Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 275 of 378
Found at i:82744489 original size:15 final size:15
Alignment explanation
Indices: 82744461--82744508 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
82744451 AACCAACTTT
* *
82744461 CAAAACCAAAACCAA
1 CAAAACCCATACCAA
*
82744476 CAAAATCCC-TACCAG
1 CAAAA-CCCATACCAA
82744491 CAAAACCCATACCAA
1 CAAAACCCATACCAA
82744506 CAA
1 CAA
82744509 TTCTACTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 3 0.11
15 22 0.81
16 2 0.07
ACGTcount: A:0.54, C:0.38, G:0.02, T:0.06
Consensus pattern (15 bp):
CAAAACCCATACCAA
Found at i:82746748 original size:24 final size:24
Alignment explanation
Indices: 82746679--82746750 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
82746669 ATGCTATCCG
**
82746679 GAGCTCCCTGA-TAATAACTCTTCG
1 GAGCTCCCTGATTAA-AACTCTTAT
* * *
82746703 GAGTTACCTG-TT-AAGCTC-TAT
1 GAGCTCCCTGATTAAAACTCTTAT
82746724 GAGCTCCCTGATTAAAACTCTTAT
1 GAGCTCCCTGATTAAAACTCTTAT
82746748 GAG
1 GAG
82746751 TTTCTTGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
21 9 0.25
22 6 0.17
23 6 0.17
24 15 0.42
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
GAGCTCCCTGATTAAAACTCTTAT
Found at i:82747544 original size:20 final size:23
Alignment explanation
Indices: 82747496--82747545 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
82747486 ATCATGTTAG
* *
82747496 ATGTTAGAATTGGCTTGCTTATA
1 ATGTTTGAATTGGCTTGCGTATA
82747519 ATGTTTGAATTGGC-TG-GTAT-
1 ATGTTTGAATTGGCTTGCGTATA
82747539 ATGTTTG
1 ATGTTTG
82747546 CAAGTATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 3 0.12
22 2 0.08
23 13 0.52
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (23 bp):
ATGTTTGAATTGGCTTGCGTATA
Found at i:82749780 original size:27 final size:28
Alignment explanation
Indices: 82749723--82749792 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
82749713 AAACTTGTAC
*
82749723 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
82749751 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
82749778 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
82749793 GACACACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:82759435 original size:44 final size:43
Alignment explanation
Indices: 82759387--82759526 Score: 151
Period size: 42 Copynumber: 3.3 Consensus size: 43
82759377 ATGTGTTATT
* *
82759387 GTGTAAGACGACATCTGGGACATTGGCATCGATTTGTGATTTAC
1 GTGTAAGACCATATCTGGGACATTGGCATCGATTT-TGATTTAC
* * * *
82759431 GTGTAAGACCATGTCTAGGACATTGGCATCG-TATATGATTT-T
1 GTGTAAGACCATATCTGGGACATTGGCATCGAT-TTTGATTTAC
* *
82759473 GTGTAAGACCTTATCTGGGACAGTGGCATCGATATTTGA-TTAC
1 GTGTAAGACCATATCTGGGACATTGGCATCGAT-TTTGATTTAC
*
82759516 ATGTAAGACCA
1 GTGTAAGACCA
82759527 CGTCTAGGAC
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.37
43 22 0.28
44 28 0.35
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACATTGGCATCGATTTTGATTTAC
Found at i:82759494 original size:42 final size:43
Alignment explanation
Indices: 82759372--82759513 Score: 153
Period size: 44 Copynumber: 3.3 Consensus size: 43
82759362 ACATAGGATT
* * *
82759372 TCGATATGTG-TTATTGTGTAAGACGACATCTGGGACATTGGCA
1 TCGATATATGATT-TTGTGTAAGACCATATCTGGGACATTGGCA
* * * * *
82759415 TCGATTTGTGATTTACGTGTAAGACCATGTCTAGGACATTGGCA
1 TCGATATATGATTT-TGTGTAAGACCATATCTGGGACATTGGCA
* *
82759459 TCG-TATATGATTTTGTGTAAGACCTTATCTGGGACAGTGGCA
1 TCGATATATGATTTTGTGTAAGACCATATCTGGGACATTGGCA
*
82759501 TCGATATTTGATT
1 TCGATATATGATT
82759514 ACATGTAAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 29 0.35
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (43 bp):
TCGATATATGATTTTGTGTAAGACCATATCTGGGACATTGGCA
Found at i:82759513 original size:86 final size:85
Alignment explanation
Indices: 82759385--82759541 Score: 226
Period size: 86 Copynumber: 1.8 Consensus size: 85
82759375 ATATGTGTTA
* * * *
82759385 TTGTGTAAGACGACATCTGGGACATTGGCATCGATTTGTGATTTACGTGTAAGACCATGTCTAGG
1 TTGTGTAAGACCACATCTGGGACAGTGGCATCGATTTGTGA-TTACATGTAAGACCACGTCTAGG
82759450 ACATTGGCATCGTATATGATT
65 ACATTGGCATCGTATATGATT
**
82759471 TTGTGTAAGACCTTATCTGGGACAGTGGCATCGATATT-TGATTACATGTAAGACCACGTCTAGG
1 TTGTGTAAGACCACATCTGGGACAGTGGCATCGAT-TTGTGATTACATGTAAGACCACGTCTAGG
*
82759535 ACGTTGG
65 ACATTGG
82759542 TATTGTACGA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 27 0.43
86 34 0.54
87 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (85 bp):
TTGTGTAAGACCACATCTGGGACAGTGGCATCGATTTGTGATTACATGTAAGACCACGTCTAGGA
CATTGGCATCGTATATGATT
Found at i:82772487 original size:68 final size:67
Alignment explanation
Indices: 82772381--82772538 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 67
82772371 TTCACTTGGA
* ** * *
82772381 ATCACACATGCGACCTAGCTACATTTATCTCTCCCGTAGCTCTTTTGT-CTACATG-GGATACAT
1 ATCACACATGTGACCTAGCTACACATATATCT-CCGTAGCTCTCTTGTAC-ACATGAGG-TACA-
82772444 CTC-GT
62 CTCAGT
* *
82772449 ATCACACATGTGACCTAGCTACTACATAGTATCT-CGTAGCTCTCTTGTACACATGATGTGCACT
1 ATCACACATGTGACCTAGCTAC-ACATA-TATCTCCGTAGCTCTCTTGTACACATGAGGTACACT
82772513 CAGT
64 CAGT
* *
82772517 ACCATACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
82772539 GCTCCATTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
67 3 0.04
68 64 0.84
69 5 0.07
70 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACACATATATCTCCGTAGCTCTCTTGTACACATGAGGTACACTCA
GT
Found at i:82785471 original size:21 final size:22
Alignment explanation
Indices: 82785445--82785485 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
82785435 TACTAGCCAC
82785445 AGGGGC-ACACACCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
*
82785466 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACACCCGTGTG
82785486 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:82789143 original size:20 final size:20
Alignment explanation
Indices: 82789118--82789164 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
82789108 GAGGGGCATG
82789118 GGCGTGTCCCAAAGCACACA
1 GGCGTGTCCCAAAGCACACA
* *
82789138 GGCGTGTCCCCAAGCACACG
1 GGCGTGTCCCAAAGCACACA
82789158 GGCGTGT
1 GGCGTGT
82789165 GAGGCTTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
GGCGTGTCCCAAAGCACACA
Found at i:82789646 original size:43 final size:44
Alignment explanation
Indices: 82789488--82789644 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 44
82789478 TGTGATTTCG
* * * **
82789488 TGTAAGACCACGTCTAGGACGTTGGCATCGAT-TTGAGATTTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGACTTACA
* * * *
82789532 TGTAAGACCATGTTTGGGACATCGGCATCG-TATTTGACTT-CA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGACTTACA
* *
82789574 TGTAAGACC-CTGTCTGGGACAG-TGACATTGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGACTTACA
*
82789617 TGTAAGACCACGTCTGGGACGTTTGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
82789645 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 25 0.28
43 36 0.40
44 28 0.31
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGACTTACA
Found at i:82792504 original size:53 final size:53
Alignment explanation
Indices: 82792419--82792625 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
82792409 TTCCTAATTA
* **
82792419 AACTTACCATTGCCATATCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * * *
82792472 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTTCCTTATTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * * *
82792526 TAGTTTATCAATGACATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* * * *
82792581 AAGTTACCAATGCCATGCCTTGGCATAGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
82792626 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 44 0.37
54 38 0.32
55 37 0.31
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:82800107 original size:54 final size:53
Alignment explanation
Indices: 82799919--82800107 Score: 171
Period size: 54 Copynumber: 3.5 Consensus size: 53
82799909 ATTTTCGTAT
* * * * * *
82799919 CTTGACATGGTCTTACGTGGTATCCTTGCCATATGAACTCACCATTCCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTTACCAATGCCATGC
* * * * ** * *
82799972 CTTGGCATGGTCTTACATGGGATCTTTGCCTTATTGTAGTTTATCAATGCCATGT
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTA-T-AAACTTACCAATGCCATGC
** * *
82800027 CTTGACATGGTCTTACATAATTTCCTTGCCTTGTAAAACTTACCAATGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTAT-AAACTTACCAATGCCATGC
* *
82800081 CTTGGCATGGTCTTACTTGGTATCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
82800108 AAACCTTAAT
Statistics
Matches: 103, Mismatches: 31, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
53 28 0.27
54 38 0.37
55 37 0.36
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTTACCAATGCCATGC
Found at i:82838121 original size:62 final size:59
Alignment explanation
Indices: 82838012--82838130 Score: 166
Period size: 62 Copynumber: 2.0 Consensus size: 59
82838002 ATCACTTTAA
* * * *
82838012 TATTAAACTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
82838071 TATTAAAATAATAGAATGTTTATCTATAAGATAAACATTAAATTAAATTTAATATTAAAT
1 TATTAAAATAATAGAATATTTATC---AAGATAAACATTAAATTAAATTTAATATTAAAT
82838131 TAATAAAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
59 21 0.40
62 31 0.60
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:82838129 original size:17 final size:17
Alignment explanation
Indices: 82838107--82838177 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
82838097 TAAGATAAAC
82838107 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
**
82838124 ATTAAATT-AATAAAAT
1 ATTAAATTAAATTTAAT
*
82838140 ACT--ATTAACA--TAAGT
1 ATTAAATTAA-ATTTAA-T
82838155 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
82838172 ATTAAA
1 ATTAAA
82838178 CTATTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
14 5 0.12
15 4 0.10
16 10 0.24
17 20 0.48
18 3 0.07
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:82838133 original size:11 final size:11
Alignment explanation
Indices: 82838107--82838194 Score: 53
Period size: 11 Copynumber: 7.9 Consensus size: 11
82838097 TAAGATAAAC
82838107 ATTAA-ATTAA
1 ATTAATATTAA
82838117 ATTTAATATTAA
1 A-TTAATATTAA
82838129 ATTAATA--AA
1 ATTAATATTAA
*
82838138 A-TACTATTAA
1 ATTAATATTAA
82838148 CA-TAAGTATTAA
1 -ATTAA-TATTAA
82838160 ATTAA-ATTTAA
1 ATTAATA-TTAA
82838171 TATTAAACTATTAA
1 -ATT-AA-TATTAA
*
82838185 AATAATATTA
1 ATTAATATTA
82838195 TTTTTGGAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 23
0.71 0.03 0.26
Matches are distributed among these distances:
8 4 0.06
9 3 0.05
10 4 0.06
11 23 0.37
12 20 0.32
13 4 0.06
14 4 0.06
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:82838181 original size:37 final size:36
Alignment explanation
Indices: 82838119--82838194 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
82838109 TAAATTAAAT
*
82838119 TTAATATTAAATTAATAAAATACTATTAACATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
82838156 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
82838192 TTA
1 TTA
82838195 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:82838614 original size:9 final size:9
Alignment explanation
Indices: 82838600--82838629 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
82838590 AAAATTTAAT
82838600 ATTAATTTA
1 ATTAATTTA
*
82838609 ATTAATTTG
1 ATTAATTTA
82838618 ATTAATTTA
1 ATTAATTTA
82838627 ATT
1 ATT
82838630 TTACTTGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:82842178 original size:10 final size:11
Alignment explanation
Indices: 82842163--82842200 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
82842153 GAACATGGTG
82842163 AATTTTAT-TT
1 AATTTTATATT
82842173 AATTTTATACTT
1 AATTTTATA-TT
82842185 AATTTT-TATT
1 AATTTTATATT
82842195 AATTTT
1 AATTTT
82842201 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTTTATATT
Found at i:82846251 original size:76 final size:76
Alignment explanation
Indices: 82846125--82846276 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
82846115 ACGTGTAGAT
82846125 AAATTCATCTTTCCTGCTAACTTTGTGATTCTACATTTTGAAGCAGACAAAGAAGTATCAATTAT
1 AAATTCATCTTTCCTGCTAACTTTGTGATTCTACATTTTGAAGCAGACAAAGAAGTATCAATTAT
*
82846190 CCTTGGAAGAC
66 CCTTGAAAGAC
82846201 AAATTCATCTTTCCTGCTAACTTTGTGATTCTACATTTTGAAGCAGACAAAGAAGTATCAATTAT
1 AAATTCATCTTTCCTGCTAACTTTGTGATTCTACATTTTGAAGCAGACAAAGAAGTATCAATTAT
82846266 CCTTGAAAGAC
66 CCTTGAAAGAC
82846277 CGTTCTTAGC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (76 bp):
AAATTCATCTTTCCTGCTAACTTTGTGATTCTACATTTTGAAGCAGACAAAGAAGTATCAATTAT
CCTTGAAAGAC
Found at i:82860484 original size:30 final size:30
Alignment explanation
Indices: 82860448--82860535 Score: 142
Period size: 30 Copynumber: 3.0 Consensus size: 30
82860438 ACACAGTCTA
82860448 GACACACGGGCGTGTCTATTGGCCGTGTGT
1 GACACACGGGCGTGTCTATTGGCCGTGTGT
82860478 GACACACGGGCGTGTCTATTGGCCGTGTGT
1 GACACACGGGCGTGTCTATTGGCCGTGTGT
* * *
82860508 GACACACGGGC-TGGCAATTGGGCGTGTG
1 GACACACGGGCGTGTCTATTGGCCGTGTG
82860536 GCACAAGTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 14 0.25
30 41 0.75
ACGTcount: A:0.15, C:0.23, G:0.39, T:0.24
Consensus pattern (30 bp):
GACACACGGGCGTGTCTATTGGCCGTGTGT
Found at i:82862006 original size:32 final size:32
Alignment explanation
Indices: 82861964--82862024 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
82861954 CAGAATAGAG
*
82861964 AATGCGGAAAGCAATACACCAACCCTAAAGCT
1 AATGCAGAAAGCAATACACCAACCCTAAAGCT
82861996 AATGCAGAAAGCAATACACCAACCCTAAA
1 AATGCAGAAAGCAATACACCAACCCTAAA
82862025 ACTCAAGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.28, G:0.13, T:0.11
Consensus pattern (32 bp):
AATGCAGAAAGCAATACACCAACCCTAAAGCT
Found at i:82866299 original size:40 final size:40
Alignment explanation
Indices: 82866237--82866325 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
82866227 ATGTTTGGCG
* *
82866237 CTTAGTGTGCGTATCGAGATAGCTTCGGCTATATAAAGCA
1 CTTAGTGTGCGAATCGAGATAGCTTCGACTATATAAAGCA
**
82866277 CTTAGTGTGCGAATC-AGAATAGCTTCGACTATATATGGCA
1 CTTAGTGTGCGAATCGAG-ATAGCTTCGACTATATAAAGCA
*
82866317 CGTAGTGTG
1 CTTAGTGTG
82866326 GGAGACTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.05
40 41 0.95
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (40 bp):
CTTAGTGTGCGAATCGAGATAGCTTCGACTATATAAAGCA
Found at i:82871660 original size:13 final size:13
Alignment explanation
Indices: 82871625--82871688 Score: 67
Period size: 14 Copynumber: 4.8 Consensus size: 13
82871615 CCAATGTTCC
82871625 ATTTCATATATCT
1 ATTTCATATATCT
82871638 ATTTTCATATATCTT
1 A-TTTCATATATC-T
* *
82871653 ATTT-ATATAACC
1 ATTTCATATATCT
*
82871665 ATTTCATATAACT
1 ATTTCATATATCT
82871678 ATTTCCATATA
1 ATTT-CATATA
82871689 ATCAATTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.09
13 18 0.41
14 20 0.45
15 2 0.05
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTCATATATCT
Found at i:82871702 original size:40 final size:40
Alignment explanation
Indices: 82871623--82871704 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
82871613 ATCCAATGTT
* * *
82871623 CCATTTCATATATCTATTTTCATATATCTTATTTATATAA
1 CCATTTCATATAACTATTTCCATATATCTAATTTATATAA
*
82871663 CCATTTCATATAACTATTTCCATATAATC-AATTTGTATAA
1 CCATTTCATATAACTATTTCCATAT-ATCTAATTTATATAA
82871703 CC
1 CC
82871705 TAACATAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.34, C:0.18, G:0.01, T:0.46
Consensus pattern (40 bp):
CCATTTCATATAACTATTTCCATATATCTAATTTATATAA
Found at i:82878969 original size:11 final size:11
Alignment explanation
Indices: 82878953--82879005 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
82878943 GTATATCATA
82878953 GCATATCATGT
1 GCATATCATGT
*
82878964 GCATATCAT-A
1 GCATATCATGT
*
82878974 ACATATCATGT
1 GCATATCATGT
*
82878985 GCATACCATG-
1 GCATATCATGT
*
82878995 CCATATCATGT
1 GCATATCATGT
82879006 ATAACAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (11 bp):
GCATATCATGT
Found at i:82878969 original size:21 final size:21
Alignment explanation
Indices: 82878945--82879005 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
82878935 TAAAATGAGT
82878945 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
82878966 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
82878987 ATACCAT-GCCATATCATGT
1 ATATCATAG-CATATCATGT
82879006 ATAACAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:82888587 original size:20 final size:21
Alignment explanation
Indices: 82888564--82888602 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
82888554 CACAACCAAA
*
82888564 TACCAAATT-TTAAAAATTTT
1 TACCAAATTCTCAAAAATTTT
82888584 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
82888603 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (21 bp):
TACCAAATTCTCAAAAATTTT
Found at i:82890389 original size:22 final size:22
Alignment explanation
Indices: 82890364--82890408 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
82890354 AAGCCGAAAT
82890364 AGGAACATGTTCGAGTGAACGA
1 AGGAACATGTTCGAGTGAACGA
82890386 AGGAACATGTTCGAGTGAACGA
1 AGGAACATGTTCGAGTGAACGA
82890408 A
1 A
82890409 CATGCTCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (22 bp):
AGGAACATGTTCGAGTGAACGA
Found at i:82897387 original size:48 final size:48
Alignment explanation
Indices: 82897316--82897484 Score: 200
Period size: 48 Copynumber: 3.6 Consensus size: 48
82897306 AAGCTAATGC
*
82897316 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * **
82897364 CATGTCCTAGACATGTCTTACACTGGCTGGTATATCTCGAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * * *
82897412 CATGTCCCAGACATGTCTTACACTGGCTCT-CA-AT-TTGGGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAGGCCGATG
*
82897458 CATGTCCCGGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
82897485 ACACATATCA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
46 32 0.31
47 2 0.02
48 70 0.67
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:82897477 original size:94 final size:97
Alignment explanation
Indices: 82897308--82897481 Score: 239
Period size: 94 Copynumber: 1.8 Consensus size: 97
82897298 CACACAACAA
* *
82897308 GCTAATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCTA
1 GCTAATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCATGTCCCA
82897373 GACATGTCTTACACTGGCTGGTATATCTCGAG
66 GACATGTCTTACACTGGCTGGTATATCTCGAG
* * * * *
82897405 GCTAATG-CATGTCCCAGACATGTCTTACACTGGCTCT-CA-AT-TTGGGGTCGATGCATGTCCC
1 GCTAATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAGGCCGATGCATGTCCC
*
82897466 GGACATGTCTTACACT
65 AGACATGTCTTACACT
82897482 AGCACACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
94 31 0.46
95 2 0.03
96 27 0.40
97 8 0.12
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (97 bp):
GCTAATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCATGTCCCA
GACATGTCTTACACTGGCTGGTATATCTCGAG
Found at i:82897493 original size:94 final size:97
Alignment explanation
Indices: 82897266--82897493 Score: 224
Period size: 94 Copynumber: 2.4 Consensus size: 97
82897256 CTATCAGTAT
* *
82897266 CGATGCCATGTCCCAGACAGGTCTTACACT-GACACACA-A---C-AAGCTAATGCCATGTCCCA
1 CGATG-CATGTCCCAGACATGTCTTACACTAG-CACACATATCTCGAGGCTAATGCCATGTCCCA
*
82897325 GACAGGTCTTACACTAGCTTGTATATCTCGAGGC
64 GACAGGTCTTACACTAGCTTGCATATCTCGAGGC
* * ****
82897359 CGATGCATGTCCTAGACATGTCTTACACTGGCTGGTATATCTCGAGGCTAATG-CATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCTAATGCCATGTCCCAGA
* * * * *
82897423 CATGTCTTACACTGGCTCT-CA-AT-TTGGGGT
66 CAGGTCTTACACTAGCT-TGCATATCTCGAGGC
*
82897453 CGATGCATGTCCCGGACATGTCTTACACTAGCACACATATC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACACATATC
82897494 ACCAAATGTC
Statistics
Matches: 108, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
92 24 0.22
93 7 0.06
94 38 0.35
95 2 0.02
96 28 0.26
97 9 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (97 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCTAATGCCATGTCCCAGA
CAGGTCTTACACTAGCTTGCATATCTCGAGGC
Found at i:82902927 original size:24 final size:24
Alignment explanation
Indices: 82902876--82902993 Score: 143
Period size: 23 Copynumber: 5.0 Consensus size: 24
82902866 GCTTTATCAT
*
82902876 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
82902901 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
82902925 ATAACTGGGGCATAAGCCC-TTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
82902948 ATAATTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
82902971 ATAATTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
82902994 GCACTTCCTC
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 42 0.50
24 30 0.36
25 12 0.14
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:82903068 original size:20 final size:20
Alignment explanation
Indices: 82903043--82903107 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
82903033 ATAAATACAC
82903043 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
82903063 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
82903083 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
82903103 CATGT
1 CATGT
82903108 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:82903074 original size:11 final size:11
Alignment explanation
Indices: 82903043--82903096 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
82903033 ATAAATACAC
82903043 CATGTGCATAT
1 CATGTGCATAT
*
82903054 CA--TACATAT
1 CATGTGCATAT
82903063 CATGTGCATAT
1 CATGTGCATAT
* *
82903074 CA--TACATGT
1 CATGTGCATAT
82903083 CATGTGCATAT
1 CATGTGCATAT
82903094 CAT
1 CAT
82903097 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:82905967 original size:40 final size:40
Alignment explanation
Indices: 82905922--82906051 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
82905912 CGGAATACAA
82905922 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
82905962 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
82906002 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
82906042 CCGGATATAA
1 CCGGATATAA
82906052 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:82913938 original size:40 final size:40
Alignment explanation
Indices: 82913893--82914022 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
82913883 CGGAATACAA
82913893 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
82913933 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
82913973 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
82914013 CCGGATATAA
1 CCGGATATAA
82914023 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:82916629 original size:19 final size:18
Alignment explanation
Indices: 82916592--82916635 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
82916582 ATACTTACAG
82916592 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
82916609 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
82916628 TACTAATT
1 TAATAATT
82916636 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:82921035 original size:40 final size:40
Alignment explanation
Indices: 82920908--82921037 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
82920898 ATGCTGGAAA
* *
82920908 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
82920948 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
82920988 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
82921028 TTATATCCGG
1 TTATATCCGG
82921038 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:82929112 original size:40 final size:40
Alignment explanation
Indices: 82928986--82929114 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
82928976 ATGCTGGAAA
* * * *
82928986 TTATATCCGGGTTAAGACCTGAAGGAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
* * **
82929025 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
82929065 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
82929105 TTATATCCGG
1 TTATATCCGG
82929115 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
39 25 0.34
40 49 0.66
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:82931465 original size:49 final size:49
Alignment explanation
Indices: 82931316--82931533 Score: 143
Period size: 49 Copynumber: 4.6 Consensus size: 49
82931306 TAAGATGCCA
* * * * *
82931316 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TAGCACAT--CAAAGTCG
1 ATGCCATGTCCCAGATA-GGTCTTACACTGACAT-TCATATAACGAAGTCG
* **
82931364 ATGCCATGTCCCAGACAGGTCTTACACTGACATTCATATATTGAAG-CTG
1 ATGCCATGTCCCAGATAGGTCTTACACTGACATTCATATAACGAAGTC-G
* * * * *
82931413 ATGCCGTGTCCCAGATGGGTCTTACACTGGC-TCTCATCTAACGATGTCG
1 ATGCCATGTCCCAGATAGGTCTTACACTGACAT-TCATATAACGAAGTCG
** * *
82931462 ATGCCATGTCTTAGATAGGTCTTACATTGACA--C--ACAAC-AAG-CTG
1 ATGCCATGTCCCAGATAGGTCTTACACTGACATTCATATAACGAAGTC-G
* *
82931506 ATGCCATGTCCCAAATAGGTCATACACT
1 ATGCCATGTCCCAGATAGGTCTTACACT
82931534 AGCTTGTATA
Statistics
Matches: 135, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 26 0.19
45 3 0.02
47 18 0.13
48 20 0.15
49 66 0.49
50 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGATAGGTCTTACACTGACATTCATATAACGAAGTCG
Found at i:82931580 original size:48 final size:48
Alignment explanation
Indices: 82931505--82931675 Score: 175
Period size: 48 Copynumber: 3.6 Consensus size: 48
82931495 ACAACAAGCT
* * * * *
82931505 GATGCCATGTCCCAAATAGGTCATACACTAGCTTGTATATCTCGAGGCT
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* * * * ** *
82931554 GATGCATGTCCCAGACTTATCTTACACTAGC-TCT-CATCTTAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* *
82931600 GATGCATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* *
82931648 AATGTATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
82931676 GGCTCTCAAT
Statistics
Matches: 97, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
46 35 0.36
47 3 0.03
48 55 0.57
49 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
Found at i:82931626 original size:94 final size:95
Alignment explanation
Indices: 82931505--82931683 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 95
82931495 ACAACAAGCT
* * **
82931505 GATGCCATGTCCCAAATAGGTCATACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAGAC
1 GATGCCATGTCCCAAACAGGTCATACACTAGCTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
*
82931570 TTATCTTACACTAGCTCTCATCTTAATGCC
66 ATATCTTACACTAGCTCTCATCTTAATGCC
* * * * *
82931600 GATG-CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCAATGTATGTCCCAGAC
1 GATGCCATGTCCCAAACAGGTCATACACTAGCTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
* *
82931664 ATGTCTTACACTGGCTCTCA
66 ATATCTTACACTAGCTCTCA
82931684 ATGTGGTCGA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 68 0.94
95 4 0.06
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (95 bp):
GATGCCATGTCCCAAACAGGTCATACACTAGCTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
ATATCTTACACTAGCTCTCATCTTAATGCC
Found at i:82936024 original size:197 final size:196
Alignment explanation
Indices: 82935689--82936082 Score: 698
Period size: 197 Copynumber: 2.0 Consensus size: 196
82935679 TCATCATAGG
* * * *
82935689 CATCTTGTAACTTATAAAAAGAATAGGAAATTGAAATTGATTAGTTAGAAGTTACCTTTGGATCA
1 CATCTTGTAACTCAAAAAAAGAATAGGAAATTGAAATTGATTAGCTAGAAGTTACCTTTGAATCA
* *
82935754 TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGGATGAATCCTTATTTCT
66 TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGAATGAATCCTTATTACT
* *
82935819 TCAAGTAGCAACATGAACCTTGAGCTTTTATTTAAATGACCCTTTTTTTCTTCCATTGGGGACAA
131 TCAAGTAGCAACATGAACCTTGAGCTTTTATTTAAATGA-CCATTTTTTATTCCATTGGGGACAA
82935884 GA
195 GA
82935886 CATCTTGTAACTCAAAAAAAGAATAGGAAATTGAAATTGATTAGCTAGAAGTTACCTTTGAATCA
1 CATCTTGTAACTCAAAAAAAGAATAGGAAATTGAAATTGATTAGCTAGAAGTTACCTTTGAATCA
82935951 TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGAATGAATCCTTATTACT
66 TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGAATGAATCCTTATTACT
*
82936016 TCAAGTAGCAACATGAACCTTGAGCTTTTGTTTAAATGACCATTTTTTATTCCATTGGGGACAAG
131 TCAAGTAGCAACATGAACCTTGAGCTTTTATTTAAATGACCATTTTTTATTCCATTGGGGACAAG
82936081 A
196 A
82936082 C
1 C
82936083 CGCCTCCAGA
Statistics
Matches: 188, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
196 26 0.14
197 162 0.86
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (196 bp):
CATCTTGTAACTCAAAAAAAGAATAGGAAATTGAAATTGATTAGCTAGAAGTTACCTTTGAATCA
TTAATGGCCATACGACAAAGGTTGGCTACTTCTTGATCTTCATTATCGAATGAATCCTTATTACT
TCAAGTAGCAACATGAACCTTGAGCTTTTATTTAAATGACCATTTTTTATTCCATTGGGGACAAG
A
Found at i:82936580 original size:17 final size:18
Alignment explanation
Indices: 82936558--82936591 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
82936548 CACATTGAAG
82936558 TGTTTT-AGTGAAAACCA
1 TGTTTTCAGTGAAAACCA
*
82936575 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
82936592 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCA
Found at i:82937763 original size:29 final size:29
Alignment explanation
Indices: 82937668--82937781 Score: 103
Period size: 29 Copynumber: 4.0 Consensus size: 29
82937658 TACCTGTATC
* *
82937668 TGGCCCATTAAG-CC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
82937695 TGGCCCATTAGGCCCAAATCA-ACTGT-ATA
1 TGGCCCATTAGGCCCAAATCACA-T-TCATA
* *
82937724 TGACCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
** * *
82937753 TGGCCTGTTAGGTCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
82937781 T
1 T
82937782 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
27 11 0.15
28 16 0.22
29 44 0.60
30 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:82942281 original size:29 final size:29
Alignment explanation
Indices: 82942210--82942313 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
82942200 TTCACATACC
* * * *
82942210 TGTATCTGGCCCATTAAGCCC-AATTATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
82942238 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
82942267 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
82942296 TTTATATGGCCCGTTAGG
1 TGTATATGGCCCATTAGG
82942314 TCCAGTCACA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 17 0.26
29 46 0.71
30 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:82947935 original size:18 final size:18
Alignment explanation
Indices: 82947912--82947946 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
82947902 TACATTGGTG
82947912 TTAATTAATCCCAAATCT
1 TTAATTAATCCCAAATCT
82947930 TTAATTAATCCCAAATC
1 TTAATTAATCCCAAATC
82947947 CACTCGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAATTAATCCCAAATCT
Found at i:82948969 original size:23 final size:23
Alignment explanation
Indices: 82948925--82948975 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
82948915 CCATACCAAG
82948925 GCATCGAGGTGCAAAACCCGTAA
1 GCATCGAGGTGCAAAACCCGTAA
* * * *
82948948 GCATTGAGGTGCAAGACTCGTAG
1 GCATCGAGGTGCAAAACCCGTAA
82948971 GCATC
1 GCATC
82948976 AAATGTTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (23 bp):
GCATCGAGGTGCAAAACCCGTAA
Found at i:82950627 original size:68 final size:65
Alignment explanation
Indices: 82950421--82950642 Score: 200
Period size: 64 Copynumber: 3.4 Consensus size: 65
82950411 CAAAATTTTG
* * * *
82950421 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTAGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
** * * * * * * * * * *
82950484 GCTCTCTTGTTTACATGGCGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCCA-TCTC
1 GCTCTCTTGTACACAT-G-GT-GTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC
82950548 GTA
63 GTA
82950551 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTC-T-AT-TCT
82950615 CGTA
62 CGTA
*
82950619 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
82950643 TCCCGTATTA
Statistics
Matches: 121, Mismatches: 28, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
63 14 0.12
64 28 0.23
65 4 0.03
66 24 0.20
67 22 0.18
68 28 0.23
69 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
Found at i:82950668 original size:68 final size:68
Alignment explanation
Indices: 82950544--82950670 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
82950534 GCTACATCCA
* * *
82950544 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
82950609 ATG
66 ATG
* * * *
82950612 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACTTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
82950671 ATACCATCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
68 48 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
ATG
Found at i:82954069 original size:133 final size:133
Alignment explanation
Indices: 82953829--82954098 Score: 328
Period size: 133 Copynumber: 2.0 Consensus size: 133
82953819 GTGTGCCTAT
* * *
82953829 ACCTATAATTGTAATCGTATTTTTAATGCTCACATGAGCTGTGAAGTGGGATTGATCACACAAGC
1 ACCTATAATTGTAATCGTATCTGTAATGCTCACATGAGCTGTGAAATGGGATTGATCACACAAGC
* * * * * * * *
82953894 TGTAGGTCGGGATGTAGGTCACACATTGTTGTTTACATGAGCTGCGAAGAATCCGCAACAGATCC
66 TATAGGTCAGGATGTAGCTCACACATTGCTGTTCACACGAGCTGCGAAGAATCCACAACAAATCC
*
82953959 AGG
131 AGA
* *
82953962 ACCTATAATTGTAATCGTATCTGTAATGCTCACATGAGCTGTGAAATGGGATTGCTCACACGAGC
1 ACCTATAATTGTAATCGTATCTGTAATGCTCACATGAGCTGTGAAATGGGATTGATCACACAAGC
* * * ** *
82954027 TATGGGTCAGGATGTAAGCTGGAC-GA-TGCTGTTCACACGAGCTTTGGAGAATCCACAACAAAT
66 TATAGGTCAGGATGT-AGCT-CACACATTGCTGTTCACACGAGCTGCGAAGAATCCACAACAAAT
82954090 CCAGA
129 CCAGA
82954095 ACCT
1 ACCT
82954099 CAGCCATCAA
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
133 109 0.95
134 4 0.03
135 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (133 bp):
ACCTATAATTGTAATCGTATCTGTAATGCTCACATGAGCTGTGAAATGGGATTGATCACACAAGC
TATAGGTCAGGATGTAGCTCACACATTGCTGTTCACACGAGCTGCGAAGAATCCACAACAAATCC
AGA
Found at i:82960660 original size:97 final size:97
Alignment explanation
Indices: 82960490--82960699 Score: 287
Period size: 97 Copynumber: 2.2 Consensus size: 97
82960480 AAAATTTTGG
* * * * * *
82960490 AAATAAGGGTCACACGACCATGTGGCCAGCCTGTATGATAAAGCCCCGGCCGTGTCGCTCAGGGA
1 AAATATGGGTCACACGACCATGTGGCCAGCCTGTATGACAAAGCCCAGGCCATGTCACTCAAGGA
* * **
82960555 CATGGTCATGTGCCTAAACTGTGTACAATTCA
66 CATAGTCATGTACCTAAACCATGTACAATTCA
* *
82960587 AAATATGGGTCACAC-AGCCATGTGGCCAGGCTGTATGACAAAGCCTAGGCCATGTCACTCAAGG
1 AAATATGGGTCACACGA-CCATGTGGCCAGCCTGTATGACAAAGCCCAGGCCATGTCACTCAAGG
82960651 ACATAGTCATGTACCTAAACCATGTACAATTCA
65 ACATAGTCATGTACCTAAACCATGTACAATTCA
*
82960684 AAATATGGGTTACACG
1 AAATATGGGTCACACG
82960700 GTCGTGTCTC
Statistics
Matches: 98, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
96 1 0.01
97 97 0.99
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (97 bp):
AAATATGGGTCACACGACCATGTGGCCAGCCTGTATGACAAAGCCCAGGCCATGTCACTCAAGGA
CATAGTCATGTACCTAAACCATGTACAATTCA
Found at i:82963296 original size:29 final size:29
Alignment explanation
Indices: 82963264--82963319 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
82963254 TGCCAAATCG
* *
82963264 TGTATGGCACATGGCCGTGTGTCAGCCCC
1 TGTATGGCACACGGCCGTGTATCAGCCCC
*
82963293 TGTATGGCACACGGCCGTTTATCAGCC
1 TGTATGGCACACGGCCGTGTATCAGCC
82963320 TGTGTCCCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.30, G:0.29, T:0.25
Consensus pattern (29 bp):
TGTATGGCACACGGCCGTGTATCAGCCCC
Found at i:82964300 original size:80 final size:80
Alignment explanation
Indices: 82964123--82964330 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
82964113 TTATAATGCT
* *
82964123 TTCAGAGGTACCAAAGTACAAATAGGGGCACATGTGTGCATTCAAGGGTACCGTAGTACAAAAAG
1 TTCAGAGGTACCAAAGTACAAATAGGGGCACGTGTGTGCATTCAGGGGTACCGTAGTACAAAAAG
*** * ** *
82964188 GGGCATGTATGTGCA
66 CAACACGTACCTACA
* * * * *
82964203 TTCATAGATACCGAAGTACAAATAAGGGCACGTGTGTGCATTCAGGGGTATCGTAGTACAAACAA
1 TTCAGAGGTACCAAAGTACAAATAGGGGCACGTGTGTGCATTCAGGGGTACCGTAGTACAAA-AA
82964268 -CAACACGTACCTACA
65 GCAACACGTACCTACA
* * * *
82964283 TTTAGAGGTATCAAAGTACAAATAGGGGCACGTATGTACATTCAGGGG
1 TTCAGAGGTACCAAAGTACAAATAGGGGCACGTGTGTGCATTCAGGGG
82964331 AACTGAAGTA
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 103 0.98
81 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (80 bp):
TTCAGAGGTACCAAAGTACAAATAGGGGCACGTGTGTGCATTCAGGGGTACCGTAGTACAAAAAG
CAACACGTACCTACA
Found at i:82964323 original size:40 final size:40
Alignment explanation
Indices: 82964123--82964327 Score: 169
Period size: 40 Copynumber: 5.1 Consensus size: 40
82964113 TTATAATGCT
* * *
82964123 TTCAGAGGTACCAAAGTACAAATAGGGGCACATGTGTGCA
1 TTCAGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
* * *
82964163 TTCA-AGGGTACCGTAGTACAAAAAGGGGCATGTATGTGCA
1 TTCAGA-GGTACCGAAGTACAAATAGGGGCACGTATGTGCA
* * * *
82964203 TTCATAGATACCGAAGTACAAATAAGGGCACGTGTGTGCA
1 TTCAGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
* * * * **** ** *
82964243 TTCAGGGGTATCGTAGTACAAACAACAACACGTACCTACA
1 TTCAGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
* * * *
82964283 TTTAGAGGTATCAAAGTACAAATAGGGGCACGTATGTACA
1 TTCAGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
82964323 TTCAG
1 TTCAG
82964328 GGGAACTGAA
Statistics
Matches: 126, Mismatches: 37, Indels: 4
0.75 0.22 0.02
Matches are distributed among these distances:
39 1 0.01
40 124 0.98
41 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (40 bp):
TTCAGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCA
Found at i:82967371 original size:31 final size:31
Alignment explanation
Indices: 82967328--82967416 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
82967318 GTGCATCAAT
* *
82967328 CATTCATTTTTGCATATTCATACCTTATAAC
1 CATTCATATTTGCATATTCATACCCTATAAC
**
82967359 CATTCATATTTGCATATTCATACCCTATAGT
1 CATTCATATTTGCATATTCATACCCTATAAC
* * *
82967390 CATTCGTATTTACATTTTTCATACCCT
1 CATTCATATTTGCA-TATTCATACCCT
82967417 CTAGTCATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 39 0.78
32 11 0.22
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (31 bp):
CATTCATATTTGCATATTCATACCCTATAAC
Found at i:82967416 original size:32 final size:32
Alignment explanation
Indices: 82967344--82967451 Score: 128
Period size: 32 Copynumber: 3.4 Consensus size: 32
82967334 TTTTTGCATA
* ** * * *
82967344 TTCATACCTTATAACCATTCATATTTGCA-TA
1 TTCATACCCTATAGTCATTCGTATTTACATTT
82967375 TTCATACCCTATAGTCATTCGTATTTACATTT
1 TTCATACCCTATAGTCATTCGTATTTACATTT
* *
82967407 TTCATACCCTCTAGTCATTTGTATTTACATTT
1 TTCATACCCTATAGTCATTCGTATTTACATTT
*
82967439 TTAATACCCTATA
1 TTCATACCCTATA
82967452 CACTGTACTA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
31 24 0.36
32 42 0.64
ACGTcount: A:0.28, C:0.22, G:0.05, T:0.45
Consensus pattern (32 bp):
TTCATACCCTATAGTCATTCGTATTTACATTT
Found at i:82971063 original size:34 final size:34
Alignment explanation
Indices: 82970987--82971063 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
82970977 TTTGTTTGCA
*
82970987 TACTG-TACTGATATGCGCTAAGGCCCAGACTAC
1 TACTGTTACTGAAATGCGCTAAGGCCCAGACTAC
* * *
82971020 T-TTCATTACTGAAATGGGCTAAGGCCCAGACTAC
1 TACT-GTTACTGAAATGCGCTAAGGCCCAGACTAC
82971054 TACTGTTACT
1 TACTGTTACT
82971064 AAAAAAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
32 1 0.03
33 1 0.03
34 32 0.91
35 1 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (34 bp):
TACTGTTACTGAAATGCGCTAAGGCCCAGACTAC
Found at i:82971272 original size:2 final size:2
Alignment explanation
Indices: 82971265--82971302 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
82971255 GTTATTTCTT
82971265 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82971303 ATTAAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82974193 original size:17 final size:18
Alignment explanation
Indices: 82974171--82974214 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
82974161 GGTTAAACCT
*
82974171 ATTTATAATTTTTA-ATA
1 ATTTATAATTTTTATAAA
*
82974188 ATTTATTATTTTTATAAA
1 ATTTATAATTTTTATAAA
82974206 ATTT-TAATT
1 ATTTATAATT
82974215 AATTATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTATAATTTTTATAAA
Found at i:82977168 original size:33 final size:33
Alignment explanation
Indices: 82977131--82977199 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
82977121 GTCTTATTGC
* *
82977131 TTAATATGGATGTATGCTAATAAATCGATAAGT
1 TTAATATGGATGTATCCTAAAAAATCGATAAGT
*
82977164 TTAATATGGATGTATCCTAAAAAATCGGTAAGT
1 TTAATATGGATGTATCCTAAAAAATCGATAAGT
82977197 TTA
1 TTA
82977200 CTTTCCAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.36
Consensus pattern (33 bp):
TTAATATGGATGTATCCTAAAAAATCGATAAGT
Found at i:82977474 original size:2 final size:2
Alignment explanation
Indices: 82977433--82977461 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
82977423 CATGTAAAGG
82977433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82977462 CTTCCTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82979383 original size:13 final size:14
Alignment explanation
Indices: 82979344--82979384 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
82979334 GGAAAGTTAC
82979344 AATTTTTATAAAATT
1 AATTTTTATAAAA-T
*
82979359 AAATTTTA-AAAAT
1 AATTTTTATAAAAT
82979372 -ATTTTTATAAAAT
1 AATTTTTATAAAAT
82979385 TTATATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.26
13 6 0.26
14 4 0.17
15 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTTTTATAAAAT
Found at i:82985352 original size:15 final size:16
Alignment explanation
Indices: 82985325--82985354 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
82985315 AAGAGTATAG
82985325 TAAATATTTTAAAAAA
1 TAAATATTTTAAAAAA
82985341 TAAATA-TTTAAAAA
1 TAAATATTTTAAAAA
82985355 GAGAGATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATATTTTAAAAAA
Found at i:82986485 original size:2 final size:2
Alignment explanation
Indices: 82986478--82986518 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
82986468 TTAAGATTGG
82986478 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT -T AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
82986519 TATTTGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:82989461 original size:17 final size:18
Alignment explanation
Indices: 82989423--82989463 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
82989413 GGCCCAGAAT
82989423 CCCACAAGCCTGTGTGGG
1 CCCACAAGCCTGTGTGGG
82989441 CCCACAAG-CTCGTGT-GG
1 CCCACAAGCCT-GTGTGGG
82989458 CCCACA
1 CCCACA
82989464 CGGCCCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.15
Consensus pattern (18 bp):
CCCACAAGCCTGTGTGGG
Found at i:82997780 original size:51 final size:49
Alignment explanation
Indices: 82997648--82997836 Score: 236
Period size: 49 Copynumber: 3.8 Consensus size: 49
82997638 ACTATTGTGA
* *
82997648 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTC-GATAATT
* * *
82997697 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGATAA-T-T
* * * * *
82997748 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGATAATT
* *
82997797 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTAC
82997837 CAGATAGCTT
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 76 0.64
50 3 0.03
51 40 0.34
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCGATAATT
Found at i:82997823 original size:100 final size:100
Alignment explanation
Indices: 82997650--82997836 Score: 347
Period size: 100 Copynumber: 1.9 Consensus size: 100
82997640 TATTGTGAGG
*
82997650 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
82997715 AAGTGCAGGCTACTATGCGTACTCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACTCGAAAACTGTGA
* *
82997750 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
82997815 AAGTGCAGGCTACTATGCGTAC
66 AAGTGCAGGCTACTATGCGTAC
82997837 CAGATAGCTT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTCGAAAACTGTGA
Found at i:83003946 original size:38 final size:38
Alignment explanation
Indices: 83003895--83004063 Score: 205
Period size: 38 Copynumber: 4.4 Consensus size: 38
83003885 AAAGACTCGT
83003895 AGGCTATA-TGCTGGTATTATATCCGGGTTAAATCCCGC
1 AGGCT-TAGTGCTGGTATTATATCCGGGTTAAATCCCGC
* * *
83003933 AGGCTTCGCGCTGGTAATATATCCGGGTTAAATCCCGC
1 AGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGC
* *
83003971 AGGCTTTGTGCTGGTATTATATCTGGGTTAAATCCCGC
1 AGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGC
* ** *
83004009 AGGCCTAGTGCTGGTATTATATCTAAGCTTAAAGTCCCGC
1 AGGCTTAGTGCTGGTATTATATC-CGGGTTAAA-TCCCGC
* *
83004049 AGGTTTTGTGCTGGT
1 AGGCTTAGTGCTGGT
83004064 GACTGGATTC
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
37 1 0.01
38 88 0.78
39 6 0.05
40 18 0.16
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (38 bp):
AGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGC
Found at i:83003986 original size:76 final size:78
Alignment explanation
Indices: 83003903--83004063 Score: 227
Period size: 76 Copynumber: 2.1 Consensus size: 78
83003893 GTAGGCTATA
* * ** *
83003903 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGCGCTGGTAATATATC-CGGGTTAAA-T
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGCGCTGGTAATATATCTAAGCTTAAAGT
83003966 CCCGCAGGCTTTG
66 CCCGCAGGCTTTG
* * *
83003979 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTAAGCTTAAAGT
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGCGCTGGTAATATATCTAAGCTTAAAGT
*
83004044 CCCGCAGGTTTTG
66 CCCGCAGGCTTTG
83004057 TGCTGGT
1 TGCTGGT
83004064 GACTGGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 48 0.65
77 6 0.08
78 20 0.27
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (78 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGCGCTGGTAATATATCTAAGCTTAAAGT
CCCGCAGGCTTTG
Found at i:83012042 original size:27 final size:26
Alignment explanation
Indices: 83012012--83012071 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
83012002 TTAGTTTACC
*
83012012 AATTACAGAAATGCCCTCGACTTATAA
1 AATTACA-AAATACCCTCGACTTATAA
* * *
83012039 AATTACCAAAGTACCCTCGATTTATAG
1 AATTA-CAAAATACCCTCGACTTATAA
83012066 AATTAC
1 AATTAC
83012072 TATTTTACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (26 bp):
AATTACAAAATACCCTCGACTTATAA
Found at i:83012080 original size:27 final size:27
Alignment explanation
Indices: 83012050--83012141 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
83012040 ATTACCAAAG
*
83012050 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
83012077 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
83012104 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
83012131 TACCCTTGATT
1 TACCCTCGATT
83012142 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:83012163 original size:27 final size:27
Alignment explanation
Indices: 83012133--83012275 Score: 105
Period size: 27 Copynumber: 5.3 Consensus size: 27
83012123 TACCATTTTA
**
83012133 CCCTTGATTGTGAAATTACTGAAATAC
1 CCCTTGATTGTGAAATTACCAAAATAC
* *
83012160 CCC-T-ATAGGGTAGAATTACCAAAATAC
1 CCCTTGATTGTG-A-AATTACCAAAATAC
* * *
83012187 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTTGATTGTGAAATTACCAAAATAC
* * * *
83012214 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCTTGATTGTGAAATTACCAAAATAC
** *
83012240 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTTGA-TTGTGAAATTACCAAAATAC
83012268 CCC-TGATT
1 CCCTTGATT
83012276 TACAAAATTA
Statistics
Matches: 89, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
25 4 0.04
26 7 0.08
27 72 0.81
28 4 0.04
29 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (27 bp):
CCCTTGATTGTGAAATTACCAAAATAC
Found at i:83012214 original size:54 final size:54
Alignment explanation
Indices: 83012140--83012274 Score: 141
Period size: 54 Copynumber: 2.5 Consensus size: 54
83012130 TTACCCTTGA
* ** *
83012140 TTGTGAAATTACTGAAATACCCCT-ATAGGGT-AGAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACCAAAATACCCCTGAT-GGGTGA-AATTACCAAAATACCCTC-AAT
* * ** *
83012194 TTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCCCTGATGGGTGAAATTACCAAAATACCCTCAAT
83012248 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
83012275 TTACAAAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
54 64 0.96
55 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCCTGATGGGTGAAATTACCAAAATACCCTCAAT
Found at i:83012276 original size:27 final size:27
Alignment explanation
Indices: 83012173--83012310 Score: 138
Period size: 27 Copynumber: 5.1 Consensus size: 27
83012163 TATAGGGTAG
83012173 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
83012200 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
83012227 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
83012254 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
83012281 AATTA-CAGAAATACCCTTGACTTTCTAA
1 AATTACCA-AAATACCCCTGA-TTTGTAA
83012309 AA
1 AA
83012311 ATTATAGAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.05
27 75 0.82
28 11 0.12
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:83012283 original size:81 final size:80
Alignment explanation
Indices: 83012106--83012297 Score: 210
Period size: 81 Copynumber: 2.4 Consensus size: 80
83012096 TACTGTTTTA
*** * * *
83012106 CCCTCGATTTACAAAATTACCATTTTACCCTTGATTGTGAAATTACTGAAATACCCCTATAGGGT
1 CCCT-GATTTACAAAATTACCAAAATACCCTGGATTGTGAAATTACCGAAATACCCCAATAGGGT
*
83012171 AGAATTACCAAAATAC
65 AAAATTACCAAAATAC
** * **
83012187 CCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAAT-TT
1 CCCTGA-TTTACAAAATTACCAAAATACC-CTGGATTGTGAAATTACCGAAATACCC-CAATAGG
83012250 GTAAAATTACCAAAATAC
63 GTAAAATTACCAAAATAC
83012268 CCCTGATTTACAAAATTA-CAGAAATACCCT
1 CCCTGATTTACAAAATTACCA-AAATACCCT
83012298 TGACTTTCTA
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
79 1 0.01
80 21 0.23
81 66 0.72
82 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (80 bp):
CCCTGATTTACAAAATTACCAAAATACCCTGGATTGTGAAATTACCGAAATACCCCAATAGGGTA
AAATTACCAAAATAC
Found at i:83012284 original size:54 final size:54
Alignment explanation
Indices: 83012173--83012353 Score: 186
Period size: 54 Copynumber: 3.3 Consensus size: 54
83012163 TATAGGGTAG
* * ***
83012173 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* *
83012227 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * * * *
83012281 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCC-TCAATTTGT-AAAATTACCA-AAATACCACTGGTTTACAA
*
83012337 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
83012354 TGGTTTGTAG
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
54 60 0.56
55 9 0.08
56 38 0.36
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:83012347 original size:27 final size:27
Alignment explanation
Indices: 83012252--83012359 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
83012242 CTCAATTTGT
** * *
83012252 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
83012279 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
83012306 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
83012335 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
83012360 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:83012477 original size:27 final size:26
Alignment explanation
Indices: 83012400--83012477 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
83012390 AAATGACTAA
* *
83012400 AATACCCCTAATAGGTAAAAAGACCGT
1 AATACCCCTTAT-GGTAAAATGACCGT
* *
83012427 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCT-TATGGTAAAATGACCGT
83012454 AATACCCCTCTATGGTAAAATGAC
1 AATACCCCT-TATGGTAAAATGAC
83012478 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 38 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (26 bp):
AATACCCCTTATGGTAAAATGACCGT
Found at i:83013312 original size:25 final size:25
Alignment explanation
Indices: 83013274--83013337 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
83013264 AGGAAGTGCT
* *
83013274 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAATTTACCA
* * * *
83013299 AAAAGGACTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAATTTACCA
83013324 AAAAGGGCTTTGCC
1 AAAAGGGCTTTGCC
83013338 ACAGTTATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAATTTACCA
Found at i:83013612 original size:31 final size:31
Alignment explanation
Indices: 83013563--83013645 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
83013553 TGCTTACAGT
83013563 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
83013593 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
83013624 AAAGGATTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
83013646 TCGAAACTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 15 0.31
31 34 0.69
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:83015223 original size:38 final size:38
Alignment explanation
Indices: 83015181--83015280 Score: 132
Period size: 38 Copynumber: 2.6 Consensus size: 38
83015171 TAAAGACCCT
*
83015181 CAGGCTATATGCTGGTATTATATCCAGGTTAAATCCCG
1 CAGGCTATGTGCTGGTATTATATCCAGGTTAAATCCCG
***
83015219 CAGGCT-TCGTGCTGGTATTATATTTGGGTTAAATCCCG
1 CAGGCTAT-GTGCTGGTATTATATCCAGGTTAAATCCCG
83015257 CAGGCCTA-GTGCTGGTATTATATC
1 CAGG-CTATGTGCTGGTATTATATC
83015281 TGAGCTTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
37 1 0.02
38 51 0.94
39 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (38 bp):
CAGGCTATGTGCTGGTATTATATCCAGGTTAAATCCCG
Found at i:83019880 original size:15 final size:15
Alignment explanation
Indices: 83019860--83019889 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
83019850 TTACATGTTG
83019860 AACTAATTATGCATA
1 AACTAATTATGCATA
83019875 AACTAATTATGCATA
1 AACTAATTATGCATA
83019890 TCCTATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
AACTAATTATGCATA
Found at i:83020293 original size:26 final size:26
Alignment explanation
Indices: 83020264--83020345 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
83020254 TGATACAAAT
83020264 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
83020290 TGATATTGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83020316 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83020342 TGAT
1 TGAT
83020346 GGGAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83026004 original size:17 final size:18
Alignment explanation
Indices: 83025962--83026010 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
83025952 AGTTGAAAAG
83025962 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
83025981 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
83025998 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
83026011 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:83026899 original size:40 final size:40
Alignment explanation
Indices: 83026833--83026999 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
83026823 AAATTGAATG
* * *
83026833 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
83026872 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
83026912 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
83026952 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
83026992 ATATCCGG
1 ATATCCGG
83027000 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:83030538 original size:26 final size:26
Alignment explanation
Indices: 83030509--83030566 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
83030499 TGATACAAAT
*
83030509 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83030535 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83030561 TGATAA
1 TGATAA
83030567 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83034719 original size:2 final size:2
Alignment explanation
Indices: 83034712--83034739 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
83034702 AATCAACTAG
83034712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83034740 CCAAGGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83036519 original size:17 final size:17
Alignment explanation
Indices: 83036497--83036533 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
83036487 CATCAAAAAA
83036497 CAAAAATTACAAGCTTT
1 CAAAAATTACAAGCTTT
83036514 CAAAAATTACAAGCTTT
1 CAAAAATTACAAGCTTT
83036531 CAA
1 CAA
83036534 CAATGACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (17 bp):
CAAAAATTACAAGCTTT
Found at i:83050478 original size:20 final size:20
Alignment explanation
Indices: 83050418--83050478 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
83050408 CTGGTGTGAG
*
83050418 ATTGCAACATTTGTGCCTCTG
1 ATTGC-ACATTTGTGCCTCTA
* * *
83050439 TTTCCAC-TTTGGTGCTTCTA
1 ATTGCACATTT-GTGCCTCTA
83050459 ATTGCACATTTGTGCCTCTA
1 ATTGCACATTTGTGCCTCTA
83050479 TTACGCATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
19 3 0.10
20 22 0.71
21 6 0.19
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (20 bp):
ATTGCACATTTGTGCCTCTA
Found at i:83052159 original size:21 final size:22
Alignment explanation
Indices: 83052107--83052159 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
83052097 AAATAAATTC
*
83052107 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
83052128 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
83052150 CATGTATCAT
1 CATGTATCAT
83052160 CATTTGCTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:83055266 original size:18 final size:18
Alignment explanation
Indices: 83055243--83055289 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
83055233 TTCATAAAAA
83055243 TGGGCTCACATACCCGTG
1 TGGGCTCACATACCCGTG
*
83055261 TGGGCTCACATGCCCGTG
1 TGGGCTCACATACCCGTG
*
83055279 TGGGCCCACAT
1 TGGGCTCACAT
83055290 GCCTATGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.34, G:0.30, T:0.21
Consensus pattern (18 bp):
TGGGCTCACATACCCGTG
Found at i:83055290 original size:18 final size:18
Alignment explanation
Indices: 83055243--83055305 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
83055233 TTCATAAAAA
* *
83055243 TGGGCTCACATACCCGTG
1 TGGGCCCACATGCCCGTG
*
83055261 TGGGCTCACATGCCCGTG
1 TGGGCCCACATGCCCGTG
**
83055279 TGGGCCCACATGCCTATG
1 TGGGCCCACATGCCCGTG
83055297 T-GGCCCACA
1 TGGGCCCACA
83055306 CGACCCAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 8 0.20
18 33 0.80
ACGTcount: A:0.16, C:0.35, G:0.29, T:0.21
Consensus pattern (18 bp):
TGGGCCCACATGCCCGTG
Found at i:83055992 original size:12 final size:13
Alignment explanation
Indices: 83055971--83055999 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
83055961 AGCAGCTACC
83055971 AAAAAGGAAAAAG
1 AAAAAGGAAAAAG
83055984 AAAAA-GAAAAAG
1 AAAAAGGAAAAAG
83055996 AAAA
1 AAAA
83056000 GGCGTCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAGGAAAAAG
Found at i:83068729 original size:22 final size:23
Alignment explanation
Indices: 83068702--83068744 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
83068692 CATCATATTT
83068702 ATCCATGA-CCAAATTTCATATC
1 ATCCATGACCCAAATTTCATATC
83068724 ATCCATGACCCAAATTTCATA
1 ATCCATGACCCAAATTTCATA
83068745 CTTTGATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.37, C:0.28, G:0.05, T:0.30
Consensus pattern (23 bp):
ATCCATGACCCAAATTTCATATC
Found at i:83068955 original size:15 final size:16
Alignment explanation
Indices: 83068921--83068958 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
83068911 ATTGTTTTCT
*
83068921 TTTTTATTTAATTAAA
1 TTTTCATTTAATTAAA
*
83068937 TTTTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
83068952 TTTTCAT
1 TTTTCAT
83068959 CATTTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:83071826 original size:37 final size:37
Alignment explanation
Indices: 83071783--83071862 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
83071773 ATACACTAGA
*
83071783 TATATTGAGGTTGTACATCTGTTGCGGACTATCATGT
1 TATATTGAGGTCGTACATCTGTTGCGGACTATCATGT
* * *
83071820 TTTATTGAGGTCGTACATTTGTTGCGGACTATCGTGT
1 TATATTGAGGTCGTACATCTGTTGCGGACTATCATGT
83071857 TATATT
1 TATATT
83071863 ATAGTGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (37 bp):
TATATTGAGGTCGTACATCTGTTGCGGACTATCATGT
Found at i:83074535 original size:21 final size:21
Alignment explanation
Indices: 83074459--83074519 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
83074449 TACTTACATG
83074459 GGCATGTGAAGTAGTTACACA
1 GGCATGTGAAGTAGTTACACA
83074480 GGCATGT-ACAGTAGTTACACA
1 GGCATGTGA-AGTAGTTACACA
*
83074501 GGCATGTGTAGTAGTTACA
1 GGCATGTGAAGTAGTTACA
83074520 TGGGTATGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 1 0.03
21 36 0.97
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (21 bp):
GGCATGTGAAGTAGTTACACA
Found at i:83078401 original size:12 final size:12
Alignment explanation
Indices: 83078381--83078411 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
83078371 AATTGCAATC
83078381 TTCCATTTTCAT
1 TTCCATTTTCAT
*
83078393 TTTCATTTTCAT
1 TTCCATTTTCAT
83078405 TTCCATT
1 TTCCATT
83078412 CCTATTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (12 bp):
TTCCATTTTCAT
Found at i:83080811 original size:49 final size:47
Alignment explanation
Indices: 83080696--83080814 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 47
83080686 TAATATCGAT
* * * *
83080696 GCCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAACTCAAT
1 GCCATGTCCTAGACATGGTCTTACACTGACTTATCAATCAACTCAAC
* *
83080743 GCCATGT-CTCAAACATGGTCTTACACTGAC-TATCGAAATCGAGGC-CAAC
1 GCCATGTCCT-AGACATGGTCTTACACTGACTTATC--AATC-A-ACTCAAC
83080792 GCCATGTCCTAGACATGGTCTTA
1 GCCATGTCCTAGACATGGTCTTA
83080815 TACTAGCTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
46 5 0.08
47 25 0.42
48 3 0.05
49 23 0.39
50 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCATGTCCTAGACATGGTCTTACACTGACTTATCAATCAACTCAAC
Found at i:83080906 original size:48 final size:51
Alignment explanation
Indices: 83080792--83080921 Score: 162
Period size: 48 Copynumber: 2.6 Consensus size: 51
83080782 CGAGGCCAAC
* * *
83080792 GCCATGTCCTAGACATGGTCTTATACT-AGC-TCTCACATATCTGTGTCGAT
1 GCCATGTCCTAGACATGGTCTTACACTGA-CACCTCACATATCTGTGCCGAT
* * *
83080842 GCCATGTCCCAAACATGGTCTTACACTGACACCTC-TATA-C-GTGCCGAT
1 GCCATGTCCTAGACATGGTCTTACACTGACACCTCACATATCTGTGCCGAT
83080890 GCCATGTCCTAGACATGGTCTTACACTGACAC
1 GCCATGTCCTAGACATGGTCTTACACTGACAC
83080922 ATCTCGTAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 37 0.53
49 1 0.01
50 28 0.40
51 4 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (51 bp):
GCCATGTCCTAGACATGGTCTTACACTGACACCTCACATATCTGTGCCGAT
Found at i:83080971 original size:46 final size:47
Alignment explanation
Indices: 83080885--83081103 Score: 202
Period size: 46 Copynumber: 4.7 Consensus size: 47
83080875 TCTATACGTG
* * *
83080885 CCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGTA-A
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCGTAGA
* * *
83080931 CCGATGCATGTCCCAGACATGTTTTACACTAGCT-TACATCTTG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGTAGA
* * * *
83080977 CTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTC-AATA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGA
* *
83081023 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTAG-
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGTAGA
* *
83081071 CCAATGCATGTCCCAGACATGTATTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
83081104 ACACAAATAA
Statistics
Matches: 142, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 9 0.06
45 15 0.11
46 65 0.46
47 29 0.20
48 22 0.15
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGA
Found at i:83081060 original size:48 final size:48
Alignment explanation
Indices: 83080687--83081063 Score: 208
Period size: 46 Copynumber: 7.9 Consensus size: 48
83080677 CATAGGGTAT
*
83080687 AATATCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATC-C
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* * * * * **
83080732 -ATCAACTCAATGCCATGTCTCAAACATGGTCTTACACTGACTATCGAAATC
1 AAT--AC-CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTC
* ** * * * * * *
83080783 GAGGCCAACGCCATGTCCTAGACATGGTCTTATACTAGCTCTCACATATC
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTC
** ** * * *
83080833 TGTGTCGATGCCATGTCCCAAACATGGTCTTACACTGACAC-C-TCT-
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* * * *
83080878 ATACGTGCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATCTC
1 A-A--TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
* * * *
83080927 -GTAACCGATG-CATGTCCCAGACAT-GTTTTACACTAGCT-TACATCTT
1 AAT-ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTC
* ** * * *
83080973 GAGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
83081019 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
83081064 AATGTAGCCA
Statistics
Matches: 251, Mismatches: 57, Indels: 45
0.71 0.16 0.13
Matches are distributed among these distances:
44 11 0.04
45 15 0.06
46 58 0.23
47 48 0.19
48 52 0.21
49 29 0.12
50 35 0.14
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
AATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC
Found at i:83081081 original size:94 final size:95
Alignment explanation
Indices: 83080694--83081103 Score: 307
Period size: 94 Copynumber: 4.3 Consensus size: 95
83080684 TATAATATCG
* * * *
83080694 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATCCATC-AACTCAATGCCATGTCTCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-TCGTAC-CGATGCCATGTCCCAAA
*
83080756 CATGGTCTTACACTGACTATCGA-AATCGAGGCCA
63 CATGGTCTTACACTGACTCTC-ATAAT-GAGGCCA
* * * * **
83080790 ACGCCATGTCCTAGACATGGTCTTATACTAGCTCTCACATATCTGTGTCGATGCCATGTCCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTC-GTACCGATGCCATGTCCCAAA
* *
83080855 CATGGTCTTACACTGACACCTC-T-AT-ACGTGCCG
63 CATGGTCTTACACTGAC-TCTCATAATGA-G-GCCA
* * * *
83080888 ATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGTAACCGATG-CATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGT-ACCGATGCCATGTCCCAAACA
* ** **
83080950 T-GTTTTACACT-AGCT-TACATCTTGAGGCTG
65 TGGTCTTACACTGA-CTCT-CATAATGAGGCCA
* * *
83080980 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATACCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-GTACCGATGCCATGTCCCAAACA
*
83081043 TGGTCTTACACTGGCTCTCATAATGTA-GCCA
65 TGGTCTTACACTGACTCTCATAATG-AGGCCA
*
83081074 ATG-CATGTCCCAGACAT-GTATTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
83081104 ACACAAATAA
Statistics
Matches: 253, Mismatches: 37, Indels: 50
0.74 0.11 0.15
Matches are distributed among these distances:
90 11 0.04
91 16 0.06
92 30 0.12
93 32 0.13
94 58 0.23
95 2 0.01
96 31 0.12
97 3 0.01
98 34 0.13
99 32 0.13
100 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTACCGATGCCATGTCCCAAACAT
GGTCTTACACTGACTCTCATAATGAGGCCA
Found at i:83082267 original size:25 final size:25
Alignment explanation
Indices: 83082229--83082299 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
83082219 AGCCAAACCA
*
83082229 AGCCTTTGTAGTGAATTATCTGAAG
1 AGCCTTTGTGGTGAATTATCTGAAG
*
83082254 AGCCTTTTTGGTGAATTATCTGAAG
1 AGCCTTTGTGGTGAATTATCTGAAG
* *
83082279 AGCCTTTGTGATGTATTATCT
1 AGCCTTTGTGGTGAATTATCT
83082300 AAAAAGTCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.41
Consensus pattern (25 bp):
AGCCTTTGTGGTGAATTATCTGAAG
Found at i:83083423 original size:45 final size:45
Alignment explanation
Indices: 83083359--83083448 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
83083349 TTTAAAGAAA
83083359 ACCAACGCTTATTTAAAAGTCCAAAGACAATCACCGTGGCCATTC
1 ACCAACGCTTATTTAAAAGTCCAAAGACAATCACCGTGGCCATTC
83083404 ACCAACGCTTATTTAAAAGTCCAAAGACAATCACCGTGGCCATTC
1 ACCAACGCTTATTTAAAAGTCCAAAGACAATCACCGTGGCCATTC
83083449 TGAATCCCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.29, G:0.13, T:0.22
Consensus pattern (45 bp):
ACCAACGCTTATTTAAAAGTCCAAAGACAATCACCGTGGCCATTC
Found at i:83083662 original size:31 final size:31
Alignment explanation
Indices: 83083627--83083690 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
83083617 CTTTTTCATA
* *
83083627 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
**
83083658 TTTCAAATTTCATATTACTAGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
83083689 TT
1 TT
83083691 ACGGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTAGGCCGAAGCCT
Found at i:83083936 original size:24 final size:24
Alignment explanation
Indices: 83083904--83084073 Score: 263
Period size: 24 Copynumber: 7.2 Consensus size: 24
83083894 GCCTAGCCTT
* *
83083904 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTGATAACTGGGGCATAAGCCC
*
83083928 TTTTTATAACTGGGGCATAAGCCC
1 TTTTGATAACTGGGGCATAAGCCC
* *
83083952 -TTTAATAACTGGGGCGTAAGCCC
1 TTTTGATAACTGGGGCATAAGCCC
83083975 TTTTGATAACTGGGGCATAAGCCC
1 TTTTGATAACTGGGGCATAAGCCC
83083999 TTTTGATAACTGGGGCATAAGCCC
1 TTTTGATAACTGGGGCATAAGCCC
*
83084023 TTTTGATAACTAGGGCATAAGCCC
1 TTTTGATAACTGGGGCATAAGCCC
*
83084047 -TTTAATAACTGGGGCATAAGCCC
1 TTTTGATAACTGGGGCATAAGCCC
83084070 TTTT
1 TTTT
83084074 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 42 0.31
24 93 0.69
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
TTTTGATAACTGGGGCATAAGCCC
Found at i:83083960 original size:47 final size:47
Alignment explanation
Indices: 83083905--83084073 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
83083895 CCTAGCCTTT
* *
83083905 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
83083952 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
* *
83083999 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
83084047 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
83084074 TCACTTCCTC
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
47 70 0.61
48 44 0.39
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:83083987 original size:71 final size:72
Alignment explanation
Indices: 83083904--83084074 Score: 274
Period size: 71 Copynumber: 2.4 Consensus size: 72
83083894 GCCTAGCCTT
* * *
83083904 TTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCG
1 TTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCA
83083968 TAAGCCC
66 TAAGCCC
* * *
83083975 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCA
1 TTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCA
83084040 TAAGCCC
66 TAAGCCC
83084047 -TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTTAATAACTGGGGCATAAGCCCTTTTT
83084075 CACTTCCTCC
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
71 71 0.78
72 20 0.22
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (72 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCA
TAAGCCC
Found at i:83084151 original size:20 final size:20
Alignment explanation
Indices: 83084128--83084190 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
83084118 GAACATCTCG
*
83084128 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
83084148 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
83084168 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
83084188 TGT
1 TGT
83084191 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:83084164 original size:9 final size:9
Alignment explanation
Indices: 83084132--83084188 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
83084122 ATCTCGTGTG
83084132 CATATCATA
1 CATATCATA
* *
83084141 CATGTCATGTG
1 CATATCA--TA
83084152 CATATCATA
1 CATATCATA
*
83084161 CATATCATGTG
1 CATATCA--TA
83084172 CATATCATA
1 CATATCATA
83084181 CATATCAT
1 CATATCAT
83084189 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:83093056 original size:26 final size:24
Alignment explanation
Indices: 83093026--83093075 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
83093016 AAATAAAAAA
*
83093026 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
83093052 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
83093076 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:83093095 original size:21 final size:21
Alignment explanation
Indices: 83093046--83093104 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
83093036 ATAATAAATC
*
83093046 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
83093066 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
83093088 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
83093105 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:83093180 original size:15 final size:16
Alignment explanation
Indices: 83093150--83093182 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
83093140 AAATAGTTAT
83093150 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
83093167 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
83093182 A
1 A
83093183 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:83094430 original size:19 final size:19
Alignment explanation
Indices: 83094406--83094442 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
83094396 ACTAGACTTA
83094406 TTCTATAATGACCACGTTG
1 TTCTATAATGACCACGTTG
83094425 TTCTATAATGACCACGTT
1 TTCTATAATGACCACGTT
83094443 TTGACTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (19 bp):
TTCTATAATGACCACGTTG
Found at i:83097383 original size:102 final size:102
Alignment explanation
Indices: 83097215--83097408 Score: 352
Period size: 102 Copynumber: 1.9 Consensus size: 102
83097205 TTCGCCTCCC
*
83097215 TTGGGTGTGATCCGCGGAGTACTTACCTACTTTGTTGTAACTATATTACAACTTGACCTGTATAC
1 TTGGGTGTGATCCGCGGAGTACTTACCTAATTTGTTGTAACTATATTACAACTTGACCTGTATAC
*
83097280 TTGCATAAACTGCCTAACTCTTATAATGGCGCCTTCA
66 TTGCAGAAACTGCCTAACTCTTATAATGGCGCCTTCA
*
83097317 TTGGGTGTGATCCTCGGAGTACTTACCTAATTTGTTGTAACTATATTACAACTTGACCTGTATAC
1 TTGGGTGTGATCCGCGGAGTACTTACCTAATTTGTTGTAACTATATTACAACTTGACCTGTATAC
*
83097382 TTGCAGAAACTGTCTAACTCTTATAAT
66 TTGCAGAAACTGCCTAACTCTTATAAT
83097409 TGGCTATAGT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 88 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.37
Consensus pattern (102 bp):
TTGGGTGTGATCCGCGGAGTACTTACCTAATTTGTTGTAACTATATTACAACTTGACCTGTATAC
TTGCAGAAACTGCCTAACTCTTATAATGGCGCCTTCA
Found at i:83106666 original size:27 final size:26
Alignment explanation
Indices: 83106606--83106667 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
83106596 ATAAGACTCC
83106606 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
83106632 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
83106660 ATTTTATT
1 ATTTTATT
83106668 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:83110393 original size:18 final size:19
Alignment explanation
Indices: 83110368--83110421 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
83110358 AGGCAACCCA
83110368 ATTTTTATTTTTTTATTTT
1 ATTTTTATTTTTTTATTTT
* *
83110387 A-TTTTATCTTATTATTTT
1 ATTTTTATTTTTTTATTTT
83110405 ATTATTTATTATTTTTA
1 ATT-TTTATT-TTTTTA
83110422 GATATTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 16 0.57
19 2 0.07
20 5 0.18
21 5 0.18
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
ATTTTTATTTTTTTATTTT
Done.