Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 194 of 250
Found at i:60648771 original size:5 final size:5
Alignment explanation
Indices: 60648749--60648814 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
60648739 ATATCCAAAG
* * *
60648749 ATAAA ATAATA A-ATA ATAAA ATAAA ATAAG ATAAA ATAAAA ATACTA
1 ATAAA ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA AT-AAA ATA-AA
*
60648796 ATAAA ATGAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAA
60648815 TAATTAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
4 2 0.04
5 36 0.73
6 11 0.22
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:60656927 original size:6 final size:6
Alignment explanation
Indices: 60656916--60656963 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
60656906 GTCTTTATCC
* * *
60656916 AAAATG AAAATG AAAATT AAAATA AAAATG AGAATGG AGAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAAA
60656964 CATTTGAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 28 0.80
7 4 0.11
8 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:60657001 original size:57 final size:57
Alignment explanation
Indices: 60656934--60657063 Score: 183
Period size: 57 Copynumber: 2.3 Consensus size: 57
60656924 AATGAAAATT
* * *
60656934 AAAATAAAAATGAGAATGGAGAAAT-GAAAACATTTGAAAATG-ATCATGGTTTTCTCC
1 AAAATGAAAATGAAAATGGAGAAATGGAAAA-ATTTGAAAATGAAT-ATGGTTTTCTAC
* *
60656991 AAAATGAAAATGAAAATGGAGAAATGGAATAATTTGGAAATGAATATGGTTTTCTAC
1 AAAATGAAAATGAAAATGGAGAAATGGAAAAATTTGAAAATGAATATGGTTTTCTAC
60657048 AAAATGAAAATGAAAA
1 AAAATGAAAATGAAAA
60657064 ATAAATTTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 60 0.91
58 6 0.09
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.25
Consensus pattern (57 bp):
AAAATGAAAATGAAAATGGAGAAATGGAAAAATTTGAAAATGAATATGGTTTTCTAC
Found at i:60660409 original size:20 final size:21
Alignment explanation
Indices: 60660368--60660410 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
60660358 GGAAAAGTGA
*
60660368 GAAAGAATAAAAGTTTTGGAG
1 GAAAGAATAAAAATTTTGGAG
60660389 GAAA-AATAAAAATATTT-GAG
1 GAAAGAATAAAAAT-TTTGGAG
60660409 GA
1 GA
60660411 TTTGGTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (21 bp):
GAAAGAATAAAAATTTTGGAG
Found at i:60663928 original size:52 final size:52
Alignment explanation
Indices: 60663872--60663976 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
60663862 ACACCATTTT
60663872 AGTTTCACTAGGAACTCCCGAATTTATAGAAAGGCAAAGGAAAGTTATTGTA
1 AGTTTCACTAGGAACTCCCGAATTTATAGAAAGGCAAAGGAAAGTTATTGTA
60663924 AGTTTCACTAGGAACTCCCGAATTTATAGAAAGGCAAAGGAAAGTTATTGTA
1 AGTTTCACTAGGAACTCCCGAATTTATAGAAAGGCAAAGGAAAGTTATTGTA
60663976 A
1 A
60663977 AAGGCAAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (52 bp):
AGTTTCACTAGGAACTCCCGAATTTATAGAAAGGCAAAGGAAAGTTATTGTA
Found at i:60679500 original size:10 final size:10
Alignment explanation
Indices: 60679485--60679517 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
60679475 CTTTCTTTAT
60679485 TTTATTTTCC
1 TTTATTTTCC
60679495 TTTATTTTCC
1 TTTATTTTCC
*
60679505 TTTATTTTTC
1 TTTATTTTCC
60679515 TTT
1 TTT
60679518 CTTCGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTTCC
Found at i:60679616 original size:21 final size:22
Alignment explanation
Indices: 60679569--60679621 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
60679559 TTTTTTTTCA
* *
60679569 TTTTCATTTTATTTTACCTTTT
1 TTTTCCTTTTATTTTACATTTT
*
60679591 GTTTCCTTTTATTTTA-ATTTT
1 TTTTCCTTTTATTTTACATTTT
60679612 TTTTCCTTTT
1 TTTTCCTTTT
60679622 TATTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTCCTTTTATTTTACATTTT
Found at i:60679632 original size:21 final size:20
Alignment explanation
Indices: 60679570--60679630 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
60679560 TTTTTTTCAT
*
60679570 TTTCATTTTATTTTACCTTTTG
1 TTTCCTTTTATTTTA--TTTTG
*
60679592 TTTCCTTTTATTTTAATTTTT
1 TTTCCTTTTATTTT-ATTTTG
*
60679613 TTTCCTTTT-TATTATTTT
1 TTTCCTTTTATTTTATTTT
60679631 TTCTTCTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.14
20 3 0.09
21 13 0.37
22 13 0.37
23 1 0.03
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTCCTTTTATTTTATTTTG
Found at i:60684551 original size:134 final size:133
Alignment explanation
Indices: 60684395--60684650 Score: 374
Period size: 134 Copynumber: 1.9 Consensus size: 133
60684385 ATTTATAGCC
*
60684395 TTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTATTCCACT-CTAA
1 TTAATCTGCTATACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTATTCCACTAC-AA
* * * *
60684459 CTTCAAGGAGAA-AAGGCTTGGTAATTTCGAA-CTGCTCCACTGTATCTTCAGGGAGATAATGTT
65 CTTCAAGGA-AATAAGACTT-GT-ATTTCGAACCTGCTCCACCGCAACTTCAGGGAGATAATGTT
60684522 AATGGCT
127 AATGGCT
*
60684529 TTAATCTGCTATACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTATTCCACTACAAC
1 TTAATCTGCTATACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTATTCCACTACAAC
* **
60684594 TTCAGGGAAATAAGACTTGTATTTTTAACCTGCTCCACCGCAACTTCAGGGAGATAA
66 TTCAAGGAAATAAGACTTGTATTTCGAACCTGCTCCACCGCAACTTCAGGGAGATAA
60684651 GGTTTGCTAT
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
132 6 0.05
133 29 0.26
134 74 0.67
135 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (133 bp):
TTAATCTGCTATACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTATTCCACTACAAC
TTCAAGGAAATAAGACTTGTATTTCGAACCTGCTCCACCGCAACTTCAGGGAGATAATGTTAATG
GCT
Found at i:60693027 original size:14 final size:14
Alignment explanation
Indices: 60693008--60693037 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60692998 ACTCTAATTC
*
60693008 AATTTCATTAGAAG
1 AATTTCACTAGAAG
60693022 AATTTCACTAGAAG
1 AATTTCACTAGAAG
60693036 AA
1 AA
60693038 AAATTTCTTT
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:0.10, G:0.13, T:0.30
Consensus pattern (14 bp):
AATTTCACTAGAAG
Found at i:60698867 original size:11 final size:11
Alignment explanation
Indices: 60698851--60698876 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60698841 TTGTAAACAA
60698851 AAATCAAAAAG
1 AAATCAAAAAG
60698862 AAATCAAAAAG
1 AAATCAAAAAG
60698873 AAAT
1 AAAT
60698877 TAAAGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.12
Consensus pattern (11 bp):
AAATCAAAAAG
Found at i:60700654 original size:19 final size:19
Alignment explanation
Indices: 60700627--60700682 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 19
60700617 ATATTGATAT
60700627 ATAATTTAATAAATATAAAA
1 ATAATTTAA-AAATATAAAA
*
60700647 AT-ATTTAAAGA-AT-AAA
1 ATAATTTAAAAATATAAAA
60700663 ATAATTT-AAAATATAAAA
1 ATAATTTAAAAATATAAAA
60700681 AT
1 AT
60700683 TCATAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 8 0.26
17 8 0.26
18 7 0.23
19 6 0.19
20 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAATTTAAAAATATAAAA
Found at i:60700663 original size:17 final size:18
Alignment explanation
Indices: 60700627--60700682 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 18
60700617 ATATTGATAT
60700627 ATAATTTAATAAATATAAAA
1 ATAATTT-A-AAATATAAAA
60700647 AT-ATTTAAAGA-AT-AAA
1 ATAATTTAAA-ATATAAAA
60700663 ATAATTTAAAATATAAAA
1 ATAATTTAAAATATAAAA
60700681 AT
1 AT
60700683 TCATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 6 0.19
17 13 0.41
18 7 0.22
19 4 0.12
20 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAATTTAAAATATAAAA
Found at i:60700706 original size:17 final size:16
Alignment explanation
Indices: 60700637--60700707 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
60700627 ATAATTTAAT
60700637 AAATATAAAAATATTTA
1 AAATATAAAAAT-TTTA
*
60700654 AAGA-ATAAAATAATTTA
1 AA-ATATAAAA-ATTTTA
*
60700671 AAATATAAAAATTCATA
1 AAATATAAAAATT-TTA
*
60700688 AAATTTATAAAATTTTA
1 AAATATA-AAAATTTTA
60700705 AAA
1 AAA
60700708 ATTAATATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.07
17 33 0.75
18 8 0.18
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (16 bp):
AAATATAAAAATTTTA
Found at i:60703956 original size:77 final size:77
Alignment explanation
Indices: 60703867--60704022 Score: 303
Period size: 77 Copynumber: 2.0 Consensus size: 77
60703857 TATTAATAAA
*
60703867 TATAAAGCTTTTTTTTTTTTTTGAATAACAAAGTACTTAACTCCTCTAAGAGCGAATCTTCAAAT
1 TATAAAGCTTTTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAAT
60703932 TACTCTTAAGCC
66 TACTCTTAAGCC
60703944 TATAAAGCTTTTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAAT
1 TATAAAGCTTTTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAAT
60704009 TACTCTTAAGCC
66 TACTCTTAAGCC
60704021 TA
1 TA
60704023 ATTTTCTTTC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (77 bp):
TATAAAGCTTTTTTTTTTTTTTGAATAACAAAGTACATAACTCCTCTAAGAGCGAATCTTCAAAT
TACTCTTAAGCC
Found at i:60705250 original size:3 final size:3
Alignment explanation
Indices: 60705244--60705270 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
60705234 ATTTTAAGAA
60705244 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
60705271 TTTACATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:60705876 original size:17 final size:18
Alignment explanation
Indices: 60705846--60705891 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
60705836 ATTTAAATTG
60705846 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
60705864 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
60705880 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
60705892 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:60707095 original size:24 final size:24
Alignment explanation
Indices: 60707068--60707119 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60707058 TTAGTAAGTC
*
60707068 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
60707092 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
60707116 AAAT
1 AAAT
60707120 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:60710379 original size:16 final size:15
Alignment explanation
Indices: 60710343--60710378 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
60710333 CAAAATCAAG
*
60710343 ATTTTTACAACATTT
1 ATTTTTACAACATTC
*
60710358 ATTTTTACAATATTC
1 ATTTTTACAACATTC
60710373 ATTTTT
1 ATTTTT
60710379 TTTCTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:60716423 original size:95 final size:95
Alignment explanation
Indices: 60716284--60716609 Score: 420
Period size: 95 Copynumber: 3.4 Consensus size: 95
60716274 GCTTCGAAAT
* *
60716284 ATGAGAGC-CGTGTAAGATCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
* * * * * *
60716348 ATGTTTGGAATATGACATTGGCAGCGACAA
66 ATGTCTGGGATATGACATTGACACCGATAG
* * * *
60716378 ATGAGAGCTAGTGAAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCAGTGTAAGACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
*
60716443 ATGTCTGGGATATGACATCGACACCGATAG
66 ATGTCTGGGATATGACATTGACACCGATAG
* * * * * *
60716473 ATGAGAACTAGCGTAAGACCATGCCTAGGACATGGCATCGGCTTGATATGTGTTAGCGTAAAACC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
* *
60716538 ATGTCTGGGACATGGCATTGACACCGATAG
66 ATGTCTGGGATATGACATTGACACCGATAG
** * *
60716568 ATGAGAGCTAGTGTAAGATAATGTTTGGGACATGGCATCGGC
1 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
60716610 CTCGATATAC
Statistics
Matches: 198, Mismatches: 33, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
94 8 0.04
95 190 0.96
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (95 bp):
ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACC
ATGTCTGGGATATGACATTGACACCGATAG
Found at i:60716443 original size:45 final size:45
Alignment explanation
Indices: 60716245--60716555 Score: 189
Period size: 45 Copynumber: 6.6 Consensus size: 45
60716235 TGAGAGCTAA
* * * *
60716245 TGTAAGACCATGTCTGGGACATGGCAAC-AGCTTCGAAATATGAGAGCCG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CTT-G--ATATGTG-TCAG
* * *
60716294 TGTAAGATCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAG
* * * * *
60716339 TGTAAGACCATGTTTGGAATATGACATTGGCAGCGAC---AAATGAGAGCTAG
1 TGTAAGACCATGTCTGG-----GACA-TGGCATCGACTTGATATGTG-TC-AG
* *
60716389 TGAAAGACCATGTCTGGGATATGGCATCGACTTGATATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAG
* * ** * *
60716434 TGTAAGACCATGTCTGGGATATGACATCGACACCGATAGATGAGAACTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAT--ATGTG-TC-AG
* * * * *
60716484 CGTAAGACCATGCCTAGGACATGGCATCGGCTTGATATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAG
* *
60716529 CGTAAAACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
60716556 TGACACCGAT
Statistics
Matches: 203, Mismatches: 42, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
44 9 0.04
45 76 0.37
46 10 0.05
47 9 0.04
48 10 0.05
49 33 0.16
50 48 0.24
51 8 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAG
Found at i:60716512 original size:50 final size:49
Alignment explanation
Indices: 60716378--60716659 Score: 177
Period size: 50 Copynumber: 5.8 Consensus size: 49
60716368 GCAGCGACAA
* * * **
60716378 ATGAGAGCTAGTGAAAGACCATGTCTGGGATATGGCATCGAC-TTGAT--
1 ATGAGA-CTAGCGTAAGACCATGTCTGGGACATGGCATCGACACCGATAG
* * * * *
60716425 ATGTGTC-AGTGTAAGACCATGTCTGGGATATGACATCGACACCGATAG
1 ATGAGACTAGCGTAAGACCATGTCTGGGACATGGCATCGACACCGATAG
* * * **
60716473 ATGAGAACTAGCGTAAGACCATGCCTAGGACATGGCATCGGC-TTGAT--
1 ATGAG-ACTAGCGTAAGACCATGTCTGGGACATGGCATCGACACCGATAG
* * * *
60716520 ATGTG-TTAGCGTAAAACCATGTCTGGGACATGGCATTGACACCGATAG
1 ATGAGACTAGCGTAAGACCATGTCTGGGACATGGCATCGACACCGATAG
* ** * * *
60716568 ATGAGAGCTAGTGTAAGATAATGTTTGGGACATGGCATCGGC-CTCGATAT
1 ATGAGA-CTAGCGTAAGACCATGTCTGGGACATGGCATCGACAC-CGATAG
* * ** * *
60716618 ACGAGAGTCAATGTAAGACCATGTTTGGGACATCGCATCGAC
1 ATGAGACT-AGCGTAAGACCATGTCTGGGACATGGCATCGAC
60716660 TTTGATGGGT
Statistics
Matches: 181, Mismatches: 42, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
45 60 0.33
46 7 0.04
47 8 0.04
48 8 0.04
49 6 0.03
50 92 0.51
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (49 bp):
ATGAGACTAGCGTAAGACCATGTCTGGGACATGGCATCGACACCGATAG
Found at i:60716652 original size:190 final size:187
Alignment explanation
Indices: 60716295--60716647 Score: 427
Period size: 190 Copynumber: 1.8 Consensus size: 187
60716285 TGAGAGCCGT
* * * * * *
60716295 GTAAGATCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACCATGTTTGGAATA
1 GTAAGACCATGCCTAGGACATGGCATCGGCTTGATATGTGTCAGCGTAAAACCATGTCTGGAACA
* * * * *
60716360 TGACATTGGCAGCGACAAATGAGAGCTAGTGAAAGACCATGTCTGGGATATGGCATCGACTTGAT
66 TGACATTGACACCGACAAATGAGAGCTAGTGAAAGACAATGTCTGGGACATGGCATCGACTCGAT
* *
60716425 ATGTGTCAGTGTAAGACCATGTCTGGGATATGACATCGACACCGATAGATGAGAACTAGC
131 ATGAGTCAATGTAAGACCATGTCTGGG--A-GACATCGACACCGATAGATGAGAACTAGC
* *
60716485 GTAAGACCATGCCTAGGACATGGCATCGGCTTGATATGTGTTAGCGTAAAACCATGTCTGGGACA
1 GTAAGACCATGCCTAGGACATGGCATCGGCTTGATATGTGTCAGCGTAAAACCATGTCTGGAACA
* * * * * * *
60716550 TGGCATTGACACCGATAGATGAGAGCTAGTGTAAGATAATGTTTGGGACATGGCATCGGCCTCGA
66 TGACATTGACACCGACAAATGAGAGCTAGTGAAAGACAATGTCTGGGACATGGCATC-GACTCGA
*
60716615 TATACGAGAGTCAATGTAAGACCATGTTTGGGA
130 TAT----GAGTCAATGTAAGACCATGTCTGGGA
60716648 CATCGCATCG
Statistics
Matches: 135, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
190 104 0.77
191 8 0.06
193 1 0.01
195 22 0.16
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (187 bp):
GTAAGACCATGCCTAGGACATGGCATCGGCTTGATATGTGTCAGCGTAAAACCATGTCTGGAACA
TGACATTGACACCGACAAATGAGAGCTAGTGAAAGACAATGTCTGGGACATGGCATCGACTCGAT
ATGAGTCAATGTAAGACCATGTCTGGGAGACATCGACACCGATAGATGAGAACTAGC
Found at i:60721604 original size:39 final size:39
Alignment explanation
Indices: 60721548--60721821 Score: 476
Period size: 39 Copynumber: 7.0 Consensus size: 39
60721538 CAAGACACTA
60721548 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
60721587 GGAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
60721626 GAAATGTATCCGAGCTAAAGTCCCACAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
60721665 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGGTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
60721704 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
60721743 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
60721782 GAAATGTATTCGAGCTAAAGTCCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
60721821 G
1 G
60721822 TAATATAATT
Statistics
Matches: 222, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 222 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:60727409 original size:39 final size:39
Alignment explanation
Indices: 60727353--60727470 Score: 218
Period size: 39 Copynumber: 3.0 Consensus size: 39
60727343 CAAGACACTA
*
60727353 GAAATGTATCCGGGCTAAAGTCCCGCAGGTTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
60727392 GGAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
60727431 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
60727470 G
1 G
60727471 TAATATAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.24
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:60740476 original size:32 final size:32
Alignment explanation
Indices: 60740430--60740491 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
60740420 CTTTGTTATT
*
60740430 TTTATAATTATATATACTGAATTTTTGAATGC
1 TTTAGAATTATATATACTGAATTTTTGAATGC
*
60740462 TTTAGAATTATATATATTGAATTTTTGAAT
1 TTTAGAATTATATATACTGAATTTTTGAAT
60740492 AATGCTAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (32 bp):
TTTAGAATTATATATACTGAATTTTTGAATGC
Found at i:60740640 original size:24 final size:24
Alignment explanation
Indices: 60740612--60740657 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
60740602 TATAACACTA
60740612 ATTAAGTGATAA-TTAATATAAAAT
1 ATTAAGT-ATAATTTAATATAAAAT
60740636 ATTAAGTATAATTTAATATAAA
1 ATTAAGTATAATTTAATATAAA
60740658 TCCGAAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
ATTAAGTATAATTTAATATAAAAT
Found at i:60740789 original size:6 final size:6
Alignment explanation
Indices: 60740724--60740788 Score: 121
Period size: 6 Copynumber: 10.8 Consensus size: 6
60740714 TAAAATAAAT
60740724 CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA
1 CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA CTAATA
*
60740772 CTAATA CTAATT CTAAT
1 CTAATA CTAATA CTAAT
60740789 TATTGGATAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (6 bp):
CTAATA
Found at i:60744329 original size:11 final size:11
Alignment explanation
Indices: 60744313--60744337 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60744303 ATATCTAGAA
60744313 TTCTCTTCATT
1 TTCTCTTCATT
60744324 TTCTCTTCATT
1 TTCTCTTCATT
60744335 TTC
1 TTC
60744338 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:60745619 original size:25 final size:25
Alignment explanation
Indices: 60745590--60745641 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
60745580 AAGAATAATT
**
60745590 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
60745615 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
60745640 TG
1 TG
60745642 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:60748133 original size:76 final size:77
Alignment explanation
Indices: 60748043--60748206 Score: 294
Period size: 76 Copynumber: 2.1 Consensus size: 77
60748033 CCCCTTTGGT
* *
60748043 CTTGCACACATTTTACCATGGCTTTGTCATGATCACACACTTTATCATATTGCCATAGC-TTAGC
1 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTTAGC
60748107 TATGGTCTTACA
66 TATGGTCTTACA
*
60748119 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTCTCACATTGCCATAGCTTTAGC
1 CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTTAGC
60748184 TATGGTCTTACA
66 TATGGTCTTACA
60748196 CTTGCACACAT
1 CTTGCACACAT
60748207 ATATAACTGT
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
76 56 0.67
77 28 0.33
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.35
Consensus pattern (77 bp):
CTTGCACACATTTTACCATGGCTTTGCCATGATCACACACTTTATCACATTGCCATAGCTTTAGC
TATGGTCTTACA
Found at i:60750236 original size:16 final size:17
Alignment explanation
Indices: 60750191--60750237 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
60750181 AATTTATCCA
*
60750191 ATTATATTATATAATTTT
1 ATTAGATTA-ATAATTTT
*
60750209 A-TAGATTTATAATTTT
1 ATTAGATTAATAATTTT
60750225 ATTA-ATTAATAAT
1 ATTAGATTAATAAT
60750238 ATATTATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 17 0.68
17 7 0.28
18 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTAGATTAATAATTTT
Found at i:60750955 original size:58 final size:59
Alignment explanation
Indices: 60750835--60750957 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 59
60750825 ATTGAACATT
* * * * ***
60750835 AAAAAACTTTAGGTACCAAATTAAGAAAAAGTGTCAAATTTAAGTACTAAATTGGGCCA
1 AAAAAACTTAAGGTACCAAAGTAAGAAAAAGTCTCAAATTTAAGCACTAAATTAAACCA
* *
60750894 AAAAAAC-TAAGGTACCAAAGTAAGAAAAAGTCTCAAGTTTAAGCA-TCAAATTAAACTA
1 AAAAAACTTAAGGTACCAAAGTAAGAAAAAGTCTCAAATTTAAGCACT-AAATTAAACCA
60750952 AAAAAA
1 AAAAAA
60750958 AGTTTAAACA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
57 1 0.02
58 46 0.85
59 7 0.13
ACGTcount: A:0.53, C:0.12, G:0.13, T:0.22
Consensus pattern (59 bp):
AAAAAACTTAAGGTACCAAAGTAAGAAAAAGTCTCAAATTTAAGCACTAAATTAAACCA
Found at i:60751472 original size:20 final size:20
Alignment explanation
Indices: 60751447--60751489 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
60751437 ATTAATATCG
60751447 TTAACTTTTAGATTAAAATA
1 TTAACTTTTAGATTAAAATA
*
60751467 TTAACTTTTCGATTAAAATA
1 TTAACTTTTAGATTAAAATA
60751487 TTA
1 TTA
60751490 TGTGATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
TTAACTTTTAGATTAAAATA
Found at i:60757420 original size:142 final size:141
Alignment explanation
Indices: 60757172--60757437 Score: 478
Period size: 142 Copynumber: 1.9 Consensus size: 141
60757162 GCTGCCACTA
* *
60757172 CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAATAGAGAAATTGCATAACAGGT
1 CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAATAAAAAAATTGCATAACAGGT
*
60757237 CCCTAAATCTTTTAAATCATTATTATTATTTTTTTATTGTTTTGGGTCAGAAATTCAAGATGATG
66 CCCTAAATCTTTTAAATCATTATTATTATTTTTTTACTGTTTTGGGTCAGAAATTCAAGATGATG
60757302 CTGCCACAGTG
131 CTGCCACAGTG
*
60757313 CCAGGCGACACCTTTTCTATTCCTTTTCGGCAGCCATTCAAAAATAAAAAAAATTGCATAACAGG
1 CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAAT-AAAAAAATTGCATAACAGG
*
60757378 TCCCTAAATCTTTTAAATCATTATTATTATTTTTTTACTGTTTTGGGTTAGAAATTCAAG
65 TCCCTAAATCTTTTAAATCATTATTATTATTTTTTTACTGTTTTGGGTCAGAAATTCAAG
60757438 GTGGTGTCGC
Statistics
Matches: 119, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
141 44 0.37
142 75 0.63
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (141 bp):
CCAGGCGACACCCTTTCTATTCCTTTTCGGCAGCCATTCAAAAATAAAAAAATTGCATAACAGGT
CCCTAAATCTTTTAAATCATTATTATTATTTTTTTACTGTTTTGGGTCAGAAATTCAAGATGATG
CTGCCACAGTG
Found at i:60768870 original size:4 final size:4
Alignment explanation
Indices: 60768861--60768893 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
60768851 CCTCCTTCGA
60768861 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
60768894 TTTTCTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:60769603 original size:29 final size:28
Alignment explanation
Indices: 60769541--60769607 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
60769531 TATTATTATT
* *
60769541 TTATTATTACTACTCTTACTTTTATTAA
1 TTATTATTACTACTCTTACTTCTACTAA
*
60769569 TGTATTATTACTACTACTTTCTATCTACT-A
1 T-TATTATTACTACT-CTTACT-TCTACTAA
60769599 TTATTATTA
1 TTATTATTA
60769608 TCTTATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 1 0.03
29 21 0.64
30 7 0.21
31 4 0.12
ACGTcount: A:0.28, C:0.15, G:0.01, T:0.55
Consensus pattern (28 bp):
TTATTATTACTACTCTTACTTCTACTAA
Found at i:60769988 original size:3 final size:3
Alignment explanation
Indices: 60769820--60769973 Score: 111
Period size: 3 Copynumber: 50.0 Consensus size: 3
60769810 TACTTACATC
60769820 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
60769868 ATT ACT ACTT A-T ATT CGTT AGT ATC ATT ATT AATT -TT ATCT -TT ATT
1 ATT ATT A-TT ATT ATT -ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT
* * * *
60769914 -TT CTTT ACT ATT ATT TTT ATT ATC ATT ATTT ATTT ATTT ATT CATT
1 ATT -ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT A-TT ATT -ATT
*
60769960 ACT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT
60769974 GTTCTCACTA
Statistics
Matches: 122, Mismatches: 17, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
2 8 0.07
3 90 0.74
4 24 0.20
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:60770015 original size:14 final size:15
Alignment explanation
Indices: 60769985--60770017 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
60769975 TTCTCACTAT
*
60769985 TATTTATTTATTTCA
1 TATTTACTTATTTCA
60770000 TATTTACTTA-TTCA
1 TATTTACTTATTTCA
60770014 TATT
1 TATT
60770018 CATAAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTACTTATTTCA
Found at i:60773626 original size:19 final size:20
Alignment explanation
Indices: 60773599--60773639 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
60773589 TTGCATTCTG
* *
60773599 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
60773619 TTCA-TCATATGCATTAAAT
1 TTCATTCATATGCATTAAAT
60773638 TT
1 TT
60773640 TGCAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:60781779 original size:44 final size:45
Alignment explanation
Indices: 60781731--60782470 Score: 149
Period size: 44 Copynumber: 16.7 Consensus size: 45
60781721 AATTCACAAC
60781731 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
* * * *
60781775 CTTATCT-TCCTGAGGTAGCGAG-GAAGCATACTGAGGATTGAAGAT
1 CTTATCTCTCCTGAGGTAGCAAGAG-AGCAGATTGAAGATTGAAG-T
* * * * * * *
60781820 CTTA-CTC-CTTAAGCAGTAG--TG-GAGTAGATCGAAGATGGCGAA-A
1 CTTATCTCTCCTGAG--GTAGCAAGAGAGCAGATTGAAGAT--TGAAGT
* * * ** ***** *
60781863 CTTATCT-TCCTAAGGTAGCAGGAGAGTAGATTTTAGCCACCAGC
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
* *
60781907 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAATT
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
*
60781951 CTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTG-AGAATTGAAGAT
1 CTTATCTCTCCTGAGGTAGCAAGAG-AGCAGATTGAAG-ATTGAAG-T
* * * * *
60781996 CTTATCTC-CCTAAGCAGTAG--TG-GAGCAGATCGAAGATGGCAAAT
1 CTTATCTCTCCTGAG--GTAGCAAGAGAGCAGATTGAAGATTG-AAGT
* * * ** **
60782040 CTTATCT-TCCTGAGGTAGCAGGGGAGCATATTTTAGCCA-CCAA-T
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAG--ATTGAAGT
** * * * *
60782084 CTTGCCTC-CCTAAGCAGTAG--TG-GAGCA-AGCTGAAGATTGTAGAT
1 CTTATCTCTCCTGAG--GTAGCAAGAGAGCAGA-TTGAAGATTGAAG-T
* * *
60782128 CTTATCTC-CATGAGGTAGCAATG-GAGCAGATCGAAGACGGTGAA-T
1 CTTATCTCTCCTGAGGTAGCAA-GAGAGCAGATTGAAGA--TTGAAGT
* * * *
60782173 CTTATCTC-CCTGATGTAGCAAG-GAAGCAGATTTAAG--TCACTAGC
1 CTTATCTCTCCTGAGGTAGCAAGAG-AGCAGATTGAAGATTGA--AGT
* * * * * ** *
60782217 CTTGTCT-TCCT-AAGCAG-GAGTGGAGCAGGCTGAAGATTGTAGAT
1 CTTATCTCTCCTGAGGTAGCAAG-AGAGCAGATTGAAGATTGAAG-T
* * *
60782261 CTTATCTC-CATGAGGTAGCAATG-GAGCAGATCGAAGACGTCGAA-T
1 CTTATCTCTCCTGAGGTAGCAA-GAGAGCAGATTGAAGA--TTGAAGT
* * *
60782306 CTTATCTC-CCTGAGGTAACAAGGGAGCAGATTTAAGCCATT--AGT
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAG--ATTGAAGT
* *
60782350 CTTATCT-TCCTGAGGTAACAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCCTGAGGTAGCAAGAG-AGCAGATTGAAGATTGAAG-T
* * *
60782395 CTTATCTC-CCTAAGCAGTAG--TG-GAGCAGATCGAAGATGGTGAA-T
1 CTTATCTCTCCTGAG--GTAGCAAGAGAGCAGATTGAAGAT--TGAAGT
* * *
60782439 CTTATCT-TCCCGAGGTAGCAGGGGAGCAGATT
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATT
60782471 TTAACCACTA
Statistics
Matches: 503, Mismatches: 116, Indels: 153
0.65 0.15 0.20
Matches are distributed among these distances:
41 3 0.01
42 23 0.05
43 46 0.09
44 240 0.48
45 161 0.32
46 14 0.03
47 16 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (45 bp):
CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
Found at i:60782093 original size:88 final size:88
Alignment explanation
Indices: 60781818--60782158 Score: 268
Period size: 88 Copynumber: 3.9 Consensus size: 88
60781808 AGGATTGAAG
* * *
60781818 ATCTTA-CTCCTTAAGCAGTAGTGGAGTAGATCGAAGATGGCGAAA-CTTATCTTCCTAAGGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-AAATCTTATCTTCCTGAGGTAG
* *
60781881 CAGGAGAGTAGATTTTAGCCACCA
65 CAGGGGAGCAGATTTTAGCCACCA
** * * * * * * *
60781905 GCCTTATCTCTCTGAG--GTAGCAAGAGAGCAGGTTGAAGATTG-AATTCTTATCTTCCTGAGGT
1 ATCTTATCTCCCTAAGCAGTAG--TG-GAGCAGATCGAAGATGGCAAATCTTATCTTCCTGAGGT
* * * * * **
60781967 AGCAAGGAAGCAGA-CTGAG-AATTGAA
63 AGCAGGGGAGCAGATTTTAGCCA--CCA
60781993 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCTGAGGTAG
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCTGAGGTAG
*
60782058 CAGGGGAGCATATTTTAGCCACCA
65 CAGGGGAGCAGATTTTAGCCACCA
** * * * *
60782082 ATCTTGCCTCCCTAAGCAGTAGTGGAGCA-AGCTGAAGATTGTAGATCTTATC-TCCATGAGGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATGGCAAATCTTATCTTCC-TGAGGTA
**
60782145 GCAATGGAGCAGAT
64 GCAGGGGAGCAGAT
60782159 CGAAGACGGT
Statistics
Matches: 192, Mismatches: 47, Indels: 29
0.72 0.18 0.11
Matches are distributed among these distances:
86 5 0.03
87 14 0.07
88 108 0.56
89 57 0.30
90 3 0.02
91 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (88 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCTGAGGTAGC
AGGGGAGCAGATTTTAGCCACCA
Found at i:60782133 original size:177 final size:175
Alignment explanation
Indices: 60781727--60782157 Score: 500
Period size: 176 Copynumber: 2.4 Consensus size: 175
60781717 GGTGAATTCA
* * * *
60781727 CAACCTTATCTCTCTGAGGTAGCAAGAGAGC-AGATTGAAGATTGA-AGTCTTATCTTCCTGAGG
1 CAACCTTACCTCCCTAAGGTAG-AAGAGAGCAAG-CTGAAGATTGAGA-TCTTATCTTCCTGAGG
* * * * *
60781790 TAGCGAGGAAGCATACTGAGGATTGAAGATCTTACTCCTTAAGCAGTAGTGGAGTAGATCGAAGA
63 TAGCAAGGAAGCAGACTGAGAATTGAAGATCTTACTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
*
60781855 TGGCGAAACTTATCTTCCTAAGGTAGCAGGAGAGTAGATTTTAGCCAC
128 TGGCGAAACTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCAC
* * * * * *
60781903 CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGA-ATTCTTATCTTCCTGAGGT
1 CAACCTTACCTCCCTAAGGTAG-AAGAGAGCAAGCTGAAGATTGAGA-TCTTATCTTCCTGAGGT
60781967 AGCAAGGAAGCAGACTGAGAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
64 AGCAAGGAAGCAGACTGAGAATTGAAGATCTTA-CTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
* * *
60782032 TGGC-AAATCTTATCTTCCTGAGGTAGCAGGGGAGCATATTTTAGCCAC
128 TGGCGAAA-CTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCAC
* * *
60782080 CAATCTTGCCTCCCTAAGCAGTAG-TG-GAGCAAGCTGAAGATTGTAGATCTTATC-TCCATGAG
1 CAACCTTACCTCCCTAAG--GTAGAAGAGAGCAAGCTGAAGATTG-AGATCTTATCTTCC-TGAG
60782142 GTAGCAATGG-AGCAGA
62 GTAGCAA-GGAAGCAGA
60782158 TCGAAGACGG
Statistics
Matches: 225, Mismatches: 21, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
176 110 0.49
177 108 0.48
178 3 0.01
179 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (175 bp):
CAACCTTACCTCCCTAAGGTAGAAGAGAGCAAGCTGAAGATTGAGATCTTATCTTCCTGAGGTAG
CAAGGAAGCAGACTGAGAATTGAAGATCTTACTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
CGAAACTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCAC
Found at i:60782487 original size:133 final size:134
Alignment explanation
Indices: 60781951--60782489 Score: 526
Period size: 133 Copynumber: 4.1 Consensus size: 134
60781941 AGATTGAATT
* * *
60781951 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG-AGAATTGAAGATCTTATCTCCCT-AAGCAGT
1 CTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAG-ATTGAAGATCTTATCTCCATGAAGCAGC
* ** * * * *
60782014 AGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCTGAGGTAGCAGGGGAGCATATTTTAGCCA
65 AATGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGCCA
* **
60782079 CCAAT
130 CTAGC
** * * ** * * *
60782084 CTTGCCTCCCTAAGCAGT-A-GTGG-AGCA-AGCTGAAGATTGTAGATCTTATCTCCATGAGGTA
1 CTTATCTTCCTGAG--GTAACAAGGAAGCAGA-CTGAAGATTGAAGATCTTATCTCCATGAAGCA
* * * *
60782145 GCAATGGAGCAGATCGAAGACGGTGAATCTTATCTCCCTGATGTAGCAAGGAAGCAGATTTAAGT
63 GCAATGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGC
60782210 CACTAGC
128 CACTAGC
* * * ** * * * * *
60782217 CTTGTCTTCCT-AAG-CAGGAGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCATGAGGTAGC
1 CTTATCTTCCTGAGGTAACAAG-GAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGC
* *
60782280 AATGGAGCAGATCGAAGA-CGTCGAATCTTATCTCCCTGAGGTAACAAGGGAGCAGATTTAAGCC
65 AATGGAGCAGATCGAAGATGGT-GAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGCC
* *
60782344 ATTAGT
129 ACTAGC
* *
60782350 CTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT-AAGCAGTA
1 CTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGCA
* *
60782414 GTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCC-GAGGTAGCAGGGGAGCAGATTTTAA-CC
66 ATGGAGCAGATCGAAGATGGTGAATCTTATC-TCCCTGAGGTAGCAAGGGAGCAGA-TTTAAGCC
60782477 ACTAGC
129 ACTAGC
60782483 CTTATCT
1 CTTATCT
60782490 AGTTGCAATA
Statistics
Matches: 334, Mismatches: 56, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
130 2 0.01
131 3 0.01
132 29 0.09
133 252 0.75
134 43 0.13
135 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (134 bp):
CTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGCA
ATGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGCCAC
TAGC
Found at i:60782874 original size:45 final size:45
Alignment explanation
Indices: 60782520--60783032 Score: 225
Period size: 45 Copynumber: 11.2 Consensus size: 45
60782510 AAATCACAAG
* ** * * * * *
60782520 TCTTATCTCCCTGAATTTGCAACGGAGCAAACTAAAAATAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* ** ** *
60782565 TCTTATCTCCCTGAAGTTGTAGTGGATTAGATT-ACAGCCA-CTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGATAGCAAA
* * * * * *
60782609 CCTTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAA-ATTA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCAAA
* * *
60782653 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * *
60782698 TCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GCAAA
* * * * * * * *
60782749 TCTTATCTCTC-GAAATTACAATAGAGCAGAATTAAAGCTA-AAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGATAGCAAA
* * *
60782793 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* ** *
60782838 TCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GCAAA
* * * * ** * * * **
60782889 TCTTATCTCTC-GAAATTGAAATAAAGTAGAATTAAAGCTAAAAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGATAGCAAA
* * * * * * **
60782934 CCATATCTCCTTGAAGTTGCAGTGAAGCAGACTGAAGACAATAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
** * *
60782979 TCCCATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAG-TTG-AAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAA-A
60783023 TCTTATCTCC
1 TCTTATCTCC
60783033 TTAAAGTGTA
Statistics
Matches: 343, Mismatches: 102, Indels: 47
0.70 0.21 0.10
Matches are distributed among these distances:
43 2 0.01
44 96 0.28
45 162 0.47
46 13 0.04
47 6 0.02
49 4 0.01
50 24 0.07
51 36 0.10
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
Found at i:60783004 original size:141 final size:140
Alignment explanation
Indices: 60782656--60783015 Score: 542
Period size: 140 Copynumber: 2.6 Consensus size: 140
60782646 TTACAAGTCT
*
60782656 TATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
* *
60782721 GGAACAAATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTACAATAGAGCAGAATTAAAG
66 GGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTACAATAAAGCAGAATTAAAG
*
60782786 CTAAAAACCT
131 CTAAAAACCA
60782796 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
* *
60782861 GGAATAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGA-AATAAAGTAGAATTAAA
66 GGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATT-ACAATAAAGCAGAATTAAA
60782925 GCTAAAAAACCA
130 GCT-AAAAACCA
* * * *** ** * *
60782937 TATCTCCTTGAAGTTGCAGTGAAGCAGACTGAAGACAATAAATCCCATCTCCCTGAAGTAGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
*
60783002 GGAGCAGATTGAAG
66 GGAACAGATTGAAG
60783016 TTGAAGATCT
Statistics
Matches: 200, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
140 125 0.62
141 75 0.38
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (140 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
GGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTACAATAAAGCAGAATTAAAG
CTAAAAACCA
Found at i:60784374 original size:3 final size:3
Alignment explanation
Indices: 60784359--60784550 Score: 67
Period size: 3 Copynumber: 62.7 Consensus size: 3
60784349 TTTCAAATTA
* *
60784359 ATT ATT TTT ATT ATT A-T ATTT ATT ATT ATT A-T ATTT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * * * * *
60784404 ATT ATT TTT ATT ATT ACT ACT CTT ACTT -TT TTT AATGC ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT -AT-T ATT ATT ATT
* * * *
60784451 ACT ACTT -TCT ATCT ATT ATT ATT A-T CTT ATT -TT AAAT ATT AAT ATT
1 ATT A-TT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * * *
60784497 ATT ATT -TCC ATA ATT ATT A-T ATT ATT ATT ATT CTT ATT AGT ACGTT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT
60784543 ATT ATT AT
1 ATT ATT AT
60784551 CTTTTCTACT
Statistics
Matches: 142, Mismatches: 28, Indels: 38
0.68 0.13 0.18
Matches are distributed among these distances:
2 13 0.09
3 110 0.77
4 17 0.12
5 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:60784384 original size:15 final size:14
Alignment explanation
Indices: 60784361--60784419 Score: 82
Period size: 15 Copynumber: 4.0 Consensus size: 14
60784351 TCAAATTAAT
60784361 TATTTTTATTATTA
1 TATTTTTATTATTA
60784375 TATTTATTATTATTA
1 TATTT-TTATTATTA
*
60784390 TATTTACTATTATTA
1 TATTT-TTATTATTA
60784405 TTATTTTTATTATTA
1 -TATTTTTATTATTA
60784420 CTACTCTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
14 5 0.12
15 31 0.76
16 5 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTTTTATTATTA
Found at i:60784533 original size:20 final size:22
Alignment explanation
Indices: 60784510--60784550 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
60784500 ATTTCCATAA
60784510 TTATTA-TA-TTATTATTATTC
1 TTATTAGTACTTATTATTATTC
60784530 TTATTAGTACGTTATTATTAT
1 TTATTAGTAC-TTATTATTAT
60784551 CTTTTCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
23 10 0.56
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATTAGTACTTATTATTATTC
Found at i:60784564 original size:20 final size:23
Alignment explanation
Indices: 60784518--60784571 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 23
60784508 AATTATTATA
*
60784518 TTATTATTATTCTTATTAGTACG
1 TTATTATTATTCTTATTACTACG
*
60784541 TTATTATTA-TCTT-TT-CTACT
1 TTATTATTATTCTTATTACTACG
*
60784561 TTATTACTATT
1 TTATTATTATT
60784572 ATTGTATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.41
21 3 0.11
22 4 0.15
23 9 0.33
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (23 bp):
TTATTATTATTCTTATTACTACG
Found at i:60784693 original size:3 final size:3
Alignment explanation
Indices: 60784687--60784833 Score: 61
Period size: 3 Copynumber: 47.7 Consensus size: 3
60784677 CATCATCATC
* * * *
60784687 ATT ATT ATT ATT ATT ATT TTT ACT ATT ATT ATT -TAT ATT CGTT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT ATT
* * * *
60784733 ATC ATT ATT AATT -TT ATCT -TT ATT -TT CTTT ACT ATT ATT TTT ATT
1 ATT ATT ATT -ATT ATT AT-T ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * * * *
60784778 ATC ATT ATTT ATTT ATTT ATTT ATT ACT ATT GTT ATT ATT ATT GTC A-T
1 ATT ATT A-TT A-TT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
60784826 ATT ATT AT
1 ATT ATT AT
60784834 ATATGTTTTA
Statistics
Matches: 108, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
2 7 0.06
3 77 0.71
4 24 0.22
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:60792179 original size:43 final size:41
Alignment explanation
Indices: 60792125--60792288 Score: 170
Period size: 43 Copynumber: 3.9 Consensus size: 41
60792115 TTTTGATATG
*
60792125 TGATTTCGTGTAAGACCACATCTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATT
* * * *
60792166 TGAGATTTTGTGTAAGACCATGTCTGGGACATCGGCATTGTATT
1 T--GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-ATT
*
60792210 TGATTTCGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG--ATT
* * *
60792253 TGATTACATGTAAGACCACGTCCT-GGACGTTGGCAT
1 TGATTTCGTGTAAGACCACGT-CTGGGACATTGGCAT
60792289 TTTTCGAGCT
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 63 0.62
44 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATT
Found at i:60796406 original size:43 final size:43
Alignment explanation
Indices: 60796345--60796431 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
60796335 AATTAAATGA
60796345 AATGTCAAATCAAGGACTAAAGGGTTAATAAGGTAAGGCTTGG
1 AATGTCAAATCAAGGACTAAAGGGTTAATAAGGTAAGGCTTGG
60796388 AATGTCAAATCAAGGACTAAAGGGTTAATAAGGTAAGGCTTGG
1 AATGTCAAATCAAGGACTAAAGGGTTAATAAGGTAAGGCTTGG
60796431 A
1 A
60796432 TAGCAATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (43 bp):
AATGTCAAATCAAGGACTAAAGGGTTAATAAGGTAAGGCTTGG
Found at i:60798258 original size:13 final size:13
Alignment explanation
Indices: 60798226--60798260 Score: 56
Period size: 11 Copynumber: 2.8 Consensus size: 13
60798216 ACCCCACGAT
60798226 CATATACAGAACA
1 CATATACAGAACA
60798239 -A-ATACAGAACA
1 CATATACAGAACA
60798250 CATATACAGAA
1 CATATACAGAA
60798261 TTAACATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.50
12 2 0.10
13 8 0.40
ACGTcount: A:0.57, C:0.20, G:0.09, T:0.14
Consensus pattern (13 bp):
CATATACAGAACA
Found at i:60799762 original size:56 final size:56
Alignment explanation
Indices: 60799676--60799789 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
60799666 ATGGAACAAG
*
60799676 ATGCAAATATCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
1 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
60799732 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
1 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
60799788 AT
1 AT
60799790 TGATATTGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (56 bp):
ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
Found at i:60804772 original size:35 final size:35
Alignment explanation
Indices: 60804726--60804798 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
60804716 CATTGCTTGC
60804726 AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
1 AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
60804761 AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
1 AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
60804796 AAA
1 AAA
60804799 AAACTCTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.27
Consensus pattern (35 bp):
AAAGAAGAAATAAACTGAAATACTTCTGATTTATA
Found at i:60805657 original size:22 final size:21
Alignment explanation
Indices: 60805622--60805662 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
60805612 TCTAAATGTG
* *
60805622 TTTTTTTATTAATTTTTATAA
1 TTTTTTTATAAATTATTATAA
60805643 TTTTTTATATAAATTATTAT
1 TTTTTT-TATAAATTATTAT
60805663 TTTTTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTTATAAATTATTATAA
Found at i:60805668 original size:22 final size:20
Alignment explanation
Indices: 60805622--60805668 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
60805612 TCTAAATGTG
*
60805622 TTTTTTTATTAATTTTTATAA
1 TTTTTTTATTAATTATTAT-A
*
60805643 TTTTTTATATAAATTATTAT-
1 TTTTTT-TATTAATTATTATA
60805663 TTTTTT
1 TTTTTT
60805669 GTTTTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 6 0.26
22 11 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTTATTAATTATTATA
Found at i:60808776 original size:67 final size:69
Alignment explanation
Indices: 60808704--60808837 Score: 184
Period size: 67 Copynumber: 2.0 Consensus size: 69
60808694 TTTAATAGAT
* * * * *
60808704 TTAATATTTAATTTAGTTTAATACTTATCTT-A-ACAGTATTTTATTAA-TTAATATTAAATTGA
1 TTAATATTAAATTTAATCTAATACTTATCTTGATA-AGTATTATATTAATTTAATATTAAAGTGA
60808766 TTATC
65 TTATC
*
60808771 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
60808836 TA
66 TA
60808838 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 27 0.47
68 13 0.22
69 18 0.31
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATACTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:60808794 original size:17 final size:17
Alignment explanation
Indices: 60808747--60808795 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
60808737 CAGTATTTTA
60808747 TTAAT-TAATATTAAAT
1 TTAATCTAATATTAAAT
*
60808763 TGATTATCTTAATATTAAAT
1 T--TAATC-TAATATTAAAT
60808783 TTAATCTAATATT
1 TTAATCTAATATT
60808796 TATCTTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 7 0.26
20 12 0.44
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAATCTAATATTAAAT
Found at i:60813271 original size:30 final size:30
Alignment explanation
Indices: 60813237--60813296 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
60813227 ACTTAACAAG
*
60813237 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
60813267 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
60813297 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:60818698 original size:28 final size:28
Alignment explanation
Indices: 60818666--60818722 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
60818656 GAGACGTAAA
**
60818666 CTTCAAAATTGGGAAGCCAGAAAACTTT
1 CTTCAAAATTAAGAAGCCAGAAAACTTT
* *
60818694 CTTCAGAATTAAGAAGCCAGGAAACTTT
1 CTTCAAAATTAAGAAGCCAGAAAACTTT
60818722 C
1 C
60818723 CTTTGTAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (28 bp):
CTTCAAAATTAAGAAGCCAGAAAACTTT
Found at i:60820656 original size:3 final size:3
Alignment explanation
Indices: 60820648--60820694 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
60820638 TGAATGTACT
60820648 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
60820695 CAAAACAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:60821977 original size:29 final size:29
Alignment explanation
Indices: 60821935--60821991 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
60821925 TGTCATATCA
60821935 TATTTTAAAAATGGAAGGACTTAACGAGC
1 TATTTTAAAAATGGAAGGACTTAACGAGC
*
60821964 TATTTTGAAAATGGAAGGACTTAACGAG
1 TATTTTAAAAATGGAAGGACTTAACGAG
60821992 TTTAACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (29 bp):
TATTTTAAAAATGGAAGGACTTAACGAGC
Found at i:60825445 original size:24 final size:24
Alignment explanation
Indices: 60825413--60825460 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
60825403 CTCTAAGAAT
*
60825413 GTGAAGCATATTATGAGAGAGAGA
1 GTGAAGCATATTATCAGAGAGAGA
60825437 GTGAAGCATATTATCAGAGAGAGA
1 GTGAAGCATATTATCAGAGAGAGA
60825461 CTTCTATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.21
Consensus pattern (24 bp):
GTGAAGCATATTATCAGAGAGAGA
Found at i:60832484 original size:15 final size:16
Alignment explanation
Indices: 60832458--60832487 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60832448 GACTCGGTTG
60832458 TTTCTCAGGAAAACAT
1 TTTCTCAGGAAAACAT
60832474 TTTCT-AGGAAAACA
1 TTTCTCAGGAAAACA
60832488 CTCTTTCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (16 bp):
TTTCTCAGGAAAACAT
Found at i:60834566 original size:31 final size:31
Alignment explanation
Indices: 60834498--60834566 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
60834488 TCGGTAACTG
* **
60834498 AACTATTCGAAAGTTTTCATTTAAATCATTA
1 AACTATTCAAAAGTTTTCATTTAAATCACCA
* *
60834529 AACTATTCAAAAGTTTTTATTTAAGTCACCA
1 AACTATTCAAAAGTTTTCATTTAAATCACCA
*
60834560 AGCTATT
1 AACTATT
60834567 AAGTTTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAATCACCA
Found at i:60835893 original size:17 final size:17
Alignment explanation
Indices: 60835873--60835907 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60835863 AACAAAAAAA
*
60835873 AAACCAAAAATAAAATT
1 AAACCAAAAACAAAATT
*
60835890 AAACCCAAAACAAAATT
1 AAACCAAAAACAAAATT
60835907 A
1 A
60835908 GACAGTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (17 bp):
AAACCAAAAACAAAATT
Found at i:60837543 original size:2 final size:2
Alignment explanation
Indices: 60837502--60837532 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
60837492 TTAGATTGTT
*
60837502 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60837533 CTTTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60838474 original size:256 final size:256
Alignment explanation
Indices: 60838010--60838484 Score: 736
Period size: 256 Copynumber: 1.9 Consensus size: 256
60838000 CGTTTTATTC
* * **
60838010 AAAATAAGGCAACATTTCGTGTTTGGAAATTTCGAGAAAATCGTGCCCTACGTGCTAGGTTTCGA
1 AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAGAAAATCGTGCCCTACGTGCTAGGTTTCGA
* * *
60838075 TTTATTATTTAACCGAACAACCGAATATCCTTTTTAAAATTTCAATGCATAAGTTTTGGAAATCC
66 TTTATCATTTAACCGAACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCA
*
60838140 TGAGATGATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTACTGGATGTGATATTTTATT
131 TGAGATAATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTACTGGATGTGATATTTTATT
* *
60838205 TCTTCGAAACAAGAGAATCTTAATCGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
196 TCTCCGAAACAAGAAAATCTTAATCGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
* * *
60838266 AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAG-AAATTGTGCCCTACGTGTTGGGTTTCGA
1 AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAGAAAATCGTGCCCTACGTGCTAGGTTTCGA
* * * *
60838330 TTTATCGTTTGACTGAACAACCGAATATCCTTTTTTAAAATTTCAATACATGAGTTTTGGAAATC
66 TTTATCATTTAACCGAACAACCGAATATCC-TTTTTAAAATTTCAATACATAAGTTTTGGAAATC
* * **
60838395 ATGAGATAATTTTGGTATCGGAGGTTTGAAATATCGTGTCCTACGTGTTGGATGTGATATTTTAT
130 ATGAGATAATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTACTGGATGTGATATTTTAT
*
60838460 TTCTCCGGAACAAGAAAATCTTAAT
195 TTCTCCGAAACAAGAAAATCTTAAT
60838485 ATCCACTTCA
Statistics
Matches: 196, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
255 51 0.26
256 145 0.74
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (256 bp):
AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAGAAAATCGTGCCCTACGTGCTAGGTTTCGA
TTTATCATTTAACCGAACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCA
TGAGATAATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTACTGGATGTGATATTTTATT
TCTCCGAAACAAGAAAATCTTAATCGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
Found at i:60850375 original size:227 final size:227
Alignment explanation
Indices: 60849960--60850387 Score: 597
Period size: 227 Copynumber: 1.9 Consensus size: 227
60849950 CTGAATTTGC
* * *
60849960 AGTGGAGCAGACCGAAAATAGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTA
1 AGTGGAGCAGACCGAAAATAACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATTAAAGCTA
* * * *
60850025 TAAATCCTATACCTCTGAAGTTGCAGCAGGTCAGATCAAATCTACCATGGTGAATCCTATTTCCC
66 TAAATCCTATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAATCCTACTTCCC
* * * * * * * *
60850090 TGAAGTTGCAGTAGAGCAGATCGAAGCCACTAACCTTATTTCCCTGAAATTACAGTGGAGCAGGT
131 TAAAGTTGCAGCAAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAGTGGAGCAGAT
60850155 TGAAGTTACGAGTCTTATCTTACTGAAGTTAT
196 TGAAGTTACGAGTCTTATCTTACTGAAGTTAT
* * *
60850187 AGTGGAGCAGACTGAAAATAACGGATCTTATCTCTTTGAAGTTGCAGCAGAGCAGATTAAAGCTA
1 AGTGGAGCAGACCGAAAATAACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATTAAAGCTA
* *
60850252 TAAATCCTATACCTCTGAAGTTACAACAGGTCGGATCAAATCTACCATGGCGAATCTTACCTT-C
66 TAAATCCTATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAATCCTA-CTTCC
* * * ** * *
60850316 TTAAAGTTGCAGCAAAACAGATTGGAGCCACCAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGA
130 CTAAAGTTGCAGCAAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAGTGGAGCAGA
60850381 TTGAAGT
195 TTGAAGT
60850388 CACAAACTTT
Statistics
Matches: 173, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
227 171 0.99
228 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (227 bp):
AGTGGAGCAGACCGAAAATAACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATTAAAGCTA
TAAATCCTATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAATCCTACTTCCC
TAAAGTTGCAGCAAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAGTGGAGCAGAT
TGAAGTTACGAGTCTTATCTTACTGAAGTTAT
Found at i:60850653 original size:15 final size:16
Alignment explanation
Indices: 60850622--60850655 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
60850612 CGACCCACAT
60850622 AAACAAAGAACAAAAA
1 AAACAAAGAACAAAAA
*
60850638 AAACAAA-AATAAAAA
1 AAACAAAGAACAAAAA
60850653 AAA
1 AAA
60850656 ACCCAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (16 bp):
AAACAAAGAACAAAAA
Found at i:60850663 original size:17 final size:16
Alignment explanation
Indices: 60850622--60850668 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
60850612 CGACCCACAT
60850622 AAACAAAGAAC-AAAAA
1 AAACAAA-AACAAAAAA
*
60850638 AAACAAAAATAAAAAA
1 AAACAAAAACAAAAAA
*
60850654 AAACCCAAAACAAAA
1 AAA-CAAAAACAAAA
60850669 TTAGACAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 2 0.08
16 15 0.58
17 9 0.35
ACGTcount: A:0.81, C:0.15, G:0.02, T:0.02
Consensus pattern (16 bp):
AAACAAAAACAAAAAA
Found at i:60852034 original size:3 final size:3
Alignment explanation
Indices: 60852018--60852059 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
60852008 CATTTTAAAG
* *
60852018 TAT TAT TCT T-T TAT TAT TAT TAT TAT TAT TAT TTT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
60852060 AACTATCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:60853233 original size:253 final size:253
Alignment explanation
Indices: 60852779--60853235 Score: 700
Period size: 253 Copynumber: 1.8 Consensus size: 253
60852769 AAGGCAACAT
* *
60852779 TTCGTGTTTGGAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
1 TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
* * * *
60852844 AACAACCGAATATCCTTTTTAAAATTTCAATGCGTAAGTTTTGGAAATCCTGAGATGATTTTGGA
66 AACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGGA
** * *
60852909 ATCGAAGGTTTGAAATATTGTGTCCTACGTGCTGGATGTGATATTTTATTTCTTCGAAACAAGAG
131 ATCGAAGGTTTGAAATACCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAGAA
60852974 AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
196 AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
* * * * *
60853032 TTCGTGTTCGAAAATTTTGAG-AAATTGTGCCCTACGTGTTGGGTTTCGATTTATCATTTGACTG
1 TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
*
60853096 AACAACCGAATATCCTTTTTTAAAATTTCAATACATGAGTTTTGGAAATCATGAGATAATTTTGG
66 AACAACCGAATATCC-TTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGG
* * * * * *
60853161 TATTGGAGGTTTGAAATGCCGTGTCCTACGTGTTGGATGTGATATTTTATTTCTCCGGAACAAGA
130 AATCGAAGGTTTGAAATACCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAGA
60853226 AAATCTTAAT
195 AAATCTTAAT
60853236 ATCCACTTCA
Statistics
Matches: 181, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
252 54 0.30
253 127 0.70
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.37
Consensus pattern (253 bp):
TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
AACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGGA
ATCGAAGGTTTGAAATACCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAGAA
AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
Found at i:60858569 original size:21 final size:21
Alignment explanation
Indices: 60858543--60858584 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
60858533 AAATAAAAAA
60858543 TTATTT-TTAACTAAAAAATAC
1 TTATTTATTAA-TAAAAAATAC
60858564 TTATTTAATTAATAAAAAATA
1 TTATTT-ATTAATAAAAAATA
60858585 ATTTTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATTTATTAATAAAAAATAC
Found at i:60864505 original size:32 final size:31
Alignment explanation
Indices: 60864450--60864524 Score: 132
Period size: 32 Copynumber: 2.4 Consensus size: 31
60864440 TCTCCCTTTC
*
60864450 TTCTTTCTCTTTTCTTTTTTTTTTCTTTCTT
1 TTCTTTCTGTTTTCTTTTTTTTTTCTTTCTT
60864481 TTCTTTCTGTTTTCTTTTTTTTTTTCTTTCTT
1 TTCTTTCTGTTTTC-TTTTTTTTTTCTTTCTT
60864513 TTCTTTCTGTTT
1 TTCTTTCTGTTT
60864525 CATATGGCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 13 0.31
32 29 0.69
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (31 bp):
TTCTTTCTGTTTTCTTTTTTTTTTCTTTCTT
Found at i:60864539 original size:4 final size:4
Alignment explanation
Indices: 60864435--60864520 Score: 63
Period size: 4 Copynumber: 22.0 Consensus size: 4
60864425 GCGTTGAACC
** * *
60864435 TTCT TTCT CCCT TTC- TTCT TTCT CT-T TTCT TT-T TTTT TTCT TTCTT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T
* * *
60864481 TTCT TTCT GT-T TTCT TTTT TTTT TTCT TTCTT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT
60864521 GTTTCATATG
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
3 10 0.15
4 47 0.72
5 8 0.12
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:60867987 original size:34 final size:34
Alignment explanation
Indices: 60867949--60868021 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
60867939 GAATAATCCC
*
60867949 TTGAATATTAGCAATAAAACACCTAATTGCCCCA
1 TTGAATATTAGCAATAAAACACCCAATTGCCCCA
*
60867983 TTGAATATTAGCAATAAAACACCCAATTGCCCCC
1 TTGAATATTAGCAATAAAACACCCAATTGCCCCA
60868017 TTGAA
1 TTGAA
60868022 CTCTCTAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.26
Consensus pattern (34 bp):
TTGAATATTAGCAATAAAACACCCAATTGCCCCA
Found at i:60869217 original size:24 final size:24
Alignment explanation
Indices: 60869190--60869238 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
60869180 TTAAGATAGA
60869190 GCTAAGGTTTTTGAGTTAACCAGT
1 GCTAAGGTTTTTGAGTTAACCAGT
60869214 GCTAAGGTTTTTGAGTTAACCAGT
1 GCTAAGGTTTTTGAGTTAACCAGT
60869238 G
1 G
60869239 GACGTTTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (24 bp):
GCTAAGGTTTTTGAGTTAACCAGT
Found at i:60871218 original size:21 final size:20
Alignment explanation
Indices: 60871184--60871230 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
60871174 ATATATGTAC
60871184 AAATATACACAAAACAATAT
1 AAATATACACAAAACAATAT
*
60871204 AAATGATATACAAAACAATAT
1 AAAT-ATACACAAAACAATAT
*
60871225 ATATAT
1 AAATAT
60871231 GAACAGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATATACACAAAACAATAT
Found at i:60871227 original size:23 final size:21
Alignment explanation
Indices: 60871184--60871225 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
60871174 ATATATGTAC
60871184 AAAT-ATACACAAAACAATAT
1 AAATGATACACAAAACAATAT
*
60871204 AAATGATATACAAAACAATAT
1 AAATGATACACAAAACAATAT
60871225 A
1 A
60871226 TATATGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATGATACACAAAACAATAT
Found at i:60874440 original size:15 final size:14
Alignment explanation
Indices: 60874420--60874453 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
60874410 TACATCTCCC
*
60874420 TTTTTATTATTTTTA
1 TTTTTATT-TATTTA
60874435 TTTTTATTTATTTA
1 TTTTTATTTATTTA
60874449 TTTTT
1 TTTTT
60874454 GCTTAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:60874609 original size:96 final size:97
Alignment explanation
Indices: 60874445--60874628 Score: 264
Period size: 96 Copynumber: 1.9 Consensus size: 97
60874435 TTTTTATTTA
* * * * * *
60874445 TTTATTTTTGCTTAAGAATATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAATCATATCA
1 TTTATTTTTGCTTAAGAACATATCGAACCTTTTGACGCGAAAAAAGATGACAGCCAAGCACATCA
*
60874510 CCCTGGTTACTCAGCCT-ACACACTCCTAATT
66 CCCTAGTTACTCAGCCTAACACACTCCTAATT
* *
60874541 TTTATTTTTGCTTAAGAACATATCGAA-CTTATTGACGCGAAAAAAGATGACAGCCAAGCACCTT
1 TTTATTTTTGCTTAAGAACATATCGAACCTT-TTGACGCGAAAAAAGATGACAGCCAAGCACATC
60874605 ACCCTAGTTACTCAGCCTAACACA
65 ACCCTAGTTACTCAGCCTAACACA
60874629 TTCTTAAAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
95 3 0.04
96 69 0.90
97 5 0.06
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (97 bp):
TTTATTTTTGCTTAAGAACATATCGAACCTTTTGACGCGAAAAAAGATGACAGCCAAGCACATCA
CCCTAGTTACTCAGCCTAACACACTCCTAATT
Found at i:60881508 original size:22 final size:22
Alignment explanation
Indices: 60881483--60881525 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
60881473 GAATTTTCCC
60881483 AAAAGATTTTCTCCAATTTCTA
1 AAAAGATTTTCTCCAATTTCTA
60881505 AAAAGATTTTCTCCAATTTCT
1 AAAAGATTTTCTCCAATTTCT
60881526 CTCTGTGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (22 bp):
AAAAGATTTTCTCCAATTTCTA
Found at i:60883033 original size:4 final size:4
Alignment explanation
Indices: 60883026--60883066 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
60883016 AAAAAATAAT
60883026 AATA AAT- AATA AAT- AATA TAATA TAATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA -AATA -AATA AATA AATA AATA A
60883067 GAAAGAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 6 0.18
4 19 0.56
5 9 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:60883035 original size:7 final size:7
Alignment explanation
Indices: 60883023--60883089 Score: 59
Period size: 7 Copynumber: 9.4 Consensus size: 7
60883013 TAAAAAAAAT
60883023 AATAATA
1 AATAATA
60883030 AATAATA
1 AATAATA
60883037 AATAATATA
1 AAT-A-ATA
60883046 ATATAATA
1 A-ATAATA
60883054 AATAAATA
1 AAT-AATA
*
60883062 AATAAGA
1 AATAATA
*
60883069 AAGAA-A
1 AATAATA
60883075 AATAA-A
1 AATAATA
60883081 AATAA-A
1 AATAATA
60883087 AAT
1 AAT
60883090 TGGGTTGCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
6 15 0.28
7 19 0.36
8 12 0.23
9 5 0.09
10 2 0.04
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (7 bp):
AATAATA
Found at i:60883041 original size:17 final size:17
Alignment explanation
Indices: 60883019--60883086 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
60883009 CATCTAAAAA
60883019 AAATAATAATAAATAAT
1 AAATAATAATAAATAAT
60883036 AAATAAT-ATAATATAAT
1 AAATAATAATAA-ATAAT
*
60883053 AAAT-A-AATAAATAAG
1 AAATAATAATAAATAAT
* *
60883068 AAAGAAAAATAAA-AAT
1 AAATAATAATAAATAAT
60883084 AAA
1 AAA
60883087 AATTGGGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
15 7 0.16
16 15 0.34
17 22 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AAATAATAATAAATAAT
Found at i:60887676 original size:92 final size:93
Alignment explanation
Indices: 60887565--60887734 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
60887555 GCCCATAAGT
* * *
60887565 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGTATCCATAAGTGAACTCGGACTCAACTC-A
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60887629 CGAGCTCGAATGCCTAGTTACATCTCAC
66 CGAGCTCGAATGCCTAGTTACATCTCAC
*
60887657 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
60887722 CGAGTTCGGATGC
66 CGAGCTCGAATGC
60887735 TAAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 59 0.83
93 12 0.17
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:60887729 original size:46 final size:46
Alignment explanation
Indices: 60887557--60887725 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
60887547 TGTAACCCGC
* * *
60887557 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
*
60887603 CCATAAGTGAACTCGGACTCAACTC-ACGAGCTCGAATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAA---C-A-TTCGCAT
* * *
60887652 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
60887695 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
60887726 TTCGGATGCT
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 12 0.12
46 65 0.63
47 12 0.12
48 2 0.02
49 2 0.02
50 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
Found at i:60891786 original size:93 final size:93
Alignment explanation
Indices: 60891679--60891849 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
60891669 CCATAAGTGA
* * * *
60891679 AACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTTGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
60891744 GAGCTCAGATGCCTAGTTACATCTCTCG
66 GAGCTCAGATGCCTAGTTACATCTCTCG
* *
60891772 AACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
60891837 GAGTTCGGATGCC
66 GAGCTCAGATGCC
60891850 CAAACATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCAGATGCCTAGTTACATCTCTCG
Found at i:60891845 original size:46 final size:46
Alignment explanation
Indices: 60891669--60891845 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
60891659 TGTAACCCGC
* * *
60891669 CCATAAGTGAAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTG-AACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
60891716 CCATAAGTGAACTTGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
60891762 ACATCTCTCGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
60891809 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60891846 TGCCCAAACA
Statistics
Matches: 103, Mismatches: 20, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 57 0.55
47 37 0.36
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:60894252 original size:15 final size:15
Alignment explanation
Indices: 60894232--60894272 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
60894222 ATAGAAAACC
60894232 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
60894247 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
60894262 GGATAAAGAAA
1 GAATAAAGAAA
60894273 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:60894281 original size:15 final size:15
Alignment explanation
Indices: 60894234--60894281 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
60894224 AGAAAACCGA
60894234 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
60894248 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
60894264 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
60894279 ATA
1 ATA
60894282 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:60897373 original size:46 final size:46
Alignment explanation
Indices: 60897209--60897380 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
60897199 TAACCCGCCC
* * *
60897209 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
*
60897254 ATAAGTGAACT-GGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCT
* * *
60897303 CT---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
*
60897346 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60897381 TGCCCAAACA
Statistics
Matches: 106, Mismatches: 10, Indels: 21
0.77 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 23 0.22
45 11 0.10
46 34 0.32
47 23 0.22
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
Found at i:60897392 original size:91 final size:90
Alignment explanation
Indices: 60897215--60897392 Score: 259
Period size: 91 Copynumber: 2.0 Consensus size: 90
60897205 GCCCATAAGT
*
60897215 GAACTCGGACTCAACTCAACGAGCTCGGGCGTCGCATCCATAAGTGAACTGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTGGACTCAACTCAACG
* *
60897280 AGCTCGGATGCCTAGTTACATCTCTC
66 AGCTCGGATGCCCAG-AACATCTCTC
* * *
60897306 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTCGCATCCATAAGTGAACT-GGACTCAACTCAA
*
60897371 CGAGTTCGGATGCCCA-AACATC
64 CGAGCTCGGATGCCCAGAACATC
60897393 CTAGTGACAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
91 33 0.42
92 18 0.23
93 27 0.35
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (90 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTGGACTCAACTCAACG
AGCTCGGATGCCCAGAACATCTCTC
Found at i:60897399 original size:46 final size:45
Alignment explanation
Indices: 60897212--60897399 Score: 131
Period size: 46 Copynumber: 4.1 Consensus size: 45
60897202 CCCGCCCATA
* *
60897212 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CCAACATCC-T
*
60897256 AAGTGAACT-GGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA---ACATC-CT
* * * * * *
60897305 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCAAC-ATCCT
*
60897349 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCC-AACATCCT
60897395 AGTGA
1 AGTGA
60897400 CATGTCACTT
Statistics
Matches: 112, Mismatches: 15, Indels: 31
0.71 0.09 0.20
Matches are distributed among these distances:
44 28 0.25
45 10 0.09
46 41 0.37
47 23 0.21
49 9 0.08
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAACATCCT
Found at i:60899517 original size:46 final size:46
Alignment explanation
Indices: 60899452--60899725 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
60899442 TTATCTTTGA
* * * *
60899452 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
60899498 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
60899544 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
60899590 CATGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
60899636 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
60899682 CAGGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
60899726 ATCAAAGAGC
Statistics
Matches: 207, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 203 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:60904965 original size:14 final size:14
Alignment explanation
Indices: 60904946--60904980 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
60904936 CTAGCGTTAA
60904946 GCACTTTTATTTTT
1 GCACTTTTATTTTT
60904960 GCACTTTTATTTTT
1 GCACTTTTATTTTT
60904974 GCACTTT
1 GCACTTT
60904981 CAAATGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.17, G:0.09, T:0.60
Consensus pattern (14 bp):
GCACTTTTATTTTT
Found at i:60905495 original size:40 final size:40
Alignment explanation
Indices: 60905400--60905480 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
60905390 GCGTACCTGG
*
60905400 GAAAAGAAT-AAA-AAAAACAGAATTAAAAGTTTTGATCT
1 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGATCT
60905438 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGAT-T
1 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGATCT
60905477 GAAA
1 GAAA
60905481 TTTCAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
38 8 0.20
39 8 0.20
40 24 0.60
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.23
Consensus pattern (40 bp):
GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGATCT
Found at i:60906227 original size:10 final size:10
Alignment explanation
Indices: 60906211--60906259 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
60906201 TAAATTCTAG
60906211 AAGATAAATA
1 AAGATAAATA
* *
60906221 TAGATAATTA
1 AAGATAAATA
*
60906231 AAGATAATTA
1 AAGATAAATA
60906241 AAGATAAATGA
1 AAGATAAAT-A
60906252 AA-ATAAAT
1 AAGATAAAT
60906260 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 31 0.91
11 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (10 bp):
AAGATAAATA
Found at i:60906899 original size:107 final size:105
Alignment explanation
Indices: 60906705--60906938 Score: 272
Period size: 107 Copynumber: 2.2 Consensus size: 105
60906695 AAATGCAAGA
* * * * * * *
60906705 CCATATAGTTGAGATCCATGGCATTGTGTGATACGAAACTACTCACGGTGTTGCTTCTATAAGAT
1 CCATATGGCTGAGA-CCATGGCATTGTGTAATACAAAACCACTCACGGTATTGCTTCCATAAGAT
* * ** *
60906770 GAAGTTTGGATTGGCAGATCACGACATGATTAGGTGTAAGC
65 GAAGTCTAGATTGGCAGATCACGACATGAGAAGGTATAAGC
* *
60906811 CCATGTGGCTGAGACCAATGGCTTTGTGTAATACAAAACCACTCACGGTATTGGC-TCCAGTAAG
1 CCATATGGCTGAGACC-ATGGCATTGTGTAATACAAAACCACTCACGGTATT-GCTTCCA-TAAG
* *
60906875 ATGAAGTCTAGATTGGCATATCACGACATGAGAAGGTATAAGT
63 ATGAAGTCTAGATTGGCAGATCACGACATGAGAAGGTATAAGC
60906918 CCATATGGCTGAGACTCATGG
1 CCATATGGCTGAGAC-CATGG
60906939 TATAATATGA
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
105 2 0.02
106 44 0.41
107 60 0.56
108 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (105 bp):
CCATATGGCTGAGACCATGGCATTGTGTAATACAAAACCACTCACGGTATTGCTTCCATAAGATG
AAGTCTAGATTGGCAGATCACGACATGAGAAGGTATAAGC
Found at i:60909664 original size:6 final size:6
Alignment explanation
Indices: 60909653--60909685 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
60909643 AGAGAGCTCA
60909653 ATGGGC ATGGGC ATGGGC ATGGGC ATGGGC ATG
1 ATGGGC ATGGGC ATGGGC ATGGGC ATGGGC ATG
60909686 AGACCTGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.48, T:0.18
Consensus pattern (6 bp):
ATGGGC
Found at i:60917847 original size:11 final size:11
Alignment explanation
Indices: 60917831--60917855 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60917821 AGTTGAGGCG
60917831 ATGACAAATAT
1 ATGACAAATAT
60917842 ATGACAAATAT
1 ATGACAAATAT
60917853 ATG
1 ATG
60917856 TAGGGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (11 bp):
ATGACAAATAT
Found at i:60927847 original size:37 final size:37
Alignment explanation
Indices: 60927774--60927847 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
60927764 CAAAAAATAT
* *
60927774 ACATATAAAATATTTACAATAATGATGTAAATAAACA
1 ACATATAAAATATTTACAATAATCATATAAATAAACA
60927811 ACATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ACATATAAAATATTT-ACAATAATCATATAAAT-AAACA
60927848 TTTAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 7 0.21
37 25 0.76
38 1 0.03
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.28
Consensus pattern (37 bp):
ACATATAAAATATTTACAATAATCATATAAATAAACA
Found at i:60929684 original size:83 final size:86
Alignment explanation
Indices: 60929332--60929720 Score: 360
Period size: 88 Copynumber: 4.4 Consensus size: 86
60929322 TCAACTTATT
* ** * *
60929332 TCTCGCAATATGAATTGACTTTTAAAAACTAGACATT-AAAAACAAAAATTGAAAAATAGCTCAG
1 TCTCGCAATATGAGTTGA-TTTTTGAAAC-AGA-ATTGAAAAACAGAAATTG-AAAATACCTCAG
* * ** *
60929396 CACGTGAGCAAAGGCTCAACTCACT
62 CATGTGACCCGAGGCTCAACTCACC
** ** * * ** *
60929421 TCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCCAAACAGATTTTGGAAACACCTTGGTA
1 TCTCGCAATATGAGTTGATTTTTG-AAACAGAA-TTGAAAAACAGAAATTGAAAATACCTCAGCA
*
60929486 TGTAACCCGAGGCTCAACTCACC
64 TGTGACCCGAGGCTCAACTCACC
* * **
60929509 TCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAATTGAAAATACCTCAG
1 TCTCGCAATATGAGTTGATTTTTG-AAA-CA-GAATTG-AAAAACAGAAATTGAAAATACCTCAG
60929574 C--GTG-CCTCGAGGCTCAACTCACC
62 CATGTGACC-CGAGGCTCAACTCACC
*
60929597 TCTCGCAATATGAGTTGA-TTTTG-AACAGAATTG-AAAACAGAAATTGAAAAGACCTCAGCATG
1 TCTCGCAATATGAGTTGATTTTTGAAACAGAATTGAAAAACAGAAATTGAAAATACCTCAGCATG
*
60929659 TGAGCCGAGGCTCAACTCACC
66 TGACCCGAGGCTCAACTCACC
*
60929680 TCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
1 TCTCGCAATATGAGTTGATTTTTG--AAACAG-AATTGAAA
60929721 TTACCTCAGC
Statistics
Matches: 243, Mismatches: 41, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
81 23 0.09
83 41 0.17
84 8 0.03
85 2 0.01
87 13 0.05
88 101 0.42
89 37 0.15
90 18 0.07
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (86 bp):
TCTCGCAATATGAGTTGATTTTTGAAACAGAATTGAAAAACAGAAATTGAAAATACCTCAGCATG
TGACCCGAGGCTCAACTCACC
Found at i:60929727 original size:75 final size:76
Alignment explanation
Indices: 60929665--60929962 Score: 257
Period size: 75 Copynumber: 3.8 Consensus size: 76
60929655 CATGTGAGCC
* **
60929665 GAGGCTCAACTCACCTCTCGCGATATGAGTTGA-TTTTTGACAAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAAGACCTCA
60929729 GCATGT--CCT
66 GCATGTGGCCT
* ***
60929738 GAGGCACAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAGAGCAGAAATTGGAAAGCAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAA-A-CAGAAATT-GAAA--AG-
* ** *
60929803 AATCGAAAATACCTCAGTGTGCCCT
60 -A-C----CT-CAGCA-TGTGGCCT
* **
60929828 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACAGAAATTGAAAAGACCTC
*
60929893 AGC--GTGTCCT
65 AGCATGTGGCCT
*
60929903 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAAGCAAAAATTGAAAAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAA-CAGAAATTGAAAAG
60929963 CAGAAATTGA
Statistics
Matches: 182, Mismatches: 24, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
73 31 0.17
74 10 0.05
75 60 0.33
76 8 0.04
77 4 0.02
78 2 0.01
79 1 0.01
81 1 0.01
82 1 0.01
83 1 0.01
84 1 0.01
86 1 0.01
87 3 0.02
88 7 0.04
89 7 0.04
90 36 0.20
91 8 0.04
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (76 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAAGACCTCA
GCATGTGGCCT
Found at i:60929766 original size:73 final size:72
Alignment explanation
Indices: 60929627--60929775 Score: 219
Period size: 73 Copynumber: 2.0 Consensus size: 72
60929617 TTGAACAGAA
* *
60929627 TTGAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATG
1 TTGAAAACAGAAATTGAAAAGACCTCAGCATGT--GCCGAGGCACAACTCACCTCTCGCAATATG
60929692 AGTTGATTT
64 AGTTGATTT
**
60929701 TTGACAAACAGAAATTGAAATTACCTCAGCATGT-CCTGAGGCACAACTCACCTCTCGCAATATG
1 TTGA-AAACAGAAATTGAAAAGACCTCAGCATGTGCC-GAGGCACAACTCACCTCTCGCAATATG
60929765 AGTTGATTT
64 AGTTGATTT
60929774 TT
1 TT
60929776 TTTTAAGAGC
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
72 2 0.03
73 36 0.52
74 4 0.06
75 27 0.39
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAAAGACCTCAGCATGTGCCGAGGCACAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:60929886 original size:165 final size:164
Alignment explanation
Indices: 60929557--60930118 Score: 698
Period size: 165 Copynumber: 3.4 Consensus size: 164
60929547 AAAAAACATT
* *
60929557 AATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TT
1 AATTGAAATTACCTCAGCATGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * *
60929617 TT--GAACAG-AATT-GAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTC
65 TTAAGAGCAGAAATTGGAAAGCAGAAATTGAAAATACCTCAG--TGTG-CCCTGAGGCTCAACTC
*
60929677 ACCTCTCGCGATATGAGTTGA--TTTTTGACAAACAGA
127 ACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGA
*
60929713 AATTGAAATTACCTCAGCATGTCCTGAGGCACAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
*
60929778 TTAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACC
65 TTAAGAGCAGAAATTGGAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACC
*
60929843 TCTCGCAATATGAGTTGATTTTTTTGACAAACATA
130 TCTCGCAATATGAGTTGATTTTTTTGACAAACAGA
*
60929878 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * * * **
60929943 GAAAAGCAAAAATTGAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCT
66 TAAGAGCAGAAATTGGAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCT
* *
60930008 CTCGCAATATGAGCTGATTTTTGAAAAACAGAAATTGAAGAAAACAGA
131 CTCGCAATATGAGTTGATTTTT------------TTG-A-CAAACAGA
60930056 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
60930119 GAAAAACATA
Statistics
Matches: 356, Mismatches: 23, Indels: 32
0.87 0.06 0.08
Matches are distributed among these distances:
156 51 0.14
157 3 0.01
161 4 0.01
162 2 0.01
163 41 0.12
164 90 0.25
165 93 0.26
176 3 0.01
177 1 0.00
178 68 0.19
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (164 bp):
AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
TAAGAGCAGAAATTGGAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTTTGACAAACAGA
Found at i:60929960 original size:14 final size:14
Alignment explanation
Indices: 60929941--60929975 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
60929931 GTTGATTTTT
60929941 TTGAAAAGCAAAAA
1 TTGAAAAGCAAAAA
*
60929955 TTGAAAAGCAGAAA
1 TTGAAAAGCAAAAA
60929969 TTGAAAA
1 TTGAAAA
60929976 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAAAAA
Found at i:60930028 original size:89 final size:91
Alignment explanation
Indices: 60929871--60930131 Score: 399
Period size: 89 Copynumber: 2.9 Consensus size: 91
60929861 TTTTTTTGAC
* *
60929871 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
60929936 TTTTTTTGAAAAGCAAAAATTG-A-A
66 TTTTTTTGAAAAACAAAAATTGAAGA
* * * *
60929960 AAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
1 AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
60930025 --TTTTTGAAAAACAGAAATTGAAGA
66 TTTTTTTGAAAAACAAAAATTGAAGA
60930049 AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
60930114 --TTTTTGAAAAACATAAAT
66 TTTTTTTGAAAAACAAAAAT
60930132 AAAACATCAT
Statistics
Matches: 157, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
87 18 0.11
88 1 0.01
89 138 0.88
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (91 bp):
AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAAAAACAAAAATTGAAGA
Found at i:60930053 original size:16 final size:16
Alignment explanation
Indices: 60930032--60930062 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60930022 TGATTTTTGA
60930032 AAAACAGAAATTGAAG
1 AAAACAGAAATTGAAG
60930048 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
60930063 ATTACCTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:60942228 original size:37 final size:37
Alignment explanation
Indices: 60942157--60942228 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
60942147 AAAAATATAT
* *
60942157 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
60942194 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
60942229 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:60942777 original size:24 final size:23
Alignment explanation
Indices: 60942750--60942794 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
60942740 GTTTTCTTGA
60942750 AATAAAAAGGAAAAAAAAACAATG
1 AATAAAAA-GAAAAAAAAACAATG
* *
60942774 AATAAATATAAAAAAAAACAA
1 AATAAAAAGAAAAAAAAACAA
60942795 GGTAAGCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (23 bp):
AATAAAAAGAAAAAAAAACAATG
Found at i:60943619 original size:23 final size:22
Alignment explanation
Indices: 60943593--60943650 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
60943583 ATATAGTATT
60943593 TAAAATATATACATAAG-ATGGTA
1 TAAAATATATACA-AAGAAT-GTA
* *
60943616 TAAAAATATGTACAAGGAATGTA
1 T-AAAATATATACAAAGAATGTA
60943639 TAAGAATATATA
1 TAA-AATATATA
60943651 TAATTAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 2 0.07
23 14 0.48
24 13 0.45
ACGTcount: A:0.53, C:0.03, G:0.14, T:0.29
Consensus pattern (22 bp):
TAAAATATATACAAAGAATGTA
Found at i:60943811 original size:20 final size:20
Alignment explanation
Indices: 60943786--60943827 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
60943776 TAAATAATAG
60943786 TATTAGAAAT-TACAATATAA
1 TATTAGAAATATAC-ATATAA
60943806 TATTAGAAATATACATATAA
1 TATTAGAAATATACATATAA
60943826 TA
1 TA
60943828 GTAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
TATTAGAAATATACATATAA
Found at i:60943840 original size:22 final size:23
Alignment explanation
Indices: 60943779--60943869 Score: 81
Period size: 22 Copynumber: 4.3 Consensus size: 23
60943769 ATATATATAA
60943779 ATAATAGTATTAGAAAT-TACA-
1 ATAATAGTATTAGAAATATACAT
*
60943800 AT-ATAATATTAGAAATATACAT
1 ATAATAGTATTAGAAATATACAT
* *
60943822 ATAATAGTAATA-AAATATATA-
1 ATAATAGTATTAGAAATATACAT
*
60943843 ACTAATAATATTA-AAATAT--AT
1 A-TAATAGTATTAGAAATATACAT
60943864 ATAATA
1 ATAATA
60943870 AATATAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
20 19 0.32
21 8 0.14
22 25 0.42
23 7 0.12
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (23 bp):
ATAATAGTATTAGAAATATACAT
Found at i:60943868 original size:20 final size:20
Alignment explanation
Indices: 60943802--60943909 Score: 80
Period size: 22 Copynumber: 5.2 Consensus size: 20
60943792 AAATTACAAT
60943802 ATAATATTAGAAATATACATATA
1 ATAATATTA-AAATAT--ATATA
* *
60943825 ATAGTAATAAAATATATAACTA
1 ATAATATTAAAATATAT-A-TA
60943847 ATAATATTAAAATATATATA
1 ATAATATTAAAATATATATA
*
60943867 ATAA-ATATAAAA-A-AAAT-
1 ATAATAT-TAAAATATATATA
*
60943884 ATAATATTGAAAACATATATA
1 ATAATATT-AAAATATATATA
60943905 CATAA
1 -ATAA
60943910 CATACCTGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
17 5 0.07
18 9 0.13
19 4 0.06
20 16 0.23
21 2 0.03
22 27 0.39
23 7 0.10
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAATATTAAAATATATATA
Found at i:60943877 original size:42 final size:38
Alignment explanation
Indices: 60943799--60943909 Score: 100
Period size: 42 Copynumber: 2.7 Consensus size: 38
60943789 TAGAAATTAC
*
60943799 AATATAATATTAGAAATATACATATAAT-AGTAATAAAATATA
1 AATATAATATTA-AAATAT--ATATAATAAATAATAAAA-A-A
60943841 TAACTAATAATATTAAAATATATATAATAAAT-ATAAAAAA
1 -AA-T-ATAATATTAAAATATATATAATAAATAATAAAAAA
*
60943881 AATATAATATTGAAAACATATATACATAA
1 AATATAATATT-AAAATATATATA-ATAA
60943910 CATACCTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
37 8 0.13
38 12 0.20
39 6 0.10
40 1 0.02
41 1 0.02
42 13 0.21
43 4 0.07
44 7 0.11
45 9 0.15
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (38 bp):
AATATAATATTAAAATATATATAATAAATAATAAAAAA
Found at i:60944111 original size:15 final size:15
Alignment explanation
Indices: 60944087--60944121 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
60944077 CTATATATAA
60944087 ATAT-ATATACATAC
1 ATATAATATACATAC
60944101 ATATAATATACATAC
1 ATATAATATACATAC
60944116 AT-TAAT
1 ATATAAT
60944122 TAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATATACATAC
Done.