Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 168 of 352
Found at i:55065230 original size:43 final size:44
Alignment explanation
Indices: 55065163--55065249 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
55065153 GGAGACGAGA
* *
55065163 TCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGG
* *
55065207 TCTGTAAATTT-AACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGG
55065250 CTTGGTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 29 0.74
44 10 0.26
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (44 bp):
TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGG
Found at i:55078145 original size:19 final size:21
Alignment explanation
Indices: 55078107--55078149 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
55078097 AATATTAATT
55078107 TAAAAAATGTCTAAATAATAA
1 TAAAAAATGTCTAAATAATAA
*
55078128 TAAAATATG-CTAAA-AATAA
1 TAAAAAATGTCTAAATAATAA
55078147 TAA
1 TAA
55078150 TACAAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
TAAAAAATGTCTAAATAATAA
Found at i:55078802 original size:9 final size:9
Alignment explanation
Indices: 55078790--55078814 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
55078780 TTTCTTCTTT
55078790 TTTTTTATA
1 TTTTTTATA
55078799 TTTTTTATA
1 TTTTTTATA
55078808 TTTTTTA
1 TTTTTTA
55078815 GTGAGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTATA
Found at i:55080272 original size:20 final size:20
Alignment explanation
Indices: 55080247--55080289 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
55080237 TCTACAAAAA
55080247 AAAAGGTATTTTAAAATTAC
1 AAAAGGTATTTTAAAATTAC
55080267 AAAAGGTATTTTAAAATTAC
1 AAAAGGTATTTTAAAATTAC
55080287 AAA
1 AAA
55080290 CTCTCACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (20 bp):
AAAAGGTATTTTAAAATTAC
Found at i:55081254 original size:32 final size:32
Alignment explanation
Indices: 55081217--55081281 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
55081207 GTTTTAGAGT
55081217 TTCTTACTTGACTACGAGATTCTACAACATTG
1 TTCTTACTTGACTACGAGATTCTACAACATTG
** *
55081249 TTCTTACTTGACTGTGAGATTCTACGACATTG
1 TTCTTACTTGACTACGAGATTCTACAACATTG
55081281 T
1 T
55081282 CTTGATCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (32 bp):
TTCTTACTTGACTACGAGATTCTACAACATTG
Found at i:55082394 original size:20 final size:21
Alignment explanation
Indices: 55082364--55082402 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
55082354 GACTACCCTG
*
55082364 GTGGCCACATGGGCGTGTGTC
1 GTGGCCACATGGCCGTGTGTC
55082385 GTGG-CACATGGCCGTGTG
1 GTGGCCACATGGCCGTGTG
55082403 GATTTGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.23, G:0.44, T:0.23
Consensus pattern (21 bp):
GTGGCCACATGGCCGTGTGTC
Found at i:55083430 original size:92 final size:93
Alignment explanation
Indices: 55083262--55083443 Score: 276
Period size: 92 Copynumber: 2.0 Consensus size: 93
55083252 GATGACATCA
* * * * *
55083262 TATCGGTATAGCAGATTACTGCATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATT
1 TATCGGTATAGCAAATTACCGCATTGCACCGTACCGCATGTACGTTAGCTACGCTACGTACCACT
*
55083327 AACTGAACTGGCAGTT-TTACTGCAACC
66 AACTGAACTGGCAGTTCGTACTGCAACC
*
55083354 TATCGGTATAGCAAATTACCGCATTGCACCGTACCGCATGTACGTTAGCTACGCTACGTACTACT
1 TATCGGTATAGCAAATTACCGCATTGCACCGTACCGCATGTACGTTAGCTACGCTACGTACCACT
* *
55083419 AGCTGATCTGGCAGTTCGTACTGCA
66 AACTGAACTGGCAGTTCGTACTGCA
55083444 TGTCTGTACT
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 73 0.91
93 7 0.09
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (93 bp):
TATCGGTATAGCAAATTACCGCATTGCACCGTACCGCATGTACGTTAGCTACGCTACGTACCACT
AACTGAACTGGCAGTTCGTACTGCAACC
Found at i:55083877 original size:18 final size:18
Alignment explanation
Indices: 55083835--55083879 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
55083825 TGAGAATTAC
*
55083835 TGATACCGTGACTGAATG
1 TGATACTGTGACTGAATG
*
55083853 TGATACTGTGACTGGATG
1 TGATACTGTGACTGAATG
*
55083871 TGTTACTGT
1 TGATACTGT
55083880 TTGACTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (18 bp):
TGATACTGTGACTGAATG
Found at i:55086979 original size:31 final size:31
Alignment explanation
Indices: 55086925--55086984 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
55086915 GAGTTATTTG
*
55086925 AATTTAAGTTATTCTGATCAACTCGAATAAA
1 AATTTAAGTTATTCTGATCAACTCAAATAAA
* *
55086956 AATTTAAGTTTTTC-GATTTAACTCAAATA
1 AATTTAAGTTATTCTGA-TCAACTCAAATA
55086985 TGAATTACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (31 bp):
AATTTAAGTTATTCTGATCAACTCAAATAAA
Found at i:55089640 original size:48 final size:48
Alignment explanation
Indices: 55089588--55089799 Score: 175
Period size: 48 Copynumber: 4.4 Consensus size: 48
55089578 TCATGGCTTG
* *
55089588 AAGCCAAATCAATGAAGTTCGCATACAAAGTGTCGATATCATGGCCCA
1 AAGCCAAATCAATGAAGCTCGCATCCAAAGTGTCGATATCATGGCCCA
* * *
55089636 AAGCCAAATCAATGTAA-CTCGCA-CTCGAAGTGTCGATATAATGACCCA
1 AAGCCAAATCAATG-AAGCTCGCATC-CAAAGTGTCGATATCATGGCCCA
* * * * ***
55089684 AAGCTAAATAAATGTAA-CTTGCA-CCAGAAGTGCCGATATCATGGCATG
1 AAGCCAAATCAATG-AAGCTCGCATCCA-AAGTGTCGATATCATGGCCCA
* * * * *
55089732 AAGCCAAACCAAT-ATAGCTCGCACCCGAAGTG-CTGATATTATGGCCCG
1 AAGCCAAATCAATGA-AGCTCGCATCCAAAGTGTC-GATATCATGGCCCA
55089780 AAGCCAAATCAATGAAGCTC
1 AAGCCAAATCAATGAAGCTC
55089800 TTAATGACAT
Statistics
Matches: 132, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 123 0.93
49 5 0.04
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (48 bp):
AAGCCAAATCAATGAAGCTCGCATCCAAAGTGTCGATATCATGGCCCA
Found at i:55092422 original size:20 final size:20
Alignment explanation
Indices: 55092389--55092426 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55092379 AATAATTGTG
*
55092389 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
55092409 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
55092427 GGTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:55095708 original size:131 final size:132
Alignment explanation
Indices: 55095494--55095739 Score: 413
Period size: 131 Copynumber: 1.9 Consensus size: 132
55095484 GCAAGAATAA
* * *
55095494 ACGGATAAGGGTTTTGCAAGACCAAGCTTTTTGCCTTGGGGTGCTCCCGTATTATTTGTAAAGAA
1 ACGGATAAGGGTTTTCCAAGACCAAGCTTTTCGCCCTGGGGTGCTCCCGTATTATTTGTAAAGAA
* *
55095559 GAAAGATGATTCGATGAGATTATGTATAGATTACCGCCAACTCAATAAAGCACAATTGAAAGAAC
66 GAAAAATGATTCGATGAGATTATGTATAGATTACCGCCAACTCAACAAAGCACAATTGAAAGAAC
55095624 TG
131 TG
*
55095626 ACGGATAAGGG-TTTCCAAGACCAAGCTTTTCGCCCTGGGGTGCTCCCGTATTATTTGTGAAGAA
1 ACGGATAAGGGTTTTCCAAGACCAAGCTTTTCGCCCTGGGGTGCTCCCGTATTATTTGTAAAGAA
* *
55095690 GAAAAATGGTTCGATGAGATTATGTATAGATTACTGCCAACTCAACAAAG
66 GAAAAATGATTCGATGAGATTATGTATAGATTACCGCCAACTCAACAAAG
55095740 TAACTATTAA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
131 95 0.90
132 11 0.10
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (132 bp):
ACGGATAAGGGTTTTCCAAGACCAAGCTTTTCGCCCTGGGGTGCTCCCGTATTATTTGTAAAGAA
GAAAAATGATTCGATGAGATTATGTATAGATTACCGCCAACTCAACAAAGCACAATTGAAAGAAC
TG
Found at i:55097731 original size:24 final size:25
Alignment explanation
Indices: 55097703--55097751 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
55097693 CTTTTTTTAT
*
55097703 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
55097727 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
55097752 AAACAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:55097744 original size:25 final size:23
Alignment explanation
Indices: 55097715--55097760 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
55097705 AATAAAAAAC
*
55097715 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
55097740 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
55097761 AAAAATAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:55107396 original size:19 final size:19
Alignment explanation
Indices: 55107369--55107410 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
55107359 AATTCATTCT
*
55107369 AAAACTATAAAAATTATTA
1 AAAACTATAAAAAATATTA
*
55107388 AAAATTATAAAAAATATTA
1 AAAACTATAAAAAATATTA
55107407 AAAA
1 AAAA
55107411 ACATTAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAACTATAAAAAATATTA
Found at i:55107410 original size:9 final size:10
Alignment explanation
Indices: 55107376--55107424 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
55107366 TCTAAAACTA
55107376 TAAAAATTAT
1 TAAAAATTAT
55107386 TAAAAATTA-
1 TAAAAATTAT
*
55107395 TAAAAAATAT
1 TAAAAATTAT
**
55107405 TAAAAAACAT
1 TAAAAATTAT
*
55107415 TAGAAATTAT
1 TAAAAATTAT
55107425 ATTCATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
9 8 0.24
10 25 0.76
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:55113028 original size:127 final size:125
Alignment explanation
Indices: 55112861--55113553 Score: 687
Period size: 127 Copynumber: 5.5 Consensus size: 125
55112851 AACATAAGGA
* * * * *
55112861 AATATTTTGTGTTTGGGAGTTCGAGG-GGTCGTGCCCAATCGTGTTGGGTTTCAATTTTTCGTTC
1 AATATTTCGTGTTTGGAAGTTTG-GGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
* ** *
55112925 -AGCTAAAATACAAAATATCCTTTGGAAATTTTGTCCATGTTTTTTTAAAAATTAAAACGAGGC
65 GA-CTAAAATACAAAATATCCTTTTGAAATTTCATCCACGTTTTTTT-AAAA-TAAAACGAGGC
* *
55112988 AATACTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCG
* * * * * * *
55113053 GCTAAAATACGAAATATCCTTTGGAAATTTCGTCCATGTCTTTTTAAAAATTAAAATGAGGC
66 ACTAAAATACAAAATATCCTTTTGAAATTTCATCCACGT-TTTTTTAAAA-TAAAACGAGGC
* * * * *
55113115 AATATTTCGTATTTGGGGAGTTTGAGAGATC-TGCCCAATCGTGCTGGGTTTCATTTTTTTCATT
1 AATATTTCGTGTTT-GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCA-ATTTTTCATT
* *
55113179 CGACTAAAATATAGAATATCCTTTTTTTGAAATTTCATCCACGTTTTTCTTAAAATAAAACGAGG
64 CGACTAAAATACAAAATATCC---TTTTGAAATTTCATCCACGTTTTT-TTAAAATAAAACGAGG
55113244 C
125 C
* * * *
55113245 AATATTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAA-TTTTCTATTC
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTC-ATTC
*** * * *
55113309 GACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCACATGTTTTTAAAATAAAACGAGAC
65 GACTAAAATACAAAATATCC--TTTTGAAATTTCATCCACGTTTTTTTAAAATAAAACGAGGC
* * * * * *
55113372 AATATTTCGTGTTTGGAAGTTTGGGAAGTCATGCCTAATCGTGCTGGGCTTCAATCTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCG
* * * *
55113437 ACTAAAATACAAAATATCCTTTTGAAATTTCAT--ACGTGTTTTCTCAAATTAAAATGAGAC
66 ACTAAAATACAAAATATCCTTTTGAAATTTCATCCACGT-TTTT-TTAAAATAAAACGAGGC
* * * * * ** ** * *
55113497 AATGTTTTGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTAGGTTTCGATTT
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTT
55113554 ACCGTTTGGG
Statistics
Matches: 483, Mismatches: 69, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
123 3 0.01
124 3 0.01
125 71 0.15
126 2 0.00
127 226 0.47
128 75 0.16
129 35 0.07
130 46 0.10
131 22 0.05
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (125 bp):
AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCG
ACTAAAATACAAAATATCCTTTTGAAATTTCATCCACGTTTTTTTAAAATAAAACGAGGC
Found at i:55113317 original size:257 final size:252
Alignment explanation
Indices: 55112861--55113499 Score: 743
Period size: 257 Copynumber: 2.5 Consensus size: 252
55112851 AACATAAGGA
* * * * * * *
55112861 AATATTTTGTGTTTGGGAGTTCGAGGGGTCGTGCCCAATCGTGTTGGGTTTCAATTTTTCGTTC-
1 AATATTTCGTGTTTGGGAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTCG
* ** *
55112925 AGCTAAAATACAAAATATCCTTTGGAAATTTTGTCCATGTTTTT-TTAAAAATTAAAACGAGGCA
66 A-CTAAAATACAAAATATCCTTTTGAAATTTCATCCACGTTTTTCTT-AAAA-TAAAACGAGGCA
* * * * *
55112989 ATACTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGG
128 ATACTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGA
* ** * *
55113054 CTAAAATACGAAATATCC-TTTGGAAATTTCGTCCATGTCTTTTTAAAAATTAAAATGAGGC
193 CTAAAATACGAAATATCCTTTTGGAAATTTCATCCACATCTTTTT-AAAA-TAAAACGAGAC
* *
55113115 AATATTTCGTATTTGGGGAGTTTGAGAGATC-TGCCCAATCGTGCTGGGTTTCATTTTTTTCATT
1 AATATTTCGTGTTT-GGGAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCA-ATTTTTCATT
* *
55113179 CGACTAAAATATAGAATATCCTTTTTTTGAAATTTCATCCACGTTTTTCTTAAAATAAAACGAGG
64 CGACTAAAATACAAAATATCC---TTTTGAAATTTCATCCACGTTTTTCTTAAAATAAAACGAGG
* *
55113244 CAATATTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCTATTC
126 CAATACTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTC
* * * *
55113309 GACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCACATGTTTTTAAAATAAAACGAGAC
191 GACTAAAATACGAAATATCC-TTTTGGAAATTTCATCCACATCTTTTTAAAATAAAACGAGAC
* * * * * *
55113372 AATATTTCGTGTTTGGAAGTTTGGGA-AGTCATGCCTAATCGTGCTGGGCTTCAATCTTCCATTC
1 AATATTTCGTGTTTGGGAGTTTGAGAGA-TCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
* * * *
55113436 GACTAAAATACAAAATATCCTTTTGAAATTTCAT--ACGTGTTTTCTCAAATTAAAATGAGACAA
65 GACTAAAATACAAAATATCCTTTTGAAATTTCATCCACGT-TTTTCTTAAAATAAAACGAGGCAA
55113499 T
129 T
55113500 GTTTTGTATT
Statistics
Matches: 329, Mismatches: 44, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
251 4 0.01
252 21 0.06
253 14 0.04
254 33 0.10
255 39 0.12
256 39 0.12
257 128 0.39
258 28 0.09
259 23 0.07
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (252 bp):
AATATTTCGTGTTTGGGAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTCG
ACTAAAATACAAAATATCCTTTTGAAATTTCATCCACGTTTTTCTTAAAATAAAACGAGGCAATA
CTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTA
AAATACGAAATATCCTTTTGGAAATTTCATCCACATCTTTTTAAAATAAAACGAGAC
Found at i:55124753 original size:64 final size:64
Alignment explanation
Indices: 55124674--55124800 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
55124664 CATTCATAAT
55124674 ACATCTAGTTAGGAGCACTT-GATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGTTAGGAGCACTTGGATT-ATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
*
55124738 ACATCTAGTTAGGAGCACTTGGATTATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 ACATCTAGTTAGGAGCACTTGGATTATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
55124801 AGATACATGA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
64 57 0.93
65 4 0.07
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (64 bp):
ACATCTAGTTAGGAGCACTTGGATTATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:55125154 original size:134 final size:134
Alignment explanation
Indices: 55124907--55125553 Score: 534
Period size: 134 Copynumber: 4.9 Consensus size: 134
55124897 GATTACAAAC
** *
55124907 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-T-GACAAGTCTTATCTTCTTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG-CAAGTCTTATCTTCCTGAAGTTGC
*
55124970 AGGAAGCAGACT-AAAATTACAGATCTTATTTCCATGTATCGGCTATGGAGCAGATAAAAAAT-G
65 AGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-AAAAATCG
55125033 ACAAGT
129 ACAAGT
* * * *
55125039 CTTACCTCCCTGAAGTTGCAGTGGCGCAAACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCA
* * * *
55125104 GGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGT
66 GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-AAAAATCGA
*
55125169 GAA-T
130 CAAGT
* * * * ** ** * *
55125173 CTTATCTCCATGTA-TCGGCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCCTGATGTTG
1 CTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTG
***
55125235 CAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-TTTATC
64 CAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAATC
**
55125299 CCCAAGT
128 GACAAGT
* * * * *
55125306 CTTATCTTCTTGAAGTTGCAGTGGAGCAGACTAAAGATAGTAAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCA
* * * * *
55125371 GTGGAGCAGACTGAAGATAACA-AGTCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGAT-----
66 G-GAAGCAGACTGAAAATTACAGA-TCTTATC-TCCATGTA-TCGGCTATGG-AGCAGATAAAAA
55125426 T-GA-AAGAT
126 TCGACAAG-T
* * * *** **
55125434 CTTATCTCCATGTA-TCGGCTA-TGGAGCAGA-T-TTTATCCCCAAGTCTTATCTTCCTGAAGTT
1 CTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGAT-AGCAAGTCTTATCTTCCTGAAGTT
* * *
55125495 GCAGGGAGCAGACTGAAAACTTACAGATCTTATCTCCGTGTATCAGCTATGGAGCAGAT
63 GCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
55125554 CAGAAATGGC
Statistics
Matches: 419, Mismatches: 70, Indels: 56
0.77 0.13 0.10
Matches are distributed among these distances:
126 20 0.05
127 45 0.11
128 32 0.08
129 4 0.01
132 38 0.09
133 109 0.26
134 150 0.36
135 21 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (134 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCA
GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAATCGAC
AAGT
Found at i:55125265 original size:89 final size:88
Alignment explanation
Indices: 55125171--55125553 Score: 426
Period size: 89 Copynumber: 4.4 Consensus size: 88
55125161 GAAATGGTGA
* *
55125171 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGATGTTGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGC
55125236 AGGAAGCAGACTGAAAATTTACAG
66 AGGAAGCAGACTGAAAATTTA-AG
* * *
55125260 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCCAAGTCTTATCTTCTTGAAGTTGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGC
* *
55125325 AGTGGAGCAGACT-AAAGATAGTAAG
66 AG-GAAGCAGACTGAAA-AT-TTAAG
* * * * ** **
55125350 -TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAACAAGTCTTATCTTCCTGAAGT
1 ATCTTATCTCCATGTA-TCGGCTA-TGGAGCAGATTTTAG-CCACAAGTCTTATCTTCCTGAAGT
*
55125412 TGCAGGAAGCAGATTG---A---AAG
63 TGCAGGAAGCAGACTGAAAATTTAAG
* *
55125432 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCCAAGTCTTATCTTCCTGAAGTTGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGC
* *
55125497 AGGGAGCAGACTGAAAACTTACAG
66 AGGAAGCAGACTGAAAATTTA-AG
* *
55125521 ATCTTATCTCCGTGTATCAGCTATGGAGCAGAT
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGAT
55125554 CAGAAATGGC
Statistics
Matches: 243, Mismatches: 34, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
82 39 0.16
83 26 0.11
84 1 0.00
85 1 0.00
86 1 0.00
88 2 0.01
89 132 0.54
90 39 0.16
91 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (88 bp):
ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGC
AGGAAGCAGACTGAAAATTTAAG
Found at i:55125356 original size:45 final size:45
Alignment explanation
Indices: 55125301--55125433 Score: 187
Period size: 45 Copynumber: 3.0 Consensus size: 45
55125291 ATTTTATCCC
* *
55125301 CAAGTCTTATCTTCTTGAAGTTGCAGTGGAGCAGACTAAAGATAG
1 CAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGATAA
* * *
55125346 TAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAA
1 CAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGATAA
* *
55125391 CAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGATTGAAAGAT
1 CAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT-AAAGAT
55125434 CTTATCTCCA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 8 0.10
45 69 0.90
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
CAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGATAA
Found at i:55125550 original size:172 final size:174
Alignment explanation
Indices: 55125171--55125552 Score: 476
Period size: 172 Copynumber: 2.2 Consensus size: 174
55125161 GAAATGGTGA
* * ** * * *
55125171 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGATGTTGC
1 ATCTTATCTCCATGTATCAGCTATGGAGCAGACTGAAGCAACAAGTCTTATCTTCCTGAAGTTGC
55125236 AGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCC
66 AGGAAGCAGACTG--AA--TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCC
*
55125301 CAAGTCTTATCTTCTTGAAGTTGCAGTGGAGCAGACTAAAGATAGTAAG
127 CAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGATA-TAAG
* * * *
55125350 -TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAACAAGTCTTATCTTCCTGAAGT
1 ATCTTATCTCCATGTA-TCAGCTA-TGGAGCAGACTGAAG-CAACAAGTCTTATCTTCCTGAAGT
*
55125412 TGCAGGAAGCAGATTG-A-A-AGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCC
63 TGCAGGAAGCAGACTGAATACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCC
55125474 AAGTCTTATCTTCCTGAAGTTGCAG-GGAGCAGACTGAAA-ACT-TACAG
128 AAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT-AAAGA-TATA-AG
*
55125521 ATCTTATCTCCGTGTATCAGCTATGGAGCAGA
1 ATCTTATCTCCATGTATCAGCTATGGAGCAGA
55125553 TCAGAAATGG
Statistics
Matches: 179, Mismatches: 15, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
170 2 0.01
171 14 0.08
172 96 0.54
173 2 0.01
176 1 0.01
177 1 0.01
178 27 0.15
179 36 0.20
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (174 bp):
ATCTTATCTCCATGTATCAGCTATGGAGCAGACTGAAGCAACAAGTCTTATCTTCCTGAAGTTGC
AGGAAGCAGACTGAATACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCCAAG
TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGATATAAG
Found at i:55126369 original size:132 final size:130
Alignment explanation
Indices: 55126080--55126509 Score: 479
Period size: 132 Copynumber: 3.3 Consensus size: 130
55126070 AGAAAATGGA
* * ** **
55126080 AACCCAGCACAG-TAGGGCATGGTTCTTCGAATTTCTAAACATCGAGCATTACCTTATTTTTTTT
1 AACCCAGCAC-GTTAGGGCACGATTCCGCGAATTTC-AAACATCGAGCATTACCTT-TTTTTTAA
* * * * * *
55126144 AGAATTTTAAG-AAACATGAGGGAAATTCTAAAGGGGATGTTCGATTATTTTGAACCAACAGGAA
63 AGAGTTTTTAGAAAACATGAGTGAAATTCTAAA-GGGATATTCGATTATTTTGAGCAAACA-GAA
55126208 ATTGC
126 ATTGC
* * * * *
55126213 AACCCAGCACGATAGGGCACGATTCCCCGAATTATCAAACCTCGAGTATTACCTTTGTTTTAAAG
1 AACCCAGCACGTTAGGGCACGATTCCGCGAATT-TCAAACATCGAGCATTACCTTTTTTTTAAAG
* * * *
55126278 AGTTTTTAGAAAACATGAATGAAATTCCAAAGGGACATTCGATTGTTTTGAGCAAACGAGAAATT
65 AGTTTTTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAAC-AGAAATT
55126343 GC
129 GC
* * * * *
55126345 AACCCAGCACGTTAGGACACGATTCCGCGAATTGTCAAATATCGAACGTTGCCTTTTTTTTAAAG
1 AACCCAGCACGTTAGGGCACGATTCCGCGAATT-TCAAACATCGAGCATTACCTTTTTTTTAAAG
* * *
55126410 -GATTTTTAGAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACTAGAAAT
65 AG-TTTTTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAAC-AGAAAT
55126474 TGC
128 TGC
*
55126477 AACCCAGCATGTTAGGGCACGATTCCGCGAATT
1 AACCCAGCACGTTAGGGCACGATTCCGCGAATT
55126510 GCCAAATATC
Statistics
Matches: 252, Mismatches: 40, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
131 1 0.00
132 186 0.74
133 63 0.25
134 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (130 bp):
AACCCAGCACGTTAGGGCACGATTCCGCGAATTTCAAACATCGAGCATTACCTTTTTTTTAAAGA
GTTTTTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACAGAAATTGC
Found at i:55129353 original size:45 final size:43
Alignment explanation
Indices: 55129304--55129690 Score: 187
Period size: 45 Copynumber: 8.7 Consensus size: 43
55129294 ATCGGCTATA
*
55129304 GAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGA-CTAAAAT-ACAAGTCTTATCTCCCTGAAGTTGCAGTG
* * * *
55129349 GAGCAGACTGAAGATAGCAAGTCTTATATTCTTGAAGTTGCAG-G
1 GAGCAGACT-AAAATA-CAAGTCTTATCTCCCTGAAGTTGCAGTG
* * * *
55129393 AAGCAGACTAAAAATTAC-AGATCTTATCTCCATGTA-TCAGCTA-TG
1 GAGCAGACT-AAAA-TACAAG-TCTTATCTCCCTGAAGT-TGC-AGTG
* * * * * *
55129438 GAGTAGATCGAAAATGGCGAGTCTTATCTCCATGTA-TTGACTA-TG
1 GAGCAGA-CTAAAAT-ACAAGTCTTATCTCCCTGAAGTTG-C-AGTG
* * * *** * *
55129483 GAACAGATTTCAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGA-CTAAAATACAAGTCTTATCTCCCTGAAGTTGCAGTG
* * * * * *
55129527 AAGCAGACTAAAGATAGTAAGTTTTGTCTCTCTGAAGTTGCAATG
1 GAGCAGACTAAA-ATA-CAAGTCTTATCTCCCTGAAGTTGCAGTG
* * *
55129572 GAGCAGCCTAAAGATAGTAAGTCTTATCTCCCTGAAGTTGTAGTG
1 GAGCAGACTAAA-ATA-CAAGTCTTATCTCCCTGAAGTTGCAGTG
* * *
55129617 GAGCAGACTAAAGATAACAAGTCTTATCTTCCTGAAGTTGTAG-A
1 GAGCAGACTAAA-AT-ACAAGTCTTATCTCCCTGAAGTTGCAGTG
*
55129661 AAGCAGACTGAAAATTAC-AGATCTTATCTC
1 GAGCAGACT-AAAA-TACAAG-TCTTATCTC
55129691 TATGTATCTG
Statistics
Matches: 265, Mismatches: 58, Indels: 39
0.73 0.16 0.11
Matches are distributed among these distances:
43 8 0.03
44 73 0.28
45 180 0.68
46 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
GAGCAGACTAAAATACAAGTCTTATCTCCCTGAAGTTGCAGTG
Found at i:55129729 original size:134 final size:133
Alignment explanation
Indices: 55129282--55129736 Score: 424
Period size: 134 Copynumber: 3.4 Consensus size: 133
55129272 ACAGCGAGTT
* * * *
55129282 TTATCTCCATGTATCGGCTATAGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCATGTATCTGCTATGGAGCAGATCGAAAATGGCAAGTCTTATCTCCCTGAAGTTGTAG
* * * *
55129347 TGGAGCAGACTGAAGATAGCAAGTCTTATATTCTTGAAGTTGCAGGAAGCAGACTAAAAATTACA
66 TGGAGCAGACTAAAGATAACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAATTACA
55129412 GATC
130 GATC
* * * * *
55129416 TTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGCGAGTCTTATCTCCATGTA-TTGACT
1 TTATCTCCATGTATCTGCTATGGAGCAGATCGAAAATGGCAAGTCTTATCTCCCTGAAGTTG--T
* * ** ** * * *
55129480 A-TGGAACAGATTTCAG-CCACCAGCCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATA
64 AGTGGAGCAGACTAAAGATAACAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTAAA-AT-
*
55129543 GTA-AG-TT
126 -TACAGATC
* * * * * * *
55129550 TTGTCTCTC-TGAAGT-TGCAATGGAGCAG-CCTAAAGATAGTAAGTCTTATCTCCCTGAAGTTG
1 TTATCTC-CATGTA-TCTGCTATGGAGCAGATCGAAA-ATGGCAAGTCTTATCTCCCTGAAGTTG
* *
55129612 TAGTGGAGCAGACTAAAGATAACAAGTCTTATCTTCCTGAAGTTGTAGAAAGCAGACTGAAAATT
63 TAGTGGAGCAGACTAAAGATAACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAATT
55129677 ACAGATC
127 ACAGATC
* **
55129684 TTATCTCTATGTATCTGCTATGGAGCAGATC-AGAAATGGTGAGTCTTATCTCC
1 TTATCTCCATGTATCTGCTATGGAGCAGATCGA-AAATGGCAAGTCTTATCTCC
55129737 ATGTGTCGAC
Statistics
Matches: 250, Mismatches: 52, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
132 2 0.01
133 36 0.14
134 173 0.69
135 37 0.15
136 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (133 bp):
TTATCTCCATGTATCTGCTATGGAGCAGATCGAAAATGGCAAGTCTTATCTCCCTGAAGTTGTAG
TGGAGCAGACTAAAGATAACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAATTACAG
ATC
Found at i:55132179 original size:128 final size:127
Alignment explanation
Indices: 55131943--55132635 Score: 677
Period size: 127 Copynumber: 5.4 Consensus size: 127
55131933 AACATAAGGA
* * * * * * * *
55131943 AATATTTTGTGTTTGGGAGTTCGAG-GGTCGTGCCCAATCGTGCTGGGTTTCGATTTTTCGTTC-
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
* * ** *
55132006 AGCTAAAATACAAAATATCCTTTGGAAATTTTGTCCATGTTTTTTTTTAAAATTAAAACGAGGC
66 A-CTAAAATACAGAATATCTTTTGGAAATTTCATCCATGTTTTTTCTTAAAA-TAAAACGAGGC
* * * *
55132070 AATACTTCCTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTAGGATTCAATTTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
* * * * *
55132135 GCTAAAATACGGAATATCTTTTGGAAATTTCGTCCATGTTTTTT-TAAAAATTAAAATGAGGC
66 ACTAAAATACAGAATATCTTTTGGAAATTTCATCCATGTTTTTTCTTAAAA-TAAAACGAGGC
* * * * * ** *
55132197 AATATTTCGTATTTGGGGAGTTTGAGAGATC-TGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
1 AATATTTCGTGTTT-GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTC-AATTTTCCATT
* * *
55132261 CGACTAAAATATAGAATATCCTTTTTTTGAAATTTCATCCA-CTTTTTTCTTAAAATAAAACGAG
64 CGACTAAAATACAGAATAT-C--TTTTGGAAATTTCATCCATGTTTTTTCTTAAAATAAAACGAG
55132325 GC
126 GC
* * * *
55132327 AATATTTTGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCTATTCA
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
* * ** *
55132392 ACTAAAATACGGAATATCATTTTTTGAAATTTCATCCA--CATATTCTTAAAATAAAACGAGGC
66 ACTAAAATACAGAATATC--TTTTGGAAATTTCATCCATGTTTTTTCTTAAAATAAAACGAGGC
* * * *
55132454 AATATTTCATGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGTTGGGCTTCAATCTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
* * * * *
55132519 ACTAAAATATAGAATATCCTTTT-GAAATTTCATACATG--TTTTCTCAAATTAAAATGAGGC
66 ACTAAAATACAGAATAT-CTTTTGGAAATTTCATCCATGTTTTTTCTTAAAATAAAACGAGGC
* * * ** ** * *
55132579 AATGTTTCGTATTTGGAAATTTGATAAATCGTGCCCAATCTTGCTGGGTTTCAATTT
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTT
55132636 ACAGTTTGGG
Statistics
Matches: 475, Mismatches: 79, Indels: 26
0.82 0.14 0.04
Matches are distributed among these distances:
125 76 0.16
126 4 0.01
127 160 0.34
128 130 0.27
129 36 0.08
130 48 0.10
131 21 0.04
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (127 bp):
AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
ACTAAAATACAGAATATCTTTTGGAAATTTCATCCATGTTTTTTCTTAAAATAAAACGAGGC
Found at i:55132349 original size:257 final size:251
Alignment explanation
Indices: 55131943--55132635 Score: 784
Period size: 257 Copynumber: 2.7 Consensus size: 251
55131933 AACATAAGGA
* * * *
55131943 AATATTTTGTGTTTGGGAGTTCGAG-GGTCGTGCCCAATCGTGCTGGGTTTCGATTTTTCGTTC-
1 AATATTTCGTGTTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCG
* * * ** *
55132006 AGCTAAAATACAAAATATCCTTTGGAAATTTTGTCCATGTTTTTTTTTAAAATTAAAACGAGGCA
66 A-CTAAAATATAGAATATCCTTTTGAAATTTCATCCA--TTTTTTCTTAAAA-TAAAACGAGGCA
* * * * **
55132071 ATACTTCCTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTAGGATTCAATTTTCCATTCGG
127 ATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGATTCAATTTTCCATTCAA
* ** * * *
55132136 CTAAAATACGGAATATC-TTTTGGAAATTTCGTCCATGTTTTTTTAAAAATTAAAATGAGGC
192 CTAAAATACGGAATATCATTTTGGAAATTTCATCCACATATTCTT-AAAA-TAAAACGAGGC
* *
55132197 AATATTTCGTATTTGGGGAGTTTGAGAGATC-TGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
1 AATATTTCGTGTTT-GGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCG-ATTTTTCATT
55132261 CGACTAAAATATAGAATATCCTTTTTTTGAAATTTCATCCACTTTTTTCTTAAAATAAAACGAGG
64 CGACTAAAATATAGAATATCC---TTTTGAAATTTCATCCA-TTTTTTCTTAAAATAAAACGAGG
* * *
55132326 CAATATTTTGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCTATTC
125 CAATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGATTCAATTTTCCATTC
*
55132391 AACTAAAATACGGAATATCATTTTTTGAAATTTCATCCACATATTCTTAAAATAAAACGAGGC
190 AACTAAAATACGGAATATCA-TTTTGGAAATTTCATCCACATATTCTTAAAATAAAACGAGGC
* * * * * * * *
55132454 AATATTTCATGTTTGGAAGTTTGGGA-AGTCGTGCCCAATCGTGTTGGGCTTCAATCTTCCATTC
1 AATATTTCGTGTTTGGGAGTTTGAGAGA-TCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTC
* * * * * *
55132518 GACTAAAATATAGAATATCCTTTTGAAATTTCATACATGTTTTCTCAAATTAAAATGAGGCAATG
65 GACTAAAATATAGAATATCCTTTTGAAATTTCATCCATTTTTTCTTAAAATAAAACGAGGCAATA
* * ** * * *
55132583 TTTCGTATTTGGAAATTTGATAAATCGTGCCCAATCTTGCTGGGTTTCAATTT
130 TTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGATTCAATTT
55132636 ACAGTTTGGG
Statistics
Matches: 375, Mismatches: 53, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
252 68 0.18
253 16 0.04
254 12 0.03
255 33 0.09
256 68 0.18
257 127 0.34
258 16 0.04
259 35 0.09
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (251 bp):
AATATTTCGTGTTTGGGAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCG
ACTAAAATATAGAATATCCTTTTGAAATTTCATCCATTTTTTCTTAAAATAAAACGAGGCAATAT
TTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGATTCAATTTTCCATTCAACTAA
AATACGGAATATCATTTTGGAAATTTCATCCACATATTCTTAAAATAAAACGAGGC
Found at i:55133711 original size:20 final size:18
Alignment explanation
Indices: 55133675--55133713 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
55133665 AATAGTTGTT
*
55133675 TTTTTTATATTATTATTA
1 TTTTTAATATTATTATTA
55133693 TTTTTAATATGTATATATTA
1 TTTTTAATAT-TAT-TATTA
55133713 T
1 T
55133714 GTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTAATATTATTATTA
Found at i:55133756 original size:17 final size:18
Alignment explanation
Indices: 55133733--55133776 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
55133723 TTAATACTAC
*
55133733 ATTATATATATTT-TTAT
1 ATTATATATATTTCTAAT
*
55133750 GTTATATATATTTCTAAT
1 ATTATATATATTTCTAAT
55133768 ATTATATAT
1 ATTATATAT
55133777 TAAGTATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTATATATATTTCTAAT
Found at i:55133757 original size:15 final size:17
Alignment explanation
Indices: 55133737--55133777 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
55133727 TACTACATTA
*
55133737 TATATATTTT-T-ATGT
1 TATATATTTTCTAATAT
55133752 TATATATATTTCTAATAT
1 TATATAT-TTTCTAATAT
55133770 TATATATT
1 TATATATT
55133778 AAGTATTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 3 0.14
17 2 0.09
18 10 0.45
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATATATTTTCTAATAT
Found at i:55133952 original size:23 final size:23
Alignment explanation
Indices: 55133887--55133952 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
55133877 TGTATATAGC
* *
55133887 GTATATGTTTTATAT-GTATTAT
1 GTATATTTTTTATATACTATTAT
* *
55133909 GTATATATTTTCA-ATATTATTA-
1 GTATAT-TTTTTATATACTATTAT
55133931 GTTATATTTTTTATATACTATT
1 G-TATATTTTTTATATACTATT
55133953 CCATGTACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (23 bp):
GTATATTTTTTATATACTATTAT
Found at i:55134135 original size:20 final size:19
Alignment explanation
Indices: 55134084--55134135 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
55134074 TTTATTATTA
*
55134084 ATATTAGTATATATATTTT
1 ATATTAGTATACATATTTT
*
55134103 ATTATTCTTGTATACATATTTT
1 A-TA-T-TAGTATACATATTTT
55134125 ATATATAGTAT
1 ATAT-TAGTAT
55134136 TATTTTCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 3 0.12
22 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (19 bp):
ATATTAGTATACATATTTT
Found at i:55134289 original size:11 final size:11
Alignment explanation
Indices: 55134261--55134295 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
55134251 TTTTCGAAAT
55134261 TTAT-TATATA
1 TTATGTATATA
55134271 TATATGTATATA
1 T-TATGTATATA
55134283 TTATGTATATA
1 TTATGTATATA
55134294 TT
1 TT
55134296 TTAACATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 15 0.65
12 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (11 bp):
TTATGTATATA
Found at i:55146602 original size:74 final size:74
Alignment explanation
Indices: 55146338--55146792 Score: 589
Period size: 73 Copynumber: 6.1 Consensus size: 74
55146328 TAATGTTTTT
*
55146338 ATTTCTG-TTT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
55146401 GTATTTCCA
66 GTATTTTCA
* * * * *
55146410 TTTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGACACACTAA
1 ATTTCTGC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
55146475 GGTAATTTCA
65 GGTATTTTCA
* *
55146485 ATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
55146548 GGTATTTTCA
65 GGTATTTTCA
*
55146558 ATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
1 ATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
55146623 GTAATTTCA
66 GTATTTTCA
* * * * *
55146632 ATTTCTGTTTGTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCATGCTGA
1 ATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
55146695 GTTATTTTCA
65 GGTATTTTCA
*
55146705 ATTTCTGCTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 A----T--TTCTGC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
55146770 CGTTGAGGTGTTTTCA
59 CGCTGAGGTATTTTCA
55146786 ATTTCTG
1 ATTTCTG
55146793 TTTTTTCAAT
Statistics
Matches: 332, Mismatches: 35, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
72 7 0.02
73 118 0.36
74 71 0.21
75 70 0.21
77 2 0.01
79 7 0.02
80 2 0.01
81 55 0.17
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
ATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCA
Found at i:55146625 original size:147 final size:148
Alignment explanation
Indices: 55146350--55146795 Score: 678
Period size: 147 Copynumber: 3.0 Consensus size: 148
55146340 TTCTGTTTAA
* * * * *
55146350 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCCATTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * *
55146415 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGACACACTAAGGTAA
66 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
55146480 TTTCAATTTCTGTTTGTC
131 TTTCAATTTCTGTTTGTC
55146498 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
*
55146563 TGC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAA
66 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
55146627 TTTCAATTTCTGTTTGTC
131 TTTCAATTTCTGTTTGTC
* * * *
55146645 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCATGCTGAGTTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA----
* *
55146710 TGCTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTG
62 T--TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
**
55146775 AGGTGTTTTCAATTTCTGTTT
125 AGGTAATTTCAATTTCTGTTT
55146796 TTTCAATTTA
Statistics
Matches: 273, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
147 132 0.48
148 63 0.23
151 1 0.00
153 6 0.02
154 71 0.26
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (148 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
TTTCAATTTCTGTTTGTC
Found at i:55147495 original size:18 final size:18
Alignment explanation
Indices: 55147468--55147511 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
55147458 TACGTCCAAT
55147468 ACAA-CCAATTTAACCCA
1 ACAACCCAATTTAACCCA
55147485 ACAACCCAATTTAACCCA
1 ACAACCCAATTTAACCCA
55147503 ACAACCCAA
1 ACAACCCAA
55147512 GCTACCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.14
Consensus pattern (18 bp):
ACAACCCAATTTAACCCA
Found at i:55147950 original size:20 final size:19
Alignment explanation
Indices: 55147927--55147966 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
55147917 TCACCTATAT
* *
55147927 ATATATTAAAACATATAAAA
1 ATATAATAAAA-AAATAAAA
55147947 ATATAATAAAAAAATAAAA
1 ATATAATAAAAAAATAAAA
55147966 A
1 A
55147967 AAATTACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (19 bp):
ATATAATAAAAAAATAAAA
Found at i:55148066 original size:11 final size:11
Alignment explanation
Indices: 55148050--55148083 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
55148040 TTCCCTCCCC
55148050 CTCTCCCTTTT
1 CTCTCCCTTTT
55148061 CTCTCCCTTTT
1 CTCTCCCTTTT
* *
55148072 TTTTCCCTTTT
1 CTCTCCCTTTT
55148083 C
1 C
55148084 CCCATTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (11 bp):
CTCTCCCTTTT
Found at i:55148860 original size:20 final size:18
Alignment explanation
Indices: 55148824--55148862 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
55148814 CAATAGTTGT
*
55148824 TTTTTTATATTATTATTA
1 TTTTTAATATTATTATTA
55148842 TTTTTAATATGTATATATTA
1 TTTTTAATAT-TAT-TATTA
55148862 T
1 T
55148863 GTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTAATATTATTATTA
Found at i:55149101 original size:23 final size:23
Alignment explanation
Indices: 55149036--55149101 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
55149026 TGTATATAGC
*
55149036 GTATATGTTTTATAT-TTATTAT
1 GTATATTTTTTATATATTATTAT
55149058 GTATATATTTTTA-ATATTATTA-
1 GTATAT-TTTTTATATATTATTAT
*
55149080 GTTATATTTTTTATATACTATT
1 G-TATATTTTTTATATATTATT
55149102 CCATGTACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 15 0.39
23 23 0.61
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (23 bp):
GTATATTTTTTATATATTATTAT
Found at i:55150830 original size:126 final size:125
Alignment explanation
Indices: 55150670--55150912 Score: 441
Period size: 126 Copynumber: 1.9 Consensus size: 125
55150660 GTTTTAGCCT
55150670 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
55150735 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATT-CCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
* *
55150796 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCTAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
55150861 CTTCGAATTCTTTGAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAG
55150913 AAGATCAATG
Statistics
Matches: 113, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
125 24 0.21
126 89 0.79
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (125 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:55151033 original size:13 final size:14
Alignment explanation
Indices: 55151016--55151061 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
55151006 CATATATAGA
55151016 TAATAAATAATAA-
1 TAATAAATAATAAT
*
55151029 TAAT-AATAGTAAT
1 TAATAAATAATAAT
*
55151042 TAATAGA-AATAAT
1 TAATAAATAATAAT
55151055 TAATAAA
1 TAATAAA
55151062 ACAACAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 7 0.26
13 19 0.70
14 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (14 bp):
TAATAAATAATAAT
Found at i:55151735 original size:11 final size:11
Alignment explanation
Indices: 55151715--55151760 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
55151705 GTATTCTCTA
55151715 AAAAATTCCTCC
1 AAAAA-TCCTCC
*
55151727 AAAAATCCTCT
1 AAAAATCCTCC
55151738 AAAAATCCTCTC
1 AAAAATCCTC-C
*
55151750 CAAAATCCTCC
1 AAAAATCCTCC
55151761 CCAAAATCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATCCTCC
Found at i:55151742 original size:24 final size:23
Alignment explanation
Indices: 55151710--55151759 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
55151700 TATGTGTATT
55151710 CTCTAAAAAATTCCTC-CAAAAATC
1 CTCT-AAAAA-TCCTCTCAAAAATC
*
55151734 CTCTAAAAATCCTCTCCAAAATC
1 CTCTAAAAATCCTCTCAAAAATC
55151757 CTC
1 CTC
55151760 CCCAAAATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (23 bp):
CTCTAAAAATCCTCTCAAAAATC
Found at i:55151755 original size:12 final size:12
Alignment explanation
Indices: 55151723--55151769 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
55151713 TAAAAAATTC
55151723 CTCCAAAAATCCT
1 CTCC-AAAATCCT
*
55151736 CT-AAAAATCCT
1 CTCCAAAATCCT
55151747 CTCCAAAATCCT
1 CTCCAAAATCCT
*
55151759 CCCCAAAATCC
1 CTCCAAAATCC
55151770 CCCCCATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.33
12 18 0.60
13 2 0.07
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.21
Consensus pattern (12 bp):
CTCCAAAATCCT
Found at i:55151774 original size:12 final size:12
Alignment explanation
Indices: 55151739--55151775 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
55151729 AAATCCTCTA
*
55151739 AAAATCCTCTCC
1 AAAATCCTCCCC
55151751 AAAATCCTCCCC
1 AAAATCCTCCCC
*
55151763 AAAATCCCCCCC
1 AAAATCCTCCCC
55151775 A
1 A
55151776 TACAATAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.35, C:0.49, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATCCTCCCC
Found at i:55151848 original size:17 final size:18
Alignment explanation
Indices: 55151826--55151863 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
55151816 ACTTATAACA
55151826 AGTA-GGGTGATGGAGGT
1 AGTAGGGGTGATGGAGGT
55151843 AGTAGGGGTGATGGAGGT
1 AGTAGGGGTGATGGAGGT
55151861 AGT
1 AGT
55151864 GGACGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.00, G:0.53, T:0.24
Consensus pattern (18 bp):
AGTAGGGGTGATGGAGGT
Found at i:55151894 original size:37 final size:37
Alignment explanation
Indices: 55151844--55151918 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
55151834 GATGGAGGTA
*
55151844 GTAGGGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
1 GTAGGGGCGATGGAGGTAGTGGACGGTTTAGTAGGGT
*
55151881 GTAGGGGCGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTAGGGGCGATGGAGGTAGTGGACGGTTTAGTAGGGT
55151918 G
1 G
55151919 ATGGAGTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.03, G:0.52, T:0.27
Consensus pattern (37 bp):
GTAGGGGCGATGGAGGTAGTGGACGGTTTAGTAGGGT
Found at i:55151939 original size:29 final size:29
Alignment explanation
Indices: 55151889--55151947 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
55151879 GTGTAGGGGC
*
55151889 GATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GATGGAGGTAGTGGATGATTTAGTAGGGT
* *
55151918 GATGGAGTTAGTGG-TCGATTTAGTGGGGT
1 GATGGAGGTAGTGGAT-GATTTAGTAGGGT
55151947 G
1 G
55151948 TTTAATTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.19, C:0.02, G:0.47, T:0.32
Consensus pattern (29 bp):
GATGGAGGTAGTGGATGATTTAGTAGGGT
Found at i:55152405 original size:133 final size:133
Alignment explanation
Indices: 55152160--55153268 Score: 1680
Period size: 133 Copynumber: 8.3 Consensus size: 133
55152150 GATCTACTGT
*** * * *
55152160 AATTTGATCTGCTTTACTCCTACTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
* ** * * * *
55152225 TGCTCAGTGAAGATAAGGCTGATGATTGGAATTTGCTCCATTACCGATACATGTAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
*
55152290 ATCAA
129 ACCAA
** * *
55152295 AATTTGATCTGCTTTGCTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGTTCCACTCCTG
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
*
55152360 CTCAGTGAAGATAAGGTTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
55152425 CAA
131 CAA
* *
55152428 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTTCACTCCTG
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
** *
55152493 CTCAGTGAAGATAATACTGGTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
55152558 CAA
131 CAA
* *
55152561 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAACCTGCTCCACTCCTG
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* *
55152626 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCGATACATAGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
55152691 CAA
131 CAA
* *
55152694 AATTTGATCTGCTCCACTCTTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* * * *
55152759 CTCAGTGAAGGTAAGGCTGGTGGCTGAAACCTGCTTCATTGCCGATACATAGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
55152824 CAA
131 CAA
* *
55152827 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
*
55152892 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT-G
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TTCA
55152956 CCAA
130 CCAA
* * * * * *
55152960 AATTTGATCTGCTTCACTCCTACTTAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACTCC
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
55153025 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
55153090 ACCAA
129 ACCAA
* * * * *
55153095 AATTTAATCTGCTTCGCTCCTACTTAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* * * *
55153160 CTCAGTGAAGATAAGGCTTGTGGCTGAAATCTGCTCTAATGCCGATACATGGAGATAAGATTCGC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
55153225 CAA
131 CAA
* *
55153228 AATTTGATCTGCTCCGCTTCTGCTCAGCGAAGATAAGATCT
1 AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCT
55153269 GTCGAAATTT
Statistics
Matches: 897, Mismatches: 73, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
133 728 0.81
134 4 0.00
135 165 0.18
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (133 bp):
AATTTGATCTGCTCCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
CAA
Found at i:55152624 original size:43 final size:43
Alignment explanation
Indices: 55152311--55152906 Score: 194
Period size: 43 Copynumber: 13.5 Consensus size: 43
55152301 ATCTGCTTTG
* * *
55152311 CTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGTTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAACCTGCTCCA
* * * ** *
55152354 CTCCTGCTCAGTGAAGATAAGGT-TGGTGGCTGAAATCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGT--ATTTAACCTGCTCCA
* * * * ** * * *
55152398 TTGCC-GATACA-TGGAGATAAGATTCACCAAAATTTGATCTGCTCCG
1 CT-CCTGCT-CAGTGAAGATAAGA-T--CTAGTATTTAACCTGCTCCA
* * *
55152444 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTTCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAACCTGCTCCA
* * * ** *
55152487 CTCCTGCTCAGTGAAGATAATA-CTGGTGGCTGAAATCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGT--ATTTAACCTGCTCCA
* * * ** * * *
55152531 TTGCC-GATACA-TGAAGATAAGATTCACCAAAATTTGATCTGCTCCG
1 CT-CCTGCT-CAGTGAAGATAAGA-T--CTAGTATTTAACCTGCTCCA
*
55152577 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAACCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAACCTGCTCCA
* * * ** *
55152620 CTCCTGCTCAGTGAAGATAAG-GCTGGTGGCTGAAATCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGT--ATTTAACCTGCTCCA
** * * ** * *
55152664 -TTGTCGATACA-T-AGAGATAAGATTCACCAAAATTTGATCTGCTCCA
1 CTCCT-GCT-CAGTGA-AGATAAGA-T--CTAGTATTTAACCTGCTCCA
* *
55152710 CTCTTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAACCTGCTCCA
* * * * ** *
55152753 CTCCTGCTCAGTGAAGGTAAG-GCTGGTGGCTGAAACCTGCTTCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGT--ATTTAACCTGCTCCA
* * * ** * * *
55152797 TTGCC-GATACA-T-AGAGATAAGATTCACCAAAATTTGATCTGCTCCG
1 CT-CCTGCT-CAGTGA-AGATAAGA-T--CTAGTATTTAACCTGCTCCA
* *
55152843 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCA
1 CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAACCTGCTCCA
*
55152886 CTCCTACTCAGTGAAGATAAG
1 CTCCTGCTCAGTGAAGATAAG
55152907 GCTGGTGGCT
Statistics
Matches: 382, Mismatches: 127, Indels: 88
0.64 0.21 0.15
Matches are distributed among these distances:
42 15 0.04
43 157 0.41
44 84 0.22
45 33 0.09
46 86 0.23
47 4 0.01
48 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
CTCCTGCTCAGTGAAGATAAGATCTAGTATTTAACCTGCTCCA
Found at i:55154632 original size:24 final size:24
Alignment explanation
Indices: 55154605--55154674 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
55154595 TCGCATTGGC
55154605 CTCTCCTTTGCTTTTCTTTTCTTT
1 CTCTCCTTTGCTTTTCTTTTCTTT
** *
55154629 CTCTTTTTTGTTTTTCTCTTT-TTT
1 CTCTCCTTTGCTTTTCT-TTTCTTT
*
55154653 -T-TCCTTTTCTTTT-TTTCTCTTT
1 CTCTCCTTTGCTTTTCTTT-TCTTT
55154675 TCTTTTTCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 11 0.31
23 1 0.03
24 17 0.47
25 3 0.08
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (24 bp):
CTCTCCTTTGCTTTTCTTTTCTTT
Found at i:55154644 original size:15 final size:14
Alignment explanation
Indices: 55154615--55154693 Score: 78
Period size: 14 Copynumber: 5.7 Consensus size: 14
55154605 CTCTCCTTTG
55154615 CTTTTCTTTTCTTTCT
1 CTTTT-TTTT-TTTCT
55154631 CTTTTTTGTTTTTCT
1 CTTTTTT-TTTTTCT
55154646 C---TTTTTTTTC-
1 CTTTTTTTTTTTCT
55154656 CTTTTCTTTTTTTCT
1 CTTTT-TTTTTTTCT
*
55154671 C-TTTTCTTTTTCT
1 CTTTTTTTTTTTCT
55154684 CTTTTTTTTT
1 CTTTTTTTTT
55154694 GAAAGTGAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
10 1 0.02
11 6 0.11
12 3 0.06
13 10 0.19
14 18 0.33
15 9 0.17
16 7 0.13
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (14 bp):
CTTTTTTTTTTTCT
Found at i:55154650 original size:13 final size:12
Alignment explanation
Indices: 55154619--55154693 Score: 78
Period size: 13 Copynumber: 5.9 Consensus size: 12
55154609 CCTTTGCTTT
*
55154619 TCTTTTCTTTCTC
1 TCTTTT-TTTTTC
*
55154632 TTTTTTGTTTTTC
1 TCTTTT-TTTTTC
*
55154645 TCTTTTTTTTCC
1 TCTTTTTTTTTC
*
55154657 TTTTCTTTTTTTC
1 TCTT-TTTTTTTC
55154670 TCTTTTCTTTTTC
1 TCTTTT-TTTTTC
55154683 TCTTTTTTTTT
1 TCTTTTTTTTT
55154694 GAAAGTGAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
12 15 0.29
13 37 0.71
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (12 bp):
TCTTTTTTTTTC
Found at i:55154660 original size:6 final size:5
Alignment explanation
Indices: 55154610--55154680 Score: 60
Period size: 5 Copynumber: 14.0 Consensus size: 5
55154600 TTGGCCTCTC
*
55154610 CTTTG CTTTT CTTTT CTTTCT CTTTT -TTGTT -TTTCT CTTTT -TTTT
1 CTTTT CTTTT CTTTT CTTT-T CTTTT CTT-TT CTTT-T CTTTT CTTTT
55154655 CCTTTT CTTTT -TTTCT CTTTT CTTTT
1 -CTTTT CTTTT CTTT-T CTTTT CTTTT
55154681 TCTCTTTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
4 10 0.18
5 32 0.56
6 15 0.26
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:55154679 original size:30 final size:30
Alignment explanation
Indices: 55154610--55154681 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
55154600 TTGGCCTCTC
*
55154610 CTTTGCTTTTCTTTTCTTTCTCTTTTTTGTT
1 CTTTTCTTTT-TTTTCTTTCTCTTTTTTGTT
55154641 -TTTCTCTTTTTTTTCCTTT-TCTTTTTT-TCT
1 CTTT-TCTTTTTTTT-CTTTCTCTTTTTTGT-T
55154671 CTTTTCTTTTT
1 CTTTTCTTTTT
55154682 CTCTTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
29 1 0.03
30 23 0.64
31 12 0.33
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (30 bp):
CTTTTCTTTTTTTTCTTTCTCTTTTTTGTT
Found at i:55154686 original size:38 final size:40
Alignment explanation
Indices: 55154615--55154692 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 40
55154605 CTCTCCTTTG
*
55154615 CTTTTCTTTTCTTTCTCTTTTTTGTTTTTCTCTTTTTTTTC
1 CTTTTCTTTTCTTTCTC-TTTTTCTTTTTCTCTTTTTTTTC
55154656 CTTTTCTTTT-TTTCTC-TTTTCTTTTTCTCTTTTTTTT
1 CTTTTCTTTTCTTTCTCTTTTTCTTTTTCTCTTTTTTTT
55154693 TGAAAGTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 20 0.56
40 6 0.17
41 10 0.28
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.79
Consensus pattern (40 bp):
CTTTTCTTTTCTTTCTCTTTTTCTTTTTCTCTTTTTTTTC
Found at i:55154693 original size:40 final size:41
Alignment explanation
Indices: 55154615--55154693 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
55154605 CTCTCCTTTG
*
55154615 CTTTTCTTTTCTTTCTCTTTTTTGTTTTTCTCTTTTTTTTC
1 CTTTTCTTTTCTTTCTCTTTTTTGTTTCTCTCTTTTTTTTC
55154656 CTTTTCTTTT-TTTCTCTTTTCTT-TTTCTCT-TTTTTTTT
1 CTTTTCTTTTCTTTCTCTTTT-TTGTTTCTCTCTTTTTTTT
55154694 GAAAGTGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
39 8 0.22
40 16 0.44
41 12 0.33
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (41 bp):
CTTTTCTTTTCTTTCTCTTTTTTGTTTCTCTCTTTTTTTTC
Found at i:55157236 original size:21 final size:21
Alignment explanation
Indices: 55157210--55157254 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
55157200 GCTGGCTCAT
*
55157210 CATGTTGT-TCTATGACTCCAG
1 CATGTT-TCTCTAGGACTCCAG
*
55157231 CATGTTTCTCTAGGACTCTAG
1 CATGTTTCTCTAGGACTCCAG
55157252 CAT
1 CAT
55157255 TTGATCCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (21 bp):
CATGTTTCTCTAGGACTCCAG
Found at i:55160900 original size:126 final size:125
Alignment explanation
Indices: 55160739--55160981 Score: 434
Period size: 126 Copynumber: 1.9 Consensus size: 125
55160729 GTTTTAGCCT
55160739 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
55160804 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATT-CCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
55160865 TAAGAGGATATTCGAATATTCAAGAA-AAACAAAGAAAGCGAAACCTAGTACGTTAGGGCACGAT
1 TAAGAGGATATTCGAATATTCAA-AACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGAT
*
55160929 TCTTCGAATTCTTTGAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAG
65 TCTTCGAATTCTTTAAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAG
55160982 AAGATCAATG
Statistics
Matches: 113, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
125 24 0.21
126 87 0.77
127 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (125 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:55161461 original size:14 final size:14
Alignment explanation
Indices: 55161442--55161472 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
55161432 ATATATTTAC
*
55161442 ATAATAAATATATA
1 ATAATAAATAAATA
55161456 ATAATAAATAAATA
1 ATAATAAATAAATA
55161470 ATA
1 ATA
55161473 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:55161473 original size:19 final size:18
Alignment explanation
Indices: 55161444--55161480 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
55161434 ATATTTACAT
55161444 AATAAATATATAATAATA
1 AATAAATATATAATAATA
55161462 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
55161481 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:55161817 original size:11 final size:12
Alignment explanation
Indices: 55161792--55161841 Score: 59
Period size: 11 Copynumber: 4.2 Consensus size: 12
55161782 TATGTGTATT
55161792 CTCTAAAAAATTC
1 CTCTAAAAAA-TC
55161805 CTCT-AAAAATC
1 CTCTAAAAAATC
55161816 CTCT-AAAAATC
1 CTCTAAAAAATC
**
55161827 CTCTCCAAAATC
1 CTCTAAAAAATC
55161839 CTC
1 CTC
55161842 CCCAAAATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
11 17 0.49
12 14 0.40
13 4 0.11
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (12 bp):
CTCTAAAAAATC
Found at i:55161868 original size:12 final size:12
Alignment explanation
Indices: 55161821--55161867 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
55161811 AAATCCTCTA
*
55161821 AAAATCCTCTCC
1 AAAATCCTCCCC
55161833 AAAATCCTCCCC
1 AAAATCCTCCCC
55161845 AAAATCCTCCCC
1 AAAATCCTCCCC
55161857 AAAAT-CTCCCC
1 AAAATCCTCCCC
55161868 CCCCATACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 6 0.18
12 28 0.82
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAATCCTCCCC
Found at i:55161949 original size:18 final size:18
Alignment explanation
Indices: 55161926--55161960 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
55161916 TATAACAAGT
55161926 AGGGTGATGGAGGTAGTA
1 AGGGTGATGGAGGTAGTA
55161944 AGGGTGATGGAGGTAGT
1 AGGGTGATGGAGGTAGT
55161961 GGATGGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.51, T:0.23
Consensus pattern (18 bp):
AGGGTGATGGAGGTAGTA
Found at i:55162050 original size:6 final size:7
Alignment explanation
Indices: 55162033--55162061 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
55162023 CTACACCCAC
55162033 TTTTTTA
1 TTTTTTA
55162040 TTTTTTA
1 TTTTTTA
55162047 TTTTTTA
1 TTTTTTA
55162054 TTTTTTA
1 TTTTTTA
55162061 T
1 T
55162062 GTGTGATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:55165722 original size:43 final size:42
Alignment explanation
Indices: 55165644--55165891 Score: 253
Period size: 43 Copynumber: 5.8 Consensus size: 42
55165634 GCGTCGCTAA
* ** *
55165644 CTTTAGCGGCGCCTTTAAAAAAACTCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAAGAC
* * * *
55165686 CTTTAGTGGCGCTTATCGCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCAAGAC
* * * * * ***
55165729 TTTTAGCAGCGCTTTTCCAGAAATGCCACTAAAGACTTGGAC
1 CTTTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAAGAC
*
55165771 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACAAGAC
1 CTTTAGCGGCGCTTTT-CCAAAAACGCCGCTAAAGACCAAGAC
* * * *
55165814 ATTTAGCGACGCTTTTCCCAAAAATGCCGCTAAAGAACAAGAC
1 CTTTAGCGGCGCTTTT-CCAAAAACGCCGCTAAAGACCAAGAC
* *
55165857 CTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAG
1 CTTTAGCGGCGCTTTTCC-AAAAACGCCGCTAAAG
55165892 GTCTACTAAA
Statistics
Matches: 171, Mismatches: 32, Indels: 5
0.82 0.15 0.02
Matches are distributed among these distances:
42 49 0.29
43 122 0.71
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAAGAC
Found at i:55165772 original size:85 final size:85
Alignment explanation
Indices: 55165672--55165891 Score: 266
Period size: 85 Copynumber: 2.6 Consensus size: 85
55165662 AAAAACTCCG
* * * * * *
55165672 CTAAAGACCAAGACCTTTAGTGGCGCTTATCGCACAAACGCCGCTAAAGACCAGGACTTTTAGC-
1 CTAAAGAACAAGACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGAACAAGACATTTAGCG
*
55165736 AGCGCTTTT-CCAGAAATGCCA
65 A-CGCTTTTCCCAAAAATGCCA
** *
55165757 CTAAAG-ACTTGGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACAAGACATTTAGC
1 CTAAAGAAC-AAGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGAACAAGACATTTAGC
*
55165821 GACGCTTTTCCCAAAAATGCCG
64 GACGCTTTTCCCAAAAATGCCA
*
55165843 CTAAAGAACAAGACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAG
1 CTAAAGAACAAGACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAG
55165892 GTCTACTAAA
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
84 1 0.01
85 60 0.53
86 51 0.45
87 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (85 bp):
CTAAAGAACAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAACAAGACATTTAGCGA
CGCTTTTCCCAAAAATGCCA
Found at i:55165827 original size:128 final size:127
Alignment explanation
Indices: 55165644--55165874 Score: 302
Period size: 128 Copynumber: 1.8 Consensus size: 127
55165634 GCGTCGCTAA
* * * * * * *
55165644 CTTTAGCGGCGCCTTTAAAAAAACTCCGCTAAAGACCAAGACCTTTAGTGGCGCTTATCGCACAA
1 CTTTAGCGGCGCCTTTAAAAAAACGCCGCTAAAGAACAAGACATTTAGCGACGCTTATCCCAAAA
* * *
55165709 ACGCCGCTAAAGACCAGGACTTTTAGC-AGCGCTTTTCCAGAAATGCCACTAAAGACTTGGAC
66 ACGCCGCTAAAGAACAAGACCTTTAGCGA-CGCTTTTCCAGAAATGCCACTAAAGACTTGGAC
* ** *
55165771 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACAAGACATTTAGCGACGCTTTTCCCAAA
1 CTTTAGCGGCGCCTTT-AAAAAAACGCCGCTAAAGAACAAGACATTTAGCGACGCTTATCCCAAA
*
55165836 AATGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCC
65 AACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCC
55165875 TACAAACGCC
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
127 15 0.17
128 71 0.82
129 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (127 bp):
CTTTAGCGGCGCCTTTAAAAAAACGCCGCTAAAGAACAAGACATTTAGCGACGCTTATCCCAAAA
ACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCAGAAATGCCACTAAAGACTTGGAC
Found at i:55167834 original size:7 final size:7
Alignment explanation
Indices: 55167826--55167864 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
55167816 TTATTTACCT
*
55167826 CTAACCT
1 CTAACCC
55167833 CTAACCC
1 CTAACCC
55167840 CTAACCC
1 CTAACCC
**
55167847 CTAACTA
1 CTAACCC
55167854 CTAACCC
1 CTAACCC
55167861 CTAA
1 CTAA
55167865 ACCTTATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAACCC
Found at i:55167976 original size:61 final size:62
Alignment explanation
Indices: 55167854--55167983 Score: 208
Period size: 61 Copynumber: 2.1 Consensus size: 62
55167844 CCCCTAACTA
* *
55167854 CTAACCCCTAAACCTTATTTAATATGTAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
1 CTAACCCATAAACCTTATTTAATA-GTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
*
55167917 CTAACCCATAAACCTTATTTAATA-TAAATTAAAATACACTAATTAATCTAAACCATAAACC
1 CTAACCCATAAACCTTATTTAATAGTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
*
55167978 TTAACC
1 CTAACC
55167984 TAACACCGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 40 0.63
63 23 0.37
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (62 bp):
CTAACCCATAAACCTTATTTAATAGTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
Found at i:55168166 original size:14 final size:14
Alignment explanation
Indices: 55168147--55168180 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
55168137 CTAAATTAAT
55168147 CATATACCCCAAAC
1 CATATACCCCAAAC
55168161 CATATACCCCAAAC
1 CATATACCCCAAAC
55168175 CATATA
1 CATATA
55168181 TATTAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (14 bp):
CATATACCCCAAAC
Found at i:55168477 original size:20 final size:19
Alignment explanation
Indices: 55168436--55168479 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
55168426 AATTTTAATT
* *
55168436 AATATAAATAAACATATTA
1 AATATAAATAAACAGATAA
*
55168455 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAGATAA
55168475 AATAT
1 AATAT
55168480 TTTTGTGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (19 bp):
AATATAAATAAACAGATAA
Found at i:55168559 original size:41 final size:41
Alignment explanation
Indices: 55168486--55168790 Score: 382
Period size: 41 Copynumber: 7.7 Consensus size: 41
55168476 ATATTTTTGT
*
55168486 GGCGCTTTTTTAAAAA---CGCTAAAGCCCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
55168524 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
55168565 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
*** * *
55168606 GGCGC-TCCCCAAAAACGCTGCTAAAGCCTTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
*
55168646 GGCGC---TT-----ACGCCGCTAAAGACCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* *
55168679 GGCGCTTTTCCAAAAATGCCGCTAAAGCCCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
*** *
55168720 GGCGCTTCCACAAAAACGCCGCTAAAGCCTTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
* * *
55168761 AGCGCTTTTTTAAAAACGCCACTAAAGCCC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCC
55168791 CAAAAGGTCT
Statistics
Matches: 230, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
33 28 0.12
36 1 0.00
38 15 0.07
40 35 0.15
41 151 0.66
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGC
Found at i:55168672 original size:33 final size:33
Alignment explanation
Indices: 55168620--55168685 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
55168610 CTCCCCAAAA
*
55168620 ACGCTGCTAAAGCCTTGAGCATTAGCGGCGCTT
1 ACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTT
55168653 ACGCCGCTAAAGACC-TGAGCATTAGCGGCGCTT
1 ACGCCGCTAAAG-CCTTGAGCATTAGCGGCGCTT
55168686 TTCCAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (33 bp):
ACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTT
Found at i:55168723 original size:74 final size:73
Alignment explanation
Indices: 55168580--55168726 Score: 231
Period size: 74 Copynumber: 2.0 Consensus size: 73
55168570 TTTTTCAAAA
* * *
55168580 ACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTCCCCAAAAACGCTGCTAAAGCCTTGAGCATTAG
1 ACGCCGCTAAAGACCTGAGCATTAGCGGCGCTCCCCAAAAACGCCGCTAAAGCCCTGAGCATTAG
55168645 CGGCGCTT
66 CGGCGCTT
** *
55168653 ACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTTCCAAAAATGCCGCTAAAGCCCTGAGCATTA
1 ACGCCGCTAAAGACCTGAGCATTAGCGGCGC-TCCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
55168718 GCGGCGCTT
65 GCGGCGCTT
55168727 CCACAAAAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 30 0.45
74 37 0.55
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.19
Consensus pattern (73 bp):
ACGCCGCTAAAGACCTGAGCATTAGCGGCGCTCCCCAAAAACGCCGCTAAAGCCCTGAGCATTAG
CGGCGCTT
Found at i:55174154 original size:93 final size:93
Alignment explanation
Indices: 55174042--55174213 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
55174032 CGCCCATAAG
*
55174042 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
55174106 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
55174135 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55174200 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55174214 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55174208 original size:46 final size:46
Alignment explanation
Indices: 55174035--55174210 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
55174025 TGTAACCCGC
* *
55174035 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
55174081 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55174131 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55174174 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55174211 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55181194 original size:93 final size:93
Alignment explanation
Indices: 55181086--55181257 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
55181076 CGCCCATAAG
*
55181086 CGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
55181150 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* * *
55181179 CGAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55181244 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55181258 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55181252 original size:46 final size:45
Alignment explanation
Indices: 55181080--55181254 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
55181070 GTAACCCGCC
* *
55181080 CATAAGCGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
55181125 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 -CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
55181175 C-TCA-CGAACTCAGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55181218 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 C-ATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
55181255 TGCTCAATCA
Statistics
Matches: 105, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 4 0.04
46 57 0.54
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55181273 original size:46 final size:44
Alignment explanation
Indices: 55181130--55181273 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
55181120 CGCATCCATA
*
55181130 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-AT-CATCT
* * * * *
55181177 CA-CGAACTCAGACTCAACTCAATGAGTTCGGACATTCGC-ATCTAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAATC-ATCT
55181223 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAATCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAATCAT-CT
55181269 AGTGA
1 AGTGA
55181274 CATGTCACTT
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
44 6 0.08
45 4 0.05
46 32 0.42
47 29 0.38
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAATCATCT
Found at i:55187528 original size:18 final size:18
Alignment explanation
Indices: 55187505--55187549 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
55187495 TAGTGTAGAA
55187505 AACCCTAGTGTGCAACCC
1 AACCCTAGTGTGCAACCC
* *
55187523 AACCCTAGTGTGCCACCT
1 AACCCTAGTGTGCAACCC
55187541 AACCCTAGT
1 AACCCTAGT
55187550 ATATAACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.20
Consensus pattern (18 bp):
AACCCTAGTGTGCAACCC
Found at i:55195035 original size:50 final size:52
Alignment explanation
Indices: 55194975--55195108 Score: 170
Period size: 49 Copynumber: 2.7 Consensus size: 52
55194965 TGAGATGTGT
* * ** *
55194975 CAGTGTAAGACCATGTCTAGGACATGGCATCGGTAGGGTC-ATG-TGAGAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGTAGCCTCGAAGATGAGAGC
* *
55195025 TAGTGTAAGACCATGTTTGGGACATGGCATC-G--GCCTCGAAGATGATAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGTAGCCTCGAAGATGAGAGC
55195074 CAGTGTAAGACCATGTTTGGGACATGGCATCGGTA
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGTA
55195109 CTTTACCCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
47 3 0.04
48 2 0.03
49 37 0.52
50 29 0.41
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (52 bp):
CAGTGTAAGACCATGTTTGGGACATGGCATCGGTAGCCTCGAAGATGAGAGC
Found at i:55202903 original size:39 final size:40
Alignment explanation
Indices: 55202808--55203030 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
55202798 TTGAATGATG
*
55202808 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
55202846 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
55202887 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
55202926 TCCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
55202965 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
55203004 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
55203031 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 92 0.57
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:55202993 original size:79 final size:80
Alignment explanation
Indices: 55202808--55203030 Score: 280
Period size: 79 Copynumber: 2.8 Consensus size: 80
55202798 TTGAATGATG
* *
55202808 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGA-CCGAAGGCAT
*
55202870 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
55202887 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAGACCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCGAAGGCATT
*
55202949 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
55202965 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAG-ACCGAAGGCATT
55203029 TG
65 TG
55203031 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 57 0.45
80 24 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:55203052 original size:79 final size:79
Alignment explanation
Indices: 55202808--55203063 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
55202798 TTGAATGATG
* * *
55202808 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAGA-CCGAAGGCA
** *
55202869 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
55202887 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGACCGAAGGCATTTG
** *
55202951 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
55202965 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-ACCGAAGGCAT
*
55203028 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
55203045 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55203064 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 70 0.46
80 35 0.23
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGACCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:55210869 original size:39 final size:40
Alignment explanation
Indices: 55210774--55210996 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
55210764 TTGAATGATG
*
55210774 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
55210812 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
55210853 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
55210892 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
55210931 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
55210970 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
55210997 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:55210960 original size:79 final size:81
Alignment explanation
Indices: 55210774--55210996 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
55210764 TTGAATGATG
* * *
55210774 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
55210836 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
55210853 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
55210914 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
55210931 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
55210995 TG
66 TG
55210997 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:55211018 original size:79 final size:79
Alignment explanation
Indices: 55210774--55211029 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
55210764 TTGAATGATG
* * * *
55210774 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
55210835 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
55210853 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
55210917 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
55210931 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
55210994 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
55211011 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55211030 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:55213717 original size:46 final size:46
Alignment explanation
Indices: 55213659--55213831 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 46
55213649 TCATTTGTGT
* * *
55213659 GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGCCATATTATA-A
1 GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGACAT-TGAGACA
* *
55213705 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATTGAGACGA
1 GAGCTAGTGTAAGA-TATGTCTGGGACAT-GCATCAGACATTGAGAC-A
* * * * *
55213753 GTGCTAGTGTAAGATATATCTGGGACATGCATCA-ACCTCGGGAC-
1 GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGACATTGAGACA
* * *
55213797 GTAAGCCAGTATAAGACATGTCTGGGACATGCATC
1 G--AGCTAGTGTAAGATATGTCTGGGACATGCATC
55213832 GGCTACGAGA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
46 55 0.53
47 29 0.28
48 18 0.17
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGACATTGAGACA
Found at i:55213775 original size:47 final size:46
Alignment explanation
Indices: 55213659--55213786 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 46
55213649 TCATTTGTGT
* * *
55213659 GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGCCATATTATAA
1 GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGACATATGAGAA
* *
55213705 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACAT-TGAGACGA
1 GAGCTAGTGTAAGA-TATGTCTGGGACAT-GCATCAGACATATGAGA--A
* *
55213753 GTGCTAGTGTAAGATATATCTGGGACATGCATCA
1 GAGCTAGTGTAAGATATGTCTGGGACATGCATCA
55213787 ACCTCGGGAC
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
46 21 0.31
47 29 0.43
48 18 0.26
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGACATATGAGAA
Found at i:55213918 original size:50 final size:52
Alignment explanation
Indices: 55213851--55213978 Score: 149
Period size: 49 Copynumber: 2.6 Consensus size: 52
55213841 ATGTGTCAGT
* ** * * *
55213851 GTAAGACCATGTCTGGGACATGGCATCGGCAGGGT-TATG-TGAGAGCTAGC
1 GTAAGACCATGTTTGGGACATGGCATCGGCAGCCTCGAAGATGAGAGCCAGC
* *
55213901 GTAAGACCATGTTTGGGACATGGCA-C--CAGCCTCGAAGATGATAGCCAGT
1 GTAAGACCATGTTTGGGACATGGCATCGGCAGCCTCGAAGATGAGAGCCAGC
55213950 GTAAGACCATGTTTGGGACATGGCATCGG
1 GTAAGACCATGTTTGGGACATGGCATCGG
55213979 TACTTTACCC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
47 4 0.06
48 2 0.03
49 34 0.52
50 25 0.38
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (52 bp):
GTAAGACCATGTTTGGGACATGGCATCGGCAGCCTCGAAGATGAGAGCCAGC
Found at i:55215526 original size:30 final size:30
Alignment explanation
Indices: 55215459--55215526 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
55215449 TAAAAATTGA
* * *
55215459 TTTAAAGCCTAGGGGTAAAATTGTAAATTT
1 TTTAAAGTCTAGGGGCAAAATGGTAAATTT
* * * *
55215489 GTGAAAGTCTAGGGGCAAAATGGTCATTTT
1 TTTAAAGTCTAGGGGCAAAATGGTAAATTT
55215519 TTTAAAGT
1 TTTAAAGT
55215527 ATAAATTATG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTAAAGTCTAGGGGCAAAATGGTAAATTT
Found at i:55218934 original size:28 final size:29
Alignment explanation
Indices: 55218901--55218969 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
55218891 ATGTGATTGA
* * *
55218901 GAGAAAATGAGAGAAG-AAAATATGTTTG
1 GAGAAAATGAGAGAAGAAAAAGAGGTTGG
55218929 GAGAAAATGAGAGAAGAAAAAGAGGTTGG
1 GAGAAAATGAGAGAAGAAAAAGAGGTTGG
55218958 GAGAAAATGAGA
1 GAGAAAATGAGA
55218970 AAACAAGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.14
Consensus pattern (29 bp):
GAGAAAATGAGAGAAGAAAAAGAGGTTGG
Found at i:55219585 original size:14 final size:14
Alignment explanation
Indices: 55219574--55219604 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
55219564 TTGAAAATAG
*
55219574 TTTCTGGAAAATGA
1 TTTCTAGAAAATGA
55219588 TTTCTAGAAAATGA
1 TTTCTAGAAAATGA
55219602 TTT
1 TTT
55219605 TTTTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTCTAGAAAATGA
Found at i:55238982 original size:17 final size:18
Alignment explanation
Indices: 55238955--55238996 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
55238945 GATCGACTAC
55238955 CTTTA-TTTTTT-TTGAA
1 CTTTATTTTTTTGTTGAA
*
55238971 CTTTATTTTTTTGTTGTA
1 CTTTATTTTTTTGTTGAA
55238989 C-TTATTTT
1 CTTTATTTT
55238997 CCTCTTCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 13 0.57
18 5 0.22
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (18 bp):
CTTTATTTTTTTGTTGAA
Found at i:55240821 original size:40 final size:40
Alignment explanation
Indices: 55240784--55241007 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
55240774 GCTACTCGTT
* *
55240784 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
55240824 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55240864 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
55240904 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
55240943 CAAATGCCTTC-GGATCTT-AGTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
55240983 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
55241008 CATCATTCGA
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.31
40 106 0.67
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:55241001 original size:79 final size:79
Alignment explanation
Indices: 55240784--55241007 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 79
55240774 GCTACTCGTT
* * * * *
55240784 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
55240849 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
55240864 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
55240928 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * *
55240943 CAAATGCCTTC-GGATCTT-AGTCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
55241006 GA
64 GA
55241008 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 26 0.21
79 51 0.41
80 45 0.36
81 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:55242204 original size:56 final size:56
Alignment explanation
Indices: 55242137--55242256 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
55242127 TATTAGTTTA
55242137 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
55242193 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
55242249 TTGCCCAT
1 TTGCCCAT
55242257 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:55248857 original size:76 final size:80
Alignment explanation
Indices: 55248699--55248867 Score: 247
Period size: 76 Copynumber: 2.2 Consensus size: 80
55248689 GCTACTCGTT
* *
55248699 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
55248764 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * *
55248779 CAAATGCCTTCGGGACTTAACCC-ATT-TAGTAACTCGCACCAATGCCTT-GGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
55248840 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
55248855 CAAATGCCTTCGG
1 CAAATGCCTTCGG
55248868 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
76 35 0.43
77 3 0.04
78 21 0.26
79 2 0.02
80 21 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:55248880 original size:116 final size:118
Alignment explanation
Indices: 55248701--55248913 Score: 283
Period size: 116 Copynumber: 1.8 Consensus size: 118
55248691 TACTCGTTCA
*
55248701 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
55248766 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCATTTAGTAACTCGCACC
* * **
55248819 AATGCCTT-GGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
55248880 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
55248914 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
115 4 0.05
116 60 0.72
117 11 0.13
118 8 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (118 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCATTTAGTAACTCGCACC
Found at i:55248920 original size:40 final size:40
Alignment explanation
Indices: 55248680--55248920 Score: 264
Period size: 40 Copynumber: 6.1 Consensus size: 40
55248670 CGGAATTTAA
** *
55248680 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55248720 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55248760 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55248800 CC--ATTTAGTAACTCGCACCAATGCCTT-GGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55248836 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55248876 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55248916 CCGGA
1 CCGGA
55248921 CATCATTCGA
Statistics
Matches: 173, Mismatches: 18, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
36 7 0.04
37 3 0.02
38 47 0.27
39 1 0.01
40 103 0.60
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55250111 original size:56 final size:56
Alignment explanation
Indices: 55250044--55250163 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
55250034 TATTAGTTTA
55250044 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
55250100 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
55250156 TTGCCCAT
1 TTGCCCAT
55250164 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:55252396 original size:94 final size:91
Alignment explanation
Indices: 55252297--55252925 Score: 450
Period size: 94 Copynumber: 6.7 Consensus size: 91
55252287 ATTCCAACCT
* * *
55252297 ACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATTTTGCTCTACTGCAACTTCATGGAGATAA
1 ACTGCAACTTCAAGGATATAGGATTT-TAGCTTCATCTTGCTCCACTGCAACTTCA-GGAGATAA
* * * * *
55252362 GATTCACTATGGTAGCTTCGATACAATCC
64 GATTGA-TATTGTAACTTCGATCCGATCC
* * ** * * * * *
55252391 ACTGCATCTTCAAGGTTATAATATTTGTAGCTTCATCTTACTCTAATACAACTTTAGGGAGATAA
1 ACTGCAACTTCAAGGATATAGGATTT-TAGCTTCATCTTGCTCCACTGCAACTTCA-GGAGATAA
* * *
55252456 TATTTGATATTATAGCATT-GATCCGATCC
64 GA-TTGATATTGTAAC-TTCGATCCGATCC
* * * *
55252485 ACTGTATCTT-TAGAGATATAGGA-TTTACGACTTCATCTTGCTCCATTGCAACTTCAAGGAGAT
1 ACTGCAACTTCAAG-GATATAGGATTTTA-G-CTTCATCTTGCTCCACTGCAACTTC-AGGAGAT
* *
55252548 AAGATTTGGTA--CTAACTTCGATCCGATCC
62 AAGA-TTGATATTGTAACTTCGATCCGATCC
* * * *
55252577 ACTGCATCTTCAGGGATATAGGA-TTTAGCTTCATCTTGCTCCGCTACAACTTCAGAGAGATAAG
1 ACTGCAACTTCAAGGATATAGGATTTTAGCTTCATCTTGCTCCACTGCAACTTCAG-GAGATAAG
* *
55252641 ATTTGATATTTTAACTTTGATCCGATCC
65 A-TTGATATTGTAACTTCGATCCGATCC
* * * * *
55252669 A-TTCAATCTTCAAGGATATATGATTCATAGCTTTATCTTGCTCCACTGCAACTTTAGTGAGATA
1 ACTGCAA-CTTCAAGGATATAGGATT-TTAGCTTCATCTTGCTCCACTGCAACTTCAG-GAGATA
* * * * *
55252733 AGATTTGCTATAGTAATTTC-ATTCTGACCC
63 AGA-TTGATATTGTAACTTCGA-TCCGATCC
* * * *
55252763 ACTTCAACCTCAAAGATATAGGATTTATAGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAA
1 ACTGCAACTTCAAGGATATAGGATTT-TAGCTTCATCTTGCTCCACTGCAACTTCA-GGAGATAA
* ** * *
55252828 GATTTGCA-ATAGTAA-TTTTATTCTGACCC
64 GA-TTG-ATATTGTAACTTCGA-TCCGATCC
* * * * *
55252857 ACTGCAACTTCAGGGAGATAGGATTTTTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATTA
1 ACTGCAACTTCAAGGATATAGGA-TTTTAGCTTCATCTTGCTCCACTGCAACTTCA-GGAGATAA
55252922 GATT
64 GATT
55252926 TGCCATTTCA
Statistics
Matches: 440, Mismatches: 74, Indels: 43
0.79 0.13 0.08
Matches are distributed among these distances:
89 2 0.00
90 37 0.08
91 6 0.01
92 68 0.15
93 12 0.03
94 300 0.68
95 15 0.03
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (91 bp):
ACTGCAACTTCAAGGATATAGGATTTTAGCTTCATCTTGCTCCACTGCAACTTCAGGAGATAAGA
TTGATATTGTAACTTCGATCCGATCC
Found at i:55252647 original size:184 final size:185
Alignment explanation
Indices: 55252304--55252927 Score: 532
Period size: 188 Copynumber: 3.3 Consensus size: 185
55252294 CCTACTGCAA
* * * * *
55252304 CTTCAAGGGTATAGGATTTGTAGCTTCATTTTGCTCTACTGCAACTTCATGGAGATAAGATTCAC
1 CTTCAAGGATATAGGA-TTATAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATT---
* * * * * ** * *
55252369 T-ATGGTAGCTTCGATACAATCCACTGCATCTTCAAGGTTATAATATTTGTAGCTTCATCTTACT
62 TGATAGTAACTTCGATCCGATCCACTGCATCTTCAAGGATATAGGATTTATAGCTTCATCTTGCT
* * * * * **
55252433 CTAATACAACTTTAGGGAGATAATATTTGATATTATAGCATTGATCCGATCCACTGTAT
127 CCACTACAACTTCAGGGAGATAAGATTTGATATTATAACATTGATCCGATCCACTCAAT
* *
55252492 CTT-TAGAGATATAGGATT-TACGACTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTT
1 CTTCAAG-GATATAGGATTATA-G-CTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTT
* * *
55252555 GGTACTAACTTCGATCCGATCCACTGCATCTTCAGGGATATAGGA-TT-TAGCTTCATCTTGCTC
63 GATAGTAACTTCGATCCGATCCACTGCATCTTCAAGGATATAGGATTTATAGCTTCATCTTGCTC
* * * * *
55252618 CGCTACAACTTCAGAGAGATAAGATTTGATATTTTAACTTTGATCCGATCCATTCAAT
128 CACTACAACTTCAGGGAGATAAGATTTGATATTATAACATTGATCCGATCCACTCAAT
* * *
55252676 CTTCAAGGATATATGATTCATAGCTTTATCTTGCTCCACTGCAACTT-TAGTGAGATAAGATTTG
1 CTTCAAGGATATAGGATT-ATAGCTTCATCTTGCTCCACTGCAACTTCAAG-GAGATAAGATTTG
* * * * * * *
55252740 CTATAGTAATTTC-ATTCTGACCCACTTCAACCTCAAAGATATAGGATTTATAGCTTCATCTTGC
64 --ATAGTAACTTCGA-TCCGATCCACTGCATCTTCAAGGATATAGGATTTATAGCTTCATCTTGC
** * * * *
55252804 TCCACTGTAACTTCAGGGAGATAAGATTTGCA-A-TAGTAA-TTTTATTCTGACCCACTGCAA-
126 TCCACTACAACTTCAGGGAGATAAGATTTG-ATATTA-TAACATTGA-TCCGATCCACT-CAAT
* * * * * * *
55252864 CTTCAGGGAGATAGGATTTTTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATTAGATTTG
1 CTTCAAGGATATAGGA-TTATAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTG
55252928 CCATTTCAAC
Statistics
Matches: 355, Mismatches: 62, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
183 2 0.01
184 109 0.31
185 7 0.02
186 70 0.20
187 12 0.03
188 148 0.42
189 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (185 bp):
CTTCAAGGATATAGGATTATAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGAT
AGTAACTTCGATCCGATCCACTGCATCTTCAAGGATATAGGATTTATAGCTTCATCTTGCTCCAC
TACAACTTCAGGGAGATAAGATTTGATATTATAACATTGATCCGATCCACTCAAT
Found at i:55252832 original size:44 final size:44
Alignment explanation
Indices: 55252515--55252926 Score: 174
Period size: 50 Copynumber: 8.9 Consensus size: 44
55252505 GGATTTACGA
* * *
55252515 CTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGGTACTAA
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA-TT--TA-TAG
* * * * *
55252563 CTTCGATC-CGATCCACTGCATCTTCAGGGATATAGGA-TT-TAG
1 CTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAG
* * *
55252605 CTTCATCTTGCTCCGCTACAACTTCAGAGAGATAAGATTTGATA-
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTT-ATAG
* * * * * * * * *
55252649 TTTTAACTTTGATCCGATCCATTCAATCTTCAAGGATATATGATTCATAG
1 CTTCATC-TTGCTCC-A--C-TGCAA-CTTCAGGGAGATAAGATTTATAG
* * *
55252699 CTTTATCTTGCTCCACTGCAACTTTAGTGAGATAAGATTTGCTATAG
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA-TT--TATAG
* * * ** * *
55252746 TAATTTCAT-TCTGAC-CCACTTCAACCTCAAAGATATAGGATTTATAG
1 ---CTTCATCT-TG-CTCCACTGCAACTTCAGGGAGATAAGATTTATAG
*
55252793 CTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCAATAG
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTT---ATAG
* * * *
55252840 TAATTTTAT-TCTGAC-CCACTGCAACTTCAGGGAGATAGGATTTTTAG
1 ---CTTCATCT-TG-CTCCACTGCAACTTCAGGGAGATAAGATTTATAG
* * *
55252887 CTTCATCTTGCTCCACTACAACTTTAGGGAGATTAGATTT
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTT
55252927 GCCATTTCAA
Statistics
Matches: 267, Mismatches: 65, Indels: 68
0.67 0.16 0.17
Matches are distributed among these distances:
41 3 0.01
42 27 0.10
43 4 0.01
44 74 0.28
45 16 0.06
46 2 0.01
47 16 0.06
48 28 0.10
49 20 0.07
50 75 0.28
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (44 bp):
CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAG
Found at i:55253202 original size:13 final size:13
Alignment explanation
Indices: 55253184--55253210 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55253174 AATCCTATTG
55253184 AGTCTATTTTTAC
1 AGTCTATTTTTAC
55253197 AGTCTATTTTTAC
1 AGTCTATTTTTAC
55253210 A
1 A
55253211 TATAAGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (13 bp):
AGTCTATTTTTAC
Found at i:55254419 original size:64 final size:64
Alignment explanation
Indices: 55254292--55254420 Score: 141
Period size: 64 Copynumber: 2.0 Consensus size: 64
55254282 CGAGCATCTC
* * * * * * *
55254292 GATTGGTATTGATCCTGCATGTGTTACGGACATACCGCAGCTCTTTGTGAGCATCCTGTTATAT
1 GATTGGTATTGATCCTGCATATATTACGGACATACCACAGCTCTTTATAAGCATCCCGATATAT
* * ** **
55254356 GATTTGTATTGATCTTGCATATATTGTGGACATACCACAGCTCTTTATAAGTGTCCCGATATAT
1 GATTGGTATTGATCCTGCATATATTACGGACATACCACAGCTCTTTATAAGCATCCCGATATAT
55254420 G
1 G
55254421 GCTCTTCATG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (64 bp):
GATTGGTATTGATCCTGCATATATTACGGACATACCACAGCTCTTTATAAGCATCCCGATATAT
Found at i:55265711 original size:29 final size:29
Alignment explanation
Indices: 55265648--55265715 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
55265638 TAATCAACCA
55265648 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
55265677 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
55265706 CGCACACTTA
1 CGCACACTTA
55265716 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:55265856 original size:29 final size:30
Alignment explanation
Indices: 55265817--55265895 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
55265807 CTTAATAATC
55265817 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
55265847 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
55265876 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
55265896 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:55274566 original size:49 final size:47
Alignment explanation
Indices: 55274484--55274592 Score: 182
Period size: 49 Copynumber: 2.3 Consensus size: 47
55274474 CTTACTTTGA
55274484 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
55274531 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
55274580 GAATGTGATAAGT
1 GAATGTGA-AAGT
55274593 CCCGAAGGGC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
47 13 0.22
49 41 0.71
50 4 0.07
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:55274779 original size:37 final size:37
Alignment explanation
Indices: 55274710--55274788 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
55274700 CCGAGCTCTA
* * * *
55274710 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGAGTGGAGATTATGTCCGGGT
*
55274747 AAGACCCGATAACTTCGAGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGAGTGGAGATTATGTCCGGGT
55274784 AAGAC
1 AAGAC
55274789 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGAGTGGAGATTATGTCCGGGT
Found at i:55291671 original size:33 final size:35
Alignment explanation
Indices: 55291629--55291713 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 35
55291619 TGCACAGCTA
*
55291629 AAAATCCCTTATTTTCCCCTAAACA-ATAA-CCCC
1 AAAATCCCTTATTTTCCCCTAAAAACATAATCCCC
*
55291662 AAAATCCCTTATTTTTTCCCCTAAAAATCATAATCTCC
1 AAAATCCCTTA--TTTTCCCCTAAAAA-CATAATCCCC
55291700 -AAATCCCTTATTTT
1 AAAATCCCTTATTTT
55291714 TTCCCCAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
33 11 0.24
35 17 0.38
37 14 0.31
38 3 0.07
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.35
Consensus pattern (35 bp):
AAAATCCCTTATTTTCCCCTAAAAACATAATCCCC
Found at i:55291711 original size:37 final size:35
Alignment explanation
Indices: 55291629--55291719 Score: 116
Period size: 37 Copynumber: 2.6 Consensus size: 35
55291619 TGCACAGCTA
*
55291629 AAAATCCCTTA--TTTTCCCCTAAACAATAACCCC
1 AAAATCCCTTATTTTTTCCCCTAAAAAATAACCCC
*
55291662 AAAATCCCTTATTTTTTCCCCTAAAAATCATAATCTCC
1 AAAATCCCTTATTTTTTCCCCTAAAAA--ATAA-CCCC
55291700 -AAATCCCTTATTTTTTCCCC
1 AAAATCCCTTATTTTTTCCCC
55291720 AAATCAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
33 11 0.22
35 13 0.25
37 24 0.47
38 3 0.06
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (35 bp):
AAAATCCCTTATTTTTTCCCCTAAAAAATAACCCC
Found at i:55291919 original size:27 final size:27
Alignment explanation
Indices: 55291889--55291944 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
55291879 GCTACAAGAT
55291889 TTAATGGATGCTTAGCCCTAAAATTGC
1 TTAATGGATGCTTAGCCCTAAAATTGC
* *
55291916 TTAATGGATGTTTAGCCTTAAAATTGC
1 TTAATGGATGCTTAGCCCTAAAATTGC
55291943 TT
1 TT
55291945 GTTCTTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (27 bp):
TTAATGGATGCTTAGCCCTAAAATTGC
Found at i:55292500 original size:29 final size:29
Alignment explanation
Indices: 55292467--55292525 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
55292457 ATTTTGGTAC
55292467 TTGCATTTAACTTGGAAAATATAAAAATT
1 TTGCATTTAACTTGGAAAATATAAAAATT
55292496 TTGCATTTAACTTGGAAAATATAAAAATT
1 TTGCATTTAACTTGGAAAATATAAAAATT
55292525 T
1 T
55292526 GGAGATTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (29 bp):
TTGCATTTAACTTGGAAAATATAAAAATT
Found at i:55295952 original size:9 final size:9
Alignment explanation
Indices: 55295938--55295972 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
55295928 TTTATTTTTA
*
55295938 ATTATTGAT
1 ATTATTAAT
55295947 ATTATTAAT
1 ATTATTAAT
55295956 ATTATTAAT
1 ATTATTAAT
55295965 ATTATTAA
1 ATTATTAA
55295973 GTGATTATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
ATTATTAAT
Found at i:55304209 original size:42 final size:42
Alignment explanation
Indices: 55304121--55304274 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 42
55304111 CTGAGACTAT
* * * ** *
55304121 GTGTAAGACCATATCTAGGATATGGCATCAACGTGAAACTTT-
1 GTGTAAGACCATATTTGGGATATGGCATCGATATGAGA-TTTC
*
55304163 GTGTAAGACCATATTTGCGATATGGCATCGATATGAGATTTC
1 GTGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTC
** * * **
55304205 GTGT-AGACCATAGCTGGGCTATTGCCATCGATATGAGATCCC
1 GTGTAAGACCATATTTGGGATA-TGGCATCGATATGAGATTTC
*
55304247 ATGTAAGACCATATTTGGGATATGGCAT
1 GTGTAAGACCATATTTGGGATATGGCAT
55304275 TGCTATGATA
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 16 0.18
42 60 0.67
43 14 0.16
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTC
Found at i:55309180 original size:42 final size:41
Alignment explanation
Indices: 55309030--55309182 Score: 110
Period size: 42 Copynumber: 3.7 Consensus size: 41
55309020 AATAAGATGC
* * * * * *
55309030 CAACGTCATGTCCCAGACGTGGTCTTACATGGGATCTCACAT
1 CAACGCCATATCCCAGACATGGTCTTACA-CGAATCTCATAT
* * * * * *
55309072 CGATGCCATATCCCAGATATGGTCTTATACGAAT-TCTTGCT
1 CAACGCCATATCCCAGACATGGTCTTACACGAATCTCAT-AT
* ** * *
55309113 CGATTCCATGTCTCAGACATGGTCTTACACGAAATCTCATAT
1 CAACGCCATATCCCAGACATGGTCTTACACG-AATCTCATAT
*
55309155 CAACGCCATATCCCAGATATGGTCTTAC
1 CAACGCCATATCCCAGACATGGTCTTAC
55309183 TTAATAACTC
Statistics
Matches: 83, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
40 2 0.02
41 30 0.36
42 48 0.58
43 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (41 bp):
CAACGCCATATCCCAGACATGGTCTTACACGAATCTCATAT
Done.