Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 72 of 433
Found at i:20839503 original size:21 final size:22
Alignment explanation
Indices: 20839486--20839541 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
20839476 AGAAAATTCA
20839486 ATCAAAT-TAGAATTAAATAAG
1 ATCAAATATAGAATTAAATAAG
*
20839507 ATCAAATATAGAATTGAA-AAG
1 ATCAAATATAGAATTAAATAAG
20839528 ATTC-AATATA-AATT
1 A-TCAAATATAGAATT
20839542 TGATGTTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.12
21 17 0.53
22 11 0.34
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.30
Consensus pattern (22 bp):
ATCAAATATAGAATTAAATAAG
Found at i:20842126 original size:40 final size:40
Alignment explanation
Indices: 20842069--20842253 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
20842059 TCGAATGATG
*
20842069 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATA
* *
20842109 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTATA
* * *
20842148 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
*
20842188 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
* * *
20842228 ACCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20842254 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 83 0.66
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
Found at i:20842205 original size:79 final size:81
Alignment explanation
Indices: 20842069--20842251 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
20842059 TCGAATGATG
* *
20842069 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
20842133 TGTGCGAGTTACTA-A
66 TGTGCAAGTTACTATA
* * **
20842148 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
20842210 TTTGTGCAAGTTACTATA
64 TTTGTGCAAGTTACTATA
* * *
20842228 ACCGGGCTATGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
20842252 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGTTACTATA
Found at i:20842275 original size:79 final size:77
Alignment explanation
Indices: 20842103--20842286 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 77
20842093 GTGCTAAGTG
* * *
20842103 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGG
**
20842168 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* * *
20842182 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTCCTGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
20842246 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
20842261 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
20842287 TACGTGATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:20845517 original size:16 final size:16
Alignment explanation
Indices: 20845494--20845527 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
20845484 AATTTTAGAT
20845494 AAATAATTA-TTTAAC
1 AAATAATTAGTTTAAC
20845509 AAATAAATTAGTTTAAC
1 AAAT-AATTAGTTTAAC
20845526 AA
1 AA
20845528 TTGAATCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATAATTAGTTTAAC
Found at i:20845968 original size:18 final size:19
Alignment explanation
Indices: 20845945--20845982 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
20845935 ACGTTCAGGC
20845945 TTTA-TGGCTCAAAATAGG
1 TTTAGTGGCTCAAAATAGG
*
20845963 TTTATGTGGCTCAACATAGG
1 TTTA-GTGGCTCAAAATAGG
20845983 GTTGTTGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (19 bp):
TTTAGTGGCTCAAAATAGG
Found at i:20857942 original size:14 final size:14
Alignment explanation
Indices: 20857906--20857949 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
20857896 ACAATATATA
20857906 TATATGTTATAATAAT
1 TATATG-TAT-ATAAT
* *
20857922 AAAATGTATATAAT
1 TATATGTATATAAT
20857936 TATATGTATATAAT
1 TATATGTATATAAT
20857950 AGAAGTTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 17 0.71
15 3 0.12
16 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TATATGTATATAAT
Found at i:20862481 original size:45 final size:44
Alignment explanation
Indices: 20862417--20862544 Score: 186
Period size: 45 Copynumber: 2.9 Consensus size: 44
20862407 TGTGCAGTAC
20862417 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* *
20862462 TATTCGGGTCTTTGAGCCTAGCAGGCTATAATACCAGTGAGATAT
1 TATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* * *
20862507 TATTCGGGCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
20862545 AGGAATTCGG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
43 9 0.12
44 16 0.21
45 50 0.67
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (44 bp):
TATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:20866369 original size:13 final size:13
Alignment explanation
Indices: 20866351--20866375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20866341 TATATGATAT
20866351 GTGTGAAAATTTC
1 GTGTGAAAATTTC
20866364 GTGTGAAAATTT
1 GTGTGAAAATTT
20866376 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:20867627 original size:23 final size:23
Alignment explanation
Indices: 20867601--20867644 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20867591 TATATCCATA
* *
20867601 CCAAAATCATGCCAAATCATAAG
1 CCAAAATCATACCAAAACATAAG
*
20867624 CCAAAGTCATACCAAAACATA
1 CCAAAATCATACCAAAACATA
20867645 TGTTTCATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.07, T:0.16
Consensus pattern (23 bp):
CCAAAATCATACCAAAACATAAG
Found at i:20868489 original size:44 final size:43
Alignment explanation
Indices: 20868343--20868505 Score: 170
Period size: 42 Copynumber: 3.8 Consensus size: 43
20868333 AGCTCGTACA
* * * * * *
20868343 ATGCCAACGTCCCAGACGTAGTCTTACATGTAAT-TAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAA-ATCG
* * *
20868386 ATGCCACTGTCCCAGACAGGGTCTTACACG-AA-ATCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAAAT-CG
*
20868428 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATATCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATATCAAATCG
**
20868472 ATGCCAATGTCTAAGACATGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
20868506 CACATATTGG
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 33 0.33
43 28 0.28
44 30 0.30
45 7 0.07
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATATCAAATCG
Found at i:20868497 original size:86 final size:85
Alignment explanation
Indices: 20868351--20868512 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 85
20868341 CAATGCCAAC
* * * *
20868351 GTCCCAGACGTAGTCTTACATGTAATTAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACG
1 GTCCCAGACATAGTCTTACACGTAATTAAATATCGATGCCAATGTCCAAGACAGGGTCTTACACG
20868416 AAATCAAATATGATGCCGAT
66 AAATCAAATATGATGCCGAT
* * * *
20868436 GTCCCAGACATGGTCTTACACGTAAATATCAA-ATCGATGCCAATGTCTAAGACATGGTCTTACA
1 GTCCCAGACATAGTCTTACACGT-AAT-TAAATATCGATGCCAATGTCCAAGACAGGGTCTTACA
*
20868500 CGAAATCACATAT
64 CGAAATCAAATAT
20868513 TGGAATCCTA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
85 20 0.30
86 43 0.65
87 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (85 bp):
GTCCCAGACATAGTCTTACACGTAATTAAATATCGATGCCAATGTCCAAGACAGGGTCTTACACG
AAATCAAATATGATGCCGAT
Found at i:20868526 original size:44 final size:42
Alignment explanation
Indices: 20868343--20868512 Score: 153
Period size: 43 Copynumber: 4.0 Consensus size: 42
20868333 AGCTCGTACA
* * * * * * * *
20868343 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATTAAATATCG
1 ATGCCAATGTCCAAGACATGGTCTTACACGAAATCACATAT-G
* * * *
20868386 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAATGTCCAAGACATGGTCTTACACGAAATCACATATG
* * *
20868428 ATGCCGATGTCCCAGACATGGTCTTACACGTAAAT-ATCAAATCG
1 ATGCCAATGTCCAAGACATGGTCTTACACG-AAATCA-CATAT-G
*
20868472 ATGCCAATGTCTAAGACATGGTCTTACACGAAATCACATAT
1 ATGCCAATGTCCAAGACATGGTCTTACACGAAATCACATAT
20868513 TGGAATCCTA
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.27
43 48 0.45
44 29 0.27
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCAAGACATGGTCTTACACGAAATCACATATG
Found at i:20872802 original size:67 final size:66
Alignment explanation
Indices: 20872719--20872941 Score: 303
Period size: 67 Copynumber: 3.4 Consensus size: 66
20872709 GGTGATACTA
*
20872719 TGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAA
1 TGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAA
20872784 G
66 G
20872785 ATGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCA
1 -TGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCA
20872850 AG
65 AG
* * * * * * *
20872852 TGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACT
1 TG-TGTACACCATGTAGACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCACATGCGTGGTTCC
20872915 AAG
64 AAG
20872918 TGT-T-CACCATGT-GTACAAGAGAGC
1 TGTGTACACCATGTAG-ACAAGAGAGC
20872942 CGAACTATAT
Statistics
Matches: 143, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
62 1 0.01
63 18 0.13
66 26 0.18
67 96 0.67
68 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (66 bp):
TGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAA
G
Found at i:20881690 original size:69 final size:67
Alignment explanation
Indices: 20881614--20881764 Score: 173
Period size: 67 Copynumber: 2.2 Consensus size: 67
20881604 CATCATGTGT
* * * *
20881614 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GTATACTA-TG-TGTACAC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGT-TACAAGTGAAGGACAC
20881676 CATGTAG
61 CATGTAG
** *
20881683 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGTTACAAGTGAAGGACACCATGT
20881748 AG
66 AG
20881750 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
20881765 GATAAACTGG
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
65 23 0.32
66 7 0.10
67 28 0.39
69 13 0.18
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGTTACAAGTGAAGGACACCATGT
AG
Found at i:20881720 original size:65 final size:64
Alignment explanation
Indices: 20881638--20881822 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
20881628 AGACATTATG
* *
20881638 ATGTAGCTAGGTCGCATGGGTGTATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGT-TACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
20881703 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GTTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
20881768 AA
63 AA
* * * *
20881770 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGTTACTATGTGTACACCATGTAG-ACAAGAGAGC
20881823 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 1 0.01
65 27 0.27
66 18 0.18
67 31 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGTTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:20886189 original size:67 final size:66
Alignment explanation
Indices: 20886106--20886328 Score: 303
Period size: 67 Copynumber: 3.4 Consensus size: 66
20886096 GGTGATACTA
*
20886106 TGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAA
1 TGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAA
20886171 G
66 G
20886172 ATGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCA
1 -TGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCA
20886237 AG
65 AG
* * * * * * *
20886239 TGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACT
1 TG-TGTACACCATGTAGACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCACATGCGTGGTTCC
20886302 AAG
64 AAG
20886305 TGT-T-CACCATGT-GTACAAGAGAGC
1 TGTGTACACCATGTAG-ACAAGAGAGC
20886329 CGAACTATAT
Statistics
Matches: 143, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
62 1 0.01
63 18 0.13
66 26 0.18
67 96 0.67
68 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (66 bp):
TGTGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAA
G
Found at i:20889421 original size:27 final size:27
Alignment explanation
Indices: 20889057--20889420 Score: 403
Period size: 27 Copynumber: 13.5 Consensus size: 27
20889047 ACTACAACAA
* * *
20889057 TATTTCGGTAATTTTAC-ACTACAAGGG
1 TATTTCAGTAATTTTACAAAT-CGAGGG
* * *
20889084 TATTTTAATAATTTTACAAATCGGGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
20889111 TGTTTCTGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
20889138 TATTTCAGTAATTTTACAAACCAAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
*
20889165 TATTT-TGATAATTTTACAAATCGAGGG
1 TATTTCAG-TAATTTTACAAATCGAGGG
*
20889192 TATTTCAGTAATTTTACAAATCAAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
*
20889219 TGTTTCAGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* * *
20889246 TGTTT-TGATAATTTTACAAATTGAGGG
1 TATTTCAG-TAATTTTACAAATCGAGGG
* ** * * *
20889273 TGTTTGGGTAATTTCACAAATTGGGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
*
20889300 TATTTCGGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* * *
20889327 TATTTTAGTAATTTCAC-AATCGAGCG
1 TATTTCAGTAATTTTACAAATCGAGGG
20889353 TATTTCAGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* ** *
20889380 TGTTTTGGTAATTTCACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
20889407 TATTTCAGTAATTT
1 TATTTCAGTAATTT
20889421 CTCTTTATTA
Statistics
Matches: 285, Mismatches: 46, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
26 25 0.09
27 256 0.90
28 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:20889781 original size:28 final size:28
Alignment explanation
Indices: 20889720--20889800 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
20889710 ATCCACACTT
* * *
20889720 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATTTGG-CCCATCAGGCCCAATCAC
*
20889749 GTTCATTTGGCCCATCAGGCCCAATCAC
1 ATTCATTTGGCCCATCAGGCCCAATCAC
* *
20889777 ATTCATATGGCCCATCAAGCCCAA
1 ATTCATTTGGCCCATCAGGCCCAA
20889801 CTACTTCCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 36 0.80
29 9 0.20
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (28 bp):
ATTCATTTGGCCCATCAGGCCCAATCAC
Found at i:20894757 original size:43 final size:43
Alignment explanation
Indices: 20894709--20894893 Score: 230
Period size: 43 Copynumber: 4.3 Consensus size: 43
20894699 CACATATCGG
* ** *
20894709 AATCACATATCGATTCCAACATATTAAACGTGGTCTTAC-TCGT
1 AATCACATATCGATGCCAACATCCTAGACGTGGTCTTACAT-GT
* *
20894752 AATCACATATCGATGCCAACAT-CTCAGATGTGGTTTTACATGT
1 AATCACATATCGATGCCAACATCCT-AGACGTGGTCTTACATGT
* * * *
20894795 AATCACATATCGAAGCTAACATCCGAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACATCCTAGACGTGGTCTTACATGT
* *
20894838 AATCACATATCGATGCCAACGTCCTAGACATGGTCTTACATGT
1 AATCACATATCGATGCCAACATCCTAGACGTGGTCTTACATGT
20894881 AATCACATATCGA
1 AATCACATATCGA
20894894 AAATCCTATG
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 119 0.98
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
AATCACATATCGATGCCAACATCCTAGACGTGGTCTTACATGT
Found at i:20894763 original size:56 final size:56
Alignment explanation
Indices: 20894460--20894762 Score: 439
Period size: 56 Copynumber: 5.4 Consensus size: 56
20894450 TCCTAGACAA
* * *
20894460 GGTCTTACTCGTAAACACATATCAAAATCACCTATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
20894516 GGTCTTACTCGTACACACATATCAGAATCACATATTGATGCCAACGTGTTAAACGT
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * *
20894572 GGTCTTACTTGCACACACATATC-GAAATCACATATCGATGCCAACGTATTAAACAT
1 GGTCTTACTCGTACACACATATCAG-AATCACATATCGATGCCAACGTATTAAACGT
* * *
20894628 GGTCTTACTCATACACAGATATCAGAATCACATATCGATGCCAACGTATTAAACAT
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * * *
20894684 AGTCTTACTCGTACACACATATCGGAATCACATATCGATTCCAACATATTAAACGT
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
20894740 GGTCTTACTCGTA-ATCACATATC
1 GGTCTTACTCGTACA-CACATATC
20894763 GATGCCAACA
Statistics
Matches: 222, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
55 2 0.01
56 219 0.99
57 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:20894854 original size:86 final size:86
Alignment explanation
Indices: 20894736--20894894 Score: 257
Period size: 86 Copynumber: 1.8 Consensus size: 86
20894726 AACATATTAA
* ** *
20894736 ACGTGGTCTTACTCGTAATCACATATCGATGCCAACAT-CTCAGATGTGGTTTTACATGTAATCA
1 ACGTGGTCTTACACGTAATCACATATCGATGCCAACATCCT-AGACATGGTCTTACATGTAATCA
20894800 CATATCGAAGCTAACATCCGAG
65 CATATCGAAGCTAACATCCGAG
*
20894822 ACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCTAGACATGGTCTTACATGTAATCAC
1 ACGTGGTCTTACACGTAATCACATATCGATGCCAACATCCTAGACATGGTCTTACATGTAATCAC
20894887 ATATCGAA
66 ATATCGAA
20894895 AATCCTATGT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
86 65 0.97
87 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (86 bp):
ACGTGGTCTTACACGTAATCACATATCGATGCCAACATCCTAGACATGGTCTTACATGTAATCAC
ATATCGAAGCTAACATCCGAG
Found at i:20896787 original size:27 final size:27
Alignment explanation
Indices: 20896730--20896781 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
20896720 ACCCATAATC
* *
20896730 GATAAAATGACTATTATGCCTCTGTAT
1 GATAAAATGACTATTATGCCCCTATAT
*
20896757 GATAAAATGACTGTTATGCCCCTAT
1 GATAAAATGACTATTATGCCCCTAT
20896782 GAGATATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (27 bp):
GATAAAATGACTATTATGCCCCTATAT
Found at i:20898806 original size:40 final size:40
Alignment explanation
Indices: 20898751--20898958 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
20898741 TGAATGATAC
* * *
20898751 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
20898791 CCGGGCTAAGACCCGAAGACATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
20898831 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
20898871 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
20898911 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20898951 CC-GGCTAA
1 CCGGGCTAA
20898959 ATTCTGAAGA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 5 0.03
40 141 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:20898884 original size:80 final size:80
Alignment explanation
Indices: 20898747--20898958 Score: 320
Period size: 80 Copynumber: 2.7 Consensus size: 80
20898737 CAATTGAATG
* * *
20898747 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGAC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGAC
20898811 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* * *
20898827 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGACA
20898892 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
20898907 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
20898959 ATTCTGAAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 6 0.05
80 112 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGACA
TTTGTGCGAGTTGCT
Found at i:20900785 original size:18 final size:19
Alignment explanation
Indices: 20900751--20900792 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
20900741 ATAAAGCCTC
*
20900751 TTTGG-ATTTTATTTTTAA
1 TTTGGTATTTTATATTTAA
20900769 TTTGGTATTTTA-ATTTAA
1 TTTGGTATTTTATATTTAA
20900787 TTTGGT
1 TTTGGT
20900793 TATAACTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (19 bp):
TTTGGTATTTTATATTTAA
Found at i:20902382 original size:92 final size:92
Alignment explanation
Indices: 20902225--20902410 Score: 354
Period size: 92 Copynumber: 2.0 Consensus size: 92
20902215 AAATTTGTGG
*
20902225 TCCTGAAACCATCGTTCTGAATAGGTTCTAAATCGGGCTATTACAATCCAAGAACACATCATATT
1 TCCTGAAACCATCATTCTGAATAGGTTCTAAATCGGGCTATTACAATCCAAGAACACATCATATT
*
20902290 AGCAATATTGCATCACATAGTTTATAT
66 AGAAATATTGCATCACATAGTTTATAT
20902317 TCCTGAAACCATCATTCTGAATAGGTTCTAAATCGGGCTATTACAATCCAAGAACACATCATATT
1 TCCTGAAACCATCATTCTGAATAGGTTCTAAATCGGGCTATTACAATCCAAGAACACATCATATT
20902382 AGAAATATTGCATCACATAGTTTATAT
66 AGAAATATTGCATCACATAGTTTATAT
20902409 TC
1 TC
20902411 AAAAGTCATT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.32
Consensus pattern (92 bp):
TCCTGAAACCATCATTCTGAATAGGTTCTAAATCGGGCTATTACAATCCAAGAACACATCATATT
AGAAATATTGCATCACATAGTTTATAT
Found at i:20903836 original size:22 final size:23
Alignment explanation
Indices: 20903800--20903861 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
20903790 GCAAATACGT
* *
20903800 TTGGCACACATCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
20903822 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
20903844 TTGGCGCAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
20903862 TAGAATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:20904067 original size:41 final size:41
Alignment explanation
Indices: 20904004--20904083 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
20903994 CTTAAAAGCC
* *
20904004 ATCGATGGATCCACGGTTGTCAAGCAACCATGCGATCCTTA
1 ATCGATGGATCCACGATCGTCAAGCAACCATGCGATCCTTA
*
20904045 ATCGGTGGATCCACGATCGTCAAGCAACCATGCGATCCT
1 ATCGATGGATCCACGATCGTCAAGCAACCATGCGATCCT
20904084 CAATTTCTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (41 bp):
ATCGATGGATCCACGATCGTCAAGCAACCATGCGATCCTTA
Found at i:20904376 original size:27 final size:27
Alignment explanation
Indices: 20904347--20904747 Score: 295
Period size: 27 Copynumber: 14.9 Consensus size: 27
20904337 GGTAAATCAG
* *
20904347 CAAACCAAGGGTATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTA
* ** *
20904374 CAAA-CTAATGGTATTTTTGTAATTTTT
1 CAAATC-AAGGGTATTTCGGTAATTTTA
* * ** *
20904401 GAAAGTCAAAGGTATTTCTATAATTTTG
1 CAAA-TCAAGGGTATTTCGGTAATTTTA
* * * * *
20904429 TAAATTAGGGGTATTTCTGTAATTTTT
1 CAAATCAAGGGTATTTCGGTAATTTTA
** *
20904456 CAAATCAAGGGTATTTCAATAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTA
* * *
20904483 CAAATTAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTA
* *
20904510 CAAAACTAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTA
* *
20904537 CAAGTCGAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTA
* ** * * *
20904564 TAGGTCGAGGGTATTTTGGTAATTTCA
1 CAAATCAAGGGTATTTCGGTAATTTTA
* *
20904591 CAAATCTAGGGTATTTCGGGAATTTT-
1 CAAATCAAGGGTATTTCGGTAATTTTA
* *
20904617 CAAGTCGAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTA
* * * *
20904644 TAAACCAAGGTTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTA
* * * *
20904671 CTAATCGAGGGTATTTTGGTAATTTTT
1 CAAATCAAGGGTATTTCGGTAATTTTA
* * * *
20904698 TAAACCAAGGTTATTTCAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTA
** *
20904725 C-CCTACAAGGGTATTTCAGTAAT
1 CAAAT-CAAGGGTATTTCGGTAAT
20904748 ACTAGCTTAC
Statistics
Matches: 295, Mismatches: 74, Indels: 10
0.78 0.20 0.03
Matches are distributed among these distances:
26 24 0.08
27 250 0.85
28 20 0.07
29 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTA
Found at i:20904713 original size:107 final size:107
Alignment explanation
Indices: 20904517--20904723 Score: 263
Period size: 107 Copynumber: 1.9 Consensus size: 107
20904507 TTACAAAACT
** * *
20904517 AGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCGGTAATTTTATAGGTCGAGGGTATTTTG
1 AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAGATCGAGGGTATTTTG
* * *
20904582 GTAATTTCACAAATCTAGGGTATTTCGGGAATTTTCAAGTCG
66 GTAATTTCACAAACCAAGGGTATTTCAGGAATTTTCAAGTCG
* * *
20904624 AGGGTATTTCGGTAATTTTATAAACCAAGGTTATTTTGGTAATTTTACTA-ATCGAGGGTATTTT
1 AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTA-TAGATCGAGGGTATTTT
*** * *
20904688 GGTAATTTTTTAAACCAAGGTTATTTCAGTAATTTT
65 GGTAATTTCACAAACCAAGGGTATTTCAGGAATTTT
20904724 ACCCTACAAG
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
107 82 0.98
108 2 0.02
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (107 bp):
AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAGATCGAGGGTATTTTG
GTAATTTCACAAACCAAGGGTATTTCAGGAATTTTCAAGTCG
Found at i:20904741 original size:134 final size:134
Alignment explanation
Indices: 20904354--20904722 Score: 332
Period size: 134 Copynumber: 2.7 Consensus size: 134
20904344 CAGCAAACCA
* * ** * *
20904354 AGGGTATTTCGGTAATTTTGC-AAACTAATGGTATTTTTGTAATTTTTGA-AAGTCAAAGGTATT
1 AGGGTATTTCGGTAATTTTACAAAAC-AAGGGTATTTCGGTAA-TTTT-ACAAGTCGAGGGTATT
** * ** * * ** ***
20904417 TCTATAATTTTGTAAATTAGGGGTATTTCTGTAATTTTTCAAATCAAGGGTATTTCAATAATTTT
63 TCGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCGGGAATTTT
* *
20904482 CCAAAT-T
128 -CAAGTCG
* *
20904489 AGGGGTATTTTGGTAATTTTACAAAACTAGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTC
1 A-GGGTATTTCGGTAATTTTACAAAACAAGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTC
*** * ** *
20904554 GGTAATTTTATAGGTCGAGGGTATTTTGGTAATTTCACAAATCTAGGGTATTTCGGGAATTTTCA
65 GGTAATTTTATAAACCAAGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCGGGAATTTTCA
20904619 AGTCG
130 AGTCG
* * * * *
20904624 AGGGTATTTCGGTAATTTTATAAACCAAGGTTATTTTGGTAATTTTACTAA-TCGAGGGTATTTT
1 AGGGTATTTCGGTAATTTTACAAAACAAGGGTATTTCGGTAATTTTAC-AAGTCGAGGGTATTTC
* *
20904688 GGTAATTTTTTAAACCAAGGTTATTTCAGTAATTT
65 GGTAATTTTATAAACCAAGGGTATTTCAGTAATTT
20904723 TACCCTACAA
Statistics
Matches: 188, Mismatches: 41, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
134 85 0.45
135 69 0.37
136 30 0.16
137 4 0.02
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (134 bp):
AGGGTATTTCGGTAATTTTACAAAACAAGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCG
GTAATTTTATAAACCAAGGGTATTTCAGTAATTTCACAAATCAAGGGTATTTCGGGAATTTTCAA
GTCG
Found at i:20905907 original size:42 final size:41
Alignment explanation
Indices: 20905847--20905959 Score: 109
Period size: 44 Copynumber: 2.7 Consensus size: 41
20905837 GATGCCACTT
* * * *
20905847 TCCCAGACAGGGTTTTACACGAAATCAAATACAATGCTGATG
1 TCCCAGACATGGTCTTACACGAAATCAAAT-CAATGCTAACG
* **
20905889 TCCCAGACATGGTCTTACACATAAATCTCAAATTGATGCTAACG
1 TCCCAGACATGGTCTTACAC-GAAA--TCAAATCAATGCTAACG
**
20905933 TCCCAGATGTGGTCTTACACGAAATCA
1 TCCCAGACATGGTCTTACACGAAATCA
20905960 CATATCAGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
41 3 0.05
42 18 0.31
43 6 0.10
44 25 0.43
45 6 0.10
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACGAAATCAAATCAATGCTAACG
Found at i:20911206 original size:12 final size:13
Alignment explanation
Indices: 20911170--20911207 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
20911160 AAATATTTGA
20911170 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
20911183 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
20911197 CTTG-TCTTAAT
1 CTTGTTCTTAAT
20911208 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:20919671 original size:80 final size:80
Alignment explanation
Indices: 20919587--20919735 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
20919577 TATGGTAACC
* * * *
20919587 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
20919651 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
20919667 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
20919732 CCGG
66 CCGG
20919736 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:20919677 original size:40 final size:38
Alignment explanation
Indices: 20919628--20919735 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
20919618 ATCACGATTT
*
20919628 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
20919668 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
20919708 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
20919736 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:20927787 original size:80 final size:80
Alignment explanation
Indices: 20927703--20927851 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
20927693 TATGGTAACC
* * * *
20927703 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
20927767 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
20927783 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
20927848 CCGG
66 CCGG
20927852 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:20927793 original size:40 final size:38
Alignment explanation
Indices: 20927744--20927851 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
20927734 ATCACGATTT
*
20927744 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
20927784 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
20927824 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
20927852 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:20930640 original size:12 final size:13
Alignment explanation
Indices: 20930604--20930641 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
20930594 AAATATTTGA
20930604 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
20930617 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
20930631 CTTG-TCTTAAT
1 CTTGTTCTTAAT
20930642 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:20933024 original size:31 final size:32
Alignment explanation
Indices: 20932953--20933031 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
20932943 CACAGTATTA
*
20932953 ATTGGGCCTAGCCCA-ACTCAGAATCAATATC
1 ATTGGGCCTAGCCCATACTCAGAACCAATATC
* *
20932984 AGTTGGGCCTAGCCCATA-TCAGAACCAGTGTC
1 A-TTGGGCCTAGCCCATACTCAGAACCAATATC
20933016 ATTGGGCCTAGCCCAT
1 ATTGGGCCTAGCCCAT
20933032 TTCAATATCA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 16 0.37
32 26 0.60
33 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (32 bp):
ATTGGGCCTAGCCCATACTCAGAACCAATATC
Found at i:20933518 original size:19 final size:19
Alignment explanation
Indices: 20933461--20933524 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
20933451 AGTGTAAATG
20933461 GGCCCAAGG-CCATTACTC
1 GGCCCAAGGCCCATTACTC
* *
20933479 GACACAAGGCCCATTACTC
1 GGCCCAAGGCCCATTACTC
20933498 GGCCCAAGGCCCATTACTC
1 GGCCCAAGGCCCATTACTC
*
20933517 GGTCCAAG
1 GGCCCAAG
20933525 TAGACCCACA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
18 7 0.17
19 33 0.82
ACGTcount: A:0.25, C:0.38, G:0.22, T:0.16
Consensus pattern (19 bp):
GGCCCAAGGCCCATTACTC
Found at i:20935957 original size:15 final size:15
Alignment explanation
Indices: 20935925--20935953 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20935915 ATTTTTAGTG
20935925 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
20935940 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
20935954 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:20937291 original size:43 final size:43
Alignment explanation
Indices: 20937225--20937571 Score: 430
Period size: 43 Copynumber: 8.1 Consensus size: 43
20937215 ATATATGTGA
*
20937225 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGATGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* * * *
20937268 CATCAATATGTGATTACAAGTAAGACTACGTCTGGGATGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* *
20937311 CATCAATATGTGATTATGAGTAAGACCACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* * *
20937354 CATCGATATGTAATTATGAATAAGACCACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* *
20937397 AATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* * *
20937440 CATCGATATGTGATTACGTGTAAGACCACGTCTAGGATGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* * * * **
20937483 GATCGATATGTGGTTACGTGTAAGA-CACTGTTTGGGACAATGG
1 CATCGATATGTGATTACGAGTAAGACCAC-GTCTGGGACGTTGG
** *
20937526 CATCGATATAAGA-TA-GCATGTAAGACCACGTCTGGGATGTTGG
1 CATCGATATGTGATTACG-A-GTAAGACCACGTCTGGGACGTTGG
20937569 CAT
1 CAT
20937572 TGTACGATAT
Statistics
Matches: 266, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 257 0.97
44 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
Found at i:20943287 original size:15 final size:15
Alignment explanation
Indices: 20943267--20943295 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20943257 ACAAAGCATG
20943267 ATGGTGGTTAAATGA
1 ATGGTGGTTAAATGA
20943282 ATGGTGGTTAAATG
1 ATGGTGGTTAAATG
20943296 TATAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (15 bp):
ATGGTGGTTAAATGA
Found at i:20946672 original size:13 final size:13
Alignment explanation
Indices: 20946650--20946682 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20946640 AAGGGTTTGC
20946650 TTAT-TAAACTAA
1 TTATCTAAACTAA
20946662 TTATCTAAACTAA
1 TTATCTAAACTAA
*
20946675 TTAACTAA
1 TTATCTAA
20946683 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:20949624 original size:17 final size:18
Alignment explanation
Indices: 20949602--20949671 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 18
20949592 AAATTAAAAT
* *
20949602 AATAAAATTGAAATG-AA
1 AATAAAATTAAAAAGAAA
*
20949619 AATAAAAATAAAAAGAAA
1 AATAAAATTAAAAAGAAA
20949637 AATAAAA-TAAAAA-AATA
1 AATAAAATTAAAAAGAA-A
* *
20949654 AAAAAAGAATAAAAAGAA
1 AATAAA-ATTAAAAAGAA
20949672 TAAAAAGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
16 2 0.05
17 24 0.55
18 10 0.23
19 6 0.14
20 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (18 bp):
AATAAAATTAAAAAGAAA
Found at i:20949627 original size:12 final size:11
Alignment explanation
Indices: 20949602--20949667 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 11
20949592 AAATTAAAAT
**
20949602 AATAAAATTGA
1 AATAAAATAAA
20949613 AATGAAAATAAA
1 AAT-AAAATAAA
*
20949625 AATAAAAAGAAA
1 AAT-AAAATAAA
20949637 AATAAAATAAAAA
1 AATAAAAT--AAA
20949650 AATAAAA-AAA
1 AATAAAATAAA
20949660 GAATAAAA
1 -AATAAAA
20949668 AGAATAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
10 3 0.07
11 14 0.30
12 19 0.41
13 10 0.22
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:20949632 original size:6 final size:6
Alignment explanation
Indices: 20949612--20949668 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
20949602 AATAAAATTG
* * *
20949612 AAATGA AAATAA AAATAA AAAGAA AAATAA AATAAAA AAATAA AAA-AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATAA AAATAA AAATAA
*
20949660 GAATAA AAA
1 AAATAA AAA
20949669 GAATAAAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 4 0.10
6 33 0.79
7 5 0.12
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:20949659 original size:9 final size:9
Alignment explanation
Indices: 20949622--20949677 Score: 53
Period size: 8 Copynumber: 6.2 Consensus size: 9
20949612 AAATGAAAAT
20949622 AAAAATAAA
1 AAAAATAAA
*
20949631 AAGAA-AAA
1 AAAAATAAA
*
20949639 TAAAAT-AA
1 AAAAATAAA
20949647 AAAAATAAAA
1 AAAAAT-AAA
20949657 AAAGAATAAA
1 AAA-AATAAA
*
20949667 AAGAATAAA
1 AAAAATAAA
20949676 AA
1 AA
20949678 GATAGGAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
8 13 0.34
9 12 0.32
10 10 0.26
11 3 0.08
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:20949678 original size:9 final size:9
Alignment explanation
Indices: 20949625--20949679 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
20949615 TGAAAATAAA
20949625 AATAAAAAG
1 AATAAAAAG
20949634 AA-AAATAA-
1 AATAAA-AAG
20949642 AATAAAAA-
1 AATAAAAAG
20949650 AATAAAAAAAG
1 AAT--AAAAAG
20949661 AATAAAAAG
1 AATAAAAAG
20949670 AATAAAAAG
1 AATAAAAAG
20949679 A
1 A
20949680 TAGGAGGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
8 10 0.24
9 23 0.56
10 5 0.12
11 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (9 bp):
AATAAAAAG
Found at i:20956695 original size:27 final size:27
Alignment explanation
Indices: 20956664--20956718 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
20956654 ATTAATATTG
20956664 AACATTTAAATCATCATAATTATACTT
1 AACATTTAAATCATCATAATTATACTT
20956691 AACATTTAAATCATCATAATTATACTT
1 AACATTTAAATCATCATAATTATACTT
20956718 A
1 A
20956719 CTTTCAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (27 bp):
AACATTTAAATCATCATAATTATACTT
Found at i:20958558 original size:23 final size:23
Alignment explanation
Indices: 20958501--20958688 Score: 286
Period size: 23 Copynumber: 8.1 Consensus size: 23
20958491 CCTAGCCTCT
* *
20958501 TTTAATAACTGGGGAAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
20958524 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
20958548 TTTAATGACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
20958571 TTTAATGACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
20958594 TTTAATGACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
20958617 TTTAATAACTGGGGCATAAGCCT
1 TTTAATAACTGGGGCATAAGCCC
*
20958640 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
20958663 TTTAATAACTAGGGCATAAGTCC
1 TTTAATAACTGGGGCATAAGCCC
20958686 TTT
1 TTT
20958689 CACACTTCCT
Statistics
Matches: 156, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
23 135 0.87
24 21 0.13
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:20958763 original size:20 final size:20
Alignment explanation
Indices: 20958735--20958805 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
20958725 GCATTTATGA
*
20958735 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
20958755 ACATATCATGTGCATATCCT
1 ACATATCATGTGCATATCAT
*
20958775 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
20958795 ACATATCATGT
1 ACATATCATGT
20958806 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:20958870 original size:25 final size:25
Alignment explanation
Indices: 20958842--20958889 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
20958832 ATATATAAAC
* * *
20958842 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
20958867 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
20958890 CATATTATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:20960077 original size:27 final size:26
Alignment explanation
Indices: 20960047--20960124 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
20960037 GAGCATATTC
20960047 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
20960074 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
20960101 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-CAGGGGTATT
20960125 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.12
27 35 0.81
28 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:20960261 original size:27 final size:27
Alignment explanation
Indices: 20960142--20960394 Score: 195
Period size: 27 Copynumber: 9.3 Consensus size: 27
20960132 TTTCATCCTA
* * ** *
20960142 CAAGGGTGTTTTGGTAAATCAACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** ** *
20960169 CAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
20960196 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
* * **
20960225 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
20960252 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
20960279 TAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
20960306 CAAGGGTATTTTGGTAATTTTACAAAGT
1 CAAGGGTATTTTGGTAATTTTACAAA-T
* *
20960334 -AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
20960360 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
20960387 CGAGGGTA
1 CAAGGGTA
20960395 AAATAGTAAT
Statistics
Matches: 178, Mismatches: 42, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
27 151 0.85
28 14 0.08
29 13 0.07
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:20960345 original size:81 final size:81
Alignment explanation
Indices: 20960225--20960379 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
20960215 TTTAGAAAGT
* ** **
20960225 CAAGGGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTT
1 CAAGGGTATTTTGGTAACTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
20960290 CGGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
*
20960306 CAAGGGTATTTTGGTAATTTTACAAAGT-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
1 CAAGGGTATTTTGGTAACTTTACAAA-TCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
*
20960370 TTAGTAATTT
65 TCAGTAATTT
20960380 TGTAAATCGA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
81 64 0.98
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAACTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
CAGTAATTTCACAAAC
Found at i:20960394 original size:54 final size:55
Alignment explanation
Indices: 20960173--20960380 Score: 215
Period size: 54 Copynumber: 3.8 Consensus size: 55
20960163 ACAAACCAAA
* ** * *
20960173 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTTCGGTAATTTTACAAACCAAGGGTATTT-TAGTAA-TTTTACAAAGTCAAG
** * ** * * * *
20960229 GGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTAAG
1 GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAGTCAAG
* * *
20960283 GGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAAGT-AGG
1 GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAGTCAAG
*
20960337 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
1 GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
20960381 GTAAATCGAG
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
54 88 0.68
55 10 0.08
56 31 0.24
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (55 bp):
GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAGTCAAG
Found at i:20960404 original size:54 final size:54
Alignment explanation
Indices: 20960292--20960451 Score: 142
Period size: 54 Copynumber: 3.0 Consensus size: 54
20960282 GGGTATTTCG
* * * * *** *
20960292 GTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAAGTAG-GGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAA-TCGAGGGTAAAATA
*
20960346 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATA
* ** * *** * *
20960400 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGACGGTAAAA
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAA
20960452 CGATAATTCT
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 2 0.02
54 84 0.98
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (54 bp):
GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATA
Found at i:20960421 original size:81 final size:81
Alignment explanation
Indices: 20960245--20960421 Score: 185
Period size: 81 Copynumber: 2.2 Consensus size: 81
20960235 TTTGTAACTT
** *
20960245 TGTAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAAG
1 TGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAAG
*** * *
20960310 GGTATTTTGGTAATTT
66 GGTAAAATAGTAATTC
** * *** * *
20960326 TACAAAGT-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGA
1 TGTAAA-TCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAA
20960390 GGGTAAAATAGTAATTC
65 GGGTAAAATAGTAATTC
*
20960407 TGTAAATCAAGGGTA
1 TGTAAATCAGGGGTA
20960422 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
80 1 0.01
81 73 0.97
82 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (81 bp):
TGTAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAAG
GGTAAAATAGTAATTC
Found at i:20960506 original size:27 final size:27
Alignment explanation
Indices: 20960373--20960508 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
20960363 GGGTATTTTA
* **
20960373 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
20960400 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
20960427 GTAATTCTATAAATCGACGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
20960454 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
20960481 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
20960508 G
1 G
20960509 GGGTAAAATG
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:20960513 original size:38 final size:38
Alignment explanation
Indices: 20960462--20960543 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
20960452 CGATAATTCT
* * *
20960462 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
* * *
20960500 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
20960538 GTAAAA
1 GTAAAA
20960544 TAGTGATTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.38, C:0.07, G:0.32, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:20960530 original size:27 final size:27
Alignment explanation
Indices: 20960500--20960567 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
20960490 TAAGTCGAGG
* *
20960500 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAATCGGGGGTAAAATAGTAATTAT
* *
20960527 GTAAATCGGGGGTAAAATAGTGATTCT
1 GTAAATCGGGGGTAAAATAGTAATTAT
*
20960554 GTAAATCAGGGGTA
1 GTAAATCGGGGGTA
20960568 CTTTGGTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.26
Consensus pattern (27 bp):
GTAAATCGGGGGTAAAATAGTAATTAT
Found at i:20960603 original size:27 final size:27
Alignment explanation
Indices: 20960573--20960635 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
20960563 GGGTACTTTG
*
20960573 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACGAAGCGTATTTCA
* *
20960600 GTAATTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACGAAGCGTATTTCA
20960627 GTAATTTTA
1 GTAATTTTA
20960636 GTAAACTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACGAAGCGTATTTCA
Found at i:20960649 original size:27 final size:27
Alignment explanation
Indices: 20960573--20960650 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
20960563 GGGTACTTTG
* *
20960573 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
20960600 GTAATTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
20960627 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
20960651 CTAAACAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
26 4 0.09
27 33 0.75
28 7 0.16
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:20965200 original size:34 final size:34
Alignment explanation
Indices: 20965161--20965230 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
20965151 TGCAACTGAG
**
20965161 TTCATTTATTAAACCATTCTCAAATGCTATCACA
1 TTCATTTACGAAACCATTCTCAAATGCTATCACA
20965195 TTCATTTACGAAACCATTCTCAAATGCTATCACA
1 TTCATTTACGAAACCATTCTCAAATGCTATCACA
20965229 TT
1 TT
20965231 ATCAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.37
Consensus pattern (34 bp):
TTCATTTACGAAACCATTCTCAAATGCTATCACA
Found at i:20971263 original size:16 final size:17
Alignment explanation
Indices: 20971230--20971264 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
20971220 AAATGCCAGA
*
20971230 AAAGTTTTGATTAGTTG
1 AAAGTTTTGATTAATTG
20971247 AAAGTTTT-ATTAATTG
1 AAAGTTTTGATTAATTG
20971263 AA
1 AA
20971265 GCTCCAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (17 bp):
AAAGTTTTGATTAATTG
Found at i:20974514 original size:42 final size:43
Alignment explanation
Indices: 20974458--20974569 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 43
20974448 GAGATATATG
* **
20974458 TGTAAGACCATGTCTGGGACTTTGGCATCG-TATCTAATTTCA
1 TGTAAGACCATGTCTGGGACTATGGCATCGATATCTAATAACA
* * *
20974500 TGTAAGACCCTGTCTGGGAC-AGTGGCATCGATATTTGATAACA
1 TGTAAGACCATGTCTGGGACTA-TGGCATCGATATCTAATAACA
*
20974543 TGTAAGACCATATCTGGGA-TATGGCAT
1 TGTAAGACCATGTCTGGGACTATGGCAT
20974570 TGTACGAGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 33 0.56
43 26 0.44
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACTATGGCATCGATATCTAATAACA
Found at i:20976938 original size:46 final size:46
Alignment explanation
Indices: 20976888--20977063 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
20976878 TGGTTGAGCA
*
20976888 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
20976934 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
20976979 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
20977027 CCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20977064 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 64 0.58
47 28 0.25
48 4 0.04
50 6 0.05
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:20982584 original size:40 final size:40
Alignment explanation
Indices: 20982529--20982696 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
20982519 TGAATGATAC
* *
20982529 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
20982569 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
20982609 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
20982649 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
20982689 CC-GGCTAA
1 CCGGGCTAA
20982697 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:20990298 original size:40 final size:40
Alignment explanation
Indices: 20990253--20990419 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
20990243 CGGAATACAA
20990253 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
20990293 CCGGATAGAA-GACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
20990332 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
20990372 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
20990412 CCGGATAT
1 CCGGATAT
20990420 CATTCAATTG
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 35 0.33
40 67 0.64
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:20990312 original size:39 final size:40
Alignment explanation
Indices: 20990269--20990378 Score: 154
Period size: 39 Copynumber: 2.8 Consensus size: 40
20990259 ATAACCACGT
*
20990269 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-ACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
*
20990308 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
20990348 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
20990379 TAATTTCCAG
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 3 0.05
39 32 0.50
40 29 0.45
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:20998287 original size:40 final size:40
Alignment explanation
Indices: 20998242--20998409 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
20998232 CGGAATACAA
20998242 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
20998282 CCGGATAGAAGGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
20998322 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
20998362 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
20998402 CCGGATAT
1 CCGGATAT
20998410 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:21004702 original size:49 final size:48
Alignment explanation
Indices: 21004543--21004801 Score: 391
Period size: 49 Copynumber: 5.4 Consensus size: 48
21004533 TACATATATG
* * * * *
21004543 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA-TATG
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATTATA
* *
21004590 TGT-ATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTGTA-TATA
1 TGTGATAAGGCC-TAATGGCCGATGTGGTGAATGTGAAAGTGTATTATA
21004636 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTAT-TATA
21004685 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTAT-TATA
21004734 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTAT-TATA
21004783 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
21004802 TAATGTAAAA
Statistics
Matches: 201, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
46 43 0.21
47 38 0.19
49 120 0.60
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATTATA
Found at i:21004992 original size:37 final size:37
Alignment explanation
Indices: 21004903--21005023 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
21004893 GGAATATGTT
*
21004903 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
21004940 CC-GGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
21004976 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
21005013 CCGGGTAAGAC
1 CCGGGTAAGAC
21005024 TTCGTAATAA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
36 35 0.43
37 46 0.57
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:21007177 original size:29 final size:29
Alignment explanation
Indices: 21007110--21007269 Score: 295
Period size: 29 Copynumber: 5.6 Consensus size: 29
21007100 CGTTAACCGA
21007110 GCACTATGTGTGCGAGATCAGTAA-TGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
*
21007138 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
21007167 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
21007196 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
21007225 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
*
21007254 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
21007270 TTTTTCAACA
Statistics
Matches: 128, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
28 24 0.19
29 104 0.81
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATTGAG
Found at i:21010970 original size:49 final size:47
Alignment explanation
Indices: 21010805--21011026 Score: 295
Period size: 49 Copynumber: 4.7 Consensus size: 47
21010795 ATGATATACA
* *
21010805 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * *
21010852 CATATGTGT-ATAAGG-CTGTATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCT-AATGGCCAATGTGATGAATGTGAAAGTG
* *
21010898 TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
21010945 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TA--TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
21010994 TATATATATGTGATAAGGCCTAATGGCTAATGT
1 --TATATATGTGATAAGGCCTAATGGCCAATGT
21011027 AAAATATATG
Statistics
Matches: 158, Mismatches: 10, Indels: 12
0.88 0.06 0.07
Matches are distributed among these distances:
45 1 0.01
46 40 0.25
47 41 0.26
48 2 0.01
49 72 0.46
51 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.31
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:21011171 original size:37 final size:37
Alignment explanation
Indices: 21011121--21011241 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
21011111 GGAATATGTT
*
21011121 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
21011158 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
21011195 CCGGGTAAGACCCGATGACTACGTGT-GAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
21011231 CCGGGTAAGAC
1 CCGGGTAAGAC
21011242 TTCGTAATAA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
36 20 0.24
37 62 0.76
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:21020688 original size:39 final size:39
Alignment explanation
Indices: 21020627--21020740 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
21020617 CTGGACATAT
* * * *
21020627 TTCCAGCACGTAACCTGTGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
21020666 TTCTAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
21020705 TTCCAGCACATAGCCTACGGACCCTAAGTCCGGATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
21020741 AACATCACTG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:21025182 original size:78 final size:77
Alignment explanation
Indices: 21025095--21025295 Score: 210
Period size: 78 Copynumber: 2.6 Consensus size: 77
21025085 AAATTTAAAC
* * * * * *
21025095 CCGGTATAATACCAGCTCGA-AGCCTGCGGGA-TTTTAGCCCGGACT-TATTTCTAGCACGTAGC
1 CCGGTATAATACCAGCAC-ATAGCCTGC-GGACCTTAAGCCCGGA-TATAATTCCAGCACATAGC
*
21025157 CTGCGGACCTTAAGT
63 CTGCGGACCCTAAGT
* *
21025172 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGG-TATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGATATAATTCCAGCACATAGCCT
21025237 GCGGACCCTAAGT
65 GCGGACCCTAAGT
* * * * *
21025250 CCGGATATAATTCCATCACATAGCCTACGGACCCTAAGTCCGGATA
1 CCGG-TATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGATA
21025296 AACATCACTG
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
77 9 0.08
78 98 0.92
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (77 bp):
CCGGTATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGATATAATTCCAGCACATAGCCTG
CGGACCCTAAGT
Found at i:21025190 original size:39 final size:39
Alignment explanation
Indices: 21025147--21025295 Score: 244
Period size: 39 Copynumber: 3.8 Consensus size: 39
21025137 ACTTATTTCT
* * *
21025147 AGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
*
21025186 AGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
21025225 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
* *
21025264 ATCACATAGCCTACGGACCCTAAGTCCGGATA
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATA
21025296 AACATCACTG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
Found at i:21031608 original size:40 final size:40
Alignment explanation
Indices: 21031540--21031716 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
21031530 ACCCAAGTAT
* *
21031540 CTTCGGGAT-TTAG-CCGGATGTAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
21031579 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
21031619 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
21031659 CTTCGGGACATAGGCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
21031699 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
21031717 TTATCATCCG
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 102 0.86
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:21034525 original size:37 final size:37
Alignment explanation
Indices: 21034475--21034549 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
21034465 ACCGCCGGAG
*
21034475 TATCCTCCTCCACTCTCATCATTGCCTTGGTCGATTA
1 TATCCTCCTCCACTCTCATCATTGCCTTGGCCGATTA
*
21034512 TATCCTCCTCCACTCTCATCATTTCCTTGGCCGATTA
1 TATCCTCCTCCACTCTCATCATTGCCTTGGCCGATTA
21034549 T
1 T
21034550 TCTCCATAAC
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:0.16, C:0.36, G:0.09, T:0.39
Consensus pattern (37 bp):
TATCCTCCTCCACTCTCATCATTGCCTTGGCCGATTA
Found at i:21036482 original size:35 final size:35
Alignment explanation
Indices: 21036426--21036587 Score: 164
Period size: 35 Copynumber: 4.6 Consensus size: 35
21036416 AATACTCAAG
* *
21036426 GTTCATTATATCATCACATATGGCCAAATATACAA
1 GTTCAATATATCATCACATATGACCAAATATACAA
* * *
21036461 GTACAATATATCATCATATATGACCGAATATACAA
1 GTTCAATATATCATCACATATGACCAAATATACAA
* * * * * *
21036496 GCTCAATAAAACATCACATGTAGTCC-AATATTCAA
1 GTTCAATATATCATCACATAT-GACCAAATATACAA
* * * * *
21036531 TTTTAATATAACATCACATGTGCCCAAATATACAA
1 GTTCAATATATCATCACATATGACCAAATATACAA
21036566 GTTCAATATATCATCACATATG
1 GTTCAATATATCATCACATATG
21036588 TACATACCTA
Statistics
Matches: 102, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
34 3 0.03
35 96 0.94
36 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (35 bp):
GTTCAATATATCATCACATATGACCAAATATACAA
Found at i:21042576 original size:41 final size:41
Alignment explanation
Indices: 21042514--21042608 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
21042504 GGGATGCTAC
* * * **
21042514 AGCTTCTGCTATAAAAAGCACTTAGCGTGCGAGACTATGAT
1 AGCTTCAGCTATGAAAAGCACTTAGCGTGCAAGACTACAAT
* * *
21042555 AGCTTCAGCTATGAAAGGCACTTAGTGTGCAAGATTACAAT
1 AGCTTCAGCTATGAAAAGCACTTAGCGTGCAAGACTACAAT
*
21042596 AGCTTCGGCTATG
1 AGCTTCAGCTATG
21042609 CTTTGGCACT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (41 bp):
AGCTTCAGCTATGAAAAGCACTTAGCGTGCAAGACTACAAT
Found at i:21048786 original size:34 final size:34
Alignment explanation
Indices: 21048746--21048815 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
21048736 CCGCTAAAGG
*
21048746 TTTTTTAGATAAACGCCGCAAACTTTAGCGGCGT
1 TTTTTTAGATAAACGCCGCAAACGTTAGCGGCGT
*
21048780 TTTTTTAGATAAACGCCGCAAACGTTAGCGGTGT
1 TTTTTTAGATAAACGCCGCAAACGTTAGCGGCGT
21048814 TT
1 TT
21048816 CCTATAGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (34 bp):
TTTTTTAGATAAACGCCGCAAACGTTAGCGGCGT
Found at i:21049573 original size:42 final size:42
Alignment explanation
Indices: 21049523--21049634 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
21049513 GCTTTACGTG
*
21049523 TAAGACCATGTCTGGGACATTGGCGTCGTATCTGATTAT-GTA
1 TAAGACCATGTCTGGGACATTGGCATCGTATCTGATT-TCGTA
* *
21049565 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCGTA
* * **
21049607 TAAGACCCTGTCGGGGACAGAGGCATCG
1 TAAGACCATGTCTGGGACATTGGCATCG
21049635 ACACTGAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 61 0.98
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCGTA
Found at i:21049760 original size:15 final size:16
Alignment explanation
Indices: 21049733--21049762 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21049723 AGAGTACGAC
21049733 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
21049749 ATATGA-AATGTATA
1 ATATGAGAATGTATA
21049763 ATCTTTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:21051993 original size:66 final size:68
Alignment explanation
Indices: 21051917--21052103 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
21051907 TAGTACCACT
*
21051917 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
21051979 CACG
65 CACG
21051983 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
21052048 ATCACG
63 ATCACG
21052054 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
21052104 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:21052028 original size:71 final size:71
Alignment explanation
Indices: 21051940--21052103 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21051930 CGATTTGTCT
21051940 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
21052005 CTTTCA
66 CTTTCA
21052011 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
21052076 CTTTCA
66 CTTTCA
21052082 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
21052104 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:21052141 original size:71 final size:70
Alignment explanation
Indices: 21051940--21052137 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
21051930 CGATTTGTCT
* * *
21051940 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
21052005 CTTTCA
65 CTTTCA
* * *
21052011 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
21052076 CTTTCA
65 CTTTCA
* *
21052082 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
21052138 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:21062175 original size:30 final size:30
Alignment explanation
Indices: 21062139--21062197 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
21062129 ATCCTTCTTC
21062139 ATCTTGAACATTAATTGCGTTAAGTTGTTT
1 ATCTTGAACATTAATTGCGTTAAGTTGTTT
*
21062169 ATCTTGAACATTAATTGCGTTGAGTTGTT
1 ATCTTGAACATTAATTGCGTTAAGTTGTT
21062198 CCCTTGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (30 bp):
ATCTTGAACATTAATTGCGTTAAGTTGTTT
Found at i:21070418 original size:40 final size:40
Alignment explanation
Indices: 21070364--21070557 Score: 309
Period size: 40 Copynumber: 4.9 Consensus size: 40
21070354 GATATAGCTT
*
21070364 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
21070404 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
21070444 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
21070484 CTCGCACAAATGCTTTTGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
21070524 CTCGTACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
21070558 CAATCCGAAT
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.09
40 129 0.91
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:21070473 original size:80 final size:80
Alignment explanation
Indices: 21070337--21070557 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 80
21070327 AAACCAAGTA
** * *
21070337 CCTTCGGGGTTTAG-CCGGATATAGCT-TCTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
21070400 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * *
21070416 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
21070481 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * *
21070496 CTTTTGGGACTTAGCCCGGATATAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
21070558 CAATCCGAAT
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
79 26 0.21
80 100 0.79
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:21075529 original size:78 final size:81
Alignment explanation
Indices: 21075421--21075602 Score: 257
Period size: 78 Copynumber: 2.3 Consensus size: 81
21075411 TACTCGTTCA
* *
21075421 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
21075484 ATTTAGTAAC-TCGCAC
65 ATTTAGTAACTTAGCAC
**
21075500 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
21075563 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
21075579 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21075603 CATCATTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
77 3 0.03
78 49 0.53
79 29 0.32
80 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:21075602 original size:40 final size:40
Alignment explanation
Indices: 21075419--21075602 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
21075409 GCTACTCGTT
*
21075419 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
21075459 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
21075499 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
21075537 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21075578 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21075603 CATCATTCGA
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 26 0.20
39 21 0.16
40 69 0.53
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21076155 original size:19 final size:19
Alignment explanation
Indices: 21076131--21076169 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
21076121 TCGAATTCAA
21076131 CATACTAGCTAATATTTCC
1 CATACTAGCTAATATTTCC
21076150 CATACTAGCTAATATTTCC
1 CATACTAGCTAATATTTCC
21076169 C
1 C
21076170 CTTAGCCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (19 bp):
CATACTAGCTAATATTTCC
Found at i:21081750 original size:40 final size:40
Alignment explanation
Indices: 21081648--21081834 Score: 282
Period size: 40 Copynumber: 4.9 Consensus size: 40
21081638 GGATATAGCT
*
21081648 CTCGCTCAAATGCCTTCGGGACTTAGCCC-GTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
21081687 CTCG--C--A--CCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
21081721 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
21081761 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
21081801 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
21081835 CAATCCGAAT
Statistics
Matches: 135, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
33 17 0.13
34 14 0.10
35 1 0.01
36 1 0.01
37 1 0.01
39 17 0.13
40 84 0.62
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:21081804 original size:80 final size:74
Alignment explanation
Indices: 21081621--21081834 Score: 276
Period size: 80 Copynumber: 2.9 Consensus size: 74
21081611 CAAACCAAGT
** *
21081621 ACCTTCGGGGTTTAG-CCGGATATAGCT--CTCGCTCAAATGCCTTCGGGACTTAGCCC-GTTAT
1 ACCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
21081682 AGTAACTCGC
65 AGTAACTCGC
* * *
21081692 ACCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATA
1 ACCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
21081757 GTAACTCGCAC
66 GTAACTCG--C
21081768 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGT
1 --A--CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
21081832 TAT
62 TAT
21081835 CAATCCGAAT
Statistics
Matches: 124, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
71 14 0.11
72 9 0.07
73 26 0.21
74 14 0.11
76 1 0.01
78 1 0.01
79 13 0.10
80 46 0.37
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (74 bp):
ACCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
GTAACTCGC
Found at i:21082606 original size:12 final size:12
Alignment explanation
Indices: 21082589--21082614 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21082579 AATTAAACTT
21082589 ACCGAGAAAGAA
1 ACCGAGAAAGAA
21082601 ACCGAGAAAGAA
1 ACCGAGAAAGAA
21082613 AC
1 AC
21082615 TCATAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.19, G:0.23, T:0.00
Consensus pattern (12 bp):
ACCGAGAAAGAA
Found at i:21083656 original size:27 final size:27
Alignment explanation
Indices: 21083615--21083728 Score: 85
Period size: 27 Copynumber: 4.3 Consensus size: 27
21083605 ATGCCATAAT
* *
21083615 TATCTGATCTAGTAGCTCTGCTACATA
1 TATCTGTTCTGGTAGCTCTGCTACATA
* *
21083642 TATCTGTTCTGGTAGCTTTGCCACA-A
1 TATCTGTTCTGGTAGCTCTGCTACATA
*
21083668 TTATATGTTCTGGT-GACTCTG-TCACAT-
1 -TATCTGTTCTGGTAG-CTCTGCT-ACATA
* *
21083695 TATCTGTTCTGGCAGC-CATGCTGCATA
1 TATCTGTTCTGGTAGCTC-TGCTACATA
*
21083722 TTTCTGT
1 TATCTGT
21083729 GGCGTGTAGC
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
25 1 0.01
26 19 0.28
27 48 0.71
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (27 bp):
TATCTGTTCTGGTAGCTCTGCTACATA
Found at i:21083703 original size:26 final size:26
Alignment explanation
Indices: 21083613--21083706 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
21083603 CTATGCCATA
* * *
21083613 ATTATCTGATCTAGTAGCTCTGCTAC
1 ATTATCTGTTCTGGTAGCTCTGCCAC
*
21083639 ATATATCTGTTCTGGTAGCTTTGCCAC
1 AT-TATCTGTTCTGGTAGCTCTGCCAC
* *
21083666 AATTATATGTTCTGGT-GACTCTGTCAC
1 -ATTATCTGTTCTGGTAG-CTCTGCCAC
21083693 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
21083707 CAGCCATGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
26 16 0.28
27 39 0.68
28 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (26 bp):
ATTATCTGTTCTGGTAGCTCTGCCAC
Found at i:21085654 original size:40 final size:39
Alignment explanation
Indices: 21085609--21085738 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21085599 CGGAATACAA
21085609 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21085649 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21085689 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21085729 CCGGATATAA
1 CCGGATATAA
21085739 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21093695 original size:40 final size:39
Alignment explanation
Indices: 21093650--21093779 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21093640 CGGAATACAA
21093650 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21093690 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21093730 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21093770 CCGGATATAA
1 CCGGATATAA
21093780 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21095930 original size:28 final size:28
Alignment explanation
Indices: 21095876--21095930 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
21095866 GGAAGGGAGA
** * *
21095876 GTAAAAGTTTTGGGGGAAGTGAGAAGGG
1 GTAAAAGTTTTGAAGGAAGTAAAAAGGG
21095904 GTAAAAGTTTTGAAGGAAGTAAAAAGG
1 GTAAAAGTTTTGAAGGAAGTAAAAAGG
21095931 TTGAGAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (28 bp):
GTAAAAGTTTTGAAGGAAGTAAAAAGGG
Found at i:21095985 original size:9 final size:9
Alignment explanation
Indices: 21095971--21096003 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
21095961 TATAGTTTGA
21095971 TATTCGAAT
1 TATTCGAAT
21095980 TATTCGAAT
1 TATTCGAAT
*
21095989 TATTCGAGT
1 TATTCGAAT
21095998 TATTCG
1 TATTCG
21096004 TGTAACACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21097419 original size:40 final size:39
Alignment explanation
Indices: 21097374--21097503 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21097364 CGGAATACAA
21097374 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21097414 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21097454 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21097494 CCGGATATAA
1 CCGGATATAA
21097504 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21105468 original size:40 final size:39
Alignment explanation
Indices: 21105423--21105552 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21105413 CGGAATACAA
21105423 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21105463 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21105503 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21105543 CCGGATATAA
1 CCGGATATAA
21105553 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21114617 original size:27 final size:26
Alignment explanation
Indices: 21114538--21114648 Score: 114
Period size: 27 Copynumber: 4.2 Consensus size: 26
21114528 AGGAAGCGTC
* * *
21114538 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGTT
*
21114565 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
21114592 CTGGTAGCTTTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* **
21114619 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
21114645 CTGG
1 CTGG
21114649 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 16 0.23
27 52 0.74
28 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:21114636 original size:54 final size:53
Alignment explanation
Indices: 21114538--21114657 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 53
21114528 AGGAAGCGTC
* * * *
21114538 CTGGTGGCTATGCCATAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTAGCTATGCCACAATTATCTGATCTAGTGACTCTACCACAT-TATCTGTT
* * * *
21114592 CTGGTAGCTTTGCCACAATTATCTGTTCTGGTGACTCTATCACATTATCTGTT
1 CTGGTAGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATTATCTGTT
* *
21114645 CTGGCAGCCATGC
1 CTGGTAGCTATGC
21114658 TGCATATTTC
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
53 18 0.33
54 37 0.67
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (53 bp):
CTGGTAGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATTATCTGTT
Found at i:21115924 original size:27 final size:26
Alignment explanation
Indices: 21115884--21115990 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 26
21115874 AGGAAGTGTC
* *
21115884 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
*
21115911 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
21115938 CTGGTGGCTTTGCCACAATTATCTATT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* *
21115965 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTATT
21115991 TTGGCAGCCA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.17
27 56 0.80
28 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:21115968 original size:54 final size:53
Alignment explanation
Indices: 21115884--21115987 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 53
21115874 AGGAAGTGTC
*
21115884 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
21115938 CTGGTGGCTTTGCCACAATTATCTATTCTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATTATCT
21115988 ATTTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.11
54 41 0.89
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATTATCTGTT
Found at i:21123473 original size:31 final size:31
Alignment explanation
Indices: 21123435--21123497 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
21123425 TGCTTATCTT
*
21123435 AGTTTCTTGCCTTGGTTCTGGTTTAGGTGTG
1 AGTTTCTTGCCTTGGTTCTGGTTCAGGTGTG
21123466 AGTTTCTTGCCTTGGTTCTGGTTCAGGTGTG
1 AGTTTCTTGCCTTGGTTCTGGTTCAGGTGTG
21123497 A
1 A
21123498 CTAACCCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.08, C:0.14, G:0.32, T:0.46
Consensus pattern (31 bp):
AGTTTCTTGCCTTGGTTCTGGTTCAGGTGTG
Found at i:21127024 original size:42 final size:42
Alignment explanation
Indices: 21126977--21127068 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
21126967 TGGCCCTTAG
* *
21126977 GCCCATTTCAATATCACATGTAATTTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
21127019 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
21127061 GCCCATTT
1 GCCCATTT
21127069 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:21127244 original size:25 final size:25
Alignment explanation
Indices: 21127216--21127285 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
21127206 CTCTTTTAAT
21127216 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
21127241 AACTGAGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
21127266 AACTGGGGTAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
21127286 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:21128244 original size:27 final size:27
Alignment explanation
Indices: 21128191--21128399 Score: 138
Period size: 27 Copynumber: 7.7 Consensus size: 27
21128181 TTTCATCCTA
* * * *
21128191 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
21128218 CAAGGGTATTTTAGTAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
21128244 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* * *
21128273 CAAGGGTATTTCT-ATAATTGTGTAAAC
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
21128300 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
21128327 TGAGGGTATTTTGGTAATTTCATAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
21128353 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* *
21128381 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
21128400 CTACCCTATA
Statistics
Matches: 142, Mismatches: 33, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
26 16 0.11
27 103 0.73
28 7 0.05
29 16 0.11
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:21128261 original size:26 final size:26
Alignment explanation
Indices: 21128218--21128310 Score: 91
Period size: 29 Copynumber: 3.4 Consensus size: 26
21128208 ATCTACAAAC
21128218 CAAGGGTATTT-TAGTAATTTTGTAAA
1 CAAGGGTATTTCTA-TAATTTTGTAAA
*
21128244 CAATGGTATTTCTATAATTTT-TAGAAA
1 CAAGGGTATTTCTATAATTTTGT--AAA
*
21128271 GTCAAGGGTATTTCTATAATTGTGTAAA
1 --CAAGGGTATTTCTATAATTTTGTAAA
*
21128299 CCAGGGGTATTT
1 -CAAGGGTATTT
21128311 TGGTAATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
25 1 0.02
26 17 0.30
27 15 0.27
28 3 0.05
29 19 0.34
30 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (26 bp):
CAAGGGTATTTCTATAATTTTGTAAA
Found at i:21128321 original size:55 final size:52
Alignment explanation
Indices: 21128199--21128392 Score: 160
Period size: 54 Copynumber: 3.6 Consensus size: 52
21128189 TACAAGGGTG
* * * *
21128199 TTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAA-CAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTTA-TAA-TTTGTAAACCAGTGGTA
* * *
21128252 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTGTGTAAACCAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTATTT-TATAATT-TGTAAACCAGTGGTA
** * * *
21128308 TTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCATAAACTAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTT-ATAATTT-GTAAACCAGTGGTA
*
21128362 TTTTGGTAATTTTACAAA-CTAGGGGTATTTT
1 TTTTGGTAATTTTACAAATC-AAGGGTATTTT
21128393 GGTAATTCTA
Statistics
Matches: 113, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
53 8 0.07
54 62 0.55
55 29 0.26
56 14 0.12
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (52 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTTATAATTTGTAAACCAGTGGTA
Found at i:21128411 original size:27 final size:26
Alignment explanation
Indices: 21128301--21128426 Score: 128
Period size: 27 Copynumber: 4.7 Consensus size: 26
21128291 TGTGTAAACC
*
21128301 AGGGGTATTTTGGTAATTTTACAAAT
1 AGGGGTATTTTGGTAATTCTACAAAT
* *
21128327 TGAGGGTATTTTGGTAATTTCATA-AACT
1 AG-GGGTATTTTGGTAA-TTC-TACAAAT
* *
21128355 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCTACAAA-T
**
21128382 AGGGGTATTTTGGTAATTCTACCCTAT
1 AGGGGTATTTTGGTAATTCTA-CAAAT
*
21128409 AGGGGTATTTTAGTAATT
1 AGGGGTATTTTGGTAATT
21128427 TCATAATCGA
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
25 2 0.02
26 5 0.06
27 65 0.79
28 8 0.10
29 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (26 bp):
AGGGGTATTTTGGTAATTCTACAAAT
Found at i:21128427 original size:54 final size:54
Alignment explanation
Indices: 21128295--21128399 Score: 167
Period size: 54 Copynumber: 1.9 Consensus size: 54
21128285 TATAATTGTG
* *
21128295 TAAACCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCA
1 TAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTCA
*
21128349 TAAACTAGTGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATT
1 TAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTTGGTAATT
21128400 CTACCCTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 45 0.96
55 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (54 bp):
TAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGGTAATTTCA
Done.