Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 288 of 320
Found at i:92311805 original size:29 final size:27
Alignment explanation
Indices: 92311755--92311810 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
92311745 CCTATATTAC
92311755 CTATTTTAAAATTTCTTATACATATATT
1 CTATTTTAAAATTTCTTATACAT-TATT
* * *
92311783 CTATTTTTAAATTGTTTTGTACATTATT
1 CTATTTTAAAATT-TCTTATACATTATT
92311811 GATATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (27 bp):
CTATTTTAAAATTTCTTATACATTATT
Found at i:92313076 original size:35 final size:35
Alignment explanation
Indices: 92313030--92313102 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
92313020 TTAAGTGAGA
*
92313030 GTAAGAAACTATTCCTTCGTGAGGTCTTCACCTCT
1 GTAAGAAACTATTCCTTCATGAGGTCTTCACCTCT
92313065 GTAAGAAACTATTCCTTCATGAGGTCTTCACCTCT
1 GTAAGAAACTATTCCTTCATGAGGTCTTCACCTCT
92313100 GTA
1 GTA
92313103 TAGGATAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (35 bp):
GTAAGAAACTATTCCTTCATGAGGTCTTCACCTCT
Found at i:92317207 original size:65 final size:65
Alignment explanation
Indices: 92317103--92317234 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
92317093 TATAGGGAGC
92317103 TTTACCAAAATCTGTTTGATGCGCATGTGGTGTCCCCATTTTACCTAAAACCCAAGCAACCTCCA
1 TTTACCAAAATCTGTTTGATGCGCATGTGGTGTCCCCATTTTACCTAAAACCCAAGCAACCTCCA
92317168 TTTACCAAAATCTGTTTGATGCGCATGTGGTGTCCCCATTTTACCTAAAACCCAAGCAACCTCCA
1 TTTACCAAAATCTGTTTGATGCGCATGTGGTGTCCCCATTTTACCTAAAACCCAAGCAACCTCCA
92317233 TT
1 TT
92317235 CCCTAAGTGG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (65 bp):
TTTACCAAAATCTGTTTGATGCGCATGTGGTGTCCCCATTTTACCTAAAACCCAAGCAACCTCCA
Found at i:92319103 original size:93 final size:93
Alignment explanation
Indices: 92318944--92319123 Score: 333
Period size: 93 Copynumber: 1.9 Consensus size: 93
92318934 ATGTGCCTCC
* * *
92318944 AATATCGTTATTTCAATAAAAAATGCATTTTTGCGTATCATTTTGAGCAAATATTCTTTTATTCT
1 AATATCATTATTTCAATAAAAAATACATTTTTGCGTATCATTTTGAGCAAATATTCTGTTATTCT
92319009 TTCTACTTCATTCATAATCATATGTCCA
66 TTCTACTTCATTCATAATCATATGTCCA
92319037 AATATCATTATTTCAATAAAAAATACATTTTTGCGTATCATTTTGAGCAAATATTCTGTTATTCT
1 AATATCATTATTTCAATAAAAAATACATTTTTGCGTATCATTTTGAGCAAATATTCTGTTATTCT
92319102 TTCTACTTCATTCATAATCATA
66 TTCTACTTCATTCATAATCATA
92319124 CCATACAAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 84 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.45
Consensus pattern (93 bp):
AATATCATTATTTCAATAAAAAATACATTTTTGCGTATCATTTTGAGCAAATATTCTGTTATTCT
TTCTACTTCATTCATAATCATATGTCCA
Found at i:92320420 original size:21 final size:21
Alignment explanation
Indices: 92320395--92320463 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
92320385 TATAATGATT
92320395 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
92320416 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
92320436 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
92320456 ATTATTAT
1 ATTATTAT
92320464 TAGCATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:92320816 original size:14 final size:14
Alignment explanation
Indices: 92320792--92320824 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
92320782 AAGAATTAAG
92320792 GAAACAAAGAAACA
1 GAAACAAAGAAACA
92320806 -AAACAAAAGAAACA
1 GAAAC-AAAGAAACA
92320820 GAAAC
1 GAAAC
92320825 GAAGCAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 9 0.53
15 4 0.24
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
GAAACAAAGAAACA
Found at i:92320850 original size:18 final size:18
Alignment explanation
Indices: 92320816--92320858 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
92320806 AAACAAAAGA
*
92320816 AACAGAAACGAAGCAGGG
1 AACAGAAACGAAACAGGG
92320834 AACA-AAACGAAAACAGGG
1 AACAGAAACG-AAACAGGG
92320852 AA-AGAAA
1 AACAGAAA
92320859 ATAAAAGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.60, C:0.14, G:0.26, T:0.00
Consensus pattern (18 bp):
AACAGAAACGAAACAGGG
Found at i:92322557 original size:47 final size:47
Alignment explanation
Indices: 92322405--92322581 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 47
92322395 TGTAACCAGC
* * * *
92322405 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
92322451 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACAT
* * * *
92322501 -C-TCA-CGAACTGGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
92322545 CCATAAGGGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
92322582 TGTTCAACCA
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 1 0.01
46 36 0.32
47 56 0.50
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:92330701 original size:21 final size:21
Alignment explanation
Indices: 92330676--92330744 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
92330666 TATAATGATT
92330676 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
92330697 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
** *
92330717 A-CGTTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
92330737 ATTATTAT
1 ATTATTAT
92330745 TATTAGCATT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 3 0.09
21 17 0.49
22 3 0.09
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:92330757 original size:15 final size:14
Alignment explanation
Indices: 92330731--92330761 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
92330721 TATGGTTTTA
92330731 TATTAGATTATTAT
1 TATTAGATTATTAT
92330745 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
92330760 TA
1 TA
92330762 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:92331168 original size:12 final size:13
Alignment explanation
Indices: 92331126--92331155 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
92331116 GGAACAAAAT
92331126 GAAAACAGGGAAA
1 GAAAACAGGGAAA
92331139 GAAAA-AGGGAAA
1 GAAAACAGGGAAA
92331151 GAAAA
1 GAAAA
92331156 TAAAAAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.67, C:0.03, G:0.30, T:0.00
Consensus pattern (13 bp):
GAAAACAGGGAAA
Found at i:92335902 original size:29 final size:30
Alignment explanation
Indices: 92335855--92335922 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
92335845 TGGCCCAATA
* *
92335855 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
92335885 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
92335915 GAAAATAT
1 GTAAATAT
92335923 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:92336258 original size:17 final size:17
Alignment explanation
Indices: 92336236--92336269 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
92336226 TAAGGAAAGA
92336236 AAGGGGAGGATGATCAC
1 AAGGGGAGGATGATCAC
92336253 AAGGGGAGGATGATCAC
1 AAGGGGAGGATGATCAC
92336270 CATTCTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.41, T:0.12
Consensus pattern (17 bp):
AAGGGGAGGATGATCAC
Found at i:92338412 original size:46 final size:46
Alignment explanation
Indices: 92338360--92338588 Score: 370
Period size: 46 Copynumber: 5.0 Consensus size: 46
92338350 AGTGTGCTCT
92338360 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
92338406 CTGATATGAAATGTGTAAGATCATGGTTGGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTT-GAAAGATACCATGGCAAC
92338453 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92338499 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
92338545 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92338589 TCATGTCAAA
Statistics
Matches: 173, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
45 1 0.01
46 127 0.73
47 45 0.26
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:92338524 original size:93 final size:92
Alignment explanation
Indices: 92338360--92338588 Score: 370
Period size: 93 Copynumber: 2.5 Consensus size: 92
92338350 AGTGTGCTCT
92338360 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
*
92338425 ATCATGGTTGGAAAGATACCATGGCAAC
66 ACCATGGTT-GAAAGATACCATGGCAAC
92338453 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
92338518 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
92338545 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92338589 TCATGTCAAA
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
91 1 0.01
92 54 0.42
93 73 0.57
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:92340306 original size:44 final size:44
Alignment explanation
Indices: 92340240--92340356 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
92340230 AATCACCATG
* *
92340240 GCGAATCTTGTCTCCTTGAAGTTGCAGTGGAGCAGATTCAAGTC
1 GCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTCAAGTC
* ** * * *
92340284 GCGAATCTTATCTCCTTAAAGTTACAGAAGAGTAGATTGAAGTT
1 GCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTCAAGTC
*
92340328 AC-AGATCTTATCTCCTTAAAGTTGCAGTG
1 GCGA-ATCTTATCTCCTTAAAGTTGCAGTG
92340357 AAATAGATCA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.02
44 59 0.98
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
GCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTCAAGTC
Found at i:92340426 original size:89 final size:89
Alignment explanation
Indices: 92340323--92340491 Score: 198
Period size: 89 Copynumber: 1.9 Consensus size: 89
92340313 GAGTAGATTG
* *
92340323 AAGTTACAGATCTTATCT-CCTTAAAGTTGCAGTGAAATAGATCAAAGATAGCAAACCTTATCCC
1 AAGTTACAGATCTTATCTACCTGAAA-TTGCAGTGAAACAGATCAAAGATAGCAAACCTTATCCC
92340387 CCTGAAGTTGCAGTGGGGCAGGTTA
65 CCTGAAGTTGCAGTGGGGCAGGTTA
* *** ** * **
92340412 AAGTTACA-AGTCTTATTTACCTGAAATTGCAGTGGGGCAGATTGAAGATAGCAAATCTTATTTC
1 AAGTTACAGA-TCTTATCTACCTGAAATTGCAGTGAAACAGATCAAAGATAGCAAACCTTATCCC
*
92340476 CCTGAAGTTGTAGTGG
65 CCTGAAGTTGCAGTGG
92340492 AACAAATTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
88 1 0.02
89 59 0.89
90 6 0.09
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (89 bp):
AAGTTACAGATCTTATCTACCTGAAATTGCAGTGAAACAGATCAAAGATAGCAAACCTTATCCCC
CTGAAGTTGCAGTGGGGCAGGTTA
Found at i:92340481 original size:45 final size:45
Alignment explanation
Indices: 92340361--92340491 Score: 156
Period size: 44 Copynumber: 2.9 Consensus size: 45
92340351 GCAGTGAAAT
* * **
92340361 AGATCAAAGATAGCAAACCTTATCCCCCTGAAGTTGCAGTGGGGC
1 AGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGGGC
* * * * *
92340406 AGGTTAAAGTTA-CAAGTCTTATTTACCTGAAATTGCAGTGGGGC
1 AGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGGGC
* *
92340450 AGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTAGTGG
1 AGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGG
92340492 AACAAATTAA
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
44 35 0.51
45 34 0.49
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
AGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGGGC
Found at i:92342929 original size:26 final size:26
Alignment explanation
Indices: 92342883--92342939 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
92342873 ATTTTAAACT
**
92342883 CTTTCCCGTATATTATTTATTTCAAA
1 CTTTCCCGTATATTACCTATTTCAAA
*
92342909 CTTTCGCC-TATATTACCTATTTTAAA
1 CTTTC-CCGTATATTACCTATTTCAAA
*
92342935 ATTTC
1 CTTTC
92342940 TTATACATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.26, C:0.21, G:0.04, T:0.49
Consensus pattern (26 bp):
CTTTCCCGTATATTACCTATTTCAAA
Found at i:92342975 original size:29 final size:27
Alignment explanation
Indices: 92342925--92342980 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
92342915 CCTATATTAC
92342925 CTATTTTAAAATTTCTTATACATATATT
1 CTATTTTAAAATTTCTTATACAT-TATT
* * *
92342953 CTATTTTTAAATTGTTTTGTACATTATT
1 CTATTTTAAAATT-TCTTATACATTATT
92342981 GATATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (27 bp):
CTATTTTAAAATTTCTTATACATTATT
Found at i:92344738 original size:18 final size:18
Alignment explanation
Indices: 92344711--92344745 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92344701 TCTATTGTAT
92344711 TATATAAATAGTATATAA
1 TATATAAATAGTATATAA
* *
92344729 TATATTAATAGTTTATA
1 TATATAAATAGTATATA
92344746 TGTATACAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATAAATAGTATATAA
Found at i:92345922 original size:22 final size:23
Alignment explanation
Indices: 92345896--92345939 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
92345886 CTTAAATTTT
*
92345896 TAAA-TCTGAAATATAAAAAGAA
1 TAAATTCTGAAAAATAAAAAGAA
*
92345918 TAAATTCTTAAAAATAAAAAGA
1 TAAATTCTGAAAAATAAAAAGA
92345940 GAATATTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (23 bp):
TAAATTCTGAAAAATAAAAAGAA
Found at i:92349903 original size:3 final size:3
Alignment explanation
Indices: 92349891--92350119 Score: 152
Period size: 3 Copynumber: 76.0 Consensus size: 3
92349881 TTATTTTTGC
* * *
92349891 TAT T-T TAT TAT TAA AAT TAAT TAT TAT TAT TAT T-T TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
92349935 T-T GTAT TCAT TAT TAT TAT TTT TAT TAC TGT TAT TAT TAT ATAT TAT
1 TAT -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
92349982 TACT TAT TAT TAT TAT TA- TATT TAT T-T TAT TAT TGT TAC TAT TAT
1 TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
92350027 T-T TA- TAT ATATT TAT TAA CAT TATT TATT TAT TAT TAT TGT TAG TAA
1 TAT TAT TAT -TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT
* * * *
92350074 CA- TAT TGT TAT TTT TAT TAT T-T TAT TAT TAT TAT TCT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92350120 CATGGTACTA
Statistics
Matches: 176, Mismatches: 32, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
2 16 0.09
3 133 0.76
4 26 0.15
5 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:92354345 original size:46 final size:46
Alignment explanation
Indices: 92354178--92354349 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 46
92354168 TGTCATAGTG
* * * *
92354178 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
* ** * * *
92354224 TCTTTCAACCATGGTTTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* * *
92354270 TCTTTCAACCATGGTATTTCACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
92354316 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
92354350 AGAGCACACT
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
45 4 0.04
46 105 0.96
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:92356532 original size:30 final size:29
Alignment explanation
Indices: 92356485--92356552 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
92356475 ATACTAATAA
*
92356485 AATAATAATAAAATATCTTATTAAAGT-ATT
1 AATAA-AATAAAATATCTAATTAAA-TAATT
*
92356515 AATAAAATAATATTATCTAATTAAATAATT
1 AATAAAATAA-AATATCTAATTAAATAATT
92356545 -ATAAAATA
1 AATAAAATA
92356553 TCAAAATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (29 bp):
AATAAAATAAAATATCTAATTAAATAATT
Found at i:92377819 original size:40 final size:40
Alignment explanation
Indices: 92377734--92377856 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 40
92377724 CTCGAGAATA
* * ** *
92377734 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGAAAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
92377774 CAAAGTGGAAAGGATTTGTTACTGATTCACTATGGTAATT
1 TAAAGTGGAAAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
92377814 TAAAGT-GAATAGGATTTATTCCTGATTGACTACGGTAACT
1 TAAAGTGGAA-AGGATTTGTTCCTGATTCACTATGGTAACT
92377854 TAA
1 TAA
92377857 GGCAAATAGG
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 3 0.04
40 65 0.96
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (40 bp):
TAAAGTGGAAAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:92377865 original size:40 final size:40
Alignment explanation
Indices: 92377784--92377870 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
92377774 CAAAGTGGAA
* * * **
92377784 AGGATTTGTTACTGATTCACTATGGTAATTTAAAGTGAAT
1 AGGATTTATTACTGATTCACTACGGTAACTTAAAGCAAAT
* * *
92377824 AGGATTTATTCCTGATTGACTACGGTAACTTAAGGCAAAT
1 AGGATTTATTACTGATTCACTACGGTAACTTAAAGCAAAT
92377864 AGGATTT
1 AGGATTT
92377871 GACCTGAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (40 bp):
AGGATTTATTACTGATTCACTACGGTAACTTAAAGCAAAT
Found at i:92378582 original size:13 final size:13
Alignment explanation
Indices: 92378564--92378591 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92378554 TCTTGGAGGA
92378564 GCACAATGTAGTT
1 GCACAATGTAGTT
92378577 GCACAATGTAGTT
1 GCACAATGTAGTT
92378590 GC
1 GC
92378592 TGCATAAGCT
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:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (13 bp):
GCACAATGTAGTT
Found at i:92380722 original size:12 final size:12
Alignment explanation
Indices: 92380705--92380729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92380695 GTTGAAATCT
92380705 ACCTCAGCCTCG
1 ACCTCAGCCTCG
92380717 ACCTCAGCCTCG
1 ACCTCAGCCTCG
92380729 A
1 A
92380730 GCTCCTCGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.48, G:0.16, T:0.16
Consensus pattern (12 bp):
ACCTCAGCCTCG
Found at i:92383224 original size:25 final size:24
Alignment explanation
Indices: 92383180--92383248 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
92383170 ATTTAATCTT
* * *
92383180 TTAA-AAATTA-TAAAAATATAAT
1 TTAATAAATTAGTGAAATTATAAC
92383202 TTAATAAATTAGTGAAATCTATAAC
1 TTAATAAATTAGTGAAAT-TATAAC
92383227 TTAATAAATTAGTGAAATTATA
1 TTAATAAATTAGTGAAATTATA
92383249 TATTAATTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
22 4 0.10
23 6 0.15
24 8 0.20
25 23 0.56
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.38
Consensus pattern (24 bp):
TTAATAAATTAGTGAAATTATAAC
Found at i:92383255 original size:24 final size:25
Alignment explanation
Indices: 92383196--92383248 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
92383186 ATTATAAAAA
*
92383196 TATAATTTAATAAATTAGTGAAATC
1 TATAACTTAATAAATTAGTGAAATC
92383221 TATAACTTAATAAATTAGTGAAAT-
1 TATAACTTAATAAATTAGTGAAATC
92383245 TATA
1 TATA
92383249 TATTAATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (25 bp):
TATAACTTAATAAATTAGTGAAATC
Found at i:92386251 original size:17 final size:16
Alignment explanation
Indices: 92386215--92386268 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
92386205 GATTATTTAG
92386215 AATAATTGTTGCTCAA
1 AATAATTGTTGCTCAA
*
92386231 AATAATTGTTGTCTGAA
1 AATAATTGTTG-CTCAA
* *
92386248 AATAACTG-TGTTCAA
1 AATAATTGTTGCTCAA
92386263 AATAAT
1 AATAAT
92386269 CATATTCAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 8 0.25
16 13 0.41
17 11 0.34
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (16 bp):
AATAATTGTTGCTCAA
Found at i:92387340 original size:23 final size:23
Alignment explanation
Indices: 92387311--92387356 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
92387301 ATTATATTAA
* *
92387311 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAAAATAAATAT
*
92387334 AATTAAAAATAAAAAATATATAT
1 AATTAAAAATAAAAAATAAATAT
92387357 TTATTAGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATTAAAAATAAAAAATAAATAT
Found at i:92390926 original size:127 final size:124
Alignment explanation
Indices: 92390788--92391273 Score: 482
Period size: 127 Copynumber: 3.8 Consensus size: 124
92390778 TCTCAGCATA
92390788 AGGCAATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTTAATTTTCCA
1 AGGCAATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTTAATTTTCCA
* * * *
92390853 TTCGGCTAAAATACGGAATATCC-TTTGGAAATTTCGTCCATGCTTTTTAAAAAATTAAAAGG
66 TTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATCCA-GCTTTTT--AAAA-TAAAACG
* * * * * * * **
92390915 AGGCAATATTTCGTATTTGGGGAGTTTGAGAGATTGTGTCTAATCGTGCTGGG-TTTCGTTTAGT
1 AGGCAATATTTCGT-GTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTTAATTT--T
* * * *
92390979 TCATTTGACT-AAATATGGAATATCCTTTTTTTTTAAA-TTCATCC-GCGTTTTCTTAAAATAAA
63 CCATTCGACTAAAATACGGAATATCC---TTTTTGAAATTTCATCCAGC--TTT-TTAAAATAAA
92391041 ACG
122 ACG
* * * *
92391044 AGGCAATATTTCGTGTTTGAAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCA
1 AGGCAATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTTAATTTTCCA
* * *
92391109 CTCGACTAAAATATGGAATATCCTTTTTTAAAATTTCATCCACGCTTTCTTAAAATAAAACG
66 TTCGACTAAAATACGGAATATCC-TTTTTGAAATTTCATCCA-GCTTT-TTAAAATAAAACG
* * * * *
92391171 AGGTAATATTTCATGCTT-GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTTGATTTTTC
1 AGGCAATATTTCGTG-TTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTTAATTTTCC
* * *
92391235 ATTTGACTAAAATACAGAATATCC-TTTTGAAATTCCATC
65 ATTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATC
92391274 GATGTTTTCT
Statistics
Matches: 295, Mismatches: 48, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
125 13 0.04
126 9 0.03
127 125 0.42
128 90 0.31
129 37 0.13
130 4 0.01
131 9 0.03
132 8 0.03
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (124 bp):
AGGCAATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTTAATTTTCCA
TTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATCCAGCTTTTTAAAATAAAACG
Found at i:92390960 original size:128 final size:124
Alignment explanation
Indices: 92390788--92391347 Score: 479
Period size: 127 Copynumber: 4.4 Consensus size: 124
92390778 TCTCAGCATA
* *
92390788 AGGCAATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTTAATTTTCCA
1 AGGCAATATTTCGTGTTTGGAAGTTTGGGAGATCGTGCCCAATCGTGCTGGGCTTTAATTTTCCA
* * * *
92390853 TTCGGCTAAAATACGGAATATCC-TTTGGAAATTTCGTCCATGCTTTTTAAAAAATTAAAAGG
66 TTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATCCA-GCTTTTT--AAAA-TAAAACG
* * * * * * **
92390915 AGGCAATATTTCGTATTTGGGGAGTTTGAGAGATTGTGTCTAATCGTGCTGGG-TTTCGTTTAGT
1 AGGCAATATTTCGTGTTT-GGAAGTTTGGGAGATCGTGCCCAATCGTGCTGGGCTTTAATTT--T
* * * *
92390979 TCATTTGACT-AAATATGGAATATCCTTTTTTTTTAAA-TTCATCC-GCGTTTTCTTAAAATAAA
63 CCATTCGACTAAAATACGGAATATCC---TTTTTGAAATTTCATCCAGC--TTT-TTAAAATAAA
92391041 ACG
122 ACG
* *
92391044 AGGCAATATTTCGTGTTTGAAAGTTTGGGA-AGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCC
1 AGGCAATATTTCGTGTTTGGAAGTTTGGGAGA-TCGTGCCCAATCGTGCTGGGCTTTAATTTTCC
* * *
92391108 ACTCGACTAAAATATGGAATATCCTTTTTTAAAATTTCATCCACGCTTTCTTAAAATAAAACG
65 ATTCGACTAAAATACGGAATATCC-TTTTTGAAATTTCATCCA-GCTTT-TTAAAATAAAACG
* * * * * * *
92391171 AGGTAATATTTCATGCTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTTGATTTTTCA
1 AGGCAATATTTCGTGTTTGGAAGTTTGGGAGATCGTGCCCAATCGTGCTGGGCTTTAATTTTCCA
* * * * ** *
92391236 TTTGACTAAAATACAGAATATCC-TTTTGAAATTCCATCGATG-TTTTCTCAATTTAAAATG
66 TTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATCCA-GCTTTT-T-AAAATAAAACG
* * * * * ** *
92391296 TGGCAATGTTTCGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTGGG
1 AGGCAATATTTCGTGTTTGGAAGTTTGGGAGATCGTGCCCAATCGTGCTGGG
92391348 TTTCGGTTTA
Statistics
Matches: 350, Mismatches: 64, Indels: 40
0.77 0.14 0.09
Matches are distributed among these distances:
123 1 0.00
124 4 0.01
125 63 0.18
126 9 0.03
127 129 0.37
128 83 0.24
129 40 0.11
130 4 0.01
131 9 0.03
132 8 0.02
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (124 bp):
AGGCAATATTTCGTGTTTGGAAGTTTGGGAGATCGTGCCCAATCGTGCTGGGCTTTAATTTTCCA
TTCGACTAAAATACGGAATATCCTTTTTGAAATTTCATCCAGCTTTTTAAAATAAAACG
Found at i:92402865 original size:45 final size:45
Alignment explanation
Indices: 92402812--92403697 Score: 428
Period size: 45 Copynumber: 19.8 Consensus size: 45
92402802 TTTAGCCACT
* *
92402812 AGTCTTATCTTCCTGAAGTTGTAGTGGAGCAGACTGTAGATAGCA
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * *
92402857 AGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGATTAAAAGTTA-C-
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCA
* * * * *
92402900 AGATATTATC-TCCATGTA-TCAGCTA-TGGAGCGGA-TCGAAAAT-GACA
1 AG-TCTTATCTTCC-TGAAGT-TGC-AGTGGAGCAGACT-GAAGATAG-CA
* * *
92402946 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGTAGATAGCA
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * *
92402991 AGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTAAAAGTTA-C-
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCA
* * * *
92403034 AGATCTTATC-TCCATGTA-TCAGCTA-TAGAGCAGA-TCGAAAAT-GACA
1 AG-TCTTATCTTCC-TGAAGT-TGC-AGTGGAGCAGACT-GAAGATAG-CA
* * *
92403080 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGTAGATAGCA
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * *
92403125 AGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTAAAAGTTA-C-
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCA
* * * *
92403168 AGATTTTATC-TCCATGTA-TCGGCTA-TGGAGCAGA-TCGAAAAT-GACA
1 AG-TCTTATCTTCC-TGAAGT-TGC-AGTGGAGCAGACT-GAAGATAG-CA
* * *
92403214 AGTCTTATCTTCCTGAAGTTGCAGTGGAACAGACTGTAGATAGTA
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* *
92403259 AGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTA-C-
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCA
* * *
92403302 AGATCTTATCTTCATGTATCGATT--A-TGGAGCAGA-TCGAAAAT-GACA
1 AG-TCTTATCTTCCTG-A-AG-TTGCAGTGGAGCAGACT-GAAGATAG-CA
* * *
92403348 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGACAGCA
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * * *
92403393 AGTCTTATCTTCCTGAAGATGCA-AGAAGCAGACTAAAAGTTA-C-
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCA
* * * *
92403436 AGATCTTATC-TCCATGTA-TCGGCTA-TGGAGCAGA-T-AAAAAATGACA
1 AG-TCTTATCTTCC-TGAAGT-TGC-AGTGGAGCAGACTGAAGATA-G-CA
* * * **
92403482 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACGGCA
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * *
92403527 AGTCTTATCTTCCTAAAGTTGCAG-GAAGCAGACTGAAAATTA-C-
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCA
* * ** * *
92403570 AGATCCTATC-TCCATGTA-TCAACTA-TGGAGCAGA-TCGAAAATAACA
1 AG-TCTTATCTTCC-TGAAGT-TGC-AGTGGAGCAGACT-GAAGATAGCA
* * **
92403616 AGTCTTATCTCCCTGAAGTTGCAGTTGAGCAGACTGAAGACGGCA
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* *
92403661 AGTATTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAA
1 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAA
92403698 AATTACAGAT
Statistics
Matches: 634, Mismatches: 123, Indels: 169
0.68 0.13 0.18
Matches are distributed among these distances:
42 5 0.01
43 32 0.05
44 168 0.26
45 383 0.60
46 40 0.06
47 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
Found at i:92402964 original size:134 final size:134
Alignment explanation
Indices: 92402812--92403738 Score: 1396
Period size: 134 Copynumber: 6.9 Consensus size: 134
92402802 TTTAGCCACT
* *
92402812 AGTCTTATCTTCCTGAAGTTGTAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
* *
92402877 GCAGGAAGCAGATTAAAAGTTACAGATATTATCTCCATGTATCAGCTATGGAGCGGATCGAAAAT
66 GCAGGAAGCAGATTAAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAAT
92402942 GACA
131 GACA
*
92402946 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
* *
92403011 GCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCAGCTATAGAGCAGATCGAAAAT
66 GCAGGAAGCAGATTAAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAAT
92403076 GACA
131 GACA
*
92403080 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
* * *
92403145 GCAGGAAGCAGACTAAAAGTTACAGATTTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAAT
66 GCAGGAAGCAGATTAAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAAT
92403210 GACA
131 GACA
* * *
92403214 AGTCTTATCTTCCTGAAGTTGCAGTGGAACAGACTGTAGATAGTAAGTCTTATCTTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
* * *
92403279 GCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTTCATGTATC-GATTATGGAGCAGATCGAAA
66 GCAGGAAGCAGA-TTAAAAGTTACAGATCTTATCTCCATGTATCAG-CTATGGAGCAGATCGAAA
92403342 ATGACA
129 ATGACA
* * * *
92403348 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
* * * **
92403413 GCAAGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAAT
66 GCAGGAAGCAGATTAAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAAT
92403478 GACA
131 GACA
* * * ** *
92403482 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACGGCAAGTCTTATCTTCCTAAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
* * *
92403547 GCAGGAAGCAGACTGAAAA-TTACAGATCCTATCTCCATGTATCAACTATGGAGCAGATCGAAAA
66 GCAGGAAGCAGA-TTAAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAA
*
92403611 TAACA
130 TGACA
* * ** *
92403616 AGTCTTATCTCCCTGAAGTTGCAGTTGAGCAGACTGAAGACGGCAAGTATTATCTTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
*
92403681 GCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATGTATC-GACTATGGAGCAGAT
66 GCAGGAAGCAGA-TTAAAAGTTACAGATCTTATCTCCATGTATCAG-CTATGGAGCAGAT
92403739 TTTGGCCATC
Statistics
Matches: 730, Mismatches: 57, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
133 5 0.01
134 716 0.98
135 9 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (134 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCCTGAAGTT
GCAGGAAGCAGATTAAAAGTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAAT
GACA
Found at i:92403023 original size:178 final size:178
Alignment explanation
Indices: 92402692--92403024 Score: 411
Period size: 178 Copynumber: 1.9 Consensus size: 178
92402682 CTTATTGTCT
* * * *
92402692 TGAAGTTGCATGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTGTGGAGCAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAATTACAGATATTATCTCCATGTATCAGCTATGGAGCAGAT
* * * * * * * *
92402757 CAGAAATGGCGAGTCTTATCTCCATGTACCGGCTATGAAGCAGATTTTAGCCACTAGTCTTATCT
66 CAGAAATGACAAGTCTTATCTCCATGAACCGGCTATGAAGCAAACTGTAGACACAAGTCTTATCT
* *
92402822 TCCTGAAGTTGTAGTGGAGCAGACTGTAGATAGCAAGTCTTATCTTCC
131 TCCTGAAGTTGCAGTGAAGCAGACTGTAGATAGCAAGTCTTATCTTCC
* * *
92402870 TGAAGTTGCAGGAAGCAGATTAAAAGTTACAGATATTATCTCCATGTATCAGCTATGGAGCGGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAATTACAGATATTATCTCCATGTATCAGCTATGGAGCAGAT
* *** * *
92402935 C-GAAAATGACAAGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAAACTGTAGATAGCAAGTCTTA
66 CAG-AAATGACAAGTCTTATCTCCATGAACCGGCTA-TGAAGCAAACTGTAGACA-CAAGTCTTA
92402998 TCTTCCTGAAGTTGCAG-GAAGCAGACT
128 TCTTCCTGAAGTTGCAGTGAAGCAGACT
92403025 AAAAGTTACA
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
177 2 0.02
178 103 0.80
179 24 0.19
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (178 bp):
TGAAGTTGCAGGAAGCAGACTAAAAATTACAGATATTATCTCCATGTATCAGCTATGGAGCAGAT
CAGAAATGACAAGTCTTATCTCCATGAACCGGCTATGAAGCAAACTGTAGACACAAGTCTTATCT
TCCTGAAGTTGCAGTGAAGCAGACTGTAGATAGCAAGTCTTATCTTCC
Found at i:92403735 original size:89 final size:87
Alignment explanation
Indices: 92402836--92403737 Score: 394
Period size: 89 Copynumber: 10.1 Consensus size: 87
92402826 GAAGTTGTAG
* * *
92402836 TGGAGCAGACTGTAGAT-AGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGA-TTAAAAGTTA
1 TGGAGCAGACTGAAAATGA-CAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTA
*
92402899 CAGATATTATCTCCATGTATCAGCTA
64 CAGATCTTATCTCCATGTATC-GC-A
* * * * * *
92402925 TGGAGCGGA-TCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGTAGA-TA
1 TGGAGCAGACT-GAAAATGACAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTA
* *
92402988 GCA-AGTCTTATCTTCC-TGAAGTTGCA
64 -CAGA-TCTTATC-TCCATGTA-TCGCA
* * * *
92403014 -GGAAGCAGACT-AAAAGTTAC-AGATCTTATC-TCCATGTA-TCAGCTA-TAGAGCAGA-TCGA
1 TGG-AGCAGACTGAAAA-TGACAAG-TCTTATCTTCC-TGAAGT-TGC-AGGA-AGCAGACT-GA
* * * *
92403072 AAATGACA-AGTCTTATCTCCCTGAAGTTGCA
58 AAATTACAGA-TCTTATCTCCATGTA-TCGCA
* * *
92403103 GTGAAGCAGACTGTAGAT-AGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAAGTT
1 -TGGAGCAGACTGAAAATGA-CAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TT
*
92403166 ACAGATTTTATCTCCATGTATCGGCTA
63 ACAGATCTTATCTCCATGTATC-GC-A
*
92403193 TGGAGCAGA-TCGAAAATGACAAGTCTTATCTTCCTGAAGTTGCAGTGGAA-CAGACTGTAGATA
1 TGGAGCAGACT-GAAAATGACAAGTCTTATCTTCCTGAAGTTGCA--GGAAGCAGACTG-A-AAA
* * *
92403256 GTA-AG-TCTTATCTTCC-TGAAGTTGCA
61 TTACAGATCTTATC-TCCATGTA-TCGCA
* * *
92403282 -GGAAGCAGACTGAAAATTAC-AGATCTTATCTTCATGTATCGATT--ATGG-AGCAGA-TCGAA
1 TGG-AGCAGACTGAAAATGACAAG-TCTTATCTTCCTG-A-AG-TTGCA-GGAAGCAGACT-GAA
* * * *
92403341 AATGACA-AGTCTTATCTCCCTGAAGTTGCAA
59 AATTACAGA-TCTTATCTCCATGTA-TCGC-A
* *
92403372 TGGAGCAGACTGAAGACA-G-CAAGTCTTATCTTCCTGAAGATGCAAGAAGCAGACT-AAAAGTT
1 TGGAGCAGACTGAA-A-ATGACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TT
92403434 ACAGATCTTATCTCCATGTATCGGCTA
63 ACAGATCTTATCTCCATGTATC-GC-A
* * * * ***
92403461 TGGAGCAGA-TAAAAAATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACGG
1 TGGAGCAGACT-GAAAATGACAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTA
*
92403525 CA-AGTCTTATCTTCCTAAAGT-T-GCA
64 CAGA-TCTTATC-TCC--ATGTATCGCA
* * * **
92403550 -GGAAGCAGACTGAAAATTAC-AGATCCTATC-TCCATGTA-TCAACTATGG-AGCAGA-TCGAA
1 TGG-AGCAGACTGAAAATGACAAG-TCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACT-GAA
* * * *
92403609 AATAACA-AGTCTTATCTCCCTGAAGTTGCA
59 AATTACAGA-TCTTATCTCCATGTA-TCGCA
* * * * *
92403639 GTTGAGCAGACTGAAGACGGCAAGTATTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
1 -TGGAGCAGACTGAAAATGACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
92403704 AGATCTTATCTCCATGTATCGACTA
65 AGATCTTATCTCCATGTATCG-C-A
92403729 TGGAGCAGA
1 TGGAGCAGA
92403738 TTTTGGCCAT
Statistics
Matches: 621, Mismatches: 97, Indels: 190
0.68 0.11 0.21
Matches are distributed among these distances:
86 1 0.00
87 5 0.01
88 59 0.10
89 352 0.57
90 145 0.23
91 47 0.08
92 7 0.01
93 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (87 bp):
TGGAGCAGACTGAAAATGACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
GATCTTATCTCCATGTATCGCA
Found at i:92405845 original size:127 final size:123
Alignment explanation
Indices: 92405712--92406196 Score: 465
Period size: 127 Copynumber: 3.8 Consensus size: 123
92405702 AGCATAAGGA
92405712 AATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
1 AATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
* * * * * *
92405777 GCTAAAATACGGAATATCCTTTGGAAATTTCGTCCATACTTTTTAAAAAATTAAAAGGAGAC
66 ACTAAAATATGGAATATCCTTTTGAAATTTCATCCA-ACTTTTT--AAAA-TAAAACGAGGC
* * * * * * * * ** *
92405839 AATATTTCATATTTGGGGAGTTTGAGAGATCATGTCCAATCGTGCTGGGTTTCGTTTTGTTCATT
1 AATATTTCGT-GTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTT-TCCATT
* * *
92405904 CGACT-AAATATAGAATATCTTTTTTTTTTTAAA-TTCATCC-ACGTTTTCTTAAAATAAAACGA
64 CGACTAAAATATGGAATATC-----CTTTTGAAATTTCATCCAAC--TTT-TTAAAATAAAACGA
92405966 GGC
121 GGC
* * * * *
92405969 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATTGTGATGGGCTTCAATTTTCCACTCG
1 AATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
* * *
92406034 ACTAAAATATGGAATATCCTTTTTTAAAATTTCATCCACGCTTTCTTAAAATAAAACGAGGT
66 ACTAAAATATGGAATATCC--TTTTGAAATTTCATCCA-ACTTT-TTAAAATAAAACGAGGC
* * * *
92406096 AATATTTCGTGCTT-GGAAGTTTGGGAGGTCGTGCCTAATCGTGCTGGGTTTCGATTTTTCATTC
1 AATATTTCGTG-TTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTC
* *
92406160 GACTAAAATATAGAATATCCTTTTGAAATTCCATCCA
65 GACTAAAATATGGAATATCCTTTTGAAATTTCATCCA
92406197 TGTTTTCTCA
Statistics
Matches: 289, Mismatches: 52, Indels: 36
0.77 0.14 0.10
Matches are distributed among these distances:
125 15 0.05
126 7 0.02
127 108 0.37
128 61 0.21
129 57 0.20
130 20 0.07
131 4 0.01
132 9 0.03
133 8 0.03
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (123 bp):
AATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
ACTAAAATATGGAATATCCTTTTGAAATTTCATCCAACTTTTTAAAATAAAACGAGGC
Found at i:92406215 original size:257 final size:252
Alignment explanation
Indices: 92405712--92406204 Score: 611
Period size: 257 Copynumber: 1.9 Consensus size: 252
92405702 AGCATAAGGA
* * *
92405712 AATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
1 AATATTTCGTGTTGGGAAGTTTGGGAAGTCGTGCCCAATCGTGATGGGCTTCAATTTTCCACTCG
* * * * *
92405777 GCTAAAATACGGAATATCCTTTGGAAATTTCGTCCATACTTTTTAAAAAATTAAAAGGAGACAAT
66 ACTAAAATACGGAATATCCTTTGAAAATTTCATCCACACTTTTT-AAAAATTAAAACGAGACAAT
* * *
92405842 ATTTCATATTTGGGGAGTTTGAGAGATCATGTCCAATCGTGCTGGGTTTCGTTTTGTTCATTCGA
130 ATTTCATACTTGGGAAGTTTGAGAGATCATGTCCAATCGTGCTGGGTTTCGATTTGTTCATTCGA
* *
92405907 CTAAATATAGAATATCTTTTTTTTTTTAAATTCATCCACGTTTTCTTAAAATAAAACGAGGC
195 CTAAATATAGAATATC----TCTTTTGAAATTCATCCACGTTTTCTTAAAATAAAACGAGGC
* *
92405969 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATTGTGATGGGCTTCAATTTTCCACTCG
1 AATATTTCGTGTTGGGAAGTTTGGGAAGTCGTGCCCAATCGTGATGGGCTTCAATTTTCCACTCG
* * * **
92406034 ACTAAAATATGGAATATCCTTTTTTAAAATTTCATCCACGCTTTCTT-AAAA-TAAAACGAGGTA
66 ACTAAAATACGGAATATCC--TTTGAAAATTTCATCCACACTTT-TTAAAAATTAAAACGAGACA
* * * * *
92406097 ATATTTCGTGCTT-GGAAGTTTGGGAGGTCGTG-CCTAATCGTGCTGGGTTTCGATTT-TTCATT
128 ATATTTCATACTTGGGAAGTTTGAGAGATCATGTCC-AATCGTGCTGGGTTTCGATTTGTTCATT
*
92406159 CGACTAAAATATAGAATATC-CTTTTGAAATTCCATCCATGTTTTCT
192 CGACT-AAATATAGAATATCTCTTTTGAAATT-CATCCACGTTTTCT
92406205 CAATTTAAAA
Statistics
Matches: 204, Mismatches: 26, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
251 9 0.04
252 13 0.06
255 13 0.06
256 49 0.24
257 96 0.47
258 4 0.02
259 18 0.09
260 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (252 bp):
AATATTTCGTGTTGGGAAGTTTGGGAAGTCGTGCCCAATCGTGATGGGCTTCAATTTTCCACTCG
ACTAAAATACGGAATATCCTTTGAAAATTTCATCCACACTTTTTAAAAATTAAAACGAGACAATA
TTTCATACTTGGGAAGTTTGAGAGATCATGTCCAATCGTGCTGGGTTTCGATTTGTTCATTCGAC
TAAATATAGAATATCTCTTTTGAAATTCATCCACGTTTTCTTAAAATAAAACGAGGC
Found at i:92407093 original size:3 final size:3
Alignment explanation
Indices: 92407085--92407192 Score: 94
Period size: 3 Copynumber: 34.3 Consensus size: 3
92407075 CAAGACAATT
**
92407085 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GCA -AA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* *
92407133 TAGA TAA CCAA GTAGA CTAA TGAA TAA -AA TAA TAA TAA TAC TAA TAA
1 TA-A TAA -TAA -TA-A -TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
*
92407180 CAA TAA TAA TAA T
1 TAA TAA TAA TAA T
92407193 GAGAAAGACA
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
2 3 0.03
3 68 0.78
4 13 0.15
5 3 0.03
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:92407285 original size:31 final size:31
Alignment explanation
Indices: 92407250--92407312 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
92407240 TTATGAGAAG
92407250 TGAAATAATAATAAATAAACAAATATGGGGA
1 TGAAATAATAATAAATAAACAAATATGGGGA
92407281 TGAAATAATAATAAATAAACAAATATGGGGA
1 TGAAATAATAATAAATAAACAAATATGGGGA
92407312 T
1 T
92407313 TTGAGAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.57, C:0.03, G:0.16, T:0.24
Consensus pattern (31 bp):
TGAAATAATAATAAATAAACAAATATGGGGA
Found at i:92407322 original size:31 final size:31
Alignment explanation
Indices: 92407250--92407331 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
92407240 TTATGAGAAG
*
92407250 TGAAATAATAATAAATAAACAAATATGGGGA
1 TGAAAGAATAATAAATAAACAAATATGGGGA
*
92407281 TGAAATAATAATAAATAAACAAATATGGGGA
1 TGAAAGAATAATAAATAAACAAATATGGGGA
***
92407312 TTTGAGAATAAATAAATAAA
1 TGAAAGAAT-AATAAATAAA
92407332 TAGACGAACG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 36 0.78
32 10 0.22
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (31 bp):
TGAAAGAATAATAAATAAACAAATATGGGGA
Found at i:92409175 original size:16 final size:16
Alignment explanation
Indices: 92409154--92409186 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
92409144 AGCAAAATCC
92409154 ATCTCCACAAACTTTT
1 ATCTCCACAAACTTTT
92409170 ATCTCCACAAACTTTT
1 ATCTCCACAAACTTTT
92409186 A
1 A
92409187 ACAAATGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.36
Consensus pattern (16 bp):
ATCTCCACAAACTTTT
Found at i:92410801 original size:12 final size:12
Alignment explanation
Indices: 92410784--92410809 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92410774 CAATTTTAAT
92410784 AATAAATGAACA
1 AATAAATGAACA
92410796 AATAAATGAACA
1 AATAAATGAACA
92410808 AA
1 AA
92410810 AGAGGAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AATAAATGAACA
Found at i:92411592 original size:19 final size:19
Alignment explanation
Indices: 92411554--92411593 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
92411544 TTATGTTAAC
**
92411554 AAATAATTTAAAATTTATA
1 AAATAATTTAAAATAAATA
*
92411573 AAATTATTTAAAATAAATA
1 AAATAATTTAAAATAAATA
92411592 AA
1 AA
92411594 TAAATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAATTTAAAATAAATA
Found at i:92411923 original size:17 final size:16
Alignment explanation
Indices: 92411888--92411930 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
92411878 ACATTATCAA
* *
92411888 ATTTTAAAATTAATGT
1 ATTTTAAAAATAATAT
92411904 ATTTTAAATAATAATAT
1 ATTTTAAA-AATAATAT
92411921 ATTGTTAAAA
1 ATT-TTAAAA
92411931 GAAATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTTTAAAAATAATAT
Found at i:92415442 original size:21 final size:21
Alignment explanation
Indices: 92415413--92415459 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
92415403 CAGCTTCTTT
*
92415413 GCAGTGATGACAAACTGTTCC
1 GCAGCGATGACAAACTGTTCC
*
92415434 GCAGCGATGACAAACTGTTCT
1 GCAGCGATGACAAACTGTTCC
92415455 GCAGC
1 GCAGC
92415460 CTTTAAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (21 bp):
GCAGCGATGACAAACTGTTCC
Found at i:92422686 original size:4 final size:4
Alignment explanation
Indices: 92422677--92422704 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
92422667 ACAACCTAAC
92422677 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
92422705 TTTTGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:92436130 original size:30 final size:31
Alignment explanation
Indices: 92436054--92436132 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 31
92436044 TAGATAAGTT
* *
92436054 TTTTTAATTATTTAAATAATGAAAAATAATG
1 TTTTTCATTATTTAAATAATGAAAAATAATA
*
92436085 TTATTTCA--A-TTAAATAAT-AAAAATATTA
1 TT-TTTCATTATTTAAATAATGAAAAATAATA
92436113 TTTTTCATTATTTAAATAAT
1 TTTTTCATTATTTAAATAAT
92436133 TTTAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
27 5 0.12
28 10 0.24
29 10 0.24
30 10 0.24
31 2 0.05
32 4 0.10
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
TTTTTCATTATTTAAATAATGAAAAATAATA
Found at i:92442175 original size:16 final size:16
Alignment explanation
Indices: 92442154--92442189 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
92442144 TTTGGTTCGC
92442154 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
92442170 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
92442186 TGTA
1 TGTA
92442190 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:92442254 original size:44 final size:45
Alignment explanation
Indices: 92442170--92442260 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
92442160 GGATTAGAGG
* * *
92442170 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
92442215 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
92442259 TG
1 TG
92442261 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:92442442 original size:16 final size:16
Alignment explanation
Indices: 92442405--92442459 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
92442395 TTAATCATAT
*
92442405 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
92442421 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
92442436 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
92442454 -TAAAAT
1 TTAAAAT
92442460 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:92442452 original size:18 final size:18
Alignment explanation
Indices: 92442411--92442459 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
92442401 ATATTTAAAC
92442411 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
92442429 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
92442445 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
92442460 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:92442690 original size:14 final size:15
Alignment explanation
Indices: 92442641--92442692 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
92442631 ATAAAATATA
92442641 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
92442656 TATTAAATATATTAT
1 AATTAAATATATTAT
92442671 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
92442684 AATTTAATA
1 AATTAAATA
92442693 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:92442801 original size:16 final size:17
Alignment explanation
Indices: 92442776--92442816 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
92442766 AAATAATTAA
92442776 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
92442791 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
92442809 AA-TAAAAT
1 AATTAAAAT
92442817 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:92442828 original size:120 final size:120
Alignment explanation
Indices: 92442408--92442817 Score: 702
Period size: 120 Copynumber: 3.4 Consensus size: 120
92442398 ATCATATTTA
*
92442408 AACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
92442473 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
92442528 AACATAA-T-T-ATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
92442590 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
92442645 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * *
92442710 TATTCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA-ATT
* * *
92442766 AA-ATAATTAAAATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
92442818 TAAAATAATT
Statistics
Matches: 277, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
117 114 0.41
118 2 0.01
119 2 0.01
120 155 0.56
121 4 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:92445209 original size:22 final size:23
Alignment explanation
Indices: 92445174--92445219 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
92445164 AAGCCTAACC
92445174 AACAACACAAAACA-CATCAACA
1 AACAACACAAAACAGCATCAACA
* * *
92445196 AACAACAGACAACAGTATCAACA
1 AACAACACAAAACAGCATCAACA
92445219 A
1 A
92445220 TATGCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.28, G:0.04, T:0.07
Consensus pattern (23 bp):
AACAACACAAAACAGCATCAACA
Found at i:92445371 original size:42 final size:38
Alignment explanation
Indices: 92445278--92445390 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 38
92445268 GCAAACAACA
* *
92445278 CTATCAACAAACAACAGT-ATGCATTTCTTAAGCCTAAC
1 CTATCAACAAACAACAGTCAT-CAATTCTTAAGCCAAAC
* *
92445316 C-AACAACAGACAACAGTCATCAATTCTTAAGCCAAGGCAC
1 CTATCAACAAACAACAGTCATCAATTCTTAAGCCAA---AC
*
92445356 CTTATCAACAAACAACAATCATCAATTCTTAAGCC
1 C-TATCAACAAACAACAGTCATCAATTCTTAAGCC
92445391 TAATCCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
37 27 0.44
38 3 0.05
40 3 0.05
42 29 0.47
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (38 bp):
CTATCAACAAACAACAGTCATCAATTCTTAAGCCAAAC
Found at i:92445777 original size:38 final size:38
Alignment explanation
Indices: 92445735--92445875 Score: 140
Period size: 38 Copynumber: 4.0 Consensus size: 38
92445725 GCAGAAACTG
92445735 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
* *
92445773 GCAAATCGACAGAAAAGAAAAGAAAATAAAC--A--GA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
*
92445807 G------GGCAGAAAAGAAAAGAAAAGAAACGAAGGGA
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
* * * * *
92445839 GCAAATTGGAAGAAAAGAACAGAAAATAAACAGAGGG
1 GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGG
92445876 CAGAAAAGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
28 22 0.26
30 1 0.01
32 3 0.04
34 3 0.04
36 1 0.01
38 54 0.64
ACGTcount: A:0.60, C:0.09, G:0.26, T:0.04
Consensus pattern (38 bp):
GCAAATCGGCAGAAAAGAAAAGAAAAGAAACAAAGGGA
Found at i:92445822 original size:66 final size:66
Alignment explanation
Indices: 92445742--92445891 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
92445732 CTGGCAAATC
92445742 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAA-TCGACAGAAAAGAAAAGAAAATAAACAG
1 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGA-AGAAAAGAAAAGAAAATAAACAG
92445806 AG
65 AG
* * *
92445808 GGCAGAAAAGAAAAGAAAAGAAACGAAGGGAGCAAATTGGAAGAAAAGAACAGAAAATAAACAGA
1 GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGAAGAAAAGAAAAGAAAATAAACAGA
92445873 G
66 G
92445874 GGCAGAAAAGAAAAGAAA
1 GGCAGAAAAGAAAAGAAA
92445892 CGGAGGGAGC
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 77 0.96
67 3 0.04
ACGTcount: A:0.63, C:0.08, G:0.26, T:0.03
Consensus pattern (66 bp):
GGCAGAAAAGAAAAGAAAAGAAACAAAGGGAGCAAATTCGAAGAAAAGAAAAGAAAATAAACAGA
G
Found at i:92445825 original size:61 final size:62
Alignment explanation
Indices: 92445749--92445912 Score: 224
Period size: 66 Copynumber: 2.6 Consensus size: 62
92445739 ATCGGCAGAA
*
92445749 AAGAAAAGAAAAGAAACAAAGGGAGCAAATCGACAGAAAAGAAAAGAAAATAAACAGAGGGC
1 AAGAAAAGAAAAGAAACGAAGGGAGCAAATCGACAGAAAAGAAAAGAAAATAAACAGAGGGC
* *
92445811 AGAAAAGAAAAGAAAAGAAACGAAGGGAGCAAATTGGA-AGAAAAGAACAGAAAATAAACAGAGG
1 ----AAGAAAAGAAAAGAAACGAAGGGAGCAAA-TCGACAGAAAAGAAAAGAAAATAAACAGAGG
92445875 GC
61 GC
* *
92445877 -AGAAAAGAAAAGAAACGGAGGGAGCAAATCGGCAGA
1 AAGAAAAGAAAAGAAACGAAGGGAGCAAATCGACAGA
92445913 GGCTAGAAGG
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
60 2 0.02
61 30 0.33
66 55 0.61
67 3 0.03
ACGTcount: A:0.60, C:0.09, G:0.27, T:0.04
Consensus pattern (62 bp):
AAGAAAAGAAAAGAAACGAAGGGAGCAAATCGACAGAAAAGAAAAGAAAATAAACAGAGGGC
Found at i:92445880 original size:23 final size:23
Alignment explanation
Indices: 92445854--92445898 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
92445844 TTGGAAGAAA
* *
92445854 AGAACAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAACAGAGGGC
*
92445877 AGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAACAGAGGG
92445899 AGCAAATCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.31, T:0.02
Consensus pattern (23 bp):
AGAAAAGAAAAGAAACAGAGGGC
Found at i:92446512 original size:34 final size:32
Alignment explanation
Indices: 92446465--92446531 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 32
92446455 TATTGAAAAA
92446465 TATTAAATATAAATAT-TTCAATAATAAATATT
1 TATTAAATATAAATATATT-AATAATAAATATT
92446497 TATTAAAATTATAAATATATTAATAATAAATATT
1 TATT-AAA-TATAAATATATTAATAATAAATATT
92446531 T
1 T
92446532 TGTAGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 4 0.12
33 3 0.09
34 23 0.72
35 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (32 bp):
TATTAAATATAAATATATTAATAATAAATATT
Found at i:92446527 original size:15 final size:16
Alignment explanation
Indices: 92446464--92446529 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 16
92446454 TTATTGAAAA
92446464 ATATTAAAT-ATAAAT
1 ATATTAAATAATAAAT
*
92446479 AT-TTCAATAATAAAT
1 ATATTAAATAATAAAT
*
92446494 ATTTATTAAAATTATAAAT
1 A--TATT-AAATAATAAAT
92446513 ATATT-AATAATAAAT
1 ATATTAAATAATAAAT
92446528 AT
1 AT
92446530 TTTGTAGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 5 0.12
15 20 0.48
17 5 0.12
18 2 0.05
19 10 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTAAATAATAAAT
Found at i:92451241 original size:30 final size:29
Alignment explanation
Indices: 92451207--92451278 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
92451197 ATATATTACA
92451207 TAAAAATAAAAGATATAAGTATGTATATCG
1 TAAAAATAAAAGATATAAGTATGTATAT-G
* *
92451237 T-AAAATAAAACAATGTAAGTATGTATATG
1 TAAAAATAAAA-GATATAAGTATGTATATG
* *
92451266 TATATATAAAAGA
1 TAAAAATAAAAGA
92451279 AAATAGACGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.54, C:0.03, G:0.12, T:0.31
Consensus pattern (29 bp):
TAAAAATAAAAGATATAAGTATGTATATG
Found at i:92451407 original size:18 final size:18
Alignment explanation
Indices: 92451386--92451445 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
92451376 AAAATATGTT
*
92451386 TATAAAAAGATATATAGA
1 TATAAAAAGATATAAAGA
*
92451404 TATATAATAAGATATAAATA
1 TATA-AA-AAGATATAAAGA
*
92451424 TATAATAAGATATAAAGA
1 TATAAAAAGATATAAAGA
92451442 TATA
1 TATA
92451446 TATAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TATAAAAAGATATAAAGA
Found at i:92457249 original size:27 final size:27
Alignment explanation
Indices: 92457219--92457280 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
92457209 AAAATATAAA
*
92457219 TATTTTAATTATATAAAGATGAGTATT
1 TATTTTAATAATATAAAGATGAGTATT
* * ** *
92457246 TATTTAAATAATTTTTAGCTGAGTATT
1 TATTTTAATAATATAAAGATGAGTATT
92457273 TATTTTAA
1 TATTTTAA
92457281 CTTTTATTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (27 bp):
TATTTTAATAATATAAAGATGAGTATT
Found at i:92462181 original size:20 final size:20
Alignment explanation
Indices: 92462136--92462182 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
92462126 TATTTTTCTC
**
92462136 TATTTTTGAATCTATTATTA
1 TATTTTTGAAAATATTATTA
*
92462156 TGTTTTTGAAAATATT-TATA
1 TATTTTTGAAAATATTAT-TA
92462176 TATTTTT
1 TATTTTT
92462183 ATATATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (20 bp):
TATTTTTGAAAATATTATTA
Found at i:92462190 original size:50 final size:51
Alignment explanation
Indices: 92462093--92462190 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 51
92462083 ATAAAGTTTA
* * *
92462093 AATCTATTATTATAGTGTTTGAAAATATCTATCTATTTTTCTCTATTTTTG
1 AATCTATTATTATAGTGTTTGAAAATATCTATATATTTTTATATATTTTTG
* *
92462144 AATCTATTATTAT-GTTTTTGAAAATATTTATATATTTTTATATATTT
1 AATCTATTATTATAGTGTTTGAAAATATCTATATATTTTTATATATTT
92462191 ATTTGATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 29 0.69
51 13 0.31
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (51 bp):
AATCTATTATTATAGTGTTTGAAAATATCTATATATTTTTATATATTTTTG
Found at i:92475642 original size:33 final size:33
Alignment explanation
Indices: 92475605--92475695 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
92475595 CTCTGTTTCA
92475605 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
92475638 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
92475671 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
92475696 CAAGAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.18, C:0.10, G:0.43, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:92477962 original size:16 final size:18
Alignment explanation
Indices: 92477929--92477979 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
92477919 ATTCTCTTTT
92477929 ATCCTCTTTCTCAACAAA
1 ATCCTCTTTCTCAACAAA
*
92477947 ATCCT-TTTCTC-CCAAA
1 ATCCTCTTTCTCAACAAA
*
92477963 ATTTCTCTTTCTCAACA
1 A-TCCTCTTTCTCAACA
92477980 GTATTCTCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 11 0.41
19 2 0.07
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (18 bp):
ATCCTCTTTCTCAACAAA
Found at i:92493408 original size:18 final size:18
Alignment explanation
Indices: 92493385--92493444 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
92493375 AAAAATTGTT
92493385 TTTTTAATTTTTTAATAA
1 TTTTTAATTTTTTAATAA
**
92493403 TTTTTAATTTTAAAATAA
1 TTTTTAATTTTTTAATAA
**
92493421 TTTTTAATATTTTTTTTAA
1 TTTTTAAT-TTTTTAATAA
92493440 TTTTT
1 TTTTT
92493445 TAAATTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
18 24 0.69
19 11 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAATTTTTTAATAA
Found at i:92493413 original size:40 final size:36
Alignment explanation
Indices: 92493357--92493459 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 36
92493347 CATTATCTAA
*
92493357 TTAATTATTTTAATTTTAAAAAATTGTTT-TTTTAATTTT
1 TTAATT-TTTTAATTTTAAAAAATT-TTTATATT--TTTT
92493396 TTAATAATTTTTAATTTTAAAATAATTTTTAATATTTTTT
1 TTAAT--TTTTTAATTTTAAAA-AATTTTT-ATATTTTTT
92493436 TTAATTTTTTAAATTTTAAAAAAT
1 TTAATTTTTT-AATTTTAAAAAAT
92493460 ATTAATTCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
38 8 0.14
39 15 0.26
40 26 0.46
41 5 0.09
42 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (36 bp):
TTAATTTTTTAATTTTAAAAAATTTTTATATTTTTT
Found at i:92496875 original size:31 final size:31
Alignment explanation
Indices: 92496833--92496895 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
92496823 TGCTATACGG
* *
92496833 ACATGCCCGTGTGGTTCAGGCCGTGTGGCCA
1 ACATGCCCGTGTGGTTCAGGCCATGTGACCA
*
92496864 ACATGCTCGTGTGGTTCAGGCCATGTGACCA
1 ACATGCCCGTGTGGTTCAGGCCATGTGACCA
92496895 A
1 A
92496896 TACGCCTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (31 bp):
ACATGCCCGTGTGGTTCAGGCCATGTGACCA
Found at i:92497255 original size:21 final size:21
Alignment explanation
Indices: 92497222--92497265 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
92497212 CAACTTTTAA
* *
92497222 ATATGTTCAATAT-TCAATTT
1 ATATGTTAAATATCTAAATTT
92497242 ATATGGTTAAATATCTAAATTT
1 ATAT-GTTAAATATCTAAATTT
92497264 AT
1 AT
92497266 CAATCAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 8 0.40
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (21 bp):
ATATGTTAAATATCTAAATTT
Found at i:92506419 original size:46 final size:47
Alignment explanation
Indices: 92506349--92506669 Score: 395
Period size: 46 Copynumber: 7.0 Consensus size: 47
92506339 TTCGACATGA
* * * * * * *
92506349 TGCCATAGTGTCTTCCAACTATGGTCTTACCCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* ** * *** *
92506395 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
92506442 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
92506488 TGCCATGGTATCTTTCAACCATGGTCTT--ACATGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTTCATATCAGGT
* *
92506534 TGCCATGGTATCTTTCAACCGTGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
92506580 TGCTATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
92506626 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
92506670 AGAGCACACT
Statistics
Matches: 245, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
44 3 0.01
46 200 0.82
47 40 0.16
48 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:92508816 original size:11 final size:11
Alignment explanation
Indices: 92508800--92508851 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
92508790 TATACTAAAT
92508800 AAATAATAATA
1 AAATAATAATA
*
92508811 AAATAAT-ATT
1 AAATAATAATA
*
92508821 AAATATATCATA
1 AAATA-ATAATA
*
92508833 AAATATTAATA
1 AAATAATAATA
92508844 AAATAATA
1 AAATAATA
92508852 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 7 0.21
11 20 0.59
12 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:92512917 original size:24 final size:24
Alignment explanation
Indices: 92512891--92513001 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
92512881 GATTCAACTC
*
92512891 CGCACACATAGTGCCAAATAATTC
1 CGCACACATAGTGCCAAATAATTA
*
92512915 CGCACACATAGTGCC--TTACATATA
1 CGCACACATAGTGCCAAATA-AT-TA
*
92512939 TGCACACATAGTGCCAACA-AA-TA
1 CGCACACATAGTGCCAA-ATAATTA
* * *
92512962 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCAAATAATTA
92512986 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
92513002 CTTAAATCCG
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.04
23 21 0.28
24 48 0.65
25 1 0.01
26 1 0.01
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.19
Consensus pattern (24 bp):
CGCACACATAGTGCCAAATAATTA
Found at i:92512991 original size:47 final size:48
Alignment explanation
Indices: 92512891--92513001 Score: 163
Period size: 47 Copynumber: 2.3 Consensus size: 48
92512881 GATTCAACTC
* * *
92512891 CGCACACATAGTGCCAAATAATTCCGCACACATAGTGCCTTACATATA
1 CGCACACATAGTGCCAAATAATTACGCACACATAGTGCCATACAAATA
*
92512939 TGCACACATAGTGCCAACA-AA-TACGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCAA-ATAATTACGCACACATAGTGCCATACAAATA
92512986 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
92513002 CTTAAATCCG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
47 38 0.67
48 18 0.32
49 1 0.02
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.19
Consensus pattern (48 bp):
CGCACACATAGTGCCAAATAATTACGCACACATAGTGCCATACAAATA
Found at i:92516844 original size:42 final size:42
Alignment explanation
Indices: 92516779--92516911 Score: 102
Period size: 42 Copynumber: 3.2 Consensus size: 42
92516769 GGCTGAAAAG
* * *
92516779 AAGCACATAAGTGCT-AACGAAAACCCTTAAGGGTTAAAC-A
1 AAGCTCATAAGAGCTGAATGAAAACCCTTAAGGGTTAAACTA
92516819 TAAGCTCATAAGAGCTGAATGAAAA-CC-TAGTAGGGTTAAACTA
1 -AAGCTCATAAGAGCTGAATGAAAACCCTTA--AGGGTTAAACTA
* * *
92516862 AAACTCGTAAGAGTTGAACTG-AAACCCATT-AGGGTT-AACTGA
1 AAGCTCATAAGAGCTGAA-TGAAAACCC-TTAAGGGTTAAACT-A
92516904 AA-CTCATA
1 AAGCTCATA
92516912 TGAGTTAACT
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
40 2 0.03
41 24 0.32
42 44 0.58
43 5 0.07
45 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (42 bp):
AAGCTCATAAGAGCTGAATGAAAACCCTTAAGGGTTAAACTA
Found at i:92516929 original size:20 final size:20
Alignment explanation
Indices: 92516857--92516935 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
92516847 AGTAGGGTTA
* * *
92516857 AACTAAAACTCGTAAGAGTT
1 AACTGAAACTCATATGAGTT
* *
92516877 GAACTGAAACCCAT-TAGGGTT
1 -AACTGAAACTCATAT-GAGTT
92516898 AACTGAAACTCATATGAGTT
1 AACTGAAACTCATATGAGTT
* *
92516918 AACTGAAGCTCATGTGAG
1 AACTGAAACTCATATGAG
92516936 CTAAACGAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 32 0.68
21 15 0.32
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (20 bp):
AACTGAAACTCATATGAGTT
Found at i:92526825 original size:21 final size:21
Alignment explanation
Indices: 92526787--92526826 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
92526777 GACAGTTTTT
*
92526787 ATTTATTTATTTTATATTTAG
1 ATTTATTTAATTTATATTTAG
92526808 ATTTATTTTAATTT-TATTT
1 ATTTA-TTTAATTTATATTT
92526827 CATAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTATTTAATTTATATTTAG
Found at i:92527103 original size:10 final size:10
Alignment explanation
Indices: 92527076--92527111 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
92527066 TGTAATATAT
92527076 TATTTTCAAA
1 TATTTTCAAA
*
92527086 TGATTTTCTAA
1 T-ATTTTCAAA
92527097 TATTTTCAAA
1 TATTTTCAAA
92527107 TATTT
1 TATTT
92527112 GAAAAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (10 bp):
TATTTTCAAA
Found at i:92528148 original size:35 final size:35
Alignment explanation
Indices: 92528102--92528171 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
92528092 TTGCCCCATT
*
92528102 CTCTGAAGAGAATGTAGCAATATATAAATACGTAA
1 CTCTGAAGAGAACGTAGCAATATATAAATACGTAA
92528137 CTCTGAAGAGAACGTAGCAATATATAAATACGTAA
1 CTCTGAAGAGAACGTAGCAATATATAAATACGTAA
92528172 TCTTTAATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (35 bp):
CTCTGAAGAGAACGTAGCAATATATAAATACGTAA
Found at i:92529498 original size:20 final size:20
Alignment explanation
Indices: 92529473--92529527 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
92529463 TGTGGTTCAA
*
92529473 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
92529493 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
92529513 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
92529528 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:92529910 original size:45 final size:45
Alignment explanation
Indices: 92529860--92530053 Score: 280
Period size: 45 Copynumber: 4.3 Consensus size: 45
92529850 GAACGGCATG
*
92529860 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
92529905 AAATTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
92529950 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * * *
92529995 AATTTAAGGAAGCATTTGGCCAATATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
92530040 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
92530054 CCATGGCCGA
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 135 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:92531807 original size:6 final size:6
Alignment explanation
Indices: 92531798--92531838 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
92531788 GCGCGAGCGA
*
92531798 GAAAAT GAAAAT GAAAAT G-AAAT G-AAA- GAAAAA GAAAAT GA
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GA
92531839 GTGTGAGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 1 0.03
5 11 0.34
6 20 0.62
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (6 bp):
GAAAAT
Found at i:92533412 original size:45 final size:45
Alignment explanation
Indices: 92533362--92533555 Score: 289
Period size: 45 Copynumber: 4.3 Consensus size: 45
92533352 GAACGGCATG
*
92533362 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
92533407 AAATTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
92533452 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
92533497 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
92533542 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
92533556 CCATGGCCGA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:92540648 original size:12 final size:12
Alignment explanation
Indices: 92540612--92540646 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
92540602 AAACCTTTAA
*
92540612 TTTTCTCTTTTC
1 TTTTTTCTTTTC
92540624 TTTTTTCTTTTC
1 TTTTTTCTTTTC
92540636 TCTTTTTCTTT
1 T-TTTTTCTTT
92540647 CTTCCTTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:92540717 original size:12 final size:13
Alignment explanation
Indices: 92540700--92540728 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
92540690 TAATTCTTTC
92540700 TTTTTATTT-CTT
1 TTTTTATTTACTT
92540712 TTTTTATTTACTT
1 TTTTTATTTACTT
92540725 TTTT
1 TTTT
92540729 AATAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATTTACTT
Found at i:92549720 original size:44 final size:43
Alignment explanation
Indices: 92549658--92549789 Score: 151
Period size: 44 Copynumber: 3.0 Consensus size: 43
92549648 GCCACCAAGC
92549658 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
* * * * **
92549701 CTTAACCCCCCTAAGCAGTAGGGAAACAGATCGAA--GACGAAGGGC
1 CTTAA-CCCCCTAAGCAGTAGGGTAACAGGTTGAATTTAC--A-GAT
*
92549746 CTTCACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
92549789 C
1 C
92549790 GAAGACGAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
42 2 0.03
43 7 0.10
44 54 0.77
45 5 0.07
46 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
Found at i:92549814 original size:57 final size:57
Alignment explanation
Indices: 92549726--92549846 Score: 224
Period size: 57 Copynumber: 2.1 Consensus size: 57
92549716 CAGTAGGGAA
* *
92549726 ACAGATCGAAGACGAAGGGCCTTCACCCCCTAAGCAGTAGGGTAACAGGTTGAATTT
1 ACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAATTT
92549783 ACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAATTT
1 ACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAATTT
92549840 ACAGATC
1 ACAGATC
92549847 TTAATCCCCT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (57 bp):
ACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAATTT
Found at i:92549902 original size:145 final size:145
Alignment explanation
Indices: 92549656--92549919 Score: 476
Period size: 145 Copynumber: 1.8 Consensus size: 145
92549646 AAGCCACCAA
*
92549656 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAATTTACAGATCTTAACCCCCCTAAGCAGTA
*
92549721 GGGAAACAGATCGAAGACGAAGGGCCTTCACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACA
66 GGGAAACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACA
92549786 GATCGAAGACGAAGG
131 GATCGAAGACGAAGG
*
92549801 GCCTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAATTTACAGATCTTAA-TCCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAATTTACAGATCTTAACCCCCCTAAGCAGTA
*
92549865 GGGAAACAGATCGAAGATGAAGGGCCTTAACCCCCCTAAGCAGTAGGGTAACAGG
66 GGGAAACAGATCGAAGACGAAGGGCCTTAA-CCCCCTAAGCAGTAGGGTAACAGG
92549920 CTGGAAATCA
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
144 41 0.36
145 73 0.64
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.19
Consensus pattern (145 bp):
GCCTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAATTTACAGATCTTAACCCCCCTAAGCAGTA
GGGAAACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAATTTACA
GATCGAAGACGAAGG
Found at i:92550146 original size:44 final size:44
Alignment explanation
Indices: 92550046--92550174 Score: 136
Period size: 44 Copynumber: 3.0 Consensus size: 44
92550036 CAGATCCAAA
* *
92550046 CAAACCTCATCT-CCTTAAGTTACAGTGGAGCA-AGTTGAAATCG
1 CAAACCTCATCTCCCTAAAGTTGCAGTGGAGCAGA-TTGAAATCG
** * * *
92550089 CAAGTCTCGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCG
1 CAAACCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAATCG
* * * *
92550133 CAAACCTCATCTCCCTAAAGATGTAGTGGGGCAGGTTGAAAT
1 CAAACCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAT
92550175 TACCAAGGCC
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
43 9 0.13
44 59 0.86
45 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (44 bp):
CAAACCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAATCG
Found at i:92561226 original size:76 final size:76
Alignment explanation
Indices: 92561146--92561298 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
92561136 CTTAGATAAC
92561146 ACGAGTACAAACCGGCTCATAAAATCATTTATTATTCT-AAAGTACTCTCAAAACAAAAATAGAT
1 ACGAGTACAAACCGGCTCATAAAATCATTTATTATTCTGAAA-TACTCTCAAAACAAAAATAGAT
92561210 TAAGAAGTCAAT
65 TAAGAAGTCAAT
*
92561222 ACGAGTACAAACCGGCTCATAAAATCATTTATTATTCTGAAATACTCTCAAAACAGAAATAGATT
1 ACGAGTACAAACCGGCTCATAAAATCATTTATTATTCTGAAATACTCTCAAAACAAAAATAGATT
*
92561287 AAGAAGTTAAT
66 AAGAAGTCAAT
92561298 A
1 A
92561299 AAGAGCTACC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
76 71 0.96
77 3 0.04
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (76 bp):
ACGAGTACAAACCGGCTCATAAAATCATTTATTATTCTGAAATACTCTCAAAACAAAAATAGATT
AAGAAGTCAAT
Found at i:92562357 original size:3 final size:3
Alignment explanation
Indices: 92562349--92562374 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
92562339 AAATGAGCAT
92562349 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
92562375 CCTATAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:92570820 original size:14 final size:14
Alignment explanation
Indices: 92570801--92570830 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92570791 TTATATCGAG
92570801 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
92570815 ACCAATCCAATTCA
1 ACCAATCCAAATCA
92570829 AC
1 AC
92570831 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:92571593 original size:59 final size:54
Alignment explanation
Indices: 92571466--92571598 Score: 153
Period size: 54 Copynumber: 2.4 Consensus size: 54
92571456 TTGTAGCGGG
* *
92571466 ATTACCAGTCCAGGCTAAATCCCCTGCAAAATAAACTAATAGAGTATTGTCGGG
1 ATTACCAGTCCAGGCTAAATCCCCTGCAAAATAAACTAATAGAGTATGGTCGGA
* *
92571520 ATTACCAGTCCAGGCTAAATCCCCTGCAACGATAATTACTCTAAT-GAGCT-TGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAA-AATAA--A--CTAATAGAG-TATGG-TCGGA
92571579 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
92571599 TCAGACCCTA
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
54 29 0.43
55 4 0.06
57 1 0.01
58 5 0.07
59 29 0.43
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (54 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAAAATAAACTAATAGAGTATGGTCGGA
Found at i:92575579 original size:17 final size:17
Alignment explanation
Indices: 92575547--92575579 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
92575537 TAATTACCAG
92575547 TAATATATAGTTTTATA
1 TAATATATAGTTTTATA
92575564 TAATA-ATAGTTATTAT
1 TAATATATAGTT-TTAT
92575580 GACAAGTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TAATATATAGTTTTATA
Found at i:92575755 original size:18 final size:18
Alignment explanation
Indices: 92575728--92575763 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
92575718 CGTTAGAAGC
92575728 AAAAAGAAGAAA-GAAAA
1 AAAAAGAAGAAAGGAAAA
92575745 AAAAAGAAAGAAAGGAAAA
1 AAAAAG-AAGAAAGGAAAA
92575764 TTAAGGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAGAAGAAAGGAAAA
Found at i:92575763 original size:14 final size:14
Alignment explanation
Indices: 92575728--92575757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92575718 CGTTAGAAGC
*
92575728 AAAAAGAAGAAAGA
1 AAAAAAAAGAAAGA
92575742 AAAAAAAAGAAAGA
1 AAAAAAAAGAAAGA
92575756 AA
1 AA
92575758 GGAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAGA
Found at i:92581623 original size:20 final size:23
Alignment explanation
Indices: 92581590--92581647 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
92581580 GAATGCCAAG
* * *
92581590 TGTGTGATAAAAATA-AAATACA
1 TGTGTAATAAATATATACATACA
92581612 TGTGTAATAAATATTATACATACA
1 TGTGTAATAAATA-TATACATACA
*
92581636 TTTGTAATAAAT
1 TGTGTAATAAAT
92581648 GTATGTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.37
23 2 0.07
24 17 0.57
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.36
Consensus pattern (23 bp):
TGTGTAATAAATATATACATACA
Found at i:92582855 original size:51 final size:54
Alignment explanation
Indices: 92582778--92582896 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 54
92582768 AAGTGTCGCT
*
92582778 TTACTGTTACTATTTCAGATTCGTTCTGAAGAGGTA-T-TCCGTACC-TTACCG
1 TTACTGTTACTATTCCAGATTCGTTCTGAAGAGGTACTCTCCGTACCGTTACCG
* * * * ** *
92582829 TTACTGTTACTGTTCCGGATTTGTTCTGATGAGGTACTCTGTGTACCGTTACTG
1 TTACTGTTACTATTCCAGATTCGTTCTGAAGAGGTACTCTCCGTACCGTTACCG
92582883 TTACTGTTACTATT
1 TTACTGTTACTATT
92582897 ACCGTTATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
51 31 0.55
52 1 0.02
53 6 0.11
54 18 0.32
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.43
Consensus pattern (54 bp):
TTACTGTTACTATTCCAGATTCGTTCTGAAGAGGTACTCTCCGTACCGTTACCG
Found at i:92615468 original size:12 final size:12
Alignment explanation
Indices: 92615430--92615468 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
92615420 CTAGCACTAC
92615430 AAGAAGAAGAGG
1 AAGAAGAAGAGG
* *
92615442 AAGAGGAATAGG
1 AAGAAGAAGAGG
*
92615454 AAGAAGAAGAAG
1 AAGAAGAAGAGG
92615466 AAG
1 AAG
92615469 GTGAGAGAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (12 bp):
AAGAAGAAGAGG
Found at i:92620270 original size:16 final size:15
Alignment explanation
Indices: 92620233--92620267 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
92620223 CACTTATTAA
*
92620233 ATTTTTGTATTATAT
1 ATTTTTGTATGATAT
92620248 ATTTTTGTATGATA-
1 ATTTTTGTATGATAT
92620262 ATTTTT
1 ATTTTT
92620268 TTGAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (15 bp):
ATTTTTGTATGATAT
Found at i:92620366 original size:28 final size:28
Alignment explanation
Indices: 92620307--92620368 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
92620297 TAAAAAAATT
* * *
92620307 ATTTTATAATAAATAATATTTTATATAG
1 ATTTAATAATAAATAATATTTAATATAA
*
92620335 ATTTAATAATAATTAATATTTAAT-TAAA
1 ATTTAATAATAAATAATATTTAATAT-AA
92620363 ATTTAA
1 ATTTAA
92620369 CTTTGAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATTTAATAATAAATAATATTTAATATAA
Found at i:92620487 original size:23 final size:23
Alignment explanation
Indices: 92620461--92620505 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
92620451 AAACAAATAT
92620461 TTCAT-GTTTATACTATTAAAATC
1 TTCATCGTTTATACTA-TAAAATC
* *
92620484 TTCATCTTTTATATTATAAAAT
1 TTCATCGTTTATACTATAAAAT
92620506 ATTTATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (23 bp):
TTCATCGTTTATACTATAAAATC
Found at i:92620597 original size:20 final size:20
Alignment explanation
Indices: 92620560--92620602 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
92620550 ACAATTTCAA
92620560 TAAAATATTAAAAATATTAAT
1 TAAAATATTAAAAATATT-AT
* *
92620581 TAAAAT-TTAAGATTATTAT
1 TAAAATATTAAAAATATTAT
92620600 TAA
1 TAA
92620603 TGTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 9 0.45
21 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TAAAATATTAAAAATATTAT
Found at i:92636167 original size:37 final size:37
Alignment explanation
Indices: 92636123--92636251 Score: 231
Period size: 37 Copynumber: 3.5 Consensus size: 37
92636113 CACTTGTCCC
*
92636123 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
92636160 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
**
92636197 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCCCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
92636234 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
92636252 TAAAGCTATC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Found at i:92636268 original size:46 final size:46
Alignment explanation
Indices: 92636215--92636483 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
92636205 TAAGTGTAGC
* **
92636215 CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
92636261 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
92636307 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
92636359 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
92636405 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
92636457 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
92636484 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:92636334 original size:52 final size:52
Alignment explanation
Indices: 92636258--92636477 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
92636248 TAGCTAAAGC
* *
92636258 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
92636311 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
92636363 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
92636409 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
92636461 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
92636478 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:92636380 original size:98 final size:98
Alignment explanation
Indices: 92636215--92636483 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
92636205 TAAGTGTAGC
* * *
92636215 CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
92636280 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
92636314 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
92636379 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
92636412 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
92636477 GATCAGA
66 GATCAGA
92636484 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:92639664 original size:49 final size:50
Alignment explanation
Indices: 92639609--92639812 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
92639599 TTCGTTTTCT
*
92639609 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
92639658 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
92639707 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
92639765 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
92639813 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:92639779 original size:58 final size:59
Alignment explanation
Indices: 92639693--92639811 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
92639683 TACACGAAAT
92639693 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
92639751 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
92639810 CA
1 CA
92639812 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:92639792 original size:28 final size:28
Alignment explanation
Indices: 92639702--92639792 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
92639692 TCACATATCA
92639702 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
92639730 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
92639760 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
92639788 CTTAC
1 CTTAC
92639793 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:92641126 original size:37 final size:37
Alignment explanation
Indices: 92641082--92641210 Score: 231
Period size: 37 Copynumber: 3.5 Consensus size: 37
92641072 CACTTGTCCC
*
92641082 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
92641119 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
**
92641156 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCCCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
92641193 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
92641211 TAAAGCTATC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Found at i:92641227 original size:46 final size:46
Alignment explanation
Indices: 92641174--92641442 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
92641164 TAAGTGTAGC
* **
92641174 CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
92641220 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
92641266 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
92641318 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
92641364 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
92641416 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
92641443 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:92641293 original size:52 final size:52
Alignment explanation
Indices: 92641217--92641436 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
92641207 TAGCTAAAGC
* *
92641217 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
92641270 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
92641322 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
92641368 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
92641420 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
92641437 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Done.