGTAGCTTAGCATAATGCTTGGTAT
* *
55927167 GTTTAAAGTTTGGTAGCTTCGCATAATGCTTGGTAT
1 GTTTAAAGTTTAGTAGCTTAGCATAATGCTTGGTAT
55927203 GT
1 GT
55927205 GCTTAGCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.42
Consensus pattern (36 bp):
GTTTAAAGTTTAGTAGCTTAGCATAATGCTTGGTAT
Found at i:55947456 original size:39 final size:40
Alignment explanation
Indices: 55947358--55947518 Score: 172
Period size: 40 Copynumber: 4.0 Consensus size: 40
55947348 AATGATGTCT
* *
55947358 GGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCC
*
55947398 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-TCC
*
55947438 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCC
* **
55947477 GGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATATCC
55947517 GG
1 GG
55947519 TTAAATTCCG
Statistics
Matches: 105, Mismatches: 8, Indels: 16
0.81 0.06 0.12
Matches are distributed among these distances:
39 37 0.35
40 57 0.54
41 10 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCC
Found at i:55947518 original size:79 final size:80
Alignment explanation
Indices: 55947358--55947505 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 80
55947348 AATGATGTCT
**
55947358 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGAA
55947423 CGAGATACTAATTCC
66 CGAGATACTAATTCC
* * * * *
55947438 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTATG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTG
55947500 AACGAG
64 AACGAG
55947506 TAGCTATATC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.02
79 43 0.73
80 15 0.25
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGAA
CGAGATACTAATTCC
Found at i:55947793 original size:47 final size:47
Alignment explanation
Indices: 55947724--55947891 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
55947714 AAGGGTTGGT
55947724 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
55947771 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
55947818 AATGTGAAAGTGTATATATGTAACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
55947865 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
55947892 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:55954213 original size:49 final size:49
Alignment explanation
Indices: 55954136--55954237 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
55954126 GACATTCTAG
* * * * *
55954136 AATGGATAAATAGTGATAAGAGTGTAGACAGTGGAAAACTAAGTTTAGC
1 AATGGATAAATAGTGATAAAAGTGTAGACACTAGAAAACCAAGTTTAGA
* * *
55954185 AATGTATAAATAGTGATAAAATTGTAGACACTAGAAGACCAAGTTTAGA
1 AATGGATAAATAGTGATAAAAGTGTAGACACTAGAAAACCAAGTTTAGA
55954234 AATG
1 AATG
55954238 CATAGCATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (49 bp):
AATGGATAAATAGTGATAAAAGTGTAGACACTAGAAAACCAAGTTTAGA
Found at i:55954577 original size:29 final size:29
Alignment explanation
Indices: 55954544--55954600 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
55954534 CTCATGCCTC
55954544 CGAATGGTGTCTTGCACACTCACCAAATT
1 CGAATGGTGTCTTGCACACTCACCAAATT
55954573 CGAATGGTGTCTTGCACACTCACCAAAT
1 CGAATGGTGTCTTGCACACTCACCAAAT
55954601 AGGTTAGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (29 bp):
CGAATGGTGTCTTGCACACTCACCAAATT
Found at i:55955761 original size:15 final size:16
Alignment explanation
Indices: 55955741--55955771 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
55955731 ATATTAGGAG
55955741 CAAAAGTAT-AATTTT
1 CAAAAGTATGAATTTT
55955756 CAAAAGTATGAATTTT
1 CAAAAGTATGAATTTT
55955772 GTATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (16 bp):
CAAAAGTATGAATTTT
Found at i:55961074 original size:40 final size:40
Alignment explanation
Indices: 55960966--55961168 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
55960956 CGGATGATAA
* * *
55960966 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* * *
55961006 CCGGGCTAAG-CCTGAAGGAAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGG-CATTCGTGCGAGTTACTATAT
55961045 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
55961085 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* **
55961125 CCGGGCTATGTCCCGAAGGCATTCAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
55961165 CCGG
1 CCGG
55961169 TTGAATTCCG
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 33 0.23
40 110 0.77
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:55964620 original size:19 final size:19
Alignment explanation
Indices: 55964598--55964643 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
55964588 TGTATCAATA
*
55964598 GCCAACATAACAATCATAT
1 GCCAACATAACAATCATAG
* * *
55964617 GCCATCATAACCATTATAG
1 GCCAACATAACAATCATAG
55964636 GCCAACAT
1 GCCAACAT
55964644 TCGATGGCCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.28, G:0.09, T:0.22
Consensus pattern (19 bp):
GCCAACATAACAATCATAG
Found at i:55965288 original size:41 final size:41
Alignment explanation
Indices: 55965243--55965334 Score: 107
Period size: 41 Copynumber: 2.2 Consensus size: 41
55965233 GCCTATCTAT
* *
55965243 GTCTTACGCGAAATCTCAT-ATCAATG-CATATCCCAGATATG
1 GTCTTACAC-AAATCTCATAAT-AATGCCATATCCCAAATATG
* * *
55965284 GTCTTACACAAGTCTTATAATGATGCCATATCCCAAATATG
1 GTCTTACACAAATCTCATAATAATGCCATATCCCAAATATG
55965325 GTCTTACACA
1 GTCTTACACA
55965335 TAGTTCCGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
40 10 0.23
41 34 0.77
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (41 bp):
GTCTTACACAAATCTCATAATAATGCCATATCCCAAATATG
Done.