Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 88 of 325
Found at i:28108950 original size:47 final size:47
Alignment explanation
Indices: 28108885--28109429 Score: 777
Period size: 47 Copynumber: 11.4 Consensus size: 47
28108875 CAGCCAAGAG
* *
28108885 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28108932 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
28108979 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28109028 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTTAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
28109079 AGTATATGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AG----TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
28109130 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
28109177 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28109224 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28109271 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
28109318 A-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
28109364 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
28109411 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
28109430 TCCCGAAAGG
Statistics
Matches: 459, Mismatches: 30, Indels: 18
0.91 0.06 0.04
Matches are distributed among these distances:
46 45 0.10
47 281 0.61
49 42 0.09
51 87 0.19
53 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:28109603 original size:37 final size:37
Alignment explanation
Indices: 28109547--28109625 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28109537 CCGAGCTCTA
* * *
28109547 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28109584 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28109621 AAGAC
1 AAGAC
28109626 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28116846 original size:589 final size:590
Alignment explanation
Indices: 28115713--28116898 Score: 2110
Period size: 589 Copynumber: 2.0 Consensus size: 590
28115703 ATGCATTTAG
28115713 CCGAAAACAAGTTTGTTTAGACAACAACTCACTTACAACTTATCTCAATCATTTTACAAGTTTAT
1 CCGAAAACAAGTTTGTTTAGACAACAACTCACTTACAACTTATCTCAATCATTTTACAAGTTTAT
28115778 ACACTTCAAATGTTTAAATTATTATACATAAAATATAACATAGTTTTTCCAACATTTTATACACC
66 ACACTTCAAATGTTTAAATTATTATACATAAAATATAACATAGTTTTTCCAACATTTTATACACC
* *
28115843 GCAACCTAATACATACATACTATAATTACCTAATTTTTAATCACATTTACCGAACCCTAATAATA
131 GCAACCTAATACATACATACTATAATAACCTAATTTTTAATCACATTTACAGAACCCTAATAATA
* * * *
28115908 TAAATTAATAAGTTCAGACAACATATCCAACTTATAACTACTTATTCAGTACATTACCTCACTAT
196 TAAATTAATAAGTCCAAACAACATATCCAACCTATAACTACTTATTCAGTACATTACCTAACTAT
*
28115973 CACAAACATAATTTGAGCATCTAAAACCCACTCAAAACCATGCACGTAATCACGATTCAACTAAG
261 CACAAACATAATTTGAGCATCTAAAACCCACTCAAAAACATGCACGTAATCACGATTCAACTAAG
*
28116038 TTGAATGAAAATACTTATTAACTAAATAAGATTATTTTTATCATTACAAGACATTAACTACATAC
326 TTGAATGAAAATACTTATTAACTAAAGAAGATTATTTTTATCATTACAAGACATTAACTACATAC
*
28116103 AGATATATCCAAAACATAAATATTACCTACCATATGTCAAACATGACAAGTCAAATTATCATATG
391 AGATATAACCAAAACATAAATATTACCTACCATATGTCAAACATGACAAGTCAAATTATCATATG
*
28116168 CATAAGTATTTGTATAAGCAATGCCAAATCACAAATTAATCATTATCATTTTATTCTATCCCACC
456 CATAAGTATTTGTATAAGCAATGCCAAATCACAAATTAATCATTATCATTTTATTCCATCCCACC
* * * *
28116233 TTATAACTGAATATATGCCACTTCATTATTGAAATAGTTTTCCAG-CCAATTCAAATTTGTTTTA
521 TTATAACCGAATATATACCACTTCATTATGGAAATA-TTTTCCAGACCAATTCAAATTTATTTTA
28116297 CCTATA
585 CCTATA
28116303 CCGAAAACAAGTTTGTTTAGACAACAACTCACTTACAACTTATCTCAATCATTTTACAAGTTTAT
1 CCGAAAACAAGTTTGTTTAGACAACAACTCACTTACAACTTATCTCAATCATTTTACAAGTTTAT
*
28116368 ACACTTGAAATGTTTAAATTATTATACATAAAATATAACATAGTTTTTCCAACATTTTATACACC
66 ACACTTCAAATGTTTAAATTATTATACATAAAATATAACATAGTTTTTCCAACATTTTATACACC
28116433 GCAACCTAATACATACATACTATAATAACCTAATTTTTAATCACATTTACAGAACCCTAATAATA
131 GCAACCTAATACATACATACTATAATAACCTAATTTTTAATCACATTTACAGAACCCTAATAATA
*
28116498 TAAATTAATAAGTCCAAACAACATATCCAACCTATCACTACTTATTCAGTACATTACCTAACTAT
196 TAAATTAATAAGTCCAAACAACATATCCAACCTATAACTACTTATTCAGTACATTACCTAACTAT
* * *
28116563 CACAATCA-AATTTGAGCATCTAAAACCCATTCAAAAACATGCATGTAATCACGATTCAACTAAG
261 CACAAACATAATTTGAGCATCTAAAACCCACTCAAAAACATGCACGTAATCACGATTCAACTAAG
*
28116627 TTGAATGAAAATACTTATTAACTAAAGAAGATTATTTTTATCATTACAAGGCATTAACTACATAC
326 TTGAATGAAAATACTTATTAACTAAAGAAGATTATTTTTATCATTACAAGACATTAACTACATAC
28116692 AGATATAACCAAAACATAAATATTACCTACCATATGTCAAACATGACAAGTCAAATTATCATATG
391 AGATATAACCAAAACATAAATATTACCTACCATATGTCAAACATGACAAGTCAAATTATCATATG
*
28116757 CATAAGTATTTGTATAAGCAATG-TAGAATCACAAATTAATCATTATCATTTTATTCCATCCCAC
456 CATAAGTATTTGTATAAGCAATGCCA-AATCACAAATTAATCATTATCATTTTATTCCATCCCAC
* * *
28116821 CTTATAACCGAATATATACCACTTCATTATGGAAATATTTTTCTGACCAATTCATATTTATTTTA
520 CTTATAACCGAATATATACCACTTCATTATGGAAATATTTTCCAGACCAATTCAAATTTATTTTA
28116886 CCTATA
585 CCTATA
28116892 CC-AAAAC
1 CCGAAAAC
28116899 CTTGGCCAAA
Statistics
Matches: 570, Mismatches: 24, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
588 12 0.02
589 299 0.52
590 259 0.45
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (590 bp):
CCGAAAACAAGTTTGTTTAGACAACAACTCACTTACAACTTATCTCAATCATTTTACAAGTTTAT
ACACTTCAAATGTTTAAATTATTATACATAAAATATAACATAGTTTTTCCAACATTTTATACACC
GCAACCTAATACATACATACTATAATAACCTAATTTTTAATCACATTTACAGAACCCTAATAATA
TAAATTAATAAGTCCAAACAACATATCCAACCTATAACTACTTATTCAGTACATTACCTAACTAT
CACAAACATAATTTGAGCATCTAAAACCCACTCAAAAACATGCACGTAATCACGATTCAACTAAG
TTGAATGAAAATACTTATTAACTAAAGAAGATTATTTTTATCATTACAAGACATTAACTACATAC
AGATATAACCAAAACATAAATATTACCTACCATATGTCAAACATGACAAGTCAAATTATCATATG
CATAAGTATTTGTATAAGCAATGCCAAATCACAAATTAATCATTATCATTTTATTCCATCCCACC
TTATAACCGAATATATACCACTTCATTATGGAAATATTTTCCAGACCAATTCAAATTTATTTTAC
CTATA
Found at i:28125209 original size:7 final size:7
Alignment explanation
Indices: 28125197--28125224 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
28125187 ACATTCTTCA
28125197 CTTACAT
1 CTTACAT
28125204 CTTACAT
1 CTTACAT
28125211 CTTACAT
1 CTTACAT
28125218 CTTACAT
1 CTTACAT
28125225 TATACCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (7 bp):
CTTACAT
Found at i:28139574 original size:43 final size:43
Alignment explanation
Indices: 28139514--28139596 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
28139504 GAGATATATG
* *
28139514 GCATCTGAGCTCATTGAGTGGTCTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGA
* *
28139557 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTGTGGATG
1 GCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATG
28139597 TGTGACTTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.31
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGA
Found at i:28141294 original size:47 final size:47
Alignment explanation
Indices: 28141223--28141527 Score: 511
Period size: 47 Copynumber: 6.5 Consensus size: 47
28141213 CCCTTCGGGA
* * * * * *
28141223 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* ** *
28141270 CCTATCACATATATACACTTTCACATTCATCACATTAGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28141317 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28141364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28141411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28141458 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28141505 CTTATCACATATATACACTTTCA
1 CTTATCACATATATACACTTTCA
28141528 AATGAATAAT
Statistics
Matches: 246, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 246 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28141301 original size:25 final size:25
Alignment explanation
Indices: 28141273--28141351 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
28141263 ACTCGGCCCT
28141273 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* * * *
28141298 ATCACAT-TA-GC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
28141320 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
28141345 ATCACAT
1 ATCACAT
28141352 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:28145098 original size:40 final size:40
Alignment explanation
Indices: 28145054--28145245 Score: 276
Period size: 40 Copynumber: 4.8 Consensus size: 40
28145044 CCAGCATGAT
* * * *
28145054 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
28145094 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
28145134 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
28145174 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
28145214 TACTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
28145246 CTCAATTCTC
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:28146753 original size:47 final size:47
Alignment explanation
Indices: 28146660--28147166 Score: 834
Period size: 47 Copynumber: 10.7 Consensus size: 47
28146650 CCCTTCGGGG
* * * * * *
28146660 CTTATCACATTTATACACTTTCACATCCATCACCTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * ** *
28146707 CCTATGACATATATACCCTTTCACATTCATCACATTAGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28146754 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28146801 CTTATCACATATATACACTTTCACAGTCATCTCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28146848 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28146895 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28146942 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28146989 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28147036 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28147085 CTTATCACATGTATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28147132 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
28147167 ATATACACTT
Statistics
Matches: 433, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 388 0.90
49 45 0.10
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28157112 original size:49 final size:47
Alignment explanation
Indices: 28157040--28157262 Score: 179
Period size: 49 Copynumber: 4.7 Consensus size: 47
28157030 ATATGTTGTC
* *
28157040 GATGCCATGTCTCGGACATGGTCTTACACTGGCTATCATCATCAAGGTT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATC-TCAAGGTT
* * * *
28157089 GATGCCATGTCCCAAACATGGTCTTATACTAGCTCTCATCT-ATAGGTGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATCTCA-AGGT--T
* * * **
28157139 GATGCATGTCCCAGACAT-GTCTTACACTAGC-A-CAACTCTTA-GCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTC-AAGGTT
* * * *
28157183 GATGCGTGACCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCTT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATC-TCAAGG-TT
*
28157231 GATGCATGTCCTAGACATGGTCTTACACTGGC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC
28157263 GCACAAGTAA
Statistics
Matches: 138, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 27 0.20
45 1 0.01
46 9 0.07
47 5 0.04
48 31 0.22
49 60 0.43
50 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCAAGGTT
Found at i:28158136 original size:19 final size:20
Alignment explanation
Indices: 28158097--28158137 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
28158087 GGCTTAGGTA
*
28158097 TTATTATATTACACCTTATG
1 TTATTATATTACACCTAATG
*
28158117 TTATTA-ATTTCACCTAATG
1 TTATTATATTACACCTAATG
28158136 TT
1 TT
28158138 GACTTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (20 bp):
TTATTATATTACACCTAATG
Found at i:28166544 original size:55 final size:55
Alignment explanation
Indices: 28166474--28166604 Score: 181
Period size: 55 Copynumber: 2.4 Consensus size: 55
28166464 CCTTTATCCT
* * * * *
28166474 GTGTGCAACACTGACTTTAAAACACGGCCCTGGCACACACCCGTGTGGCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACACCCGTCTGGCCTACCC
* * * *
28166529 TTGTACAACACTGACTTTAAAACACGGCCATGACATACGCCTGTCTGGCCTACCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACACCCGTCTGGCCTACCC
28166584 GTGTACAACACTGACTTTAAA
1 GTGTACAACACTGACTTTAAA
28166605 TTTTAAGTGC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGGCCATGACACACACCCGTCTGGCCTACCC
Found at i:28169721 original size:17 final size:18
Alignment explanation
Indices: 28169692--28169738 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
28169682 ATCTTTATTG
*
28169692 TTCAGTATCAATCAGTCA
1 TTCAGTATTAATCAGTCA
*
28169710 TT-AGTATTAATCAGTTA
1 TTCAGTATTAATCAGTCA
*
28169727 TTCAGTAATAAT
1 TTCAGTATTAAT
28169739 AATTTATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (18 bp):
TTCAGTATTAATCAGTCA
Found at i:28169738 original size:18 final size:18
Alignment explanation
Indices: 28169692--28169805 Score: 99
Period size: 18 Copynumber: 6.4 Consensus size: 18
28169682 ATCTTTATTG
*
28169692 TTCAGT-ATCAATCAGTCA
1 TTCAGTAAT-AATCAGTTA
*
28169710 TT-AGTATTAATCAGTTA
1 TTCAGTAATAATCAGTTA
* *
28169727 TTCAGTAATAATAATTTA
1 TTCAGTAATAATCAGTTA
* *
28169745 TTCAGTAACAGTC-GTTTA
1 TTCAGTAATAATCAG-TTA
* * * *
28169763 TTCAGCAACAGTCAATTA
1 TTCAGTAATAATCAGTTA
28169781 TTCAGTAATAATCAGTTA
1 TTCAGTAATAATCAGTTA
28169799 TTCAGTA
1 TTCAGTA
28169806 CCTTTATTTA
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
17 13 0.17
18 64 0.83
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TTCAGTAATAATCAGTTA
Found at i:28170000 original size:44 final size:44
Alignment explanation
Indices: 28169950--28170036 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
28169940 CGGATTAATC
*
28169950 CAAAGTA-ATAGAAACAGTACGACATATG-AAGTGCCTCATCGACA
1 CAAAGTAGA-AGAAACAGTAAGACA-ATGTAAGTGCCTCATCGACA
* * *
28169994 CAAAGTAGAAGTAACAGTAAGACACTGTTAGTGCCTCATCGAC
1 CAAAGTAGAAGAAACAGTAAGACAATGTAAGTGCCTCATCGAC
28170037 CCATGGTCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 34 0.92
45 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (44 bp):
CAAAGTAGAAGAAACAGTAAGACAATGTAAGTGCCTCATCGACA
Found at i:28170166 original size:20 final size:20
Alignment explanation
Indices: 28170141--28170180 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
28170131 TTTAGTTTTC
28170141 AATCAGTATATATT-TCAATT
1 AATCAG-ATATATTCTCAATT
28170161 AATCAGATATATTCTCAATT
1 AATCAGATATATTCTCAATT
28170181 CAATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (20 bp):
AATCAGATATATTCTCAATT
Found at i:28170188 original size:16 final size:15
Alignment explanation
Indices: 28170148--28170197 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
28170138 TTCAATCAGT
28170148 ATATATTTCAATTAATCA
1 ATATATTTCAA-T--TCA
28170166 GATATATTCTCAATTCA
1 -ATATATT-TCAATTCA
28170183 ATATATTTCAATTCA
1 ATATATTTCAATTCA
28170198 CTTTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
19 8 0.27
20 4 0.13
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATATTTCAATTCA
Found at i:28172135 original size:27 final size:27
Alignment explanation
Indices: 28172085--28172191 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
28172075 TGGCTGCCAA
* *
28172085 AATAGATAA-TGTGACAGAGTCACCAG
1 AATAGATAATTGTGGCAGAGCCACCAG
28172111 AATAGATAATTGTGGCAGAGCCACCAG
1 AATAGATAATTGTGGCAGAGCCACCAG
* *
28172138 AACAGAT-ATATGTGGCAGAGCAACCAG
1 AATAGATAAT-TGTGGCAGAGCCACCAG
* *
28172165 -ATCAGATAATTATGGCATAGCCACCAG
1 AAT-AGATAATTGTGGCAGAGCCACCAG
28172192 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 12 0.17
27 55 0.80
28 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (27 bp):
AATAGATAATTGTGGCAGAGCCACCAG
Found at i:28172157 original size:54 final size:53
Alignment explanation
Indices: 28172088--28172191 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 53
28172078 CTGCCAAAAT
*
28172088 AGATAATGTGACAGAGTC-ACCAGAAT-AGATAATTGTGGCAGAGCCACCAGAAC
1 AGATAATGTGACAGAG-CAACCAG-ATCAGATAATTATGGCAGAGCCACCAGAAC
* *
28172141 AGATATATGTGGCAGAGCAACCAGATCAGATAATTATGGCATAGCCACCAG
1 AGATA-ATGTGACAGAGCAACCAGATCAGATAATTATGGCAGAGCCACCAG
28172192 GACGCTTCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.18
Consensus pattern (53 bp):
AGATAATGTGACAGAGCAACCAGATCAGATAATTATGGCAGAGCCACCAGAAC
Found at i:28173636 original size:24 final size:24
Alignment explanation
Indices: 28173600--28173646 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
28173590 AACACTGTTC
*
28173600 TCCCTAATTAGCTCCTAAATCCTA
1 TCCCTAATCAGCTCCTAAATCCTA
*
28173624 TCCCTTATCAGCTCCTAAATCCT
1 TCCCTAATCAGCTCCTAAATCCT
28173647 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.36, G:0.04, T:0.34
Consensus pattern (24 bp):
TCCCTAATCAGCTCCTAAATCCTA
Found at i:28184348 original size:19 final size:19
Alignment explanation
Indices: 28184324--28184361 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
28184314 TGGACTGCCA
28184324 CATGAAGATACACGAGAAC
1 CATGAAGATACACGAGAAC
28184343 CATGAAGATACACGAGAAC
1 CATGAAGATACACGAGAAC
28184362 ATCTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
CATGAAGATACACGAGAAC
Found at i:28194103 original size:11 final size:11
Alignment explanation
Indices: 28194086--28194115 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
28194076 GCTTGTATTA
28194086 AATTTTTATAT
1 AATTTTTATAT
*
28194097 TATTTTTATAT
1 AATTTTTATAT
28194108 AATTTTTA
1 AATTTTTA
28194116 AATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
AATTTTTATAT
Found at i:28194271 original size:30 final size:30
Alignment explanation
Indices: 28194237--28194296 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
28194227 ACTTAACAAG
* *
28194237 AAAATGCCTCTAAAATAATAACAAATTTAA
1 AAAATGCCCCTAAAATAATAACAAAATTAA
28194267 AAAATGCCCCTAAAATAATAACAAAATTAA
1 AAAATGCCCCTAAAATAATAACAAAATTAA
28194297 CAATAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
AAAATGCCCCTAAAATAATAACAAAATTAA
Found at i:28196534 original size:30 final size:29
Alignment explanation
Indices: 28196483--28196543 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
28196473 CAAGTAGCCG
*
28196483 AAGCTAGTTAAATCGCGCACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
28196512 AAGCTAGTTTAAATTGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
28196542 AA
1 AA
28196544 ACTTCCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:28198443 original size:8 final size:8
Alignment explanation
Indices: 28198430--28198454 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
28198420 CTTGAGAATG
28198430 CAACATAT
1 CAACATAT
28198438 CAACATAT
1 CAACATAT
28198446 CAACATAT
1 CAACATAT
28198454 C
1 C
28198455 CTCGAGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (8 bp):
CAACATAT
Found at i:28203851 original size:30 final size:29
Alignment explanation
Indices: 28203810--28203867 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
28203800 AGTAGCCGAA
28203810 GCTAGTTAAATCGCACACTTAGTGCCAAG
1 GCTAGTTAAATCGCACACTTAGTGCCAAG
28203839 GCTAGTTTAAATCGCACACTTAGTGCCAA
1 GCTAG-TTAAATCGCACACTTAGTGCCAA
28203868 AACTTCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (29 bp):
GCTAGTTAAATCGCACACTTAGTGCCAAG
Found at i:28209340 original size:53 final size:53
Alignment explanation
Indices: 28209260--28209364 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
28209250 ATAAACTACG
* * * * *
28209260 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAACACCATGCCAAGACATGGCAATGGTAAGTTC
* * *
28209313 ATAAGGCAAGGATATCACGTAACACCATGTCAAGACATGGCAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAACACCATGCCAAGACATGGCAATGGTAAGTT
28209365 TAAAAAGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAACACCATGCCAAGACATGGCAATGGTAAGTTC
Found at i:28212509 original size:40 final size:40
Alignment explanation
Indices: 28212464--28212688 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
28212454 CTTGCGCAAG
* * * *
28212464 GCCTTCGGGTCTTAGCCCGAATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
28212504 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
28212544 GCCTTCGGGTTTTAGCCTGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
28212584 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
28212624 GCCTTCGGATCTTAGTCCGGTTGTAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
28212665 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
28212689 CATTCGAATA
Statistics
Matches: 153, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.82
41 27 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:28219026 original size:47 final size:47
Alignment explanation
Indices: 28218958--28219486 Score: 824
Period size: 47 Copynumber: 11.1 Consensus size: 47
28218948 GAAATGATAG
* *
28218958 TAAGGCCTAATGGCCGCTGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
28219005 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
28219054 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
28219101 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
28219148 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
28219197 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
28219244 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
28219293 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
28219342 TAGGGCCTAATGGCCGATGTGATTAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
28219389 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
28219436 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
28219483 TAAG
1 TAAG
28219487 TCCCGAAGGG
Statistics
Matches: 450, Mismatches: 26, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
47 263 0.58
49 187 0.42
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:28219122 original size:96 final size:96
Alignment explanation
Indices: 28218958--28219486 Score: 836
Period size: 96 Copynumber: 5.5 Consensus size: 96
28218948 GAAATGATAG
* *
28218958 TAAGGCCTAATGGCCGCTGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
28219023 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
28219054 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
28219119 GTGATGAACGTGAAA--GTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
28219148 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
28219213 ATGTGATGAATGTGAAAGTG--TATATACGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
*
28219244 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
28219309 ATGTGATGAATGTGAAAGTGTATATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
28219342 TAGGGCCTAATGGCCGATGTGATTAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
28219407 GTGATGAATGTGAAA--GTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
28219436 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
28219487 TCCCGAAGGG
Statistics
Matches: 407, Mismatches: 20, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
94 107 0.26
96 255 0.63
98 45 0.11
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:28219216 original size:143 final size:143
Alignment explanation
Indices: 28218958--28219486 Score: 891
Period size: 143 Copynumber: 3.7 Consensus size: 143
28218948 GAAATGATAG
* *
28218958 TAAGGCCTAATGGCCGCTGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
28219023 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
28219088 TGTATATACGTGA
131 TGTATATACGTGA
28219101 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
28219166 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
28219231 TGTATATACGTGA
131 TGTATATACGTGA
* *
28219244 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAACGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCG
* *
28219309 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATTAATGTGAA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28219374 AGTGTATATATGTGA
129 AGTGTATATACGTGA
* * * * * * *
28219389 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
*
28219454 GTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAG
28219487 TCCCGAAGGG
Statistics
Matches: 370, Mismatches: 14, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
141 9 0.02
142 1 0.00
143 221 0.60
145 139 0.38
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATACGTGA
Found at i:28219661 original size:37 final size:37
Alignment explanation
Indices: 28219605--28219683 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
28219595 CCGAGCTCTA
* * *
28219605 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28219642 AAGACCCGATAACCT-CGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAA-CTACGTGTGGAGATTATGTCCGGGT
28219679 AAGAC
1 AAGAC
28219684 TTTGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28225175 original size:40 final size:39
Alignment explanation
Indices: 28225096--28225316 Score: 250
Period size: 40 Copynumber: 5.6 Consensus size: 39
28225086 CTTGCGCAAG
* * *
28225096 GCCTTCGGTCTTAGCCCGGATGT-GTCACTAGCATAAAT
1 GCCTTCGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
28225134 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAAT
** * *
28225174 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
28225214 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* *
28225254 GCCTTCGGATCTTAGTCCGG-TATAGTCACCTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
28225294 GCCTTCGGACTTAGCCCGGATAT
1 GCCTTCGGACTTAGCCCGGATAT
28225317 CATTCGAATA
Statistics
Matches: 158, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 6 0.04
39 33 0.21
40 119 0.75
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:28225217 original size:80 final size:80
Alignment explanation
Indices: 28225060--28225316 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
28225050 CTCAAGTAAT
* * * * * * *
28225060 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTC-GGTCTTAGCCCGGATGT-GT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
28225121 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
28225136 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
28225200 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * *
28225216 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGG-TATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
28225280 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
28225296 CTTC-GGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
28225317 CATTCGAATA
Statistics
Matches: 152, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
76 12 0.08
77 14 0.09
78 9 0.06
79 38 0.25
80 79 0.52
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:28225288 original size:120 final size:117
Alignment explanation
Indices: 28225096--28225316 Score: 286
Period size: 119 Copynumber: 1.9 Consensus size: 117
28225086 CTTGCGCAAG
* *
28225096 GCCTTCGGTCTTAGCCCGGATGTGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 GCCTTCGGTCTTAGCCCGGATATGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* * **
28225161 CGCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
66 CCCTAGCACAAAAGCCTTC-GGACTTAGCCCGGATATAATCGCTAGCACAAAT
* * *
28225214 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGG-TA
1 GCCTTC-GGTCTTAGCCCGGATAT-GTC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATA
28225276 TAGTCACCTAGCACAAAAGCCTTCGGACTTAGCCCGGATAT
62 TAGTC-CCTAGCACAAAAGCCTTCGGACTTAGCCCGGATAT
28225317 CATTCGAATA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
118 6 0.07
119 42 0.47
120 41 0.46
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (117 bp):
GCCTTCGGTCTTAGCCCGGATATGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CCCTAGCACAAAAGCCTTCGGACTTAGCCCGGATATAATCGCTAGCACAAAT
Found at i:28227317 original size:47 final size:44
Alignment explanation
Indices: 28227251--28227472 Score: 205
Period size: 47 Copynumber: 4.8 Consensus size: 44
28227241 ACATTATGGG
28227251 AGCCAGTGTAAGACTATGTCTGGGACATGGCATCGACATTGAGACGA
1 AGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCG-C-TTGAGACGA
* * * * *
28227298 GTGCTAGTGTAAGACATGTCTAGGACAT-GCATCTGCCTCGAAACGTA
1 -AGCCAGTGTAAGACATGTCTGGGACATGGCATC-G-CTTGAGACG-A
* *
28227345 AGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGTTACGAGATGA
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGCTT--GAGACGA
* * *
28227390 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTG
1 -AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG-CTTGAGACG-A
*
28227438 AGCCAGTGTAAGACTATGTCTAGGACATGGCATCG
1 AGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCG
28227473 GCACCTTACC
Statistics
Matches: 146, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 57 0.39
47 66 0.45
48 18 0.12
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGCTTGAGACGA
Found at i:28227461 original size:140 final size:141
Alignment explanation
Indices: 28227209--28227471 Score: 370
Period size: 140 Copynumber: 1.9 Consensus size: 141
28227199 TGTGTGAGCT
* * * *
28227209 AGTGTAAGACATGTCTAGGACATGCGTCGGCCACATTATGGGAGCCAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* *
28227274 GACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATGTCTAGGACAT-GCATCTGCCTCG
66 GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCTGCCTCG
28227338 AAACGTAAGCC
131 AAACGTAAGCC
* ** * *
28227349 AGTGTAAGACATGTCTGGGACATGCATCGGTTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTG
* *
28227413 GGACATGGCATCGAC-TTGAGATGTGAGCCAGTGTAAGACTATGTCTAGGACATGGCATC
65 GGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGAC-ATGTCTAGGACATGGCATC
28227472 GGCACCTTAC
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
139 20 0.19
140 81 0.76
141 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCTGCCTCG
AAACGTAAGCC
Found at i:28230695 original size:40 final size:40
Alignment explanation
Indices: 28230640--28230823 Score: 244
Period size: 40 Copynumber: 4.5 Consensus size: 40
28230630 TATTCGGATG
28230640 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
28230680 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* ** * *
28230723 ATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
28230763 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
28230803 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
28230824 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.10
40 76 0.61
41 1 0.01
43 35 0.28
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:28230783 original size:83 final size:80
Alignment explanation
Indices: 28230644--28230823 Score: 263
Period size: 83 Copynumber: 2.2 Consensus size: 80
28230634 CGGATGATAT
** * *
28230644 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
28230709 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTGCTATAC
*
28230727 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
*
28230792 TGCGAGTTGCTATAT
66 TGCGAGTTGCTATAC
*
28230807 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
28230824 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 14 0.16
80 12 0.13
81 1 0.01
83 63 0.70
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATAC
Found at i:28236930 original size:12 final size:12
Alignment explanation
Indices: 28236913--28236939 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28236903 GTTACTATGA
28236913 AATGGCTAGTTG
1 AATGGCTAGTTG
28236925 AATGGCTAGTTG
1 AATGGCTAGTTG
28236937 AAT
1 AAT
28236940 CATGGAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (12 bp):
AATGGCTAGTTG
Found at i:28238155 original size:30 final size:31
Alignment explanation
Indices: 28238121--28238179 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
28238111 ATTTTCAAAA
*
28238121 CTAGGGATAAAATGGTCATTTTG-CAAAAGT
1 CTAGGGACAAAATGGTCATTTTGCCAAAAGT
*
28238151 CTAGGGGCAAAATGGTCATTTTGCCAAAA
1 CTAGGGACAAAATGGTCATTTTGCCAAAA
28238180 TATAGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (31 bp):
CTAGGGACAAAATGGTCATTTTGCCAAAAGT
Found at i:28242558 original size:38 final size:38
Alignment explanation
Indices: 28242508--28242820 Score: 475
Period size: 38 Copynumber: 8.3 Consensus size: 38
28242498 GGCTCAAAGG
* * * *
28242508 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
28242546 CCCGGATCTAATACAAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
28242584 CCCGAATATATTACCAGC-CGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
28242621 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
28242659 CCCGGAGATATTACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
28242697 CCCGGGTATAATACCAGCATGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
28242735 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
28242773 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
28242811 CCCGGATATA
1 CCCGGATATA
28242821 CATCAAATAT
Statistics
Matches: 248, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
37 34 0.14
38 214 0.86
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:28248458 original size:38 final size:38
Alignment explanation
Indices: 28248415--28248835 Score: 608
Period size: 38 Copynumber: 11.1 Consensus size: 38
28248405 AAGGCCCGAA
* * *
28248415 ATAATACCAGCACTAGGCCTGCGGGATTTAACTCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
28248453 ATAATACCAGCACGAAGCCTGCGAGATATAACCCGAAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
28248491 ATATTACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
28248529 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGAC
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * * *
28248567 ATATTACCAGCACGAAGCCTGTGAGATTTAACCCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
28248605 ATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
28248643 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGAC
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * * * *
28248681 ATATTACCAGCACGAAGACTGTGAGATTTAACCCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
28248719 ATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
28248757 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCTGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
28248795 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGAAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
28248833 ATA
1 ATA
28248836 CATTAAATAT
Statistics
Matches: 339, Mismatches: 44, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 339 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:28248835 original size:114 final size:114
Alignment explanation
Indices: 28248415--28248828 Score: 677
Period size: 114 Copynumber: 3.6 Consensus size: 114
28248405 AAGGCCCGAA
* * * * *
28248415 ATAATACCAGCACTAGGCCTGCGGGATTTAACTCGGATATAATACCAGCACGAAGCCTGCGAGAT
1 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGACATAATACCAGCACGAAGCCTGCGAGAT
* *
28248480 ATAACCC-GAATATATTACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
66 TTAACCCAG-ATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
* *
28248529 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGACATATTACCAGCACGAAGCCTGTGAGAT
1 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGACATAATACCAGCACGAAGCCTGCGAGAT
28248594 TTAACCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
66 TTAACCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
* * *
28248643 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGACATATTACCAGCACGAAGACTGTGAGAT
1 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGACATAATACCAGCACGAAGCCTGCGAGAT
28248708 TTAACCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
66 TTAACCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
* * *
28248757 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCTGATATAATACCAGCACGAAGCCTGCGGGAT
1 ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGACATAATACCAGCACGAAGCCTGCGAGAT
28248822 TTAACCC
66 TTAACCC
28248829 GAATATACAT
Statistics
Matches: 283, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
114 282 1.00
115 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (114 bp):
ATAATACCAGCACGAAGCCTGTGGGATTTAACCCGGACATAATACCAGCACGAAGCCTGCGAGAT
TTAACCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
Found at i:28256710 original size:46 final size:44
Alignment explanation
Indices: 28256497--28256710 Score: 171
Period size: 46 Copynumber: 4.6 Consensus size: 44
28256487 ATTGTGAGCT
* * * * *
28256497 AGTGTACGACATGTCTGGGACATGCATCGGCCACATTGTGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTAC---GAGATGAGTC
* * * *
28256543 AGTTTAAGACCATGTCTAGGACATGGCATCAGC-ATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGATGAGT-C
* * * * *
28256590 TAGTGGAAGACATGTCTGGGACATGCATCAGCTTCGAGACATAAATT
1 -AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAG--ATGAGTC
*
28256637 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAGTC
28256681 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
28256711 GGTATCTCAC
Statistics
Matches: 135, Mismatches: 22, Indels: 22
0.75 0.12 0.12
Matches are distributed among these distances:
44 12 0.09
45 17 0.13
46 61 0.45
47 28 0.21
48 17 0.13
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAGTC
Found at i:28259083 original size:49 final size:49
Alignment explanation
Indices: 28259004--28259185 Score: 238
Period size: 49 Copynumber: 3.7 Consensus size: 49
28258994 TCTATTGTCA
*
28259004 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
* * *** *
28259053 GGTCGCGTGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAA-TT
* * *
28259103 CGATCACGTGTGTAGTACTAAGTGCAGACTACTACATGCACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
* *
28259153 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
28259186 TGTGTACCAG
Statistics
Matches: 111, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 69 0.62
50 4 0.04
51 38 0.34
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
Found at i:28259179 original size:100 final size:100
Alignment explanation
Indices: 28259006--28259198 Score: 325
Period size: 100 Copynumber: 1.9 Consensus size: 100
28258996 TATTGTCAGG
* *
28259006 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCGGATAATTGGTCGCGTGTGCAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGCACCGGATAATTGGTCGCATGTGCAGTACT
*
28259071 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
*
28259106 TCACGTGTGTAGTACTAAGTGC-AGACTACTACATGCACCGGATAATTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAG-CTACTACATGCACCGGATAATTGGTCGCATGTGCAGTAC
*
28259170 TAAGTGCAGGCTACTATGTGTACCAGATA
65 TAAGTGCAGGCTACTATGCGTACCAGATA
28259199 GCTTTGGCTA
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 2 0.02
100 85 0.98
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGCACCGGATAATTGGTCGCATGTGCAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:28261984 original size:19 final size:20
Alignment explanation
Indices: 28261960--28262006 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
28261950 CCCATTTAGA
* *
28261960 AATTTTTTATTGT-ATTGAT
1 AATTTTTTATGGTAATTAAT
28261979 AATTTTTTATGGTAATTAAT
1 AATTTTTTATGGTAATTAAT
28261999 -ATTTTTTA
1 AATTTTTTA
28262007 ATAATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.62
Consensus pattern (20 bp):
AATTTTTTATGGTAATTAAT
Found at i:28263578 original size:100 final size:100
Alignment explanation
Indices: 28263401--28263593 Score: 305
Period size: 100 Copynumber: 1.9 Consensus size: 100
28263391 TATTGTGAGG
* * * ** * *
28263401 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAGCGGATAATTGGTTGCCTGTGTAGTTCT
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
* *
28263466 AAGTGCATGCTACTATGCGTACCCGATAACCTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACCTCGA
28263501 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
28263566 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
28263594 GCTTTGGCTA
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACCTCGA
Found at i:28263588 original size:49 final size:48
Alignment explanation
Indices: 28263399--28263593 Score: 210
Period size: 49 Copynumber: 3.9 Consensus size: 48
28263389 TCTATTGTGA
* *
28263399 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAGCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCGATAATT
** * * * * *
28263448 GGTTGCCTGTGTAGTTCTAAGTGCATGCTACTATGCGTACCCGATAACCTC
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCGATAA--TT
* * *
28263499 GATCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGAATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCG-ATAATT
* *
28263548 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACC-GATA
28263594 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
49 78 0.67
50 4 0.03
51 35 0.30
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGATAATT
Found at i:28272757 original size:30 final size:30
Alignment explanation
Indices: 28272723--28272783 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
28272713 TCCTTAACTC
28272723 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
28272753 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
28272783 A
1 A
28272784 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:28273946 original size:46 final size:45
Alignment explanation
Indices: 28273882--28274101 Score: 201
Period size: 46 Copynumber: 4.8 Consensus size: 45
28273872 ATATATCCAT
* *
28273882 GCCGATGCATGTCTCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTCGAG
* * * * *
28273928 GTCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG-CTTCATCTCGAG
* * * * *
28273974 GCTGATGCATGTCCCAGATATGTCTTACACTAGCTCTCGTCTCTAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TCATCTCGAG
* * * * *
28274020 GCCAATGCATGTCTCA-AGCATGTCTCACACTAGCATTTCATAAT-GTG
1 GCCGATGCATGTCCCAGA-CATGTCTTACACTAGC--TTCAT-CTCGAG
*
28274067 GCCGATGCATGTCCTAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
28274102 CACATAACAG
Statistics
Matches: 141, Mismatches: 26, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
45 3 0.02
46 102 0.72
47 33 0.23
48 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTCGAG
Found at i:28274042 original size:92 final size:92
Alignment explanation
Indices: 28273880--28274106 Score: 230
Period size: 92 Copynumber: 2.5 Consensus size: 92
28273870 TCATATATCC
* * * * *
28273880 ATGCCGATGCATGTCTCAGACATGTCTTACACTGGCTTACATCTCGAGGTCGATGCATGTCCCAG
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCAATGCATGTCCAAG
*
28273945 ACATGTCTTACACTAGCCCTCGTCTCA
66 ACATGTCTCACACTAGCCCTCGTCTCA
* * * * *
28273972 ATGCTGATGCATGTCCCAGATATGTCTTACACTAGCTCT-CGTCTCTATGCCAATGCATGTCTCA
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAGGCCAATGCATGTC-CA
* *
28274036 AG-CATGTCTCACACTAG-CAT-TTCAT-A
64 AGACATGTCTCACACTAGCCCTCGTC-TCA
* *
28274062 ATGTGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTCACAT
1 A--T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACAT
28274107 AACAGCAGTG
Statistics
Matches: 110, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
90 4 0.04
91 3 0.03
92 65 0.59
93 38 0.35
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (92 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCAATGCATGTCCAAG
ACATGTCTCACACTAGCCCTCGTCTCA
Found at i:28276571 original size:24 final size:24
Alignment explanation
Indices: 28276539--28276599 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
28276529 AAAATCCAAT
* * *
28276539 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
28276563 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
28276587 GCACTATGTGTGC
1 GCACTATGTGTGC
28276600 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:28288561 original size:46 final size:46
Alignment explanation
Indices: 28288511--28288678 Score: 149
Period size: 46 Copynumber: 3.7 Consensus size: 46
28288501 TGGTTGAGCA
*
28288511 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
28288557 TCCGAACTC-----GTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
28288597 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
28288645 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
28288679 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 9, Indels: 32
0.70 0.07 0.23
Matches are distributed among these distances:
37 6 0.06
38 5 0.05
40 2 0.02
41 12 0.12
42 9 0.09
46 40 0.41
47 11 0.11
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:28294784 original size:11 final size:11
Alignment explanation
Indices: 28294768--28294815 Score: 96
Period size: 11 Copynumber: 4.4 Consensus size: 11
28294758 TATTTATTAA
28294768 ATAATGAGTTG
1 ATAATGAGTTG
28294779 ATAATGAGTTG
1 ATAATGAGTTG
28294790 ATAATGAGTTG
1 ATAATGAGTTG
28294801 ATAATGAGTTG
1 ATAATGAGTTG
28294812 ATAA
1 ATAA
28294816 CAAAACGAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (11 bp):
ATAATGAGTTG
Found at i:28299554 original size:17 final size:18
Alignment explanation
Indices: 28299534--28299579 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
28299524 ATAATTTTAG
* *
28299534 AAAATAATAAAG-GAAAT
1 AAAAAAATAAAGAAAAAT
28299551 AAAAAAAT-AAGAAAAAT
1 AAAAAAATAAAGAAAAAT
28299568 AAAAAAATAAAG
1 AAAAAAATAAAG
28299580 TATAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 19 0.76
18 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (18 bp):
AAAAAAATAAAGAAAAAT
Found at i:28299560 original size:8 final size:8
Alignment explanation
Indices: 28299547--28299578 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
28299537 ATAATAAAGG
28299547 AAATAAAA
1 AAATAAAA
28299555 AAATAAGAA
1 AAATAA-AA
28299564 AAATAAAA
1 AAATAAAA
28299572 AAATAAA
1 AAATAAA
28299579 GTATAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:28305931 original size:47 final size:47
Alignment explanation
Indices: 28305877--28306208 Score: 468
Period size: 47 Copynumber: 7.1 Consensus size: 47
28305867 TTAGGATTTT
** * * *
28305877 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28305924 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28305971 ATGTGATGAATGTGAACATGCATATGTATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
28306018 ATGTGATGAATGTGAACATGCATATATGTTATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28306065 ATGTGATGAATGTGAACATGCATATGTATGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28306112 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
28306159 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
28306206 ATG
1 ATG
28306209 CGAAATGTGT
Statistics
Matches: 257, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 254 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28305977 original size:22 final size:22
Alignment explanation
Indices: 28305949--28306024 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
28305939 ACATGCATAT
28305949 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
28305971 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
28305993 TATGTATGATAAGGCCGAATGGCCA
1 -ATG--TGATAAGGCCGAATGGCCA
28306018 ATGTGAT
1 ATGTGAT
28306025 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 14 0.34
23 10 0.24
24 10 0.24
25 7 0.17
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:28306238 original size:46 final size:46
Alignment explanation
Indices: 28306182--28306318 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
28306172 GGAAGTGTAT
*
28306182 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* *
28306228 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
28306274 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
28306319 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:28309785 original size:64 final size:63
Alignment explanation
Indices: 28309704--28309875 Score: 177
Period size: 67 Copynumber: 2.7 Consensus size: 63
28309694 AGACATTATG
* * *
28309704 ATGTAGCTAGGTCGCATGGATGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGG-TGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
28309768 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATG-GTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
28309833 AA
62 AA
* * *
28309835 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCAT-GGTGGTACTATGTGTACACCATGT
28309876 GTACAATAGA
Statistics
Matches: 88, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
63 9 0.10
64 24 0.27
65 1 0.01
66 20 0.23
67 32 0.36
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:28314174 original size:40 final size:40
Alignment explanation
Indices: 28314129--28314400 Score: 289
Period size: 40 Copynumber: 6.8 Consensus size: 40
28314119 ATAACCACAA
* * *
28314129 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
28314169 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * * *
28314209 GCACAAATACCTTCGGGTCTTAGCCCGAATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
28314249 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
28314289 GAACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
28314329 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
28314369 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
28314401 CATTCAAATG
Statistics
Matches: 202, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.02
40 191 0.95
41 7 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:28314213 original size:80 final size:80
Alignment explanation
Indices: 28314129--28314399 Score: 339
Period size: 80 Copynumber: 3.4 Consensus size: 80
28314119 ATAACCACAA
* * * * * *
28314129 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
28314193 CCGGATATATCAACTC
65 CCGGATATATCAACTC
* * * *
28314209 GCACAAATACCTTCGGGTCTTAGCCCGAATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
28314274 CGGGTATAGCAACTC
66 CGGATATATCAACTC
* * *
28314289 GAACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
28314354 CGGATAAAATC-ACTA
66 CGGAT-ATATCAACTC
* *
28314369 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
28314400 TCATTCAAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
80 157 0.96
81 6 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTC
Found at i:28314342 original size:120 final size:120
Alignment explanation
Indices: 28314128--28314396 Score: 423
Period size: 120 Copynumber: 2.2 Consensus size: 120
28314118 TATAACCACA
*
28314128 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGAACAAATGCCTTCGGGTCTTAGC
* * *
28314193 CCGGATATATCAACTCGCACAAATACCTTCGGGTCTTAGCCCGAATAAAATCACT
66 CCGGATAAATCAACTAGCACAAATACCTTCGGGACTTAGCCCGAATAAAATCACT
28314248 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGAACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGAACAAATGCCTTCGGGTCTTAGC
* * *
28314313 CCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACT
66 CCGGAT-AAATCAACTAGCACAAATACCTTCGGGACTTAGCCCGAATAAAATCACT
* * * *
28314368 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAATTGCCTTCGGGTCTTAACCCGG
28314397 ATATCATTCA
Statistics
Matches: 137, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
120 133 0.97
121 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (120 bp):
AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGAACAAATGCCTTCGGGTCTTAGC
CCGGATAAATCAACTAGCACAAATACCTTCGGGACTTAGCCCGAATAAAATCACT
Found at i:28323617 original size:39 final size:40
Alignment explanation
Indices: 28323476--28323617 Score: 232
Period size: 40 Copynumber: 3.6 Consensus size: 40
28323466 TATTCGAATG
**
28323476 ATATCCGGGCTAAGTCCCGAAGAAATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
28323516 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
28323556 ATATCCGGGCTAAGTCCCGAAGGCATTTTTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
28323596 ATATTC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
28323618 TACTTGGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 15 0.15
40 82 0.85
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:28331482 original size:39 final size:40
Alignment explanation
Indices: 28331429--28331536 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 40
28331419 TATTCGAATG
28331429 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTAG-GACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
28331467 ATATCCGGGCTAAGTCCCGAA-GCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
28331506 ATATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGT
28331537 CAAGTTGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
38 19 0.29
39 21 0.32
40 18 0.27
41 8 0.12
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:28335548 original size:38 final size:38
Alignment explanation
Indices: 28335484--28335558 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
28335474 AATCCGAGTT
*
28335484 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
28335522 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
28335559 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:28335671 original size:40 final size:39
Alignment explanation
Indices: 28335612--28336002 Score: 578
Period size: 38 Copynumber: 10.1 Consensus size: 39
28335602 AGGTCTCGAC
28335612 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
*
28335651 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
28335691 GATGTA-CCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
28335729 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
*
28335769 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
28335808 GATGTA-CCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
28335846 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTC-CGAAGAGCATTCGTGCTAGT
*
28335886 GATGTATCC-GGATAAGTTCCG-AGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGT
* ** * *
28335924 GATATATCCGTTCTAA-ACCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
* * * * *
28335962 GTTATATCCGGGCTAGGTCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
28336001 GA
1 GA
28336003 CGTGTGTTCG
Statistics
Matches: 323, Mismatches: 20, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
37 3 0.01
38 116 0.36
39 94 0.29
40 110 0.34
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
Found at i:28335748 original size:78 final size:78
Alignment explanation
Indices: 28335612--28336002 Score: 578
Period size: 78 Copynumber: 5.0 Consensus size: 78
28335602 AGGTCTCGAC
28335612 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCGAAG
*
28335676 AGCATTCATGCTAGT
64 AGCATTCGTGCTAGT
28335691 GATGTA-CCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCGAAGA
28335755 GCATTCGTGCTAGT
65 GCATTCGTGCTAGT
*
28335769 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTA-CCGGGCTAAGTCCGAAGAG
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGAG
28335833 CATTCGTGCTAGT
66 CATTCGTGCTAGT
*
28335846 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCC-GGATAAGTTCCG-AG
1 GATGTATCCGGGCTAAGTC-CGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCCGAAG
28335909 AGCATTCGTGCTAGT
64 AGCATTCGTGCTAGT
* ** * * * * *
28335924 GATATATCCGTTCTAA-ACCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCGAAGAG
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGAG
* *
28335988 CAATCATGCTAGT
66 CATTCGTGCTAGT
28336001 GA
1 GA
28336003 CGTGTGTTCG
Statistics
Matches: 290, Mismatches: 15, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
76 30 0.10
77 63 0.22
78 138 0.48
79 58 0.20
80 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (78 bp):
GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGAG
CATTCGTGCTAGT
Found at i:28335841 original size:117 final size:117
Alignment explanation
Indices: 28335612--28336002 Score: 603
Period size: 117 Copynumber: 3.4 Consensus size: 117
28335602 AGGTCTCGAC
28335612 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCGAAG
28335676 AGCATTCATGCTAGTGATGTACCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
65 AGCATTCATGCTAGTGATGTACCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
28335729 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGA
28335794 GCATTCATGCTAGTGATGTACCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
66 GCATTCATGCTAGTGATGTACCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
* *
28335846 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCC-GGATAAGTTCCG-AG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCCGAAG
* * ** * *
28335909 AGCATTCGTGCTAGTGATATATCCGTTCTAA-ACCGAAGAGCATTCGTGCTGGT
65 AGCATTCATGCTAGTGATGTA-CCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
* * * * *
28335962 GTTATATCCGGGCTAGGT-CCGAAGAGCAATCATGCTAGTGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
28336003 CGTGTGTTCG
Statistics
Matches: 257, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
115 20 0.08
116 62 0.24
117 122 0.47
118 53 0.21
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (117 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGA
GCATTCATGCTAGTGATGTACCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
Found at i:28338466 original size:49 final size:49
Alignment explanation
Indices: 28338402--28338811 Score: 615
Period size: 49 Copynumber: 8.6 Consensus size: 49
28338392 GATAATTGTG
* *
28338402 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
28338449 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
28338498 ATGTGAAAGTGTATATATATGTGATAAGGTATAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
28338547 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
28338596 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
28338645 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
28338692 ATGTGAAAGTG--TATGTATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
28338739 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
28338786 ATGTGAAAGTGTAGA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
28338812 TCTCGAAGGG
Statistics
Matches: 337, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 147 0.44
48 1 0.00
49 189 0.56
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:28359264 original size:25 final size:25
Alignment explanation
Indices: 28359227--28359274 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
28359217 AAGAGAAAAA
*
28359227 ATGAAAAAAGGGTGTCTAGATTAAG
1 ATGAAAAAAGGGTGTCAAGATTAAG
*
28359252 ATGAAAAATGGGTGTCAAGATTA
1 ATGAAAAAAGGGTGTCAAGATTA
28359275 CTCATTATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.25
Consensus pattern (25 bp):
ATGAAAAAAGGGTGTCAAGATTAAG
Found at i:28360341 original size:43 final size:43
Alignment explanation
Indices: 28360294--28360394 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
28360284 AAGAACATGA
* * *
28360294 TCTTTAGCAACATTTTT-ATGAGAAGTGCCGCTAAAGGTCATAT
1 TCTTTAGCAGCATTTTTAAT-AGAAGTGCCGCCAAAGATCATAT
* *
28360337 TCTTTAGCGGCATTTTTAATAGAAGTGCCGCCAAAGATCATGT
1 TCTTTAGCAGCATTTTTAATAGAAGTGCCGCCAAAGATCATAT
*
28360380 TATTTAGCAGCATTT
1 TCTTTAGCAGCATTT
28360395 GTAGGAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 48 0.96
44 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (43 bp):
TCTTTAGCAGCATTTTTAATAGAAGTGCCGCCAAAGATCATAT
Found at i:28363739 original size:40 final size:40
Alignment explanation
Indices: 28363665--28363846 Score: 294
Period size: 40 Copynumber: 4.6 Consensus size: 40
28363655 AACCCAAGTA
* * *
28363665 CCTTCGGGATTTAG-CTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
28363704 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
28363744 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
28363784 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
28363824 CCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
28363847 CATCCGAATA
Statistics
Matches: 134, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.10
40 121 0.90
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:28369257 original size:105 final size:105
Alignment explanation
Indices: 28369068--28369278 Score: 370
Period size: 105 Copynumber: 2.0 Consensus size: 105
28369058 GGAGACAAGA
*
28369068 AGTTTGTGCAACTTTGAAACTATGTTATCCATTTTGAAAAAAAAAGTTTGAGAAAAAGATTAGAG
1 AGTTTGTGCAACTTTGAAACTATGTTACCCATTTTGAAAAAAAAAGTTTGAGAAAAAGATTAGAG
* *
28369133 TACTTTTAAAGCAATGAAAATGAGATGGGAGAG-AAGAGT
66 TACTTTTAAAGCAAAGAAAAAGAGATGGGAGAGAAAGAGT
28369172 AGTTTGTGCAACTTTGAAACTATGTTACCCATTTTGAAAACAAAAAGTTTGAGAAAAAGATTAGA
1 AGTTTGTGCAACTTTGAAACTATGTTACCCATTTTGAAAA-AAAAAGTTTGAGAAAAAGATTAGA
*
28369237 GTTCTTTTAAAGCAAAGAAAAAGAGATGGGAGAGAAAGAGT
65 GTACTTTTAAAGCAAAGAAAAAGAGATGGGAGAGAAAGAGT
28369278 A
1 A
28369279 AAAAGGTTTT
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 39 0.39
105 55 0.54
106 7 0.07
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (105 bp):
AGTTTGTGCAACTTTGAAACTATGTTACCCATTTTGAAAAAAAAAGTTTGAGAAAAAGATTAGAG
TACTTTTAAAGCAAAGAAAAAGAGATGGGAGAGAAAGAGT
Found at i:28370814 original size:58 final size:57
Alignment explanation
Indices: 28370749--28371067 Score: 232
Period size: 58 Copynumber: 5.5 Consensus size: 57
28370739 AGCTTCCGCT
* * * *
28370749 ATCGAATATGAAAAGGGATGGTGAAGACAATCAACTATGAAAAGGGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGT-ATGACC
* ** * * * * *
28370807 ATCGAATATGAAAAGGGATAGTTTCGGCTATCGATTATGAAAAGGGATAGCT-TCAGCT
1 ATCGAATATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGAT-GGTATGA-CC
* * ** *** * * * * *
28370865 ATCGATTATGAAAAGGGATAGTTTCTG-TTGTCGATTACGAAAAGGGATAGCTTTGGCT
1 ATCGAATATGAAAAGGGATGGTGAC-GACCATCGATTATGAAAAGGGAT-GGTATGACC
* * * * **
28370923 ATC-AATTATGAAAAGGGATGGTGATGACCATCAACTATGAAAAAGGATGGTGACAACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGT-ATGACC
*
28370981 ATC-AACTATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTTGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACCATCGATT-ATGAAAAGGGATGG-TATGACC
*
28371040 ATCGAATATGAAAAGGGATGGTTACGAC
1 ATCGAATATGAAAAGGGATGGTGACGAC
28371068 TATTGTTTAG
Statistics
Matches: 207, Mismatches: 44, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
57 6 0.03
58 154 0.74
59 44 0.21
60 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (57 bp):
ATCGAATATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTATGACC
Found at i:28370837 original size:87 final size:87
Alignment explanation
Indices: 28370735--28371061 Score: 270
Period size: 87 Copynumber: 3.7 Consensus size: 87
28370725 CAATGAACGT
* * *
28370735 GGATAGCTTCCGCTATCGAATATGAAAAGGGATGGTGAAGACAATCAACTATGAAAAGGGATGGT
1 GGATAGTTTCGGCTATCGAATATGAAAAGGGATGGTGAAGACCATCAACTATGAAAAGGGATGGT
28370800 GATGACCATCGAATATGAAAAG
66 GATGACCATCGAATATGAAAAG
* * ** * * *
28370822 GGATAGTTTCGGCTATCGATTATGAAAAGGGATAGCTTCAG-CTATCGATTATGAAAAGGGATAG
1 GGATAGTTTCGGCTATCGAATATGAAAAGGGAT-GGTGAAGACCATCAACTATGAAAAGGGAT-G
* ** *** * *
28370886 TTTCTG-TTGTCGATTACGAAAAG
64 GTGATGACCATCGAATATGAAAAG
* *
28370909 GGATAGCTTT-GGCTATC-AATTATGAAAAGGGATGGTGATGACCATCAACTATGAAAAAGGATG
1 GGATAG-TTTCGGCTATCGAA-TATGAAAAGGGATGGTGAAGACCATCAACTATGAAAAGGGATG
**
28370972 GTGACAACCATC-AACTATGAAAAG
64 GTGATGACCATCGAA-TATGAAAAG
* ** * * * ***
28370996 GGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTTGACCATCGAA-TATGAAAAGGGATG
1 GGATAGTTTCGGCTATCGAAT-ATGAAAAGGGATGGTGAAGACCATC-AACTATGAAAAGGGATG
28371060 GT
64 GT
28371062 TACGACTATT
Statistics
Matches: 184, Mismatches: 45, Indels: 21
0.74 0.18 0.08
Matches are distributed among these distances:
86 8 0.04
87 124 0.67
88 50 0.27
89 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (87 bp):
GGATAGTTTCGGCTATCGAATATGAAAAGGGATGGTGAAGACCATCAACTATGAAAAGGGATGGT
GATGACCATCGAATATGAAAAG
Found at i:28371062 original size:29 final size:29
Alignment explanation
Indices: 28370749--28371061 Score: 203
Period size: 29 Copynumber: 10.8 Consensus size: 29
28370739 AGCTTCCGCT
* *
28370749 ATCGAATATGAAAAGGGATGGTGAAGACA
1 ATCGAATATGAAAAGGGATGGTGATGACC
28370778 ATC-AACTATGAAAAGGGATGGTGATGACC
1 ATCGAA-TATGAAAAGGGATGGTGATGACC
* * * *
28370807 ATCGAATATGAAAAGGGATAGT-TTCGGCT
1 ATCGAATATGAAAAGGGATGGTGAT-GACC
* * * *
28370836 ATCGATTATGAAAAGGGATAGCT--TCAGCT
1 ATCGAATATGAAAAGGGAT-GGTGATGA-CC
* * ** **
28370865 ATCGATTATGAAAAGGGATAGTTTCTG-TT
1 ATCGAATATGAAAAGGGAT-GGTGATGACC
* * * * * * *
28370894 GTCGATTACGAAAAGGGATAGCT-TTGGCT
1 ATCGAATATGAAAAGGGAT-GGTGATGACC
28370923 ATC-AATTATGAAAAGGGATGGTGATGACC
1 ATCGAA-TATGAAAAGGGATGGTGATGACC
* **
28370952 ATC-AACTATGAAAAAGGATGGTGACAACC
1 ATCGAA-TATGAAAAGGGATGGTGATGACC
*
28370981 ATC-AACTATGAAAAGGGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGATGACC
* **
28371010 ATCGATTAATGAAAAGGGATGGTTTTGACC
1 ATCGAAT-ATGAAAAGGGATGGTGATGACC
28371040 ATCGAATATGAAAAGGGATGGT
1 ATCGAATATGAAAAGGGATGGT
28371062 TACGACTATT
Statistics
Matches: 235, Mismatches: 37, Indels: 24
0.79 0.12 0.08
Matches are distributed among these distances:
28 8 0.03
29 197 0.84
30 29 0.12
31 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.25
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGATGACC
Found at i:28371780 original size:17 final size:17
Alignment explanation
Indices: 28371760--28371803 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 17
28371750 ATGAGTGGTC
28371760 AATAAATATGCGACATT
1 AATAAATATGCGACATT
28371777 AATAAACTTATATGCGACATT
1 AAT-AA---ATATGCGACATT
28371798 AATAAA
1 AATAAA
28371804 CTTACTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
17 4 0.17
18 2 0.09
20 2 0.09
21 15 0.65
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (17 bp):
AATAAATATGCGACATT
Found at i:28371791 original size:21 final size:21
Alignment explanation
Indices: 28371765--28371807 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
28371755 TGGTCAATAA
28371765 ATATGCGACATTAATAAACTT
1 ATATGCGACATTAATAAACTT
28371786 ATATGCGACATTAATAAACTT
1 ATATGCGACATTAATAAACTT
28371807 A
1 A
28371808 CTCATTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
ATATGCGACATTAATAAACTT
Found at i:28374648 original size:40 final size:40
Alignment explanation
Indices: 28374547--28374727 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
28374537 AACCCAAGTA
* *
28374547 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
28374586 CCTTC-GGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
28374625 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
28374665 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
28374705 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
28374728 CATTCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 6 0.05
39 29 0.22
40 96 0.73
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:28382790 original size:40 final size:40
Alignment explanation
Indices: 28382716--28382897 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
28382706 AACCCAAGTA
* *
28382716 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
28382755 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
28382795 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
28382835 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
28382875 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
28382898 CATTCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.09
40 118 0.89
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:28384675 original size:20 final size:20
Alignment explanation
Indices: 28384652--28384705 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
28384642 AGTTTTTCCC
*
28384652 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
28384672 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
28384692 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
28384706 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:28384687 original size:30 final size:30
Alignment explanation
Indices: 28384652--28384725 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
28384642 AGTTTTTCCC
28384652 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
28384682 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
28384712 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
28384726 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:28384715 original size:20 final size:20
Alignment explanation
Indices: 28384652--28384716 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
28384642 AGTTTTTCCC
* * * *
28384652 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
28384672 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
28384691 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
28384712 AGCTC
1 AGCTC
28384717 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:28386233 original size:10 final size:11
Alignment explanation
Indices: 28386211--28386235 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
28386201 AAAAAAATTG
28386211 AAATTCAAAAA
1 AAATTCAAAAA
28386222 AAATTCAAAAA
1 AAATTCAAAAA
28386233 AAA
1 AAA
28386236 AGTGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:28386262 original size:30 final size:30
Alignment explanation
Indices: 28386228--28386290 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
28386218 AAAAAAATTC
**
28386228 AAAAAAAAAGTGAAAAAAA-TCGAGCAAAAA
1 AAAAAAAAAGAAAAAAAAAGT-GAGCAAAAA
*
28386258 AAAAAGAAAGAAAAAAAAAGTGAGCAAAAA
1 AAAAAAAAAGAAAAAAAAAGTGAGCAAAAA
28386288 AAA
1 AAA
28386291 TCAAGTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (30 bp):
AAAAAAAAAGAAAAAAAAAGTGAGCAAAAA
Found at i:28387319 original size:6 final size:6
Alignment explanation
Indices: 28387310--28387430 Score: 61
Period size: 6 Copynumber: 20.2 Consensus size: 6
28387300 GAAAGAGATT
** *
28387310 GAAAAA GAAATT GAAAGA -AAAAA -AA-AA GAAAATA -AAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA-A GAAAAA GAAAAA
** * ** ** * *
28387355 GAAATT GCAAAA GAAAAA GAAATT GAAAAA GTGAGA GAAAAA GAAAAT
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
*
28387403 GAAGAAAA GAAAATT GAAAAA GAAAAA G
1 G-A-AAAA GAAAA-A GAAAAA GAAAAA G
28387431 CGAAAAAAGA
Statistics
Matches: 83, Mismatches: 25, Indels: 14
0.68 0.20 0.11
Matches are distributed among these distances:
4 2 0.02
5 9 0.11
6 60 0.72
7 8 0.10
8 4 0.05
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.09
Consensus pattern (6 bp):
GAAAAA
Found at i:28387366 original size:18 final size:18
Alignment explanation
Indices: 28387301--28387430 Score: 104
Period size: 18 Copynumber: 7.2 Consensus size: 18
28387291 CGAGAAAAGG
*
28387301 AAAGAGATTGAAAAAGAA
1 AAAGAAATTGAAAAAGAA
**
28387319 ATTGAAA--GAAAAA-AA
1 AAAGAAATTGAAAAAGAA
* *
28387334 AAAGAAAATAAAAAAGAA
1 AAAGAAATTGAAAAAGAA
*
28387352 AAAGAAATTGCAAAAGAA
1 AAAGAAATTGAAAAAGAA
**
28387370 AAAGAAATTGAAAAAGTG
1 AAAGAAATTGAAAAAGAA
* ** *
28387388 AGAGAAAAAGAAAATGAAGA
1 AAAGAAATTGAAAAAG-A-A
28387408 AAAGAAAATTGAAAAAGAA
1 AAAG-AAATTGAAAAAGAA
28387427 AAAG
1 AAAG
28387431 CGAAAAAAGA
Statistics
Matches: 84, Mismatches: 22, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
15 7 0.08
16 6 0.07
17 5 0.06
18 48 0.57
19 5 0.06
20 4 0.05
21 9 0.11
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (18 bp):
AAAGAAATTGAAAAAGAA
Found at i:28387412 original size:14 final size:13
Alignment explanation
Indices: 28387391--28387428 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
28387381 AAAAGTGAGA
28387391 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
28387403 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
28387418 GAAAAAGAAAA
1 GAAAAAGAAAA
28387429 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:28387442 original size:21 final size:21
Alignment explanation
Indices: 28387329--28387442 Score: 54
Period size: 21 Copynumber: 5.1 Consensus size: 21
28387319 ATTGAAAGAA
* *
28387329 AAAAAAAAGAAAATAAAAAAG
1 AAAAAGAAGAAAAGAAAAAAG
28387350 AAAAAGAAATTGCAAAAG-AAAAAG
1 AAAAAG-AA--G-AAAAGAAAAAAG
**
28387374 AAATTGAA-AAAGTGAGAGAAAAAG
1 AAAAAGAAGAAA---AGA-AAAAAG
* **
28387398 AAAATGAAGAAAAGAAAATTG
1 AAAAAGAAGAAAAGAAAAAAG
*
28387419 AAAAAGAA-AAAGCGAAAAAAG
1 AAAAAGAAGAAA-AGAAAAAAG
28387440 AAA
1 AAA
28387443 TTGAAAGAGA
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
19 3 0.04
20 3 0.04
21 25 0.35
22 7 0.10
23 2 0.03
24 24 0.34
25 7 0.10
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.08
Consensus pattern (21 bp):
AAAAAGAAGAAAAGAAAAAAG
Found at i:28387482 original size:33 final size:33
Alignment explanation
Indices: 28387445--28387507 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
28387435 AAAAGAAATT
28387445 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
28387478 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
28387508 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:28391729 original size:40 final size:41
Alignment explanation
Indices: 28391601--28391743 Score: 189
Period size: 41 Copynumber: 3.5 Consensus size: 41
28391591 AGCTTGGGTT
* *
28391601 CGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAATTA
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* * *
28391642 CGACGGGCTTTTGAGCCAGTGCTAATAATCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* * *
28391683 CGAAGGGCTTTTGAGCCAGTG-TCATAACCGGACTTAGTTC
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
* *
28391723 CGAAGGGCCTTCGAGCCAGTG
1 CGAAGGGCTTTTGAGCCAGTG
28391744 GCCTAATCCG
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 34 0.38
41 56 0.62
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTA
Found at i:28391767 original size:81 final size:78
Alignment explanation
Indices: 28391585--28391784 Score: 213
Period size: 81 Copynumber: 2.5 Consensus size: 78
28391575 TCGGGGTGTA
*
28391585 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAATTACGACGGGC
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAACCAAACTTAATTACGAAGGGC
* *
28391650 TTTTGAGCCAGTGCT
64 CTTCGAGCCAGTGCT
* * * * ** * *
28391665 AATAATCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTAGTTCCGAAGGG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCAAACTTAATTACGAAGGG
28391730 CCTTCGAGCCAGTGGCCT
63 CCTTCGAGCCAGT-G-CT
*
28391748 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCTAGTGT
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTGT
28391785 TAAGAATCGT
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
80 17 0.17
81 46 0.46
82 31 0.31
83 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (78 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCAAACTTAATTACGAAGGGCCT
TCGAGCCAGTGCT
Found at i:28398583 original size:41 final size:41
Alignment explanation
Indices: 28398524--28398708 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
28398514 CGAGCTTGGG
* *
28398524 TTCGAAGGGCTTTTGAGCCAGTGCTAAGAACCGAACTTAAT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
* *
28398565 TACGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
*
28398606 TTCGAAGGGCTTTTGAGCCAGTG-TCATAACCGAACTTAGT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
* * * *
28398646 TTCGAAGGGCCTTCGAGCCAGTGGCCTAAT--CCGAGCTTGGT
1 TTCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGT
*
28398687 CTCGAAGGGC-TTTGAGCCAGTG
1 TTCGAAGGGCTTTTGAGCCAGTG
28398709 TTAAGAATCG
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 45 0.35
41 78 0.61
43 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
Found at i:28398664 original size:81 final size:81
Alignment explanation
Indices: 28398510--28398715 Score: 238
Period size: 81 Copynumber: 2.5 Consensus size: 81
28398500 TCGGGGTGTA
* * *
28398510 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAAGAACCGAACTTAATTACGAAGGGC
1 AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTG-TAAGAACCGAACTTAATTACGAAGGGC
* *
28398575 TTTTGAGCCAGT-G-CT
65 CTTCGAGCCAGTGGCCT
* * * * *
28398590 AATAACTGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACTTAGTTTCGAAGGG
1 AAT--CCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTAAGAACCGAACTTAATTACGAAGGG
28398655 CCTTCGAGCCAGTGGCCT
64 CCTTCGAGCCAGTGGCCT
* * *
28398673 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGTTAAGAA
1 AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTG-TAAGAA
28398716 TCGTGCTTGA
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
80 15 0.14
81 54 0.51
82 31 0.30
83 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (81 bp):
AATCCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTAAGAACCGAACTTAATTACGAAGGGCC
TTCGAGCCAGTGGCCT
Found at i:28402483 original size:46 final size:44
Alignment explanation
Indices: 28402330--28402504 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 44
28402320 CTGTTATGTG
* * *
28402330 AGCCCGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAA
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCC-TA-GATGAA
* *
28402376 AGCCAGTGTAAGACCATGTTTGGGACATGGCTTCGGCATTA-A-GACA
1 AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-CTAGATGA-A
* *
28402422 AGTGGCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA
1 A--GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCT--AGATGAA
*
28402470 AGCCAATGTAAGACATGTTTGGGACATGCATCGGC
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCGGC
28402505 ACGAATGTGT
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
45 3 0.03
46 54 0.50
47 28 0.26
48 23 0.21
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTAGATGAA
Found at i:28402528 original size:94 final size:94
Alignment explanation
Indices: 28402336--28402554 Score: 221
Period size: 94 Copynumber: 2.3 Consensus size: 94
28402326 TGTGAGCCCG
* *
28402336 TGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAAGCCAGTGTAAGACCATGTTTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAAAGCCAATGTAAGACCATGTTTGGGA
* ** * * *
28402401 CATGGCTTCGGCATTAAGACAAGTGGCAG
66 CATGGCATCGGCACGAAGACAAGAGCCAA
* *
28402430 TGTAAGACATGTTTGGGACATGCATCGGCC-TCGA-GATGTAAGCCAATGTAAGA-CATGTTTGG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAT--ATGATGAAAGCCAATGTAAGACCATGTTTGG
***
28402492 GACAT-GCATCGGCACGAATGTGTGAGAGCCAA
64 GACATGGCATCGGCACGAA-G-ACAAGAGCCAA
* *
28402524 TGTAAGACCATATCTGGGATATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
28402555 ACCGATATGT
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
92 10 0.10
93 16 0.16
94 57 0.55
95 12 0.12
96 8 0.08
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAAAGCCAATGTAAGACCATGTTTGGGA
CATGGCATCGGCACGAAGACAAGAGCCAA
Found at i:28403615 original size:27 final size:27
Alignment explanation
Indices: 28403545--28403712 Score: 148
Period size: 27 Copynumber: 6.3 Consensus size: 27
28403535 TTTAGTTTAC
** *
28403545 TAAAATTATTAAAATACCCCCAG-TTG
1 TAAAATTATCGAAATACCCTCAGTTTG
* * *
28403571 TAAAATTA-CCAAAGTACCCTCGGTTTA
1 TAAAATTATCGAAA-TACCCTCAGTTTG
* *
28403598 TAAAATTATCGAAATACCGTC-GATTG
1 TAAAATTATCGAAATACCCTCAGTTTG
* *
28403624 TAAAATTATTGAAATACCCT-TGATTTG
1 TAAAATTATCGAAATACCCTCAG-TTTG
*
28403651 TAAAATTACCGAAATACCCTCAGTTTG
1 TAAAATTATCGAAATACCCTCAGTTTG
* * *
28403678 CAAAATTA-CTGAAATACCCTTAATTTG
1 TAAAATTATC-GAAATACCCTCAGTTTG
28403705 TAAAATTA
1 TAAAATTA
28403713 CTAAAATACC
Statistics
Matches: 116, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.03
26 38 0.33
27 70 0.60
28 5 0.04
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCAGTTTG
Found at i:28403625 original size:53 final size:53
Alignment explanation
Indices: 28403556--28403724 Score: 153
Period size: 53 Copynumber: 3.2 Consensus size: 53
28403546 AAAATTATTA
* * *
28403556 AAATACCCCCAG-TTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTATCG
1 AAATACCCTCAGATTGTAAAATTACCAAA-TACCCTCGATTTATAAAATTACCG
* ** * *
28403609 AAATACCGTC-GATTGTAAAATTATTGAAATACCCTTGATTTGTAAAATTACCG
1 AAATACCCTCAGATTGTAAAATTA-CCAAATACCCTCGATTTATAAAATTACCG
* * * ** * **
28403662 AAATACCCTCAGTTTGCAAAATTACTGAAATACCCTTAATTTGTAAAATTACTA
1 AAATACCCTCAGATTGTAAAATTAC-CAAATACCCTCGATTTATAAAATTACCG
28403716 AAATACCCT
1 AAATACCCT
28403725 TGTAGGGTAG
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 48 0.49
54 48 0.49
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
AAATACCCTCAGATTGTAAAATTACCAAATACCCTCGATTTATAAAATTACCG
Found at i:28403696 original size:54 final size:53
Alignment explanation
Indices: 28403556--28403724 Score: 189
Period size: 54 Copynumber: 3.2 Consensus size: 53
28403546 AAAATTATTA
* * * * * *
28403556 AAATACCCCCAGTTGTAAAATTAC-CAAAGTACCCTCGGTTTATAAAATTATCG
1 AAATACCCTCAGTTGTAAAATTACTGAAA-TACCCTTGATTTGTAAAATTACCG
* *
28403609 AAATACCGTC-GATTGTAAAATTATTGAAATACCCTTGATTTGTAAAATTACCG
1 AAATACCCTCAG-TTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCG
* * **
28403662 AAATACCCTCAGTTTGCAAAATTACTGAAATACCCTTAATTTGTAAAATTACTA
1 AAATACCCTCAG-TTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCG
28403716 AAATACCCT
1 AAATACCCT
28403725 TGTAGGGTAG
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 48 0.49
54 49 0.50
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
AAATACCCTCAGTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCG
Found at i:28403713 original size:27 final size:27
Alignment explanation
Indices: 28403621--28403725 Score: 147
Period size: 27 Copynumber: 3.9 Consensus size: 27
28403611 ATACCGTCGA
* *
28403621 TTGTAAAATTATTGAAATACCCTTGAT
1 TTGTAAAATTACTGAAATACCCTTAAT
* * *
28403648 TTGTAAAATTACCGAAATACCCTCAGT
1 TTGTAAAATTACTGAAATACCCTTAAT
*
28403675 TTGCAAAATTACTGAAATACCCTTAAT
1 TTGTAAAATTACTGAAATACCCTTAAT
*
28403702 TTGTAAAATTACTAAAATACCCTT
1 TTGTAAAATTACTGAAATACCCTT
28403726 GTAGGGTAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTTAAT
Found at i:28403738 original size:27 final size:27
Alignment explanation
Indices: 28403708--28403956 Score: 300
Period size: 27 Copynumber: 9.2 Consensus size: 27
28403698 TAATTTGTAA
* *
28403708 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
28403735 AATTACTAAAATACCACTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
28403762 AATTACCGAAATACCTTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
28403789 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
28403816 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
28403843 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
28403870 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
28403897 AATTACTGAAATACCCCTGTGGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
28403924 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
28403951 AATTAC
1 AATTAC
28403957 CATTTTTCCC
Statistics
Matches: 193, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:28403739 original size:54 final size:53
Alignment explanation
Indices: 28403635--28403956 Score: 265
Period size: 54 Copynumber: 6.0 Consensus size: 53
28403625 AAAATTATTG
** * ** * * *
28403635 AAATACCCTTGATTTGTAAAATTACCGAAATACCCTCAGT-TTGCAAAATTACTG
1 AAATACCCTT-ATGGGTAAAATTACCGAAATACCCT-TGTAGGGTAGAATTACTA
** **
28403689 AAATACCCTTAATTTGTAAAATTACTAAAATACCCTTGTAGGGTAGAATTACTA
1 AAATACCCTT-ATGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACTA
* *
28403743 AAATACCAC-TATAGGGTAAAATTACCGAAATACCTTTGTAGGGTAGAATTACCA
1 AAATACC-CTTAT-GGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACTA
* * * *
28403797 AAATACCCTTGTAGGGTAGAAA-TACTGAAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCTTAT-GGGTA-AAATTACCGAAATACCCTTGTAGGGTAGAATTACTA
* * * *
28403851 AAATACCCCTGTA-AGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
1 AAATA-CCCT-TATGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACTA
* * * * * * *
28403905 AAATACCCCTGTGGGGTAGAATTACTGAGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCTTAT-GGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTAC
28403957 CATTTTTCCC
Statistics
Matches: 223, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.00
53 10 0.04
54 203 0.91
55 8 0.04
56 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAATACCCTTATGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACTA
Found at i:28403740 original size:81 final size:81
Alignment explanation
Indices: 28403574--28403912 Score: 205
Period size: 81 Copynumber: 4.2 Consensus size: 81
28403564 CCAGTTGTAA
* * * ** * *
28403574 AATTACC-AAAGTACCCTCGGTTTATAAAATTA-TCGAAATACCGTCGA-TTGTAAAATTATTGA
1 AATTACCGAAA-TACCCTCAGTTTGTAAAATTACT-GAAATACCCTTAATTTGTAAAATTACTAA
** *
28403636 AATACCCTTG-ATTTGTAA
64 AATACCCTTGTA-GGGTAG
*
28403654 AATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTTAATTTGTAAAATTACTAAAA
1 AATTACCGAAATACCCTCAGTTTGTAAAATTACTGAAATACCCTTAATTTGTAAAATTACTAAAA
28403719 TACCCTTGTAGGGTAG
66 TACCCTTGTAGGGTAG
** ** * ** ** * *
28403735 AATTACTAAAATACCACT-A-TAGGGTAAAATTACCGAAATA-CCTTTGTAGGGTAGAATTACCA
1 AATTACCGAAATACC-CTCAGT-TTGTAAAATTACTGAAATACCCTTAAT-TTGTAAAATTACTA
28403797 AAATACCCTTGTAGGGTAG
63 AAATACCCTTGTAGGGTAG
* * ** * * * * *
28403816 AAATACTGAAATACCC-CTA-TAGGGTAGAATTACTAAAATACCCCTGTAA--GGTAGAATTACC
1 AATTACCGAAATACCCTC-AGT-TTGTAAAATTACTGAAATA-CCCT-TAATTTGTAAAATTACT
* *
28403877 GAAATACCCCTGTAGGGTAG
62 AAAATACCCTTGTAGGGTAG
*
28403897 AATTACTGAAATACCC
1 AATTACCGAAATACCC
28403913 CTGTGGGGTA
Statistics
Matches: 214, Mismatches: 33, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
80 42 0.20
81 165 0.77
82 3 0.01
83 3 0.01
84 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (81 bp):
AATTACCGAAATACCCTCAGTTTGTAAAATTACTGAAATACCCTTAATTTGTAAAATTACTAAAA
TACCCTTGTAGGGTAG
Found at i:28403913 original size:81 final size:81
Alignment explanation
Indices: 28403681--28403958 Score: 351
Period size: 81 Copynumber: 3.4 Consensus size: 81
28403671 CAGTTTGCAA
* ** * * *
28403681 AATTACTGAAATACCCTT-AATTTGTAAAATTACTAAAATACCCTTGTAGGGTAGAATTACTAAA
1 AATTACTGAAATACCCTTGTA-GGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACTGAA
* *
28403745 ATACCACTATAGGGTAA
65 ATACCCCTATAGGGTAG
* * *
28403762 AATTACCGAAATACCTTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACTGAAA
28403827 TACCCCTATAGGGTAG
66 TACCCCTATAGGGTAG
* * * * *
28403843 AATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACTGAAA
* *
28403908 TACCCCTGTGGGGTAG
66 TACCCCTATAGGGTAG
* * *
28403924 AATTACTGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCA
28403959 TTTTTCCCCT
Statistics
Matches: 168, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 167 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (81 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACTGAAA
TACCCCTATAGGGTAG
Found at i:28404227 original size:27 final size:26
Alignment explanation
Indices: 28404185--28404263 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 26
28404175 GGAAGCGTTC
28404185 TGGTGGCTATGCCACAAATATCTGTTT
1 TGGTGGCTATGCCAC-AATATCTGTTT
* * *
28404212 TGGTGGCTCTGGCACAATATCTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TT
* * * *
28404239 TGGTGACTTTGTCACAACATCTGTT
1 TGGTGGCTATGCCACAATATCTGTT
28404264 GACCGATCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.23
27 34 0.77
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTT
Found at i:28404432 original size:20 final size:20
Alignment explanation
Indices: 28404392--28404432 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
28404382 TGTGCACCAT
* *
28404392 TATTGTGGGCTTCGTATCGA
1 TATTGTAGGCTTCGTACCGA
*
28404412 TATTGTAGGCTTCGTGCCGA
1 TATTGTAGGCTTCGTACCGA
28404432 T
1 T
28404433 TATAGTCCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.17, G:0.29, T:0.39
Consensus pattern (20 bp):
TATTGTAGGCTTCGTACCGA
Found at i:28404483 original size:98 final size:98
Alignment explanation
Indices: 28404314--28404552 Score: 363
Period size: 98 Copynumber: 2.4 Consensus size: 98
28404304 TGTGTGCCGT
* *
28404314 TATTGTAGGCTTGGTGCCGATTATAGACCCTTTATCAATGGCTGAGTGCCGATATTGTTACCGAA
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATATTGTTACCGAA
28404379 GGCTGTGCACCATTATTGTGGGCTTCGTATCGA
66 GGCTGTGCACCATTATTGTGGGCTTCGTATCGA
*
28404412 TATTGTAGGCTTCGTGCCGATTATAGTCCCGTTATCAATGGCTGAGTGCCGATCA-TGTTACCGA
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGAT-ATTGTTACCGA
* ** *
28404476 AGTCTGTGTGCCGTTATTGTGGGCTTCGTATCGA
65 AGGCTGTGCACCATTATTGTGGGCTTCGTATCGA
* * * *
28404510 TATTGTGGGCTTCATGCCGATTATAGACCTGTTATCGATGGCT
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCT
28404553 TTGTGCCACG
Statistics
Matches: 128, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
98 127 0.99
99 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.35
Consensus pattern (98 bp):
TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATATTGTTACCGAA
GGCTGTGCACCATTATTGTGGGCTTCGTATCGA
Found at i:28404530 original size:20 final size:20
Alignment explanation
Indices: 28404484--28404530 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
28404474 GAAGTCTGTG
* *
28404484 TGCCGTTATTGTGGGCTTCG
1 TGCCGATATTGTGGGCTTCA
**
28404504 TATCGATATTGTGGGCTTCA
1 TGCCGATATTGTGGGCTTCA
28404524 TGCCGAT
1 TGCCGAT
28404531 TATAGACCTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.19, G:0.30, T:0.38
Consensus pattern (20 bp):
TGCCGATATTGTGGGCTTCA
Found at i:28407850 original size:26 final size:27
Alignment explanation
Indices: 28407821--28407877 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
28407811 TACACATCGT
28407821 AGGGCAAAT-CAATCATTTTACCTTAC
1 AGGGCAAATGCAATCATTTTACCTTAC
** * *
28407847 AGGGGTATTGCAGTCATTTTACCTTAC
1 AGGGCAAATGCAATCATTTTACCTTAC
28407874 AGGG
1 AGGG
28407878 ATATTTCGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (27 bp):
AGGGCAAATGCAATCATTTTACCTTAC
Found at i:28407863 original size:27 final size:27
Alignment explanation
Indices: 28407833--28407948 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
28407823 GGCAAATCAA
* *
28407833 TCATTTTACCTTACAGGGGTATTGCAG
1 TCATTTTACCCTACAGGGGTATTTCAG
* * *
28407860 TCATTTTACCTTACAGGGATATTTCGG
1 TCATTTTACCCTACAGGGGTATTTCAG
* * *
28407887 TCATTCTACCCTACGGGGGTATTTTAG
1 TCATTTTACCCTACAGGGGTATTTCAG
*
28407914 TCATCTTACCCTATCA-GGGTATTTCAG
1 TCATTTTACCCTA-CAGGGGTATTTCAG
28407941 TCATTTTA
1 TCATTTTA
28407949 TCACATAAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 73 0.99
28 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTTCAG
Found at i:28407970 original size:27 final size:27
Alignment explanation
Indices: 28407940--28408067 Score: 202
Period size: 27 Copynumber: 4.7 Consensus size: 27
28407930 GGGTATTTCA
*
28407940 GTCATTTTATCACATAAGAGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
28407967 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
** *
28407994 GTCATTTTATCACATGCGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
28408021 TTCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGCAAAATC
28408048 GTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
28408068 TTCAGGTACG
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:28413515 original size:37 final size:36
Alignment explanation
Indices: 28413451--28413521 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
28413441 ATTCCAAAAA
28413451 TAATATTATTTTAATAGATTTAATATTAAATTAAATC
1 TAATATTATTTTAATAGATTT-ATATTAAATTAAATC
*
28413488 TAATAGTTATTTTAATAGTATTT-TATTAATTTAA
1 TAATA-TTATTTTAATAG-ATTTATATTAAATTAA
28413522 TATGAAAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 15 0.48
38 12 0.39
39 4 0.13
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATTTTAATAGATTTATATTAAATTAAATC
Found at i:28413535 original size:20 final size:19
Alignment explanation
Indices: 28413512--28413580 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 19
28413502 ATAGTATTTT
*
28413512 ATTAATTTAATATGAAAGTG
1 ATTAATTTAATAT-AAAATG
*
28413532 ATT-ATCTTAATATTAAAT-
1 ATTAAT-TTAATATAAAATG
*
28413550 -CTAATTTAATATAAAATTG
1 ATTAATTTAATATAAAA-TG
28413569 ATTAAGTTTAAT
1 ATTAA-TTTAAT
28413581 CATAGTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
17 11 0.29
18 3 0.08
19 5 0.13
20 13 0.34
21 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (19 bp):
ATTAATTTAATATAAAATG
Found at i:28414991 original size:16 final size:17
Alignment explanation
Indices: 28414963--28414994 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
28414953 TTATAAACAC
28414963 ATATCATATATTTCATT
1 ATATCATATATTTCATT
28414980 ATATCA-ATATTTCAT
1 ATATCATATATTTCAT
28414995 ATACCATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATCATATATTTCATT
Found at i:28432387 original size:79 final size:82
Alignment explanation
Indices: 28432276--28432460 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
28432266 GCTACTCGTT
* * *
28432276 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
28432339 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
28432356 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
28432419 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
28432436 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28432461 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:28432460 original size:40 final size:40
Alignment explanation
Indices: 28432257--28432460 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
28432247 CGGAATTTAA
** *
28432257 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
28432297 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
28432337 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28432376 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
28432416 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
28432456 CCGGA
1 CCGGA
28432461 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28440368 original size:40 final size:37
Alignment explanation
Indices: 28440311--28440594 Score: 237
Period size: 40 Copynumber: 7.1 Consensus size: 37
28440301 TTGAATGATG
* * *
28440311 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTA-A
28440351 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACTAA
* * *
28440390 TTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
28440430 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACT-AA
**
28440470 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACT-AA
**
28440510 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACTA-A
* * * **
28440550 ACCGGGCTATGTCTCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGACTAAGTC-CGAAGGCATTTGTGCGAGTA-CTA-A
28440590 TCCGG
1 TCCGG
28440595 TTAAATTCTG
Statistics
Matches: 216, Mismatches: 18, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
39 38 0.18
40 169 0.78
41 9 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (37 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTACTAA
Done.