Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 159 of 259
Found at i:51969076 original size:30 final size:30
Alignment explanation
Indices: 51968980--51969067 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
51968970 GTGTCTCAGC
* *
51968980 CGTGTTTGACACACGCCCAGGCAATACAGT
1 CGTGTGTGACACACGCCCAGGCAACACAGT
* *
51969010 CGTGTGTGACACATGCCCAGGCAACATAGT
1 CGTGTGTGACACACGCCCAGGCAACACAGT
* *
51969040 CGTGTGTGGCACACACCCAGGCAACACA
1 CGTGTGTGACACACGCCCAGGCAACACA
51969068 ACTGTGTGTC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.27, C:0.31, G:0.25, T:0.17
Consensus pattern (30 bp):
CGTGTGTGACACACGCCCAGGCAACACAGT
Found at i:51971163 original size:53 final size:53
Alignment explanation
Indices: 51971080--51971185 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
51971070 TCATGCATAC
* * *
51971080 ACAAACAAATGTCAACAATCAGACTTCACAAGATATCAATGAAATCAAAAGCA
1 ACAAACAAATGTCAACAATCAAACTCCACAAGATATCAATAAAATCAAAAGCA
*
51971133 ACAAACAAATGTCAACAATCAAACTCCACAAGATATCAATAAAATCAAGAGCA
1 ACAAACAAATGTCAACAATCAAACTCCACAAGATATCAATAAAATCAAAAGCA
51971186 TACTTTCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.54, C:0.22, G:0.08, T:0.16
Consensus pattern (53 bp):
ACAAACAAATGTCAACAATCAAACTCCACAAGATATCAATAAAATCAAAAGCA
Found at i:51976824 original size:18 final size:18
Alignment explanation
Indices: 51976785--51976818 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51976775 CATGTGGCTT
*
51976785 GCCCGTGTGGGCCTACAC
1 GCCCGTGTGGGCCCACAC
51976803 GCCCGTGT-GGCCCACA
1 GCCCGTGTGGGCCCACA
51976819 TGGCCCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.41, G:0.32, T:0.15
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:51985593 original size:24 final size:25
Alignment explanation
Indices: 51985555--51985612 Score: 100
Period size: 24 Copynumber: 2.3 Consensus size: 25
51985545 AAAATATATA
51985555 TAAAATAAATCCTAAGCCTTAAAATC
1 TAAAA-AAATCCTAAGCCTTAAAATC
51985581 TAAAAAAA-CCTAAGCCTTAAAATC
1 TAAAAAAATCCTAAGCCTTAAAATC
51985605 TAAAAAAA
1 TAAAAAAA
51985613 ACCCTAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.75
25 3 0.09
26 5 0.16
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.22
Consensus pattern (25 bp):
TAAAAAAATCCTAAGCCTTAAAATC
Found at i:51985770 original size:41 final size:40
Alignment explanation
Indices: 51985725--51985827 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 40
51985715 CAAAAAAATG
* *
51985725 CTTCCAGGTGGAAGCGTTTTCTTGCACAT-ACGCTGAAAACA
1 CTTCCAAGTGGAAGCATTTTC-TGCACATCAC-CTGAAAACA
* * **
51985766 CTTCCACGTGGATGCACTTTTCTGCATTTCACCTGAAAACA
1 CTTCCAAGTGGAAGCA-TTTTCTGCACATCACCTGAAAACA
*
51985807 CTTTCAAGTGGAAGCATTTTC
1 CTTCCAAGTGGAAGCATTTTC
51985828 GAAAATTGGC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 5 0.10
41 40 0.77
42 7 0.13
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (40 bp):
CTTCCAAGTGGAAGCATTTTCTGCACATCACCTGAAAACA
Found at i:51989055 original size:29 final size:28
Alignment explanation
Indices: 51989004--51989062 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
51988994 CTTCAGGATA
* *
51989004 ATTATAGTAATTAATTTTGATTTTGATT
1 ATTATAGTAATTAATTATGATTTTAATT
* *
51989032 ATTATAAGTTATTGATTATGATTTTAATT
1 ATTAT-AGTAATTAATTATGATTTTAATT
51989061 AT
1 AT
51989063 AACTTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (28 bp):
ATTATAGTAATTAATTATGATTTTAATT
Found at i:52000504 original size:49 final size:49
Alignment explanation
Indices: 52000430--52000550 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 49
52000420 GAACCCATGA
* * * *
52000430 CATAACCACCATCAACTGGGGGCCCTAGTTATAC-TCGAACCCATGACCG
1 CATAACCACCGTCAATTGAGAGCCCTAGTTATACTTC-AACCCATGACCG
* ***
52000479 CATAACCACCGTCAATTGAGAGCCCTAGTTATACTTCTACTTGTGACCG
1 CATAACCACCGTCAATTGAGAGCCCTAGTTATACTTCAACCCATGACCG
* *
52000528 TATAACCACCGTGAATTGAGAGC
1 CATAACCACCGTCAATTGAGAGC
52000551 ACGGGTTGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 59 0.97
50 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (49 bp):
CATAACCACCGTCAATTGAGAGCCCTAGTTATACTTCAACCCATGACCG
Found at i:52007478 original size:46 final size:46
Alignment explanation
Indices: 52007420--52007544 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
52007410 TGGGTGGTAT
* *
52007420 GTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
1 GTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
* * * * *
52007466 GTGAGCTAGTGTAAGAAATGTTTGGGACATGCATCGGCCTCGGGAT
1 GTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
* * *
52007512 ATACAAGCTAGTGTAAGACCTGTCTGGGACATG
1 GT--GAGCTAGTGTAAGACATGTCTGGGACATG
52007545 GCGTCAGCTT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 40 0.62
48 25 0.38
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (46 bp):
GTGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:52007678 original size:142 final size:138
Alignment explanation
Indices: 52007426--52007681 Score: 327
Period size: 142 Copynumber: 1.8 Consensus size: 138
52007416 GTATGTGAGC
** * * * *
52007426 CAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGTGAGCTAGTGTAAGAAATGTTTGG
1 CAGTGTAAGACATGTCTACGACATGCATCGACATTGAGACGAGAGCCAGTGTAAGAAATGTCTGG
* *
52007491 GACATGCATCGGCCTCGGGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTG
66 GACATGCATCGACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTG
52007556 TTGTGTGT
131 TTGTGTGT
* * **
52007564 CAGTGTAAGACCTGTCTACGACATGGCATCGACATTGATAGATGAGAGCCAGTGTAAGATCTGTC
1 CAGTGTAAGACATGTCTACGACAT-GCATCGACATTG--AGACGAGAGCCAGTGTAAGAAATGTC
*
52007629 TGGGACATGGCATCGACCTCGATATATGA-AAG-TCAGTGTAAGACCTGTCTGGG
63 TGGGACAT-GCATCGACCTCGAGATAT-ACAAGCT-AGTGTAAGACCTGTCTGGG
52007682 GCTCGACTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
138 21 0.21
139 11 0.11
141 29 0.29
142 37 0.37
143 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (138 bp):
CAGTGTAAGACATGTCTACGACATGCATCGACATTGAGACGAGAGCCAGTGTAAGAAATGTCTGG
GACATGCATCGACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTG
TTGTGTGT
Found at i:52007679 original size:49 final size:49
Alignment explanation
Indices: 52007473--52007681 Score: 173
Period size: 49 Copynumber: 4.4 Consensus size: 49
52007463 GACGTGAGCT
** * * **
52007473 AGTGTAAGAAATGTTTGGGACAT-GCATCGGCCTCGGGATAT-ACAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGA-AAGTC
* * * * *
52007520 TAGTGTAAGACCTGTCTGGGACATGGCGTC-AGCTTG-T-TGTG--TGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGTC
** * * * * *
52007565 AGTGTAAGACCTGTCTACGACATGGCATCGACATTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGTC
*
52007614 AGTGTAAGATCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGTC
52007663 AGTGTAAGACCTGTCTGGG
1 AGTGTAAGACCTGTCTGGG
52007682 GCTCGACTTC
Statistics
Matches: 125, Mismatches: 28, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
44 27 0.22
45 5 0.04
46 3 0.02
47 2 0.02
48 23 0.18
49 65 0.52
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGTC
Found at i:52012144 original size:31 final size:31
Alignment explanation
Indices: 52012109--52012171 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
52012099 TGCTGACAAC
* *
52012109 TTGTAAGTCTGTCGTCGTATCAACAAATCAT
1 TTGTAAGTCTATCATCGTATCAACAAATCAT
52012140 TTGTAAGTCTATCATCGTATCAACAAATCAT
1 TTGTAAGTCTATCATCGTATCAACAAATCAT
52012171 T
1 T
52012172 CTCACTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (31 bp):
TTGTAAGTCTATCATCGTATCAACAAATCAT
Found at i:52013160 original size:25 final size:26
Alignment explanation
Indices: 52013112--52013168 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
52013102 AAATTTATAC
*
52013112 ATAA-TATTAAAATTATATAGAAATGA
1 ATAATTATTAAAATTATATAAAAAT-A
*
52013138 A-AATTATT-AAATTATTTAAAAATA
1 ATAATTATTAAAATTATATAAAAATA
52013162 ATAATTA
1 ATAATTA
52013169 ATTTGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 20 0.74
26 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
ATAATTATTAAAATTATATAAAAATA
Found at i:52019781 original size:28 final size:28
Alignment explanation
Indices: 52019750--52019812 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
52019740 TCCCATATTA
52019750 ATGGGGTATAAGAAAAGTCTCATAACTT
1 ATGGGGTATAAGAAAAGTCTCATAACTT
* * * * *
52019778 ATGGGATATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAAGAAAAGTCTCATAACTT
52019806 ATGGGGT
1 ATGGGGT
52019813 TGATAATGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAAGAAAAGTCTCATAACTT
Found at i:52021876 original size:38 final size:38
Alignment explanation
Indices: 52021833--52021908 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52021823 TTCATCCTTT
52021833 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52021871 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52021909 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:52023191 original size:40 final size:40
Alignment explanation
Indices: 52023097--52023241 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
52023087 TACTCGAATG
* *
52023097 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGCGACT
* *
52023138 ACATCCGGACTAAGAT-CCGAAGGCATTTATGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGCGACT
* *
52023178 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACT
* *
52023218 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
52023242 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 27 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACT
Found at i:52028440 original size:28 final size:28
Alignment explanation
Indices: 52028408--52028470 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
52028398 TCCCATATTA
* *
52028408 ATGGGGTATAGGAAGAGTCTCATGACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* *
52028436 ATGGGGTATAGGAAAAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
52028464 ATGGGGT
1 ATGGGGT
52028471 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:52029339 original size:24 final size:24
Alignment explanation
Indices: 52029312--52029391 Score: 94
Period size: 24 Copynumber: 3.3 Consensus size: 24
52029302 TACCGATATA
52029312 TCAGCTCATAAGAGCTTACTGTTC
1 TCAGCTCATAAGAGCTTACTGTTC
*
52029336 TCAGCTCGTCAA-AGCTTACTG-TC
1 TCAGCTCAT-AAGAGCTTACTGTTC
*
52029359 TCAACTCA-ATAGAGCTTACTGTTC
1 TCAGCTCATA-AGAGCTTACTGTTC
52029383 ATCAGCTCA
1 -TCAGCTCA
52029392 GGAGGAGCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 17 0.36
24 19 0.40
25 9 0.19
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (24 bp):
TCAGCTCATAAGAGCTTACTGTTC
Found at i:52029374 original size:23 final size:23
Alignment explanation
Indices: 52029316--52029380 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
52029306 GATATATCAG
* *
52029316 CTCATAAGAGCTTACTGTTCTCAG
1 CTCATCAGAGCTTACTG-TCTCAA
* *
52029340 CTCGTCAAAGCTTACTGTCTCAA
1 CTCATCAGAGCTTACTGTCTCAA
52029363 CTCAAT-AGAGCTTACTGT
1 CTC-ATCAGAGCTTACTGT
52029381 TCATCAGCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (23 bp):
CTCATCAGAGCTTACTGTCTCAA
Found at i:52033288 original size:26 final size:26
Alignment explanation
Indices: 52033258--52033312 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
52033248 TAAGTTATAT
52033258 GTATGTTTTGAATCGTAAATTAAATA
1 GTATGTTTTGAATCGTAAATTAAATA
*
52033284 GTATGTTTTGAATGGTAAATTAAATA
1 GTATGTTTTGAATCGTAAATTAAATA
52033310 GTA
1 GTA
52033313 AGATTTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (26 bp):
GTATGTTTTGAATCGTAAATTAAATA
Found at i:52033319 original size:26 final size:26
Alignment explanation
Indices: 52033264--52033319 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
52033254 ATATGTATGT
* *
52033264 TTTGAATCGTAAATTAAATAGTATGT
1 TTTGAATCGTAAATTAAATAGTAAGA
*
52033290 TTTGAATGGTAAATTAAATAGTAAGA
1 TTTGAATCGTAAATTAAATAGTAAGA
52033316 TTTG
1 TTTG
52033320 CTTATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (26 bp):
TTTGAATCGTAAATTAAATAGTAAGA
Found at i:52041042 original size:18 final size:17
Alignment explanation
Indices: 52041004--52041042 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
52040994 AATAGGGCCG
*
52041004 TGTGGGCCACACGAGCG
1 TGTGGGCCACACGAGCA
*
52041021 TGTGGGTCCACACGGGCA
1 TGTGGG-CCACACGAGCA
52041039 TGTG
1 TGTG
52041043 AGATTCTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.18
Consensus pattern (17 bp):
TGTGGGCCACACGAGCA
Found at i:52042125 original size:91 final size:91
Alignment explanation
Indices: 52041970--52042153 Score: 332
Period size: 91 Copynumber: 2.0 Consensus size: 91
52041960 CAACTTTTCT
*
52041970 AAAGACAAAAGTTTTTCATAACACGAACGGTTTTCCTAAAACATGTGTTTTCCAAAGCTTCCGCT
1 AAAGACAAAAGTTTTTCATAACACAAACGGTTTTCCTAAAACATGTGTTTTCCAAAGCTTCCGCT
52042035 AAAAAGAGATGATTTTAGACTTAACG
66 AAAAAGAGATGATTTTAGACTTAACG
* * *
52042061 AAAGACAAAAGTTTTTCATAACGCAAATGGTTTTCCTAAAATATGTGTTTTCCAAAGCTTCCGCT
1 AAAGACAAAAGTTTTTCATAACACAAACGGTTTTCCTAAAACATGTGTTTTCCAAAGCTTCCGCT
52042126 AAAAAGAGATGATTTTAGACTTAACG
66 AAAAAGAGATGATTTTAGACTTAACG
52042152 AA
1 AA
52042154 TAACCGGTGG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (91 bp):
AAAGACAAAAGTTTTTCATAACACAAACGGTTTTCCTAAAACATGTGTTTTCCAAAGCTTCCGCT
AAAAAGAGATGATTTTAGACTTAACG
Found at i:52044863 original size:59 final size:59
Alignment explanation
Indices: 52044771--52044883 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
52044761 ACTCGATATG
** * *
52044771 GACATTACGAGTTCCTAGTTATGCCCTTTGGTTTGACTAATGCACCAGTGGCATGTATC
1 GACATTACGAGTTCCTAGTTATGAACTTTGGTTTGACTAATACACCAGTAGCATGTATC
52044830 GACATTACGAGTTCCTAGTTAT-AACTTTGGGTTTGACTAATACACCAGTAGCAT
1 GACATTACGAGTTCCTAGTTATGAACTTT-GGTTTGACTAATACACCAGTAGCAT
52044884 TTACGGACTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 4 0.08
59 45 0.92
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (59 bp):
GACATTACGAGTTCCTAGTTATGAACTTTGGTTTGACTAATACACCAGTAGCATGTATC
Found at i:52048299 original size:17 final size:19
Alignment explanation
Indices: 52048272--52048311 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
52048262 TAGACTGAAT
52048272 TGGGCCGTGT-GGACCACA
1 TGGGCCGTGTGGGACCACA
*
52048290 TGGG-CGTGTGGGTCCACA
1 TGGGCCGTGTGGGACCACA
52048308 TGGG
1 TGGG
52048312 TAGTCCACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.12, C:0.23, G:0.45, T:0.20
Consensus pattern (19 bp):
TGGGCCGTGTGGGACCACA
Found at i:52048386 original size:66 final size:66
Alignment explanation
Indices: 52048269--52048399 Score: 156
Period size: 66 Copynumber: 2.0 Consensus size: 66
52048259 GGCTAGACTG
* * * * * *
52048269 AATTGGGCCGTGTGGACCACATGGGCGTGTGGGTCCACATGGGTAGTCCACACGGGCGTGTAAGC
1 AATTGGGCCGTGTGGACCACACGGGCGTGTAGGCCCACACGGGAAGTCCACACGGCCGTGTAAGC
52048334 A
66 A
* * * *
52048335 AATTGGGCCGTGTGGGCCATACGGGTGTGTAGGCCCACACGGGCAAG-CCACATGGCCGTGTAAG
1 AATTGGGCCGTGTGGACCACACGGGCGTGTAGGCCCACACGGG-AAGTCCACACGGCCGTGTAAG
52048399 C
65 C
52048400 CTATGTCTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 52 0.96
67 2 0.04
ACGTcount: A:0.20, C:0.24, G:0.37, T:0.18
Consensus pattern (66 bp):
AATTGGGCCGTGTGGACCACACGGGCGTGTAGGCCCACACGGGAAGTCCACACGGCCGTGTAAGC
A
Found at i:52050526 original size:18 final size:16
Alignment explanation
Indices: 52050503--52050547 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
52050493 GCATAAAAAT
52050503 TATTATCATTTATAATGA
1 TATTAT-ATTTATAAT-A
*
52050521 TATTATTATTTGTAATA
1 TATTA-TATTTATAATA
52050538 TATTATATTT
1 TATTATATTT
52050548 TCGTCTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 6 0.24
18 13 0.52
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (16 bp):
TATTATATTTATAATA
Found at i:52050795 original size:14 final size:14
Alignment explanation
Indices: 52050737--52050789 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
52050727 TTTTTTACAA
52050737 AAAATTTAACAAAT
1 AAAATTTAACAAAT
**
52050751 AAAATTTAGA-ATTT
1 AAAATTTA-ACAAAT
* *
52050765 AGAGTTTAACAAAT
1 AAAATTTAACAAAT
52050779 AAAATTTAACA
1 AAAATTTAACA
52050790 GTTAAAGTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
13 1 0.03
14 27 0.93
15 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (14 bp):
AAAATTTAACAAAT
Found at i:52050798 original size:28 final size:28
Alignment explanation
Indices: 52050741--52050799 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
52050731 TTACAAAAAA
* *
52050741 TTTAACAAATAAAATTTAGAATTTAGAG
1 TTTAACAAATAAAATTTAGAAGTTAAAG
52050769 TTTAACAAATAAAATTTA-ACAGTTAAAG
1 TTTAACAAATAAAATTTAGA-AGTTAAAG
52050797 TTT
1 TTT
52050800 GTCTTGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (28 bp):
TTTAACAAATAAAATTTAGAAGTTAAAG
Found at i:52051021 original size:17 final size:17
Alignment explanation
Indices: 52050983--52051021 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
52050973 TATTTCATAT
*
52050983 AATTATTTTAATATTTA
1 AATTATTTTAATATCTA
*
52051000 AATTATTTTATTATCTA
1 AATTATTTTAATATCTA
*
52051017 CATTA
1 AATTA
52051022 ATGTTGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTTAATATCTA
Found at i:52052804 original size:10 final size:9
Alignment explanation
Indices: 52052785--52052819 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
52052775 TCTTTTTCTC
52052785 TTTATTTAT
1 TTTATTTAT
52052794 TTTATTTTAT
1 TTTA-TTTAT
52052804 TTTATTTAT
1 TTTATTTAT
52052813 TATTATT
1 T-TTATT
52052820 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTAT
Found at i:52052848 original size:22 final size:23
Alignment explanation
Indices: 52052823--52052871 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
52052813 TATTATTAAC
52052823 TTTAAAA-ATTTTGA-AATATATA
1 TTTAAAATATTTT-ATAATATATA
52052845 TTTAAAATATTTTATTAATATATA
1 TTTAAAATATTTTA-TAATATATA
52052869 TTT
1 TTT
52052872 TGAAATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.33
23 5 0.21
24 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTAAAATATTTTATAATATATA
Found at i:52052905 original size:21 final size:22
Alignment explanation
Indices: 52052868--52052922 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
52052858 ATTAATATAT
*
52052868 ATTTTGAA-ATTACTTTTTTTA
1 ATTTTAAATATTACTTTTTTTA
52052889 ATTTTAAATATTA-TTTTTTTA
1 ATTTTAAATATTACTTTTTTTA
52052910 ATATTTAAATATT
1 AT-TTTAAATATT
52052923 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTAAATATTACTTTTTTTA
Found at i:52053176 original size:19 final size:20
Alignment explanation
Indices: 52053154--52053206 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
52053144 TTTTATTATC
*
52053154 TTTTGTCTTTTTCTTTAAAT
1 TTTTATCTTTTTCTTTAAAT
* *
52053174 TTTTTTCTTTTT-TTT-AAG
1 TTTTATCTTTTTCTTTAAAT
*
52053192 TTTTATATTTTTCTT
1 TTTTATCTTTTTCTT
52053207 GTTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 12 0.43
19 5 0.18
20 11 0.39
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTTATCTTTTTCTTTAAAT
Found at i:52053177 original size:20 final size:19
Alignment explanation
Indices: 52053154--52053195 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
52053144 TTTTATTATC
52053154 TTTTGTCTTTTTCTTTAAAT
1 TTTTGTCTTTTT-TTTAAAT
* *
52053174 TTTTTTCTTTTTTTTAAGT
1 TTTTGTCTTTTTTTTAAAT
52053193 TTT
1 TTT
52053196 ATATTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTGTCTTTTTTTTAAAT
Found at i:52053318 original size:21 final size:21
Alignment explanation
Indices: 52053254--52053361 Score: 87
Period size: 19 Copynumber: 5.0 Consensus size: 21
52053244 TTAATTTTAA
* *
52053254 AAATTTTAAA-ATTTATATTTG
1 AAATTTTAAATA-TTATTTTTT
52053275 AAATTTTTTATAATATATATTTTTT
1 AAA--TTTTA-AATAT-TATTTTTT
52053300 AAATTTTAAATATTA--TTTT
1 AAATTTTAAATATTATTTTTT
*
52053319 AAATTTTTAATATTATTTTTT
1 AAATTTTAAATATTATTTTTT
**
52053340 AAAACATTAAATATATATTTTT
1 -AAATTTTAAATAT-TATTTTT
52053362 AATAATATAA
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
19 18 0.25
21 9 0.12
22 15 0.21
23 17 0.24
24 3 0.04
25 10 0.14
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (21 bp):
AAATTTTAAATATTATTTTTT
Found at i:52053330 original size:41 final size:44
Alignment explanation
Indices: 52053242--52053360 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 44
52053232 TATTTATTGT
* *
52053242 TATTAATTTTAAAAATTTTAAA-ATTTATATTTGAAATTTTTTATAA
1 TATTATTTTTTAAAATTTTAAATA-TTAT-TTTGAAA-TTTTTATAA
52053288 TATATATTTTTT-AAATTTTAAATATTATTTT-AAA-TTTT-TAA
1 TAT-TATTTTTTAAAATTTTAAATATTATTTTGAAATTTTTATAA
**
52053329 TATTATTTTTTAAAACATTAAATATATATTTT
1 TATTATTTTTTAAAATTTTAAATAT-TATTTT
52053361 TAATAATATA
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
40 8 0.12
41 17 0.26
42 10 0.15
44 3 0.05
45 3 0.05
46 17 0.26
47 7 0.11
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (44 bp):
TATTATTTTTTAAAATTTTAAATATTATTTTGAAATTTTTATAA
Found at i:52053362 original size:22 final size:21
Alignment explanation
Indices: 52053242--52053377 Score: 89
Period size: 22 Copynumber: 6.2 Consensus size: 21
52053232 TATTTATTGT
*
52053242 TATTAATTTTAAAAATTTTAAA
1 TATT-ATTTTTAAAATTTTAAA
* *
52053264 -ATTTATATTTGAAATTTTTTATAA
1 TA-TTAT-TTTTAAA-ATTTTA-AA
*
52053288 TATATATTTTTTAAATTTTAAA
1 TAT-TATTTTTAAAATTTTAAA
*
52053310 TATTA-TTTT-AAATTTTTAA
1 TATTATTTTTAAAATTTTAAA
**
52053329 TATTATTTTTTAAAACATTAAA
1 TATTA-TTTTTAAAATTTTAAA
* *
52053351 TATATATTTTTAATAATATAAAA
1 TAT-TATTTTTAA-AATTTTAAA
52053374 TATT
1 TATT
52053378 TAAATATTTA
Statistics
Matches: 92, Mismatches: 11, Indels: 22
0.74 0.09 0.18
Matches are distributed among these distances:
19 14 0.15
20 4 0.04
21 9 0.10
22 31 0.34
23 22 0.24
24 8 0.09
25 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (21 bp):
TATTATTTTTAAAATTTTAAA
Found at i:52053431 original size:29 final size:30
Alignment explanation
Indices: 52053399--52053466 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
52053389 AGATATGACC
52053399 TTTTAAATTTA-TT-ATTAGTTTGT-TAATA
1 TTTTAAATTTATTTAATTAGTTT-TATAATA
* *
52053427 TTTTTAATATTATTTAATTTGTTTTATAATA
1 TTTTAAAT-TTATTTAATTAGTTTTATAATA
52053458 TTTTAAATT
1 TTTTAAATT
52053467 ATGATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 7 0.21
29 3 0.09
30 4 0.12
31 19 0.58
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (30 bp):
TTTTAAATTTATTTAATTAGTTTTATAATA
Found at i:52053457 original size:22 final size:23
Alignment explanation
Indices: 52053426--52053484 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
52053416 GTTTGTTAAT
52053426 ATTTTTAATATTATTTAATT-TG
1 ATTTTTAATATTATTTAATTATG
*
52053448 -TTTTATAATATT-TTAAATTATG
1 ATTTT-TAATATTATTTAATTATG
52053470 ATTTTTAA-ATTATTT
1 ATTTTTAATATTATTT
52053485 TTAAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (23 bp):
ATTTTTAATATTATTTAATTATG
Found at i:52053845 original size:22 final size:23
Alignment explanation
Indices: 52053804--52053860 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
52053794 AAAAGTTTAA
52053804 AATATTT-AAATATTAAAAAAAT
1 AATATTTAAAATATTAAAAAAAT
* *
52053826 AATATTTAAAAT-TTAGAAAAGT
1 AATATTTAAAATATTAAAAAAAT
*
52053848 AAT-TTCAAAATAT
1 AATATTTAAAATAT
52053861 ATATTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (23 bp):
AATATTTAAAATATTAAAAAAAT
Found at i:52053966 original size:20 final size:20
Alignment explanation
Indices: 52053916--52053986 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
52053906 TAATAATAAT
*
52053916 AAATAAATAAGTAAAATA-AA
1 AAATAAAAAAGTAAAA-AGAA
*
52053936 TAAAGAGAAAAAG-ACAAAAGAA
1 -AAATA-AAAAAGTA-AAAAGAA
* *
52053958 AAGTAAAAAAGTAAAAATAA
1 AAATAAAAAAGTAAAAAGAA
52053978 AAATAAAAA
1 AAATAAAAA
52053987 GATTGACATG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 20 0.50
21 10 0.25
22 10 0.25
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.13
Consensus pattern (20 bp):
AAATAAAAAAGTAAAAAGAA
Found at i:52056566 original size:47 final size:47
Alignment explanation
Indices: 52056497--52056587 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
52056487 AAGAAAAAAG
52056497 AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGACTTC
1 AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGACTTC
52056544 AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGAC
1 AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGAC
52056588 ATTTGAAGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (47 bp):
AAAACCCCAAATCTATTGCCATTTGTGAGCCTGAACATGGAGACTTC
Found at i:52056891 original size:19 final size:19
Alignment explanation
Indices: 52056867--52056905 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52056857 TTTTAAAATT
52056867 TTTAAA-AACTGTTATGTAA
1 TTTAAATAACT-TTATGTAA
*
52056886 TTTAAATTACTTTATGTAA
1 TTTAAATAACTTTATGTAA
52056905 T
1 T
52056906 AATTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTAAATAACTTTATGTAA
Found at i:52057583 original size:17 final size:16
Alignment explanation
Indices: 52057561--52057610 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
52057551 TTAAATATTG
52057561 TTTAATCAATAATTTTA
1 TTTAAT-AATAATTTTA
52057578 TTTAATATATAA--TTA
1 TTTAATA-ATAATTTTA
52057593 TTTAAATAATAATTTTA
1 TTT-AATAATAATTTTA
52057610 T
1 T
52057611 AAAATATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 10 0.34
16 5 0.17
17 14 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAATAATAATTTTA
Found at i:52057628 original size:154 final size:150
Alignment explanation
Indices: 52057198--52057666 Score: 556
Period size: 154 Copynumber: 3.1 Consensus size: 150
52057188 TAACCTTACA
* * *
52057198 AATATATTATATTTTAAAAACTTAAGTATATTTTTAAATTTAGTTATATATTTTAAATATTGTTT
1 AATATATTATATTTCAAAAACTTAAGTATA-TTTTATATTT-GTTATATCTTTTAAATATTGTTT
* * * * * *
52057263 TATTAATAATTTTATTTAATATATCATTATTTAAATAAAAATTTTATAAAAAAATCAGCAACATG
64 TATCAATAATTTTATTTAATATATAATTATTTAAATAATAATTTTATAAAAAACT-AACAACCTG
52057328 TGCATCACACACGGGATAAAAAATT
128 TGCATCACACA--GGATAAAAAATT
* *
52057353 AGTATATTATATTTCAAAAACTTAAGTATATTTT-TA---G--ATATCTTTTAAATATTATTTTA
1 AATATATTATATTTCAAAAACTTAAGTATATTTTATATTTGTTATATCTTTTAAATATTGTTTTA
** * *
52057412 TCAATAATTTTATTTAATATATGGTTATTTAAATAATAATTTTATAAAACACACAAATAACCTGT
66 TCAATAATTTTATTTAATATATAATTATTTAAATAATAATTTTATAAAA-A-ACTAACAACCTGT
* * * *
52057477 GAATCACACAAGATAGAAAACT
129 GCATCACACAGGATAAAAAATT
* *
52057499 AATATATTATATTTCAAAAATTTGAGTATATTTTATATTTTGATTATATCTTTTAAATATTGTTT
1 AATATATTATATTTCAAAAACTTAAGTATATTTTATA-TTTG-TTATATCTTTTAAATATTGTTT
* *
52057564 AATCAATAATTTTATTTAATATATAATTATTTAAATAATAATTTTATAAAATATACTGACAACCT
64 TATCAATAATTTTATTTAATATATAATTATTTAAATAATAATTTTATAAAA-A-ACTAACAACCT
* *
52057629 ATGCATCACACGGGATAAAAAATT
127 GTGCATCACACAGGATAAAAAATT
52057653 AAT-TATTTATATTT
1 AATATA-TTATATTT
52057667 GAAGCTTTGA
Statistics
Matches: 267, Mismatches: 36, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
146 40 0.15
147 67 0.25
148 17 0.06
149 2 0.01
151 1 0.00
153 3 0.01
154 109 0.41
155 28 0.10
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (150 bp):
AATATATTATATTTCAAAAACTTAAGTATATTTTATATTTGTTATATCTTTTAAATATTGTTTTA
TCAATAATTTTATTTAATATATAATTATTTAAATAATAATTTTATAAAAAACTAACAACCTGTGC
ATCACACAGGATAAAAAATT
Found at i:52058271 original size:24 final size:24
Alignment explanation
Indices: 52058220--52058271 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
52058210 TTTAGTATAT
* * *
52058220 ATTAGTATAATATATTTAAGATTT
1 ATTAGCATAATATATTTAACATTG
*
52058244 ATTAGCATAATATATTTGACATTG
1 ATTAGCATAATATATTTAACATTG
52058268 ATTA
1 ATTA
52058272 AAATTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
ATTAGCATAATATATTTAACATTG
Found at i:52059627 original size:136 final size:136
Alignment explanation
Indices: 52059357--52059618 Score: 452
Period size: 136 Copynumber: 1.9 Consensus size: 136
52059347 AGTTGTTGGT
* ** *
52059357 GAACTACTTTCAAGTTTATTTCCATCTTTCAAGTGCCAAATCATTTTGGAACTATTTGAGTCCGA
1 GAACTACTTTCAAGTTTATTTCCATCTTTCAAGTGCAAAATCATTTTGGAACTATCCGAGTCCAA
* * *
52059422 AACTTTACTTCAATAAGGCAGTGAAATGAATTATGTATTTTTAGATTATTGTGTTGCTTGTAAAC
66 AACTTTACTTCAATAAGGCAATGAAATGAATTATGTATTTATAGATTATTGCGTTGCTTGTAAAC
52059487 TTAATC
131 TTAATC
*
52059493 GAACTACTTTTAAGTTTATTTCCATCTTTCAAGTGCAAAATCATTTTGGAACTATCCGAGTCCAA
1 GAACTACTTTCAAGTTTATTTCCATCTTTCAAGTGCAAAATCATTTTGGAACTATCCGAGTCCAA
52059558 AACTTTACTTCAATAAGGCAATGAAATGAATTATGTATTTATAGATTATTGCGTTGCTTGT
66 AACTTTACTTCAATAAGGCAATGAAATGAATTATGTATTTATAGATTATTGCGTTGCTTGT
52059619 GATTTTAATT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 118 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (136 bp):
GAACTACTTTCAAGTTTATTTCCATCTTTCAAGTGCAAAATCATTTTGGAACTATCCGAGTCCAA
AACTTTACTTCAATAAGGCAATGAAATGAATTATGTATTTATAGATTATTGCGTTGCTTGTAAAC
TTAATC
Found at i:52062067 original size:30 final size:31
Alignment explanation
Indices: 52062043--52062101 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
52062033 GTAAATACTC
* *
52062043 AAAATTTGAAGGATTAA-AGTGTAAATATGA
1 AAAACTTGAAGGACTAATAGTGTAAATATGA
*
52062073 AAAACTTGAAGGACTAATAGTGAAAATAT
1 AAAACTTGAAGGACTAATAGTGTAAATAT
52062102 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27
Consensus pattern (31 bp):
AAAACTTGAAGGACTAATAGTGTAAATATGA
Found at i:52063088 original size:14 final size:14
Alignment explanation
Indices: 52063069--52063099 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52063059 TAAATAGTTG
52063069 AAGAAAGGCTAAGA
1 AAGAAAGGCTAAGA
*
52063083 AAGAAAGGTTAAGA
1 AAGAAAGGCTAAGA
52063097 AAG
1 AAG
52063100 GTTCAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.29, T:0.10
Consensus pattern (14 bp):
AAGAAAGGCTAAGA
Found at i:52065162 original size:42 final size:42
Alignment explanation
Indices: 52065072--52065182 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 42
52065062 TACCGTGTCA
* *
52065072 ATGCCATATCCCGGATATGGTCTTACATGAAATATCATCTCG
1 ATGCCATATCCCTGATATGGTCTTATATGAAATATCATCTCG
* * *
52065114 ACGCCATGTCCCTGACATGGTCTTATATGAAATCAT-ATAC-CG
1 ATGCCATATCCCTGATATGGTCTTATATGAAAT-ATCAT-CTCG
52065156 ATGCCATATCCCAT-ATATGGTCTTATA
1 ATGCCATATCCC-TGATATGGTCTTATA
52065183 CGGAATCTCG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCTGATATGGTCTTATATGAAATATCATCTCG
Found at i:52065739 original size:27 final size:25
Alignment explanation
Indices: 52065686--52065735 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
52065676 TAACTCATAA
52065686 ATTTCACATTTCACAAATCAGTCCTT
1 ATTTCACATTTCACAAA-CAGTCCTT
52065712 ATTTCACATTTTCATCAAA-AGTCC
1 ATTTCACA-TTTCA-CAAACAGTCC
52065736 CTTAACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 13 0.59
27 5 0.23
28 4 0.18
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAACAGTCCTT
Found at i:52068847 original size:38 final size:37
Alignment explanation
Indices: 52068795--52068866 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
52068785 TAATTCATAT
*
52068795 TTTAATAATAATTATATTAAGAATATTACTAAATTGTA
1 TTTAATAATAATTATATTAA-AATATGACTAAATTGTA
* * *
52068833 TTTAATAATTATTATGTTAAAATATGATTAAATT
1 TTTAATAATAATTATATTAAAATATGACTAAATT
52068867 ATTTTTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 12 0.40
38 18 0.60
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (37 bp):
TTTAATAATAATTATATTAAAATATGACTAAATTGTA
Found at i:52071037 original size:17 final size:18
Alignment explanation
Indices: 52071011--52071049 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
52071001 TACAGTGTGG
52071011 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
52071027 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
52071045 AAAAT
1 AAAAT
52071050 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:52071226 original size:15 final size:15
Alignment explanation
Indices: 52071206--52071236 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52071196 AAAACAATAT
52071206 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
52071221 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
52071236 A
1 A
52071237 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:52074608 original size:15 final size:15
Alignment explanation
Indices: 52074598--52074627 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52074588 TCCCTTCTTG
52074598 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
52074613 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
52074628 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:52075395 original size:17 final size:18
Alignment explanation
Indices: 52075369--52075407 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
52075359 CAAATTGTGG
52075369 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
52075385 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
52075403 AAAAT
1 AAAAT
52075408 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:52075584 original size:15 final size:15
Alignment explanation
Indices: 52075564--52075594 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52075554 AAAACAATAT
52075564 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
52075579 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
52075594 A
1 A
52075595 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:52083184 original size:22 final size:22
Alignment explanation
Indices: 52083159--52083201 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
52083149 TCTCCCTATT
52083159 TTGCTAATATTTTAGTATTATG
1 TTGCTAATATTTTAGTATTATG
* *
52083181 TTGCTACTATTTTATTATTAT
1 TTGCTAATATTTTAGTATTAT
52083202 TATTTGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (22 bp):
TTGCTAATATTTTAGTATTATG
Found at i:52083322 original size:11 final size:11
Alignment explanation
Indices: 52083306--52083336 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
52083296 TCTATATATT
52083306 TAAAAATTATA
1 TAAAAATTATA
*
52083317 TAAAAATAATA
1 TAAAAATTATA
52083328 TAAAAATTA
1 TAAAAATTA
52083337 ATACATGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:52084249 original size:15 final size:15
Alignment explanation
Indices: 52084229--52084258 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52084219 GAGTATGATA
52084229 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
*
52084244 AAATATTTAAAAAAT
1 AAATATTAAAAAAAT
52084259 TACTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:52085898 original size:19 final size:19
Alignment explanation
Indices: 52085848--52085892 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
52085838 AATAACTTTC
*
52085848 AAAAATTAAAAATATTTCT
1 AAAAATTAAAAATATTTAT
*
52085867 TAAAATTAAAAATATTTAT
1 AAAAATTAAAAATATTTAT
52085886 AAAAATT
1 AAAAATT
52085893 CTAAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTAAAAATATTTAT
Found at i:52086528 original size:17 final size:18
Alignment explanation
Indices: 52086496--52086530 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52086486 GAAAATCTAA
*
52086496 TTTACATGCTTTAATTAG
1 TTTACATGCATTAATTAG
52086514 TTTACATG-ATTAATTAG
1 TTTACATGCATTAATTAG
52086531 AGCATCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTACATGCATTAATTAG
Found at i:52087827 original size:21 final size:21
Alignment explanation
Indices: 52087801--52087842 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
52087791 TTTGGGTTGG
*
52087801 TGTCTCGAGACATCAAGAACA
1 TGTCTCAAGACATCAAGAACA
*
52087822 TGTCTCAAGACCTCAAGAACA
1 TGTCTCAAGACATCAAGAACA
52087843 AAAATTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (21 bp):
TGTCTCAAGACATCAAGAACA
Found at i:52089034 original size:21 final size:23
Alignment explanation
Indices: 52088981--52089036 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
52088971 AAAAATTGAG
*
52088981 ATAAGTTATGATAATTATACATTT
1 ATAA-TTATTATAATTATACATTT
* *
52089005 AAAAATATTATAATT-TA-ATTT
1 ATAATTATTATAATTATACATTT
52089026 ATAATTATTAT
1 ATAATTATTAT
52089037 TTTGAAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 13 0.48
22 2 0.07
23 9 0.33
24 3 0.11
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
ATAATTATTATAATTATACATTT
Found at i:52089196 original size:35 final size:35
Alignment explanation
Indices: 52089126--52089196 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
52089116 TATAATTATT
* *
52089126 ATAATTTTAATTTAATTTAGAATTATTAGTTAAAA
1 ATAATTATAATTTAATTTAGAATTATTAGTAAAAA
*
52089161 ATAATTATAATTTAATTTTGAAATTATTA-TAAAAA
1 ATAATTATAATTTAATTTAG-AATTATTAGTAAAAA
52089196 A
1 A
52089197 GACTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 24 0.75
36 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (35 bp):
ATAATTATAATTTAATTTAGAATTATTAGTAAAAA
Found at i:52094057 original size:22 final size:21
Alignment explanation
Indices: 52094000--52094057 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
52093990 TATAATATAT
* *
52094000 AATATGAAAGTATATATGTAAA
1 AATAT-AAAGAATATATATAAA
* *
52094022 AATAATATATAATATATATAAA
1 AAT-ATAAAGAATATATATAAA
52094044 GAATATAAAGAATA
1 -AATATAAAGAATA
52094058 CGTAATACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (21 bp):
AATATAAAGAATATATATAAA
Found at i:52094084 original size:3 final size:3
Alignment explanation
Indices: 52094076--52094190 Score: 62
Period size: 3 Copynumber: 38.0 Consensus size: 3
52094066 AAGTAAAAAT
* * * *
52094076 ATA ATA ATA ATA TATAA ATA ATA AT- GTA A-A ATA ATA ATA GTTT GTA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* *
52094122 AAA ATA ATA TATA ATAA ATA ATA ATA AT- ATA A-A ATA ATGT ATA ATA
1 ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
*
52094168 A-A ATA ATT AT- ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA
52094191 TAAAGATATA
Statistics
Matches: 87, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
2 11 0.13
3 59 0.68
4 16 0.18
5 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:52094112 original size:30 final size:30
Alignment explanation
Indices: 52094076--52094203 Score: 104
Period size: 30 Copynumber: 4.2 Consensus size: 30
52094066 AAGTAAAAAT
*
52094076 ATAATAATAATATATA-AATAATAATGTAAA
1 ATAATAATAATATATATAA-AATAATATAAA
* * * *
52094106 ATAATAATAGTTTGTA-AAAATAATATATA
1 ATAATAATAATATATATAAAATAATATAAA
* *
52094135 ATAAATAATAATA-ATATAAAATAATGTATA
1 AT-AATAATAATATATATAAAATAATATAAA
52094165 ATAA-AATAAT-TATATAATATATAATATAAA
1 ATAATAATAATATATATAA-A-ATAATATAAA
52094195 GATATATAA
1 -ATA-ATAA
52094204 ACATTATGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 13
0.77 0.11 0.13
Matches are distributed among these distances:
28 12 0.15
29 16 0.20
30 45 0.57
31 3 0.04
32 1 0.01
33 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (30 bp):
ATAATAATAATATATATAAAATAATATAAA
Found at i:52094113 original size:16 final size:16
Alignment explanation
Indices: 52094092--52094159 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
52094082 ATAATATATA
52094092 AATAATAATGTAAAAT
1 AATAATAATGTAAAAT
*
52094108 AATAATAGTTTGTAAAAAT
1 AATAATA--ATGT-AAAAT
52094127 AATATATAA--T-AAAT
1 AATA-ATAATGTAAAAT
*
52094141 AATAATAATATAAAAT
1 AATAATAATGTAAAAT
52094157 AAT
1 AAT
52094160 GTATAATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
13 4 0.09
14 8 0.19
15 1 0.02
16 15 0.35
18 3 0.07
19 9 0.21
20 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (16 bp):
AATAATAATGTAAAAT
Found at i:52094158 original size:46 final size:46
Alignment explanation
Indices: 52094078--52094245 Score: 123
Period size: 46 Copynumber: 3.6 Consensus size: 46
52094068 GTAAAAATAT
* * *
52094078 AATAATA-ATATATAAATAATAAT-GTAAAATAATAATAGTTTGTAAA
1 AATAATATATA-ATAAATAATAATAATATAA-AATAATAGTATGTAAA
*
52094124 AATAATATATAATAAATAATAATAATATAAAATAAT-GTAT-AATAA
1 AATAATATATAATAAATAATAATAATATAAAATAATAGTATGTA-AA
* * * * *
52094169 AATAATTATATAATATATAATATAAAGATATATAAACATTA-TGTGATAAA
1 AATAA-TATATAATAAATAATA-ATA-ATATA-AAATAATAGTATG-TAAA
52094219 AAT-ATATTATAATAAATAATAAGTAAT
1 AATAATA-TATAATAAATAATAA-TAAT
52094246 GATATATGTT
Statistics
Matches: 98, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
44 1 0.01
45 10 0.10
46 40 0.41
47 9 0.09
48 10 0.10
49 22 0.22
50 5 0.05
51 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (46 bp):
AATAATATATAATAAATAATAATAATATAAAATAATAGTATGTAAA
Found at i:52094188 original size:15 final size:14
Alignment explanation
Indices: 52094074--52094203 Score: 63
Period size: 14 Copynumber: 8.9 Consensus size: 14
52094064 ACAAGTAAAA
52094074 ATATAATA-ATAAT
1 ATATAATATATAAT
52094087 ATATAA-ATAATAAT
1 ATATAATAT-ATAAT
* *
52094101 GTAAAATA-ATAAT
1 ATATAATATATAAT
* *
52094114 AGTTTGTAA-AAATAAT
1 A---TATAATATATAAT
*
52094130 ATATAATAAATAAT
1 ATATAATATATAAT
52094144 A-ATAATATAAAATAAT
1 ATATAATAT---ATAAT
* *
52094160 GTATAATAAAATAATT
1 ATATAAT-ATATAA-T
52094176 ATATAATATATAAT
1 ATATAATATATAAT
*
52094190 ATAAAGATATATAA
1 ATATA-ATATATAA
52094204 ACATTATGTG
Statistics
Matches: 90, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
12 1 0.01
13 21 0.23
14 22 0.24
15 19 0.21
16 21 0.23
17 5 0.06
18 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (14 bp):
ATATAATATATAAT
Found at i:52094193 original size:20 final size:19
Alignment explanation
Indices: 52093972--52094193 Score: 73
Period size: 19 Copynumber: 11.8 Consensus size: 19
52093962 AAAAGATGAC
*
52093972 ATAATAATATAAAATAAT-T
1 ATAAT-ATATAATATAATAT
52093991 ATAATATATAATATGAA-AGT
1 ATAATATATAATAT-AATA-T
* *
52094011 AT-ATATGTAAAAATAATAT
1 ATAATATAT-AATATAATAT
* *
52094030 ATAATATATATAAAGAATAT
1 ATAATATATA-ATATAATAT
* *
52094050 A-AAGAATACGTAATACAAGTA-
1 ATAA-TATA--TAATATAA-TAT
52094071 A-AA-ATATAATAATAATAT
1 ATAATATATAAT-ATAATAT
*
52094089 ATAA-ATAATAATGTAA-A-
1 ATAATAT-ATAATATAATAT
* * *
52094106 ATAATA-ATAGTTTGTAA-AA
1 ATAATATATA--ATATAATAT
52094125 ATAATATATAATA-AATA-
1 ATAATATATAATATAATAT
* *
52094142 ATAATAATATAAAATAATGT
1 ATAAT-ATATAATATAATAT
*
52094162 ATAATA-A-AATA-ATTAT
1 ATAATATATAATATAATAT
52094178 ATAATATATAATATAA
1 ATAATATATAATATAA
52094194 AGATATATAA
Statistics
Matches: 157, Mismatches: 19, Indels: 54
0.68 0.08 0.23
Matches are distributed among these distances:
16 12 0.08
17 21 0.13
18 34 0.22
19 41 0.26
20 38 0.24
21 7 0.04
22 4 0.03
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAATATATAATATAATAT
Found at i:52095917 original size:44 final size:45
Alignment explanation
Indices: 52095833--52095918 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 45
52095823 GTCATGTTGA
* * *
52095833 TATCTTCGATCTGCTTTCCGTCGAATACAGAGACATCAAATCTAC
1 TATCTTCGATCTGCTCTCCGTCCAATACAGAGACACCAAATCTAC
* * **
52095878 TATCTTCGATTTGCTCTCTG-CCAATACAGAGATGCCAAATC
1 TATCTTCGATCTGCTCTCCGTCCAATACAGAGACACCAAATC
52095919 ATCTTAGATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 17 0.50
45 17 0.50
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (45 bp):
TATCTTCGATCTGCTCTCCGTCCAATACAGAGACACCAAATCTAC
Found at i:52096617 original size:206 final size:207
Alignment explanation
Indices: 52095881--52096672 Score: 1293
Period size: 206 Copynumber: 3.8 Consensus size: 207
52095871 AATCTACTAT
* * * *
52095881 CTTCGATTTGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*** * * * *
52095946 ACAAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * *
52096011 GGATC-TGCTCCAGTCTAATCGTCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
52096075 GGAGATGCCAAA
196 GGAGATGCCAAA
*
52096087 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
52096152 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAAGCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * *
52096217 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAAATCTGCTATGTGTCTGCTCTCCATCAAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
52096282 GGAGATGCCAAA
196 GGAGATGCCAAA
*
52096294 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
52096359 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCAC-AGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * *
52096423 GGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCCCCGTCGAA-GT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
*
52096487 GGAGATGCCAGA
196 GGAGATGCCAAA
* *
52096499 CTTCGATTTGTTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
52096564 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
52096629 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
52096673 CTGCGGCCTA
Statistics
Matches: 547, Mismatches: 37, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
205 120 0.22
206 254 0.46
207 173 0.32
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
GGAGATGCCAAA
Found at i:52101817 original size:40 final size:40
Alignment explanation
Indices: 52101773--52101849 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
52101763 TTGATAATGG
52101773 GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
1 GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
*
52101813 GTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAAT
1 GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAAT
52101850 GTTCCATGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (40 bp):
GTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
Found at i:52116886 original size:74 final size:74
Alignment explanation
Indices: 52116765--52116908 Score: 270
Period size: 74 Copynumber: 1.9 Consensus size: 74
52116755 TTTTGCTTCT
* *
52116765 TCTCCATGTTCTGCAATTTGATTTTGTCAGGTGTCATGTCTACCACATGATTATATTTCTTCATA
1 TCTCCATGTTCTGCAATTTGATTCTGTCAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
52116830 AAAGCACAA
66 AAAGCACAA
52116839 TCTCCATGTTCTGCAATTTGATTCTGTCAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
1 TCTCCATGTTCTGCAATTTGATTCTGTCAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
52116904 AAAGC
66 AAAGC
52116909 TTGTGCTAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (74 bp):
TCTCCATGTTCTGCAATTTGATTCTGTCAGGTGTCATGTCTACCACATGATTATATTGCTTCATA
AAAGCACAA
Found at i:52117643 original size:24 final size:23
Alignment explanation
Indices: 52117605--52117650 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
52117595 GGATTCTGGC
* *
52117605 TAATTGCTCTTGCATCTGCTCTTG
1 TAATTGATCTCGCATCT-CTCTTG
52117629 TAATTGATCTCGCATCTCTCTT
1 TAATTGATCTCGCATCTCTCTT
52117651 TGCATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.46
Consensus pattern (23 bp):
TAATTGATCTCGCATCTCTCTTG
Found at i:52119932 original size:3 final size:3
Alignment explanation
Indices: 52119926--52120010 Score: 62
Period size: 3 Copynumber: 27.3 Consensus size: 3
52119916 AAAAGAAAAT
* * * * * *
52119926 ATA ATA ATG ATA ATA ATA ATGCA ATA GTA GTA GTA GTA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA
* * *
52119973 AAA ATA ATA ATA ATAA ATA GTA ATA ATA ATA TTA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
52120011 AAAAATTTGA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
3 63 0.91
4 3 0.04
5 3 0.04
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:52119991 original size:22 final size:22
Alignment explanation
Indices: 52119966--52120011 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
52119956 TAGTAGTAGT
52119966 AATAATAAAAATAATAATAATA
1 AATAATAAAAATAATAATAATA
* * *
52119988 AATAGTAATAATAATATTAATA
1 AATAATAAAAATAATAATAATA
52120010 AA
1 AA
52120012 AAAATTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAATAAAAATAATAATAATA
Found at i:52124636 original size:57 final size:59
Alignment explanation
Indices: 52124517--52124637 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 59
52124507 AGTAATGGTG
* * *
52124517 AAATGGAGAAATAAGAAACATTTGAAAATGATTATGGTTTTCTCTAAAAATGAAAATAA
1 AAATGGAGAAATAAGAAACATTTGAAAATAAATATGGTTTTCTCCAAAAATGAAAATAA
* * * *
52124576 AAATGGAGAACT-AGAATA-ATTTGGAAATAAATATGGTTTTC-CCCAAAATGAAAATGA
1 AAATGGAGAAATAAGAA-ACATTTGAAAATAAATATGGTTTTCTCCAAAAATGAAAATAA
52124633 AAATG
1 AAATG
52124638 ACCTTAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
57 18 0.33
58 24 0.44
59 12 0.22
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.27
Consensus pattern (59 bp):
AAATGGAGAAATAAGAAACATTTGAAAATAAATATGGTTTTCTCCAAAAATGAAAATAA
Found at i:52150042 original size:21 final size:21
Alignment explanation
Indices: 52150000--52150048 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
52149990 TAAGTACTTT
*
52150000 TTATTTTATTTTCCTTTATTA
1 TTATTTTATTTTACTTTATTA
*
52150021 TTATTTTAATTTTAGTTT-TTA
1 TTATTTT-ATTTTACTTTATTA
*
52150042 TAATTTT
1 TTATTTT
52150049 TATTGACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATTTTATTTTACTTTATTA
Found at i:52152259 original size:18 final size:19
Alignment explanation
Indices: 52152228--52152265 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
52152218 AAAACAAGGG
52152228 AGAAAAAGAGAAA-GAAAA
1 AGAAAAAGAGAAAGGAAAA
52152246 AGAAAAAG-GAAAAGGAAAA
1 AGAAAAAGAG-AAAGGAAAA
52152265 A
1 A
52152266 CTAGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 11 0.61
19 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAGAAAGGAAAA
Found at i:52153009 original size:40 final size:40
Alignment explanation
Indices: 52152962--52153042 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
52152952 AATTATGGGA
* * *
52152962 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTGAATAATGTTATGAATACTGAATTGAACTGTAAAAT
* * *
52153002 TACTGAATAATGTTATGTATATTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTATGAATACTGAATTGAACTGTAAAAT
52153042 T
1 T
52153043 GCTAATGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (40 bp):
TACTGAATAATGTTATGAATACTGAATTGAACTGTAAAAT
Found at i:52153306 original size:45 final size:45
Alignment explanation
Indices: 52153255--52153360 Score: 140
Period size: 45 Copynumber: 2.4 Consensus size: 45
52153245 CGACTACTGT
**
52153255 TACTGTTACAGTTACTATTACTGATTCAACACTTTGTGTGTCGAA
1 TACTGTTACAGTTACTATTACAAATTCAACACTTTGTGTGTCGAA
* * * *
52153300 TACTGTTACAGTTACTGTTACAAATTCAGCATTTTGTGTGTTGAA
1 TACTGTTACAGTTACTATTACAAATTCAACACTTTGTGTGTCGAA
* *
52153345 TACTGTTGCTGTTACT
1 TACTGTTACAGTTACT
52153361 TCTACTGCTA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (45 bp):
TACTGTTACAGTTACTATTACAAATTCAACACTTTGTGTGTCGAA
Found at i:52153307 original size:51 final size:45
Alignment explanation
Indices: 52153240--52153359 Score: 114
Period size: 45 Copynumber: 2.5 Consensus size: 45
52153230 CAGGCAGTTA
* *
52153240 TGTGCCGACTACTGTTACTGTTACAGTTACTATTACTGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACAGTTAC-A--A---ATTCAACACTTTG
* * * *
52153291 TGTGTCGAATACTGTTACAGTTACTGTTACAAATTCAGCATTTTG
1 TGTGTCGAATACTGTTACTGTTACAGTTACAAATTCAACACTTTG
* *
52153336 TGTGTTGAATACTGTTGCTGTTAC
1 TGTGTCGAATACTGTTACTGTTAC
52153360 TTCTACTGCT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
45 32 0.53
48 1 0.02
50 1 0.02
51 26 0.43
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (45 bp):
TGTGTCGAATACTGTTACTGTTACAGTTACAAATTCAACACTTTG
Found at i:52156746 original size:17 final size:18
Alignment explanation
Indices: 52156726--52156765 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
52156716 GAAAAATTAG
*
52156726 AAAATAAGAATAAAAAT-
1 AAAATAACAATAAAAATC
52156743 AAAAT-ACAATAAAAATC
1 AAAATAACAATAAAAATC
52156760 AAAATA
1 AAAATA
52156766 GCTAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAACAATAAAAATC
Found at i:52161676 original size:15 final size:15
Alignment explanation
Indices: 52161656--52161700 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
52161646 ATTTTAATCA
52161656 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
* *
52161671 TTTTTTAGTTTTTAA
1 TTTTTTATTTTTTAT
* *
52161686 ATTTGTATTTTTTAT
1 TTTTTTATTTTTTAT
52161701 CAATTCACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:52161862 original size:33 final size:32
Alignment explanation
Indices: 52161812--52161877 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
52161802 TTTTTAAAAA
*
52161812 TTTTAAAAATTCAAAAAATTATAAAAATATATTT
1 TTTTAAAAATT-AAAAAATCATAAAAAT-TATTT
*
52161846 TTTTAAAAAATT-AAAAATCATTAAAATTATTT
1 TTTT-AAAAATTAAAAAATCATAAAAATTATTT
52161878 AAAAAGTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 5 0.17
33 13 0.45
34 4 0.14
35 7 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (32 bp):
TTTTAAAAATTAAAAAATCATAAAAATTATTT
Found at i:52168027 original size:32 final size:30
Alignment explanation
Indices: 52167966--52168029 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
52167956 ATAGTAAAAA
*
52167966 TATTATTTTTAAAAGATTAAATTAAAATTT
1 TATTATTTTTAAAAGATTAAAGTAAAATTT
*
52167996 TATTATTTTTAGAGGAAG-TTAAAGTACAATTT
1 TATTATTTTTA-A--AAGATTAAAGTAAAATTT
52168028 TA
1 TA
52168030 GTTTTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 11 0.38
31 1 0.03
32 14 0.48
33 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (30 bp):
TATTATTTTTAAAAGATTAAAGTAAAATTT
Found at i:52172313 original size:386 final size:386
Alignment explanation
Indices: 52171600--52172375 Score: 1534
Period size: 386 Copynumber: 2.0 Consensus size: 386
52171590 CGGGATTAAC
52171600 ACTTAATGAAGACGAAGAAGCAGTCTTACAAATTCAAATAGAGCCGAATACAGATGGAAAAGCAG
1 ACTTAATGAAGACGAAGAAGCAGTCTTACAAATTCAAATAGAGCCGAATACAGATGGAAAAGCAG
52171665 AGGTATTCAGGTTAGTGGGTTGTTTCTTAACAGCTAGTATTATTCACTTCCCAACAATGAAAAGT
66 AGGTATTCAGGTTAGTGGGTTGTTTCTTAACAGCTAGTATTATTCACTTCCCAACAATGAAAAGT
52171730 ACTATGGCAAACCTTTGGCACCTGTTTGGGGTGTTCAAATTGAAGATCTGGGAGAAAAACGATTT
131 ACTATGGCAAACCTTTGGCACCTGTTTGGGGTGTTCAAATTGAAGATCTGGGAGAAAAACGATTT
52171795 TTTTTTCAATTTTATGGATATGGATAGGGTGTTGAAAGGGTCTCCATGGACATTTAATAATCATC
196 TTTTTTCAATTTTATGGATATGGATAGGGTGTTGAAAGGGTCTCCATGGACATTTAATAATCATC
52171860 TATTAATGTTACACAAATTACAATGAGGGAGGACCCATTAAAAGTACCATTAATACTAATGCCTT
261 TATTAATGTTACACAAATTACAATGAGGGAGGACCCATTAAAAGTACCATTAATACTAATGCCTT
52171925 TTTGGGTACAAATCCATTATGTTCCTATTTGTCTCTTCTCTGAAAATTTGGCAGTTGGGTA
326 TTTGGGTACAAATCCATTATGTTCCTATTTGTCTCTTCTCTGAAAATTTGGCAGTTGGGTA
52171986 ACTTAATGAAGACGAAGAAGCAGTCTTACAAATTCAAATAGAGCCGAATACAGATGGAAAAGCAG
1 ACTTAATGAAGACGAAGAAGCAGTCTTACAAATTCAAATAGAGCCGAATACAGATGGAAAAGCAG
52172051 AGGTATTCAGGTTAGTGGGTTGTTTCTTAACAGCTAGTATTATTCACTTCCCAACAATGAAAAGT
66 AGGTATTCAGGTTAGTGGGTTGTTTCTTAACAGCTAGTATTATTCACTTCCCAACAATGAAAAGT
52172116 ACTATGGCAAACCTTTGGCACCTGTTTGGGGTGTTCAAATTGAAGATCTGGGAGAAAAACGATTT
131 ACTATGGCAAACCTTTGGCACCTGTTTGGGGTGTTCAAATTGAAGATCTGGGAGAAAAACGATTT
52172181 TTTTTTCAATTTTATGGATATGGATAGGGTGTTGAAAGGGTCTCCATGGACATTTAATAATCATC
196 TTTTTTCAATTTTATGGATATGGATAGGGTGTTGAAAGGGTCTCCATGGACATTTAATAATCATC
* *
52172246 TATTAATGTTACATAAATTACAATGAGGGAGGACCCATTAAAAGTACCATTAATACTGATGCCTT
261 TATTAATGTTACACAAATTACAATGAGGGAGGACCCATTAAAAGTACCATTAATACTAATGCCTT
52172311 TTTGGGTACAAATCCATTATGTTCCTATTTGTCTCTTCTCTGAAAATTTGGCAGTTGGGTA
326 TTTGGGTACAAATCCATTATGTTCCTATTTGTCTCTTCTCTGAAAATTTGGCAGTTGGGTA
52172372 ACTT
1 ACTT
52172376 TATAGGGGAA
Statistics
Matches: 388, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
386 388 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (386 bp):
ACTTAATGAAGACGAAGAAGCAGTCTTACAAATTCAAATAGAGCCGAATACAGATGGAAAAGCAG
AGGTATTCAGGTTAGTGGGTTGTTTCTTAACAGCTAGTATTATTCACTTCCCAACAATGAAAAGT
ACTATGGCAAACCTTTGGCACCTGTTTGGGGTGTTCAAATTGAAGATCTGGGAGAAAAACGATTT
TTTTTTCAATTTTATGGATATGGATAGGGTGTTGAAAGGGTCTCCATGGACATTTAATAATCATC
TATTAATGTTACACAAATTACAATGAGGGAGGACCCATTAAAAGTACCATTAATACTAATGCCTT
TTTGGGTACAAATCCATTATGTTCCTATTTGTCTCTTCTCTGAAAATTTGGCAGTTGGGTA
Found at i:52179956 original size:37 final size:36
Alignment explanation
Indices: 52179894--52179967 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 36
52179884 AATTTGTCAC
*
52179894 CTCATCATGTTATTTCCTATTAGTCATATACCATGT
1 CTCATCATGTTATTTCCTATCAGTCATATACCATGT
*
52179930 CTCATCATGTTTATTTTCTATCAGTCATATACCATGT
1 CTCATCATG-TTATTTCCTATCAGTCATATACCATGT
52179967 C
1 C
52179968 ATATGACGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 9 0.26
37 26 0.74
ACGTcount: A:0.24, C:0.23, G:0.08, T:0.45
Consensus pattern (36 bp):
CTCATCATGTTATTTCCTATCAGTCATATACCATGT
Found at i:52182115 original size:23 final size:23
Alignment explanation
Indices: 52182033--52182119 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
52182023 CCTGATCAGT
*
52182033 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
52182055 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
52182075 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
52182098 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
52182120 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:52182515 original size:15 final size:15
Alignment explanation
Indices: 52182490--52182547 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
52182480 TCATATATAT
52182490 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
52182506 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
52182521 AATAATTTCAATCAA
1 TATAAATTCAATCAA
52182536 TATAAATTCAAT
1 TATAAATTCAAT
52182548 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:52196049 original size:13 final size:13
Alignment explanation
Indices: 52196028--52196062 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
52196018 AACAAAATGA
*
52196028 GCCAAATGCTATG
1 GCCATATGCTATG
52196041 GCCATATGCTATG
1 GCCATATGCTATG
*
52196054 ACCATATGC
1 GCCATATGC
52196063 ATGTAGACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (13 bp):
GCCATATGCTATG
Found at i:52208375 original size:71 final size:71
Alignment explanation
Indices: 52208259--52208422 Score: 229
Period size: 71 Copynumber: 2.3 Consensus size: 71
52208249 AACGCTACTA
* * * * * *
52208259 ATACCGTGAGGACTTCTATCGAAACAAGTTAAGCCAGTAGCCAAAGTTCAGCATCTCTTGCATTT
1 ATACCTTGAGGACTTCTACCGAAACAAGTCAAGCCAGTAGCCAAAGTTCAGCATCCCCTGCACTT
52208324 CTATTG
66 CTATTG
**
52208330 ATACCTTGAGGACTTCTACCGAAACAAGTCAAGTTAGTAGCCAAAGTTCAGCATCCCCTGCACTT
1 ATACCTTGAGGACTTCTACCGAAACAAGTCAAGCCAGTAGCCAAAGTTCAGCATCCCCTGCACTT
52208395 CTATTG
66 CTATTG
* * *
52208401 ATACTTTGATGAGTTCTACCGA
1 ATACCTTGAGGACTTCTACCGA
52208423 TACCAAATGA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (71 bp):
ATACCTTGAGGACTTCTACCGAAACAAGTCAAGCCAGTAGCCAAAGTTCAGCATCCCCTGCACTT
CTATTG
Found at i:52212584 original size:10 final size:10
Alignment explanation
Indices: 52212569--52212596 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
52212559 CCCTAAATCC
52212569 CTCAAATCAT
1 CTCAAATCAT
52212579 CTCAAATCAT
1 CTCAAATCAT
52212589 CTCAAATC
1 CTCAAATC
52212597 CTCAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (10 bp):
CTCAAATCAT
Found at i:52212645 original size:16 final size:16
Alignment explanation
Indices: 52212624--52212687 Score: 76
Period size: 16 Copynumber: 3.9 Consensus size: 16
52212614 CCCCAAATAC
*
52212624 TAAAATCCCTAATTCG
1 TAAAATCCCTAAATCG
*
52212640 TCAAATTCCCTAAATCG
1 T-AAAATCCCTAAATCG
*
52212657 TGAAA-CCTCTAAATCG
1 TAAAATCC-CTAAATCG
52212673 TAAAATCCCTAAATC
1 TAAAATCCCTAAATC
52212688 TATAACATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 2 0.05
16 22 0.55
17 16 0.40
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.28
Consensus pattern (16 bp):
TAAAATCCCTAAATCG
Found at i:52218947 original size:23 final size:23
Alignment explanation
Indices: 52218921--52218967 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
52218911 CTACATATCC
52218921 TTTGACTTAGGTCCATTGTATAT
1 TTTGACTTAGGTCCATTGTATAT
52218944 TTTGACTTAGGTCCATTGTATAT
1 TTTGACTTAGGTCCATTGTATAT
52218967 T
1 T
52218968 GATAACTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (23 bp):
TTTGACTTAGGTCCATTGTATAT
Found at i:52220632 original size:51 final size:50
Alignment explanation
Indices: 52220556--52220700 Score: 209
Period size: 51 Copynumber: 2.8 Consensus size: 50
52220546 TTGCAATAGT
* * * *
52220556 AACATTATCCACTCCATATGATGTTGCAAAATCACTAACATATCCAGTAGC
1 AACATTATCC-CTTCATCTGATGTTGCAAAATCACCAACATATCCACTAGC
*
52220607 AACATTATCTCCTTCATCTGATGTTGCAAAATCACCAACATATCTACTAGC
1 AACATTATC-CCTTCATCTGATGTTGCAAAATCACCAACATATCCACTAGC
*
52220658 AACATTATCCATTCCATCTGATGTTGCAAAATCACCAACATAT
1 AACATTATCCCTT-CATCTGATGTTGCAAAATCACCAACATAT
52220701 TCATCAGCAG
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
50 3 0.03
51 82 0.95
52 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (50 bp):
AACATTATCCCTTCATCTGATGTTGCAAAATCACCAACATATCCACTAGC
Found at i:52220924 original size:33 final size:32
Alignment explanation
Indices: 52220842--52220949 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 32
52220832 TGCCCCTCTT
*
52220842 ACATCATCCTCCTCA-CAGATTCTACCCTTTCC
1 ACATCACCCTCCTCATCAGATTCTACCCTTT-C
* * *
52220874 AGATCACCTTCAC-CATCAGATTCTACCCCTTC
1 ACATCACCCTC-CTCATCAGATTCTACCCTTTC
*
52220906 ATCATCACCCTCCTCATCA-ACTTCTACCCTTTTA
1 A-CATCACCCTCCTCATCAGA-TTCTACCC-TTTC
52220940 ACATCACCCT
1 ACATCACCCT
52220950 TCCCAACAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
32 14 0.23
33 45 0.73
34 3 0.05
ACGTcount: A:0.24, C:0.43, G:0.03, T:0.31
Consensus pattern (32 bp):
ACATCACCCTCCTCATCAGATTCTACCCTTTC
Found at i:52228464 original size:56 final size:55
Alignment explanation
Indices: 52228399--52228506 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 55
52228389 TTATAGATTG
* *
52228399 CAAATTAATTATTCATAAGCACTTTTCAAATTAAAAGTGATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGGGATGATTTATCATCTTA
*
52228454 CAAATTTAATTATTTATAAGCACTATTCAAATTAAAAGGGATGATTTATCATC
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGGGATGATTTATCATC
52228507 CAATGGATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 4 0.08
56 45 0.92
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGGGATGATTTATCATCTTA
Found at i:52229393 original size:76 final size:76
Alignment explanation
Indices: 52229269--52229571 Score: 466
Period size: 76 Copynumber: 4.0 Consensus size: 76
52229259 CCATTTTGGT
* *
52229269 ATTTAATT--TTTTTTTGGATTATTATTGTAAAAGAACTACATTTTACAAATGTTGAATATTTGT
1 ATTTAATTAATTTTTTTGGATTATTATGGTAAAAGAACTACATTTTACAAATGTTGAATATCTGT
52229332 TACATAATAAA
66 TACATAATAAA
* * * *
52229343 ATTTAATTAATTTTTTTAGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTGAATACCGGT
1 ATTTAATTAATTTTTTTGGATTATTATGGTAAAAGAACTACATTTTACAAATGTTGAATATCTGT
*
52229408 TACTTAATAAA
66 TACATAATAAA
* * * *
52229419 ATTTAATTAATTTTTTTGGATTATTGTGGAAAAAAAACTATATTTTACAAATGTTGAATATCTGT
1 ATTTAATTAATTTTTTTGGATTATTATGGTAAAAGAACTACATTTTACAAATGTTGAATATCTGT
52229484 TACATAATAAA
66 TACATAATAAA
* * *
52229495 ATTTAATTACTTTTTTTGGATTATTATGGTAAAAGAATTACATTTTACAAATGTTGAATATATGT
1 ATTTAATTAATTTTTTTGGATTATTATGGTAAAAGAACTACATTTTACAAATGTTGAATATCTGT
52229560 TACATAATAAA
66 TACATAATAAA
52229571 A
1 A
52229572 AAATTTTATT
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
74 8 0.04
76 198 0.96
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (76 bp):
ATTTAATTAATTTTTTTGGATTATTATGGTAAAAGAACTACATTTTACAAATGTTGAATATCTGT
TACATAATAAA
Found at i:52231620 original size:18 final size:18
Alignment explanation
Indices: 52231579--52231626 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
52231569 CAATTTGGGG
*
52231579 ATGTGGG-CCACACGAGC
1 ATGTGGGCCCATACGAGC
* *
52231596 GTGTGGGCCCATACGGGC
1 ATGTGGGCCCATACGAGC
52231614 ATGTGGGCCCATA
1 ATGTGGGCCCATA
52231627 TTTCTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.19, C:0.27, G:0.38, T:0.17
Consensus pattern (18 bp):
ATGTGGGCCCATACGAGC
Found at i:52233021 original size:26 final size:26
Alignment explanation
Indices: 52232992--52233060 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 26
52232982 ATATTCAATA
* *
52232992 CATGTTATTAATTGTGTTACTACCTT
1 CATGTTATTAATTGTGTTACTACATC
* *
52233018 CATGTTATTTTAATCGTTTTACTACATC
1 CATGTTA--TTAATTGTGTTACTACATC
52233046 CATGTTATTAATTGT
1 CATGTTATTAATTGT
52233061 ACAGTTCATC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 14 0.39
28 22 0.61
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (26 bp):
CATGTTATTAATTGTGTTACTACATC
Found at i:52237132 original size:32 final size:32
Alignment explanation
Indices: 52237057--52237142 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
52237047 AGCCTCCACC
* *
52237057 AATGCCGCCTCTCTCTCACCCTCTACTTCCATT
1 AATGCCGCCTCTCTCTCACCCCCCACTTCCA-T
**
52237090 AATGTTGCCTCTCTCTCACCCCCCACTTACC-T
1 AATGCCGCCTCTCTCTCACCCCCCACTT-CCAT
*
52237122 AATGCCGCCTCTTTCTCACCC
1 AATGCCGCCTCTCTCTCACCC
52237143 TTCACCATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
32 19 0.42
33 24 0.53
34 2 0.04
ACGTcount: A:0.15, C:0.47, G:0.07, T:0.31
Consensus pattern (32 bp):
AATGCCGCCTCTCTCTCACCCCCCACTTCCAT
Found at i:52237253 original size:51 final size:50
Alignment explanation
Indices: 52237186--52237328 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 50
52237176 ATACTAATAT
* *
52237186 CACCCATCTCTTTCCCTCTACCTTTAAAAAATATTTTTTTAATACTGGTGC
1 CACCCATCTCTCTCCCTCTACCCTTAAAAAATATTTTTTT-ATACTGGTGC
**
52237237 TGCCCATCTCTCTCCCTCTACCCTTAAAAAATAATTTTTGTTATACTGGTGC
1 CACCCATCTCTCTCCCTCTACCCTTAAAAAAT-ATTTTT-TTATACTGGTGC
* ** *
52237289 CACTCCATCTCCCTCTTTCCACCCTT-AAAAATATTTTTTT
1 CAC-CCATCTCTCTCCCTCTACCCTTAAAAAATATTTTTTT
52237329 TAAAAAACAC
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
50 2 0.03
51 34 0.43
52 23 0.29
53 20 0.25
ACGTcount: A:0.24, C:0.30, G:0.06, T:0.41
Consensus pattern (50 bp):
CACCCATCTCTCTCCCTCTACCCTTAAAAAATATTTTTTTATACTGGTGC
Found at i:52255753 original size:9 final size:9
Alignment explanation
Indices: 52255728--52255761 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
52255718 AACTGTGAAA
52255728 AAATAAAAT
1 AAATAAAAT
52255737 ATAATAAAAT
1 A-AATAAAAT
52255747 AAATAAAAT
1 AAATAAAAT
52255756 AAATAA
1 AAATAA
52255762 CACACAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAAAT
Found at i:52260177 original size:5 final size:5
Alignment explanation
Indices: 52260167--52260198 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
52260157 AATTTGTGAA
52260167 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
52260199 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:52260192 original size:9 final size:9
Alignment explanation
Indices: 52260168--52260198 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
52260158 ATTTGTGAAA
52260168 AAATAAAAT
1 AAATAAAAT
52260177 AAAATAAAAT
1 -AAATAAAAT
52260187 AAATAAAAT
1 AAATAAAAT
52260196 AAA
1 AAA
52260199 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:52269392 original size:7 final size:7
Alignment explanation
Indices: 52269360--52269384 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52269350 AAAATAAAAA
52269360 TTTTTAT
1 TTTTTAT
52269367 TTTTTAT
1 TTTTTAT
52269374 TTTTTAT
1 TTTTTAT
52269381 TTTT
1 TTTT
52269385 ATCTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:52269902 original size:12 final size:12
Alignment explanation
Indices: 52269885--52269911 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
52269875 AGCATGAAAC
52269885 AAAAAAAAAAGA
1 AAAAAAAAAAGA
52269897 AAAAAAAAAAGA
1 AAAAAAAAAAGA
52269909 AAA
1 AAA
52269912 GGCAAAAGTG
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:52272501 original size:10 final size:10
Alignment explanation
Indices: 52272486--52272510 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52272476 ACCAAGCATT
52272486 TATAAATATA
1 TATAAATATA
52272496 TATAAATATA
1 TATAAATATA
52272506 TATAA
1 TATAA
52272511 GCTTACAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TATAAATATA
Found at i:52280704 original size:13 final size:13
Alignment explanation
Indices: 52280686--52280713 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
52280676 GTTCGGCAGG
52280686 GACACGCTCGTAT
1 GACACGCTCGTAT
52280699 GACACGCTCGTAT
1 GACACGCTCGTAT
52280712 GA
1 GA
52280714 GATTACTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (13 bp):
GACACGCTCGTAT
Found at i:52282758 original size:39 final size:40
Alignment explanation
Indices: 52282680--52282758 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
52282670 GATAATTAAA
* *
52282680 AATAAAATTCTAAAATCTAATAAAAATAAAAAGTAGTTTT
1 AATAAAATTCTAAAAACTAATAAAAATAAAAAATAGTTTT
*
52282720 AATAAAATT-TAAAAACATAA-AATAATAAATAAAT-GTTTT
1 AATAAAATTCTAAAAAC-TAATAAAAATAAA-AAATAGTTTT
52282759 TAAACATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
39 19 0.56
40 15 0.44
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (40 bp):
AATAAAATTCTAAAAACTAATAAAAATAAAAAATAGTTTT
Found at i:52288767 original size:4 final size:4
Alignment explanation
Indices: 52288740--52288781 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
52288730 GAATATTGAC
*
52288740 ATAA A-AA ATTAA ATTAA GTAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA A-TAA A-TAA ATAA ATAA ATAA ATAA ATAA ATAA A
52288782 AATAAAACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 24 0.71
5 7 0.21
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:52290187 original size:23 final size:22
Alignment explanation
Indices: 52290136--52290187 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
52290126 CCTCGTCTTT
*
52290136 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
52290158 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
52290181 TTCTTTT
1 TTCTTTT
52290188 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:52290202 original size:18 final size:18
Alignment explanation
Indices: 52290181--52290219 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
52290171 TTTCTTCAAC
* *
52290181 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
52290199 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
52290217 TTC
1 TTC
52290220 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:52292604 original size:6 final size:6
Alignment explanation
Indices: 52292593--52292618 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52292583 GTAAATAAAT
52292593 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
52292619 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:52308537 original size:17 final size:17
Alignment explanation
Indices: 52308503--52308545 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
52308493 AACATAACAT
*
52308503 ATAATTATATTTTAAAA
1 ATAATTATATCTTAAAA
52308520 ATAATATATATCTTAAAA
1 ATAAT-TATATCTTAAAA
*
52308538 TTAATTAT
1 ATAATTAT
52308546 TATTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATTATATCTTAAAA
Found at i:52310406 original size:21 final size:20
Alignment explanation
Indices: 52310360--52310414 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
52310350 TTGATATTAT
52310360 TATTATTAATAT-TA-GTATA
1 TATT-TTAATATATATGTATA
* *
52310379 TGTTTTATTATATATGTATA
1 TATTTTAATATATATGTATA
52310399 TATCTTTAATATATAT
1 TAT-TTTAATATATAT
52310415 ATTTTAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 6 0.21
19 5 0.17
20 7 0.24
21 11 0.38
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTTAATATATATGTATA
Done.