Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008136.1 Hibiscus syriacus cultivar Beakdansim tig00110691_pilon, whole genome shotgun sequence
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: 1585607
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 9
Found at i:1485944 original size:20 final size:21
Alignment explanation
Indices: 1485921--1485972 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1485911 GAAAATATTT
* *
1485921 ATTTTAGGTA-CAAAATTAAC
1 ATTTTAGGTAGAAAAAATAAC
*
1485941 ATTTTCGGTAGAAAAAATAAC
1 ATTTTAGGTAGAAAAAATAAC
*
1485962 ATTTTAAGTAG
1 ATTTTAGGTAG
1485973 CGCTCTACCG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (21 bp):
ATTTTAGGTAGAAAAAATAAC
Found at i:1489763 original size:42 final size:42
Alignment explanation
Indices: 1489664--1489810 Score: 199
Period size: 42 Copynumber: 3.5 Consensus size: 42
1489654 TGACCCAAGG
* *
1489664 TGATGCTGATCCAACTCCTTATGTGATGGACGAGC-CAA-GG
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
* *
1489704 TGATGCTGCTCCAACTCCTTATGTGATGGACAAGCAAAATGA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
* * *
1489746 TGATGATGATCCAACTCCTTTTATGATGGACGAGCAAAATGA
1 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
* *
1489788 TGATGTTGATCCAACTCTTTATG
1 TGATGCTGATCCAACTCCTTATG
1489811 CTATGAAATC
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 33 0.36
41 2 0.02
42 57 0.62
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (42 bp):
TGATGCTGATCCAACTCCTTATGTGATGGACGAGCAAAATGA
Found at i:1490061 original size:17 final size:17
Alignment explanation
Indices: 1490039--1490102 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
1490029 GTTGAACAAG
1490039 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* *
1490056 TTCTTCTCCCTCATCGAAC
1 TTCTTCT-CATTAT-GAAC
1490075 GAGTTCTTCTCATTATGAAC
1 ---TTCTTCTCATTATGAAC
*
1490095 TTATTCTC
1 TTCTTCTC
1490103 CCTCATCGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
17 14 0.38
18 4 0.11
19 4 0.11
20 4 0.11
21 4 0.11
22 7 0.19
ACGTcount: A:0.20, C:0.28, G:0.08, T:0.44
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:1490080 original size:39 final size:39
Alignment explanation
Indices: 1490032--1490133 Score: 186
Period size: 39 Copynumber: 2.6 Consensus size: 39
1490022 AACTAAGGTT
* *
1490032 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC
1 GAACGAGTTCTTCTCATTATGAACTTATTCTCCCTCATC
1490071 GAACGAGTTCTTCTCATTATGAACTTATTCTCCCTCATC
1 GAACGAGTTCTTCTCATTATGAACTTATTCTCCCTCATC
1490110 GAACGAGTTCTTCTCATTATGAAC
1 GAACGAGTTCTTCTCATTATGAAC
1490134 CCTTCTATTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (39 bp):
GAACGAGTTCTTCTCATTATGAACTTATTCTCCCTCATC
Found at i:1490081 original size:19 final size:19
Alignment explanation
Indices: 1490059--1490120 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
1490049 TATGAACTTC
1490059 TTCTCCCTCATCGAACGAG
1 TTCTCCCTCATCGAACGAG
* * *
1490078 TTCT-TCTCATTATGAACTTA-
1 TTCTCCCTCA-T-CGAAC-GAG
1490098 TTCTCCCTCATCGAACGAG
1 TTCTCCCTCATCGAACGAG
1490117 TTCT
1 TTCT
1490121 TCTCATTATG
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 5 0.16
19 13 0.41
20 9 0.28
21 5 0.16
ACGTcount: A:0.21, C:0.31, G:0.11, T:0.37
Consensus pattern (19 bp):
TTCTCCCTCATCGAACGAG
Found at i:1490084 original size:22 final size:22
Alignment explanation
Indices: 1490056--1490124 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
1490046 CATTATGAAC
1490056 TTCTTCTCCCTCATCGAACGAG
1 TTCTTCTCCCTCATCGAACGAG
* *
1490078 TTCTTCT-CATTAT-GAAC---
1 TTCTTCTCCCTCATCGAACGAG
*
1490095 TTATTCTCCCTCATCGAACGAG
1 TTCTTCTCCCTCATCGAACGAG
1490117 TTCTTCTC
1 TTCTTCTC
1490125 ATTATGAACC
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 6 0.17
18 4 0.11
19 4 0.11
20 4 0.11
21 4 0.11
22 14 0.39
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (22 bp):
TTCTTCTCCCTCATCGAACGAG
Found at i:1490206 original size:243 final size:243
Alignment explanation
Indices: 1489839--1490340 Score: 706
Period size: 245 Copynumber: 2.1 Consensus size: 243
1489829 GTTGAACAAG
* * * * * *
1489839 TTCTTATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTGCGAATTGTCTACTGGAA
1 TTCTCATTATGAACTTATTCTCCCTCATCGAACGAGTTCTTCTCATTACGAACTGTCTACTGGAA
* * * *
1489904 ATGTTGATCCTCATCATTCTGTGATGGAATTGAACAAAGTGATAATGCTTATGCAACTCCATATA
66 ATGTTGATCCACATCATTCTGTGATGGAATCGAACAAAGTGATAATGCTGATCCAACTCCATATA
* *
1489969 CGATGGATAAGCCAAGTATTAGTGT-TGTTCCAACTTCTTATGTGAT-GAAATCGAACTAAGGTT
131 CGATGGATAAGCCAAGTATTAGTGTCTATTCCAACTCCTTATGTGATGGAAA-CGAACTAAGGTT
*
1490032 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC-GAACGAGTTC
195 GAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATCAG-ACGAGTTC
* *
1490081 TTCTCATTATGAACTTATTCTCCCTCATCGAACGAGTTCTTCTCATTATGAACCCT-TCTATTGG
1 TTCTCATTATGAACTTATTCTCCCTCATCGAACGAGTTCTTCTCATTACGAA--CTGTCTACTGG
* * *
1490145 AAATGTTGATTCACCTCATTCTGTGATGGAATCGAACAAAGTGATGATGCTGATCCAACTCCATA
64 AAATGTTGATCCACATCATTCTGTGATGGAATCGAACAAAGTGATAATGCTGATCCAACTCCATA
* * * * *
1490210 TGCGATGGATGAGCTAAGTATTGGTGTGCTATTCCAACTCCTTATGTGATGGAAACGAGCTAAGG
129 TACGATGGATAAGCCAAGTATTAGTGT-CTATTCCAACTCCTTATGTGATGGAAACGAACTAAGG
* *
1490275 TTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTTATCAGATGAGTTC
193 TTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATCAGACGAGTTC
1490326 TTCTCATTATGAACT
1 TTCTCATTATGAACT
1490341 CTCCCATTGG
Statistics
Matches: 229, Mismatches: 25, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
242 46 0.20
243 88 0.38
244 1 0.00
245 89 0.39
246 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (243 bp):
TTCTCATTATGAACTTATTCTCCCTCATCGAACGAGTTCTTCTCATTACGAACTGTCTACTGGAA
ATGTTGATCCACATCATTCTGTGATGGAATCGAACAAAGTGATAATGCTGATCCAACTCCATATA
CGATGGATAAGCCAAGTATTAGTGTCTATTCCAACTCCTTATGTGATGGAAACGAACTAAGGTTG
AACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATCAGACGAGTTC
Found at i:1490502 original size:79 final size:79
Alignment explanation
Indices: 1490321--1490503 Score: 287
Period size: 79 Copynumber: 2.3 Consensus size: 79
1490311 TTATCAGATG
* *
1490321 AGTTCTTCTCATTATGAAC-TCTCCCATTGGAAATGTTGATCCACCTCCTTCTGTGATGGATTCG
1 AGTTCTTCTCATTATGAACTTCT-TCATTGGAAATGTTGATCCACCTCCTTATGTGATGGATTCG
* *
1490385 AACAAAGGTTGAGCA
65 AACAAAGCTTGAACA
*
1490400 AGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCTACCTCCTTATGTGATGGATTCGA
1 AGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCCACCTCCTTATGTGATGGATTCGA
*
1490465 ACAAAGCTTGAATA
66 ACAAAGCTTGAACA
*
1490479 AGTTCTTCTTATTATGAACTTCTTC
1 AGTTCTTCTCATTATGAACTTCTTC
1490504 TCCCTCATCG
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
79 93 0.97
80 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (79 bp):
AGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCCACCTCCTTATGTGATGGATTCGA
ACAAAGCTTGAACA
Found at i:1490522 original size:118 final size:118
Alignment explanation
Indices: 1490398--1490649 Score: 337
Period size: 118 Copynumber: 2.1 Consensus size: 118
1490388 AAAGGTTGAG
* * * * *
1490398 CAAGTTCTTCTCATTATGAACT-TCTTCATTGGAAATGTTGATCTACCTCCTTATGTGATGGATT
1 CAAGTTCTTCTAATTATGAACTCTC-CCATTGGAAATGTTGATCCACCTCATTATGTGATGGAAT
* *
1490462 CGAACAAAGCTTGAATAAGTTCTTCTTATTATGAACTTCTTCTCCCTCATC-GTA
65 CGAACAAAGCTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAG-A
* * *
1490516 CAAGTTCTTCTAATTATGAACTCTCCCATTGGAAATTTTGATCCACCTTATTCTGTGATGGAATC
1 CAAGTTCTTCTAATTATGAACTCTCCCATTGGAAATGTTGATCCACCTCATTATGTGATGGAATC
* * *
1490581 GAACCAAGGTTGAACAAGTTCTTCTCGTTATGAACTTCTTCTCCCTCATCAGA
66 GAACAAAGCTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGA
* *
1490634 CGAGTTCTTCCAATTA
1 CAAGTTCTTCTAATTA
1490650 CTAACCATTG
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
118 114 0.97
119 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (118 bp):
CAAGTTCTTCTAATTATGAACTCTCCCATTGGAAATGTTGATCCACCTCATTATGTGATGGAATC
GAACAAAGCTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGA
Found at i:1490535 original size:197 final size:197
Alignment explanation
Indices: 1490247--1490621 Score: 563
Period size: 197 Copynumber: 1.9 Consensus size: 197
1490237 GCTATTCCAA
* * *
1490247 CTCCTTATGTGATGGAAACGAGCTAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCT
1 CTCCTTATGTGATGGAAACGAACAAAGCTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCT
* ** * *
1490312 TATCAGATGAGTTCTTCTCATTATGAACTCTCCCATTGGAAATGTTGATCCACCTCCTTCTGTGA
66 CATCAGACAAGTTCTTCTAATTATGAACTCTCCCATTGGAAATGTTGATCCACCTCATTCTGTGA
* *
1490377 TGGATTCGAACAAAGGTTGAGCAAGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCT
131 TGGAATCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCT
1490442 AC
196 AC
** * * *
1490444 CTCCTTATGTGATGGATTCGAACAAAGCTTGAATAAGTTCTTCTTATTATGAACTTCTTCTCCCT
1 CTCCTTATGTGATGGAAACGAACAAAGCTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCT
* *
1490509 CATC-GTACAAGTTCTTCTAATTATGAACTCTCCCATTGGAAATTTTGATCCACCTTATTCTGTG
66 CATCAG-ACAAGTTCTTCTAATTATGAACTCTCCCATTGGAAATGTTGATCCACCTCATTCTGTG
* *
1490573 ATGGAATCGAACCAAGGTTGAACAAGTTCTTCTCGTTATGAACTTCTTC
130 ATGGAATCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
1490622 TCCCTCATCA
Statistics
Matches: 158, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
196 1 0.01
197 157 0.99
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (197 bp):
CTCCTTATGTGATGGAAACGAACAAAGCTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCT
CATCAGACAAGTTCTTCTAATTATGAACTCTCCCATTGGAAATGTTGATCCACCTCATTCTGTGA
TGGAATCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCATTGGAAATGTTGATCT
AC
Found at i:1492146 original size:57 final size:57
Alignment explanation
Indices: 1492077--1492294 Score: 170
Period size: 54 Copynumber: 3.9 Consensus size: 57
1492067 TTGAATGACT
** * *
1492077 TATCATCAAGAAACCTTTGAAAA-TAAGAATTGGCTTCTTCAAAAATTCATTTACATC
1 TATCATCAAGAAACCCCTAAAAATTAAG-ATTAGCTTCTTCAAAAATTCATTTACATC
* *
1492134 TATCATCAAGAAACCCCTAAAAATTAAGCTTAGCTTCTTTAAAAATTCATTTGA-A--
1 TATCATCAAGAAACCCCTAAAAATTAAGATTAGCTTCTTCAAAAATTCATTT-ACATC
* * * *
1492189 GA-CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTC-AATATTCATTTGA-A--
1 TATCATCAAGAAACCCCTAAAAATTAAGATTAGCTTC-TTCAAAAATTCATTT-ACATC
* * * * *
1492243 -AACATCAAGAAACCCCCTGAAAATCAGGCTTAGCTTCTTTC-AAAATTCATTT
1 TATCATCAAGAAA-CCCCTAAAAATTAAGATTAGCTTC-TTCAAAAATTCATTT
1492295 GAAAATATTA
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.01
54 56 0.39
55 39 0.27
57 42 0.29
58 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (57 bp):
TATCATCAAGAAACCCCTAAAAATTAAGATTAGCTTCTTCAAAAATTCATTTACATC
Found at i:1492219 original size:54 final size:54
Alignment explanation
Indices: 1492137--1492427 Score: 404
Period size: 54 Copynumber: 5.4 Consensus size: 54
1492127 TTACATCTAT
* * *
1492137 CATCAAGAAACCCCTAAAAATTAAGCTTAGCTTCTTTAAAAATTCATTTGAAGA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
*
1492191 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAATATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* *
1492245 CATCAAGAAACCCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
1 CATCAAGAAA-CCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* * * * *
1492300 TATTAAGAAATCCCTAAAAATCAGGCTTAGCTTCTTTCATAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* * * *
1492354 CATCAAGAAACCCAT-AAAATTAGGCTTAGGTTCTTTCAACATTCATTTGTAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
* * *
1492407 CATCAAAAAACCTCTGAAAAT
1 CATCAAGAAACCCCTAAAAAT
1492428 CTTTAAAAAT
Statistics
Matches: 211, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 45 0.21
54 117 0.55
55 49 0.23
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAAA
Found at i:1492292 original size:109 final size:106
Alignment explanation
Indices: 1492137--1492428 Score: 397
Period size: 109 Copynumber: 2.7 Consensus size: 106
1492127 TTACATCTAT
* *
1492137 CATCAAGAAACCCCTAAAAATTAAGCTTAGCTTCTTTAAAAATTCATTTGAAGACATCAAGAAAC
1 CATCAAGAAACCCCT-AAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAA-ACATCAAGAAAC
*
1492202 CCCTAAAAATTAGGCTTAGCTTCTTTCA-ATATTCATTTGAAAA
64 CCCTAAAAATCAGGCTTAGCTTCTTTCATA-ATTCATTTGAAAA
* * *
1492245 CATCAAGAAACCCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAAAATATTAAGAAA
1 CATCAAGAAA-CCCCT-AAAATTAGGCTTAGCTTCTTTCAAAATTCATTTG-AAACATCAAGAAA
*
1492310 TCCCTAAAAATCAGGCTTAGCTTCTTTCATAATTCATTTGAAAA
63 CCCCTAAAAATCAGGCTTAGCTTCTTTCATAATTCATTTGAAAA
* * * *
1492354 CATCAAGAAACCCATAAAATTAGGCTTAGGTTCTTTCAACATTCATTTGTAAACATCAAAAAACC
1 CATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTG-AAACATCAAGAAACC
* *
1492419 TCTGAAAATC
65 CCTAAAAATC
1492429 TTTAAAAATC
Statistics
Matches: 162, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
107 50 0.31
108 14 0.09
109 95 0.59
110 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (106 bp):
CATCAAGAAACCCCTAAAATTAGGCTTAGCTTCTTTCAAAATTCATTTGAAACATCAAGAAACCC
CTAAAAATCAGGCTTAGCTTCTTTCATAATTCATTTGAAAA
Found at i:1494512 original size:9 final size:9
Alignment explanation
Indices: 1494500--1494548 Score: 53
Period size: 9 Copynumber: 4.9 Consensus size: 9
1494490 GCTTGATCGG
1494500 TTTTCTTTC
1 TTTTCTTTC
1494509 TTTTCTTTC
1 TTTTCTTTC
1494518 TTTTTTTCTTTC
1 ---TTTTCTTTC
1494530 TTTAATCTTTC
1 TTT--TCTTTC
1494541 TTTTCTTT
1 TTTTCTTT
1494549 GTTCTCACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
9 17 0.49
11 9 0.26
12 9 0.26
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:1494524 original size:21 final size:22
Alignment explanation
Indices: 1494500--1494544 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 22
1494490 GCTTGATCGG
1494500 TTTTCTTTCTTT-TCTTTCTTT
1 TTTTCTTTCTTTATCTTTCTTT
1494521 TTTTCTTTCTTTAATCTTTCTTT
1 TTTTCTTTCTTT-ATCTTTCTTT
1494544 T
1 T
1494545 CTTTGTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTCTTTCTTTATCTTTCTTT
Found at i:1498239 original size:139 final size:139
Alignment explanation
Indices: 1497991--1498245 Score: 320
Period size: 140 Copynumber: 1.8 Consensus size: 139
1497981 AAATATAATC
* * *
1497991 TAAAGTGGAGGCTCTAATATTAACTTAAATTAATTTTAATCAATATTGCAATTCAAATAATTAAA
1 TAAAATGGAGGCTCTAATATTAACCTAAATTAATTTTAATCAATATGGCAATTCAAATAATTAAA
* * * *
1498056 GTGGAACCTCGAGCAAAAGCGATGACCAAATTAAGAATTCTCCTAATTTAATGACTAAATTAAGA
66 GTGGAACCTCGAGCAAAAGCGAGGACCAAATCAAAAATTCTCCTAAATTAATGACTAAATTAAGA
1498121 AATTAAGCA
131 AATTAAGCA
* * *
1498130 TAAAATGGAGGCTCTAATATTAATCCT-AATTAATTTTGATCAAATATGG-ACTATCGAATAATT
1 TAAAATGGAGGCTCTAATATTAA-CCTAAATTAATTTTAATC-AATATGGCAAT-TCAAATAATT
** * *
1498193 AATTTGGAACCTCGAGCATAAA-TGAGGACCAAGTCAAAAATT-TCCTAAATTAA
63 AAAGTGGAACCTCGAGCA-AAAGCGAGGACCAAATCAAAAATTCTCCTAAATTAA
1498246 AAGTTTAGGG
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
139 47 0.48
140 48 0.49
141 3 0.03
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (139 bp):
TAAAATGGAGGCTCTAATATTAACCTAAATTAATTTTAATCAATATGGCAATTCAAATAATTAAA
GTGGAACCTCGAGCAAAAGCGAGGACCAAATCAAAAATTCTCCTAAATTAATGACTAAATTAAGA
AATTAAGCA
Found at i:1501928 original size:18 final size:17
Alignment explanation
Indices: 1501905--1501939 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1501895 GCAAATTTGT
1501905 TGTTTTAATTAAAATGAA
1 TGTTTT-ATTAAAATGAA
*
1501923 TGTTTTTTTAAAATGAA
1 TGTTTTATTAAAATGAA
1501940 AAATACTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
TGTTTTATTAAAATGAA
Found at i:1509221 original size:21 final size:21
Alignment explanation
Indices: 1509174--1509232 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
1509164 CCCCCCATGA
1509174 GGGAACCGATTCCCCCTCTGAAG
1 GGGAACCGATT-CCCCTC-GAAG
1509197 GGGAACCGATTCCCCTC-ACAG
1 GGGAACCGATTCCCCTCGA-AG
* *
1509218 GGGAATCGATACCCC
1 GGGAACCGATTCCCC
1509233 CCTGGGGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 15 0.45
22 6 0.18
23 11 0.33
ACGTcount: A:0.24, C:0.36, G:0.25, T:0.15
Consensus pattern (21 bp):
GGGAACCGATTCCCCTCGAAG
Found at i:1513570 original size:30 final size:30
Alignment explanation
Indices: 1513531--1513597 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
1513521 GCTATAAGAT
1513531 AATAAATTAT-CAAAAAATAAAAATATTAAA
1 AATAAATTATACAAAAAATAAAAATA-TAAA
* * * *
1513561 AATATATTATACATAATATATAAATATAAA
1 AATAAATTATACAAAAAATAAAAATATAAA
1513591 AATAAAT
1 AATAAAT
1513598 CAATCGTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (30 bp):
AATAAATTATACAAAAAATAAAAATATAAA
Found at i:1514034 original size:2 final size:2
Alignment explanation
Indices: 1514027--1514065 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1514017 TGGTATTTTA
1514027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1514066 ACTTTTAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1515250 original size:4 final size:4
Alignment explanation
Indices: 1515241--1515275 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
1515231 ACAAGACAAA
1515241 AAAT AAAT AAAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AA
1515276 GCAAACGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1517696 original size:34 final size:34
Alignment explanation
Indices: 1517645--1517771 Score: 114
Period size: 34 Copynumber: 3.7 Consensus size: 34
1517635 TTGTACTTTC
** *
1517645 TTTGTTTATGTCCATTGATTATATTCCTAGTCGA
1 TTTGTTTATGTAGATTGATTATATTCCTAGTTGA
* * * * **
1517679 TCTGTTTATTTAGATTGAGTATACGGTT--TTGTTTC
1 TTTGTTTATGTAGATTGATTATA---TTCCTAGTTGA
**
1517714 TTTGTTTATGTCCATTGATTATATTCCTAGTTGA
1 TTTGTTTATGTAGATTGATTATATTCCTAGTTGA
1517748 TTTGTTTATGTAGATTGATTATAT
1 TTTGTTTATGTAGATTGATTATAT
1517772 GTTTTTTTTT
Statistics
Matches: 69, Mismatches: 19, Indels: 10
0.70 0.19 0.10
Matches are distributed among these distances:
32 2 0.03
34 44 0.64
35 21 0.30
37 2 0.03
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (34 bp):
TTTGTTTATGTAGATTGATTATATTCCTAGTTGA
Found at i:1517719 original size:69 final size:69
Alignment explanation
Indices: 1517641--1517770 Score: 224
Period size: 69 Copynumber: 1.9 Consensus size: 69
1517631 GTTTTTGTAC
*
1517641 TTTCTTTGTTTATGTCCATTGATTATATTCCTAGTCGATCTGTTTATTTAGATTGAGTATACGGT
1 TTTCTTTGTTTATGTCCATTGATTATATTCCTAGTCGATCTGTTTATGTAGATTGAGTATACGGT
1517706 TTTG
66 TTTG
* * *
1517710 TTTCTTTGTTTATGTCCATTGATTATATTCCTAGTTGATTTGTTTATGTAGATTGATTATA
1 TTTCTTTGTTTATGTCCATTGATTATATTCCTAGTCGATCTGTTTATGTAGATTGAGTATA
1517771 TGTTTTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.20, C:0.10, G:0.16, T:0.54
Consensus pattern (69 bp):
TTTCTTTGTTTATGTCCATTGATTATATTCCTAGTCGATCTGTTTATGTAGATTGAGTATACGGT
TTTG
Found at i:1536902 original size:21 final size:21
Alignment explanation
Indices: 1536876--1536917 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1536866 CCAAAATGGG
*
1536876 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1536897 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1536918 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1537141 original size:30 final size:30
Alignment explanation
Indices: 1537094--1537183 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
1537084 AAATTTTGAA
1537094 TAAATTCAATT-AAGTCCAAATACATTTTG
1 TAAATTCAATTCAAGTCCAAATACATTTTG
*
1537123 TAAATTCAATTCAAGTCCAAATACGTTTTG
1 TAAATTCAATTCAAGTCCAAATACATTTTG
*
1537153 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAATA-CATTTTG
1537184 CCTTAAATTG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 11 0.20
30 39 0.70
31 6 0.11
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTCAAGTCCAAATACATTTTG
Found at i:1553902 original size:46 final size:48
Alignment explanation
Indices: 1553811--1553915 Score: 142
Period size: 46 Copynumber: 2.2 Consensus size: 48
1553801 TACCAAAATG
* *
1553811 CCACGTAGAATTTATCCCGAAGGACCGCGTAGAAATTTGTCCTGAAAGA
1 CCACGTAGAATTTATCCCGAAGGACCACATAG-AATTTGTCCTGAAAGA
* *
1553860 CCACGTAGAA-TTATCCCGAATGACCACATAG-ATTTGTCCTGAAGGA
1 CCACGTAGAATTTATCCCGAAGGACCACATAGAATTTGTCCTGAAAGA
*
1553906 CCGCGTAGAA
1 CCACGTAGAA
1553916 CCCTCAACTC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
46 23 0.45
48 18 0.35
49 10 0.20
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (48 bp):
CCACGTAGAATTTATCCCGAAGGACCACATAGAATTTGTCCTGAAAGA
Found at i:1553914 original size:23 final size:23
Alignment explanation
Indices: 1553811--1553914 Score: 91
Period size: 23 Copynumber: 4.4 Consensus size: 23
1553801 TACCAAAATG
1553811 CCACGTAGAATTTATCCCGAAGGA
1 CCACGTAG-ATTTATCCCGAAGGA
* * * *
1553835 CCGCGTAGAAATTTGTCCTGAAAGA
1 CCACGTAG--ATTTATCCCGAAGGA
* *
1553860 CCACGTAGAATTATCCCGAATGA
1 CCACGTAGATTTATCCCGAAGGA
* * *
1553883 CCACATAGATTTGTCCTGAAGGA
1 CCACGTAGATTTATCCCGAAGGA
*
1553906 CCGCGTAGA
1 CCACGTAGA
1553915 ACCCTCAACT
Statistics
Matches: 63, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
23 36 0.57
24 7 0.11
25 20 0.32
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (23 bp):
CCACGTAGATTTATCCCGAAGGA
Found at i:1553962 original size:2 final size:2
Alignment explanation
Indices: 1553955--1553991 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1553945 TCTAATTCTC
1553955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1553992 CCTTTGGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1554118 original size:15 final size:16
Alignment explanation
Indices: 1554080--1554120 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
1554070 GTACTTACAC
1554080 GTAGAACATTTTCACT
1 GTAGAACATTTTCACT
*
1554096 -TAGCACATTTTCA-T
1 GTAGAACATTTTCACT
1554110 GTAGAACATTT
1 GTAGAACATTT
1554121 ACTTACAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (16 bp):
GTAGAACATTTTCACT
Found at i:1554669 original size:20 final size:20
Alignment explanation
Indices: 1554644--1554693 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1554634 TTCAATTACA
*
1554644 GTATCGATACCTTCC-TCTTG
1 GTATCGATACC-TCCATATTG
*
1554664 GTATCGATACCTCCATATTT
1 GTATCGATACCTCCATATTG
1554684 GTATCGATAC
1 GTATCGATAC
1554694 TACTTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (20 bp):
GTATCGATACCTCCATATTG
Found at i:1555461 original size:32 final size:31
Alignment explanation
Indices: 1555425--1555499 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
1555415 GGGGCCGTGA
*
1555425 GGCCTACCTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
** **
1555457 GGCCTACCCGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
1555488 AGCCTACCTAAG
1 GGCCTACCTAAG
1555500 TGTCACATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.15
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:1555483 original size:63 final size:63
Alignment explanation
Indices: 1555377--1555499 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
1555367 ACCTAAGGGA
* * *
1555377 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCG-TGAGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGA-GCCTACCTAAGAAC
* *
1555440 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
1555500 TGTCACATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
62 2 0.04
63 48 0.92
64 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:1558391 original size:19 final size:19
Alignment explanation
Indices: 1558369--1558451 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
1558359 CTAGGCGGCT
*
1558369 CGGCTTGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
1558388 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
1558407 CGGCTCGGCT--G---AAA
1 CGGCTCGGCTCAGCTCAAA
*
1558421 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
1558440 CGGCTCGGCTCA
1 CGGCTCGGCTCA
1558452 AACGGCTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
14 13 0.23
16 1 0.02
17 1 0.02
19 42 0.74
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.17
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:1558398 original size:14 final size:14
Alignment explanation
Indices: 1558393--1558459 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 14
1558383 TCAAACGGCT
*
1558393 CGGCTCAGCTCAAA
1 CGGCTCGGCTCAAA
*
1558407 CGGCTCGGCTGAAA
1 CGGCTCGGCTCAAA
1558421 CGGCTCGGCTCAGCTCAA
1 CGGCTCGGCTCA----AA
1558439 GCGGCTCGGCTCAAA
1 -CGGCTCGGCTCAAA
1558454 CGGCTC
1 CGGCTC
1558460 CTCAGGCTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 29 0.64
15 2 0.04
18 2 0.04
19 12 0.27
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.15
Consensus pattern (14 bp):
CGGCTCGGCTCAAA
Found at i:1558422 original size:33 final size:33
Alignment explanation
Indices: 1558375--1558459 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
1558365 GGCTCGGCTT
*
1558375 GGCTCAGCTCAAACGGCTCGGCTCAGCTCAAAC
1 GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
* *
1558408 GGCTCGGCTGAAACGGCTCGGCTCAGCTCAAGC
1 GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
1558441 GGCTCGGCTCAAACGGCTC
1 GGCTCGGCTCAAACGGCTC
1558460 CTCAGGCTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
Found at i:1560555 original size:32 final size:31
Alignment explanation
Indices: 1560519--1560594 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
1560509 CGGGGCCGTG
*
1560519 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
1560551 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
1560582 GAGCCTACCTAAG
1 GGGCCTACCTAAG
1560595 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:1560578 original size:63 final size:63
Alignment explanation
Indices: 1560472--1560594 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
1560462 ACCTAAGGGA
* * ** *
1560472 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
1560535 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
1560595 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:1563478 original size:19 final size:19
Alignment explanation
Indices: 1563456--1563538 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
1563446 CTAGGCGGCT
*
1563456 CGGCTTGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
1563475 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
1563494 CGGCTCGGCT--G---AAA
1 CGGCTCGGCTCAGCTCAAA
*
1563508 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
1563527 CGGCTCGGCTCA
1 CGGCTCGGCTCA
1563539 AACGGCTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
14 13 0.23
16 1 0.02
17 1 0.02
19 42 0.74
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.17
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:1563485 original size:14 final size:14
Alignment explanation
Indices: 1563480--1563546 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 14
1563470 TCAAACGGCT
*
1563480 CGGCTCAGCTCAAA
1 CGGCTCGGCTCAAA
*
1563494 CGGCTCGGCTGAAA
1 CGGCTCGGCTCAAA
1563508 CGGCTCGGCTCAGCTCAA
1 CGGCTCGGCTCA----AA
1563526 GCGGCTCGGCTCAAA
1 -CGGCTCGGCTCAAA
1563541 CGGCTC
1 CGGCTC
1563547 CTCAGGCTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 29 0.64
15 2 0.04
18 2 0.04
19 12 0.27
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.15
Consensus pattern (14 bp):
CGGCTCGGCTCAAA
Found at i:1563509 original size:33 final size:33
Alignment explanation
Indices: 1563462--1563546 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
1563452 GGCTCGGCTT
*
1563462 GGCTCAGCTCAAACGGCTCGGCTCAGCTCAAAC
1 GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
* *
1563495 GGCTCGGCTGAAACGGCTCGGCTCAGCTCAAGC
1 GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
1563528 GGCTCGGCTCAAACGGCTC
1 GGCTCGGCTCAAACGGCTC
1563547 CTCAGGCTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GGCTCGGCTCAAACGGCTCGGCTCAGCTCAAAC
Found at i:1572633 original size:15 final size:15
Alignment explanation
Indices: 1572613--1572642 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1572603 ATCTTGCAAC
1572613 AAGTAAGAGAATTAA
1 AAGTAAGAGAATTAA
1572628 AAGTAAGAGAATTAA
1 AAGTAAGAGAATTAA
1572643 TCGTTTATAG
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:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
AAGTAAGAGAATTAA
Done.