Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 62 of 91
Found at i:14153479 original size:95 final size:94
Alignment explanation
Indices: 14153336--14153514 Score: 225
Period size: 95 Copynumber: 1.9 Consensus size: 94
14153326 TTCTACCCTG
* *
14153336 GTATCGATACTTCTATACTATGGTACCAATACCCCCTTTAAATATCGATACCATTTTTATATTAT
1 GTATCGATACTTCTATACTATGGTACCAATACCCCCTTTAAATATCGATACCATTTTGACATTAT
* *
14153401 GTGTTGCATGGTATCGATACCCTTCTCTCA
66 G-GATCCATGGTATCGATACCCTTCTCTCA
* * *** * * *
14153431 GTATCGATA-TTACTATACTATGGTATCGATACTGTCTTTCAGTATCGATACCATTTTGACATTC
1 GTATCGATACTT-CTATACTATGGTACCAATACCCCCTTTAAATATCGATACCATTTTGACATTA
14153495 TGGATCCATGGTATCGATAC
65 TGGATCCATGGTATCGATAC
14153515 TTCCCTTTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
94 18 0.25
95 53 0.75
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (94 bp):
GTATCGATACTTCTATACTATGGTACCAATACCCCCTTTAAATATCGATACCATTTTGACATTAT
GGATCCATGGTATCGATACCCTTCTCTCA
Found at i:14153572 original size:21 final size:21
Alignment explanation
Indices: 14153539--14153594 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
14153529 ATCGATACAC
* *
14153539 CATCGATATCGATACCACTTG
1 CATCGGTACCGATACCACTTG
14153560 CATCGGTACCGATACCACTTG
1 CATCGGTACCGATACCACTTG
14153581 CATCGGTACCGATA
1 CATCGGTACCGATA
14153595 TTATTCATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (21 bp):
CATCGGTACCGATACCACTTG
Found at i:14161470 original size:67 final size:64
Alignment explanation
Indices: 14161399--14161772 Score: 295
Period size: 67 Copynumber: 5.5 Consensus size: 64
14161389 GCAAAACTTT
*
14161399 AGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAATATTTTGTATTT
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAA-ATTTTG--TTT
14161464 CA
63 CA
* ** *
14161466 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTCTCAAGGGAGACAAAA-CTT
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA----CAA---ATTCAAAATTTT
14161530 GTTTCA
59 GTTTCA
* * ** *
14161536 AGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGGAACTGTCTCAAGGGAGACAAAA-C
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAG-GGAA-----ACAA---ATTCAAAATT
14161600 TTGTTTCA
57 TTGTTTCA
* * * *** *
14161608 AGGGAAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGAGAAACTTTTTCAAAGTTTATGTTTCA
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAATTT-TGTTTCA
* ** * * *
14161673 AGGGAAACAATCTCAA-AGGAGACACAACTTTGTTACAAGGGAAACATATTCAAAGATTTTGGTT
1 AGAGAAACTGTCTCAAGA-GAGACA-AAATTTGTTTCAAGGGAAACAAATTCAAA-ATTTT-GTT
14161737 TCA
62 TCA
*
14161740 AGAGAAACTTTCTCAAGAGAGACAAAATTTGTT
1 AGAGAAACTGTCTCAAGAGAGACAAAATTTGTT
14161773 CTGAAAGAAA
Statistics
Matches: 256, Mismatches: 31, Indels: 41
0.78 0.09 0.12
Matches are distributed among these distances:
63 4 0.02
64 2 0.01
65 26 0.10
66 34 0.13
67 69 0.27
68 1 0.00
70 42 0.16
71 9 0.04
72 63 0.25
73 1 0.00
74 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (64 bp):
AGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAATTTTGTTTCA
Found at i:14161504 original size:36 final size:36
Alignment explanation
Indices: 14161461--14161652 Score: 298
Period size: 36 Copynumber: 5.4 Consensus size: 36
14161451 ATATTTTGTA
14161461 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* *
14161497 TTTCAAGAGAAAC--TCTCAAGGGAGACAAAACTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
*
14161531 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* * *
14161567 TTTCAAGAGGAACTGTCTCAAGGGAGACAAAACTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
* *
14161603 TTTCAAGGGAAACTGTCTTAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
14161639 TTTCAAGAGAAACT
1 TTTCAAGAGAAACT
14161653 TTTTCAAAGT
Statistics
Matches: 139, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
34 31 0.22
36 108 0.78
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
Found at i:14161537 original size:21 final size:21
Alignment explanation
Indices: 14161512--14161612 Score: 73
Period size: 21 Copynumber: 5.4 Consensus size: 21
14161502 AGAGAAACTC
14161512 TCAAGGGAGACAAAACTTGTT
1 TCAAGGGAGACAAAACTTGTT
*
14161533 TCAA-GG-G---AAAC-TGTC
1 TCAAGGGAGACAAAACTTGTT
* *
14161548 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAACTTGTT
* *
14161569 TCAA--GAG---GAAC-TGTC
1 TCAAGGGAGACAAAACTTGTT
14161584 TCAAGGGAGACAAAACTTGTT
1 TCAAGGGAGACAAAACTTGTT
14161605 TCAAGGGA
1 TCAAGGGA
14161613 AACTGTCTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 24
0.64 0.10 0.26
Matches are distributed among these distances:
15 14 0.24
16 7 0.12
17 4 0.07
19 4 0.07
20 8 0.14
21 22 0.37
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (21 bp):
TCAAGGGAGACAAAACTTGTT
Found at i:14161601 original size:72 final size:71
Alignment explanation
Indices: 14161461--14161653 Score: 343
Period size: 72 Copynumber: 2.7 Consensus size: 71
14161451 ATATTTTGTA
*
14161461 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAC-TCTCAAGGGAGACAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTTCTCAAGGGAGACAA
14161525 AACTTG
66 AACTTG
*
14161531 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGGAACTGTCTCAAGGGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACT-TCTCAAGGGAGACA
14161596 AAACTTG
65 AAACTTG
*
14161603 TTTCAAGGGAAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGAGAAACTT
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTT
14161654 TTTCAAAGTT
Statistics
Matches: 117, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
70 47 0.40
71 1 0.01
72 69 0.59
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (71 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTTCTCAAGGGAGACAA
AACTTG
Found at i:14161648 original size:21 final size:20
Alignment explanation
Indices: 14161512--14161648 Score: 54
Period size: 21 Copynumber: 7.4 Consensus size: 20
14161502 AGAGAAACTC
*
14161512 TCAAGGGAGACAAAACTTGTT
1 TCAAGAGAGACAAAA-TTGTT
* *
14161533 TCAAG-G-G---AAACTGTC
1 TCAAGAGAGACAAAATTGTT
14161548 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAA-TTGTT
* *
14161569 TCAAGAG-G----AACTGTC
1 TCAAGAGAGACAAAATTGTT
*
14161584 TCAAGGGAGACAAAACTTGTT
1 TCAAGAGAGACAAAA-TTGTT
*
14161605 TCAAG-G-G---AAACTGTCT
1 TCAAGAGAGACAAAATTGT-T
14161621 T-AAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAA-TTGTT
14161641 TCAAGAGA
1 TCAAGAGA
14161649 AACTTTTTCA
Statistics
Matches: 85, Mismatches: 11, Indels: 40
0.62 0.08 0.29
Matches are distributed among these distances:
15 23 0.27
16 13 0.15
17 2 0.02
19 2 0.02
20 13 0.15
21 32 0.38
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (20 bp):
TCAAGAGAGACAAAATTGTT
Found at i:14161829 original size:38 final size:37
Alignment explanation
Indices: 14161750--14161921 Score: 109
Period size: 36 Copynumber: 4.7 Consensus size: 37
14161740 AGAGAAACTT
* *
14161750 TCTCAAGAGAGACAAAATTTGTTCTGAAAGAAAAATG
1 TCTCAAGTGAGACAAAATTTGTTCTGAAAGAAAAATA
* * *
14161787 TCTCAAGTGAGACAAAATTTGGTTTTTAGAGAAAACA-A
1 TCTCAAGTGAGACAAAATTT-GTTCTGAAAGAAAA-ATA
** * * * * *
14161825 TCTCAAGTGAGATTAATTTTGTT-TTAAGGAAAATTG
1 TCTCAAGTGAGACAAAATTTGTTCTGAAAGAAAAATA
* * * * * *
14161861 TCTCTAGCGAGACAAAATTTATTCT-TAGGAAAACTA
1 TCTCAAGTGAGACAAAATTTGTTCTGAAAGAAAAATA
* *
14161897 TCTCATGTGAGATC-AATTTTGTTCT
1 TCTCAAGTGAGA-CAAAATTTGTTCT
14161922 AAATATTTCA
Statistics
Matches: 104, Mismatches: 26, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
36 51 0.49
37 24 0.23
38 28 0.27
39 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (37 bp):
TCTCAAGTGAGACAAAATTTGTTCTGAAAGAAAAATA
Found at i:14161843 original size:37 final size:37
Alignment explanation
Indices: 14161750--14161908 Score: 103
Period size: 37 Copynumber: 4.3 Consensus size: 37
14161740 AGAGAAACTT
* * * *
14161750 TCTCAAGAGAGACAAAATTT-GTTCTGAAAGAAAA-ATG
1 TCTCAAGTGAGACAAAATTTGGTT-TTAAGGAAAACA-A
*
14161787 TCTCAAGTGAGACAAAATTTGGTTTTTAGAGAAAACAA
1 TCTCAAGTGAGACAAAATTTGGTTTTAAG-GAAAACAA
** * ***
14161825 TCTCAAGTGAGA-TTAATTTTGTTTTAAGGAAAATTG
1 TCTCAAGTGAGACAAAATTTGGTTTTAAGGAAAACAA
* * * *
14161861 TCTCTAGCGAGACAAAATTT-ATTCTT-AGGAAAACTA
1 TCTCAAGTGAGACAAAATTTGGTT-TTAAGGAAAACAA
*
14161897 TCTCATGTGAGA
1 TCTCAAGTGAGA
14161909 TCAATTTTGT
Statistics
Matches: 95, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
36 34 0.36
37 40 0.42
38 20 0.21
39 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (37 bp):
TCTCAAGTGAGACAAAATTTGGTTTTAAGGAAAACAA
Found at i:14161917 original size:72 final size:74
Alignment explanation
Indices: 14161779--14161919 Score: 196
Period size: 72 Copynumber: 1.9 Consensus size: 74
14161769 TGTTCTGAAA
* * * *
14161779 GAAAAATGTCTCAAGTGAGACAAAATTTGGTTTTTAGAGAAAACAATCTCAAGTGAGATTAATTT
1 GAAAAATGTCTCAAGCGAGACAAAATTTGATTCTTAGAGAAAACAATCTCAAGTGAGATCAATTT
14161844 TGTTTTAAG
66 TGTTTTAAG
* * * *
14161853 GAAAATTGTCTCTAGCGAGACAAAATTT-ATTCTTAG-GAAAACTATCTCATGTGAGATCAATTT
1 GAAAAATGTCTCAAGCGAGACAAAATTTGATTCTTAGAGAAAACAATCTCAAGTGAGATCAATTT
14161916 TGTT
66 TGTT
14161920 CTAAATATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
72 28 0.47
73 6 0.10
74 25 0.42
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (74 bp):
GAAAAATGTCTCAAGCGAGACAAAATTTGATTCTTAGAGAAAACAATCTCAAGTGAGATCAATTT
TGTTTTAAG
Found at i:14169412 original size:768 final size:768
Alignment explanation
Indices: 14167936--14169474 Score: 3033
Period size: 768 Copynumber: 2.0 Consensus size: 768
14167926 CACAACATCC
14167936 CAACATGTCAAAGAAGATAAAATATTTATCCATTCGTGTAGCATTGTTGTTTTAAAAACCTTCTA
1 CAACATGTCAAAGAAGATAAAATATTTATCCATTCGTGTAGCATTGTTGTTTTAAAAACCTTCTA
14168001 ATTTTTATAATTACTGATGACACTGTTTTTCGCCCGAGCGGGGAAAAAACTTGGTACGACTTGAG
66 ATTTTTATAATTACTGATGACACTGTTTTTCGCCCGAGCGGGGAAAAAACTTGGTACGACTTGAG
14168066 GGTTTTATTTTGAAAAGGTTTTGAAAGGTTTATGAGTCGCCATCAAACTTTTGGGTTAGGTAGGT
131 GGTTTTATTTTGAAAAGGTTTTGAAAGGTTTATGAGTCGCCATCAAACTTTTGGGTTAGGTAGGT
14168131 CGAATACCTAAAAACGCCTTTTAAAAGAGTTTTGAAGAAAACATCATTTTAAAAGATAATTCTGT
196 CGAATACCTAAAAACGCCTTTTAAAAGAGTTTTGAAGAAAACATCATTTTAAAAGATAATTCTGT
14168196 CTACGTGTAAATAAAGATTCATTCTTTTTGAAATAAAAAAGGGGTTTGGGGATCGATTACGTGTG
261 CTACGTGTAAATAAAGATTCATTCTTTTTGAAATAAAAAAGGGGTTTGGGGATCGATTACGTGTG
14168261 GGGAAGGATAAGTACCTCCACAACGCCCAAAATTAGTACCCCATCGATTATAAATTGTCCCTAAT
326 GGGAAGGATAAGTACCTCCACAACGCCCAAAATTAGTACCCCATCGATTATAAATTGTCCCTAAT
14168326 AGTGGAAATCTAAGAATTCAGATATAAATTTAAATTATGATCCCATTATTCCAAATTCAACCATA
391 AGTGGAAATCTAAGAATTCAGATATAAATTTAAATTATGATCCCATTATTCCAAATTCAACCATA
14168391 CAATTTTTATTGAATGAAAAATTCTAATGAGAAATAGAAAATATTCCAATATTTCCAATCGAAGA
456 CAATTTTTATTGAATGAAAAATTCTAATGAGAAATAGAAAATATTCCAATATTTCCAATCGAAGA
14168456 GAAATTAATCCCTAAAATACTTTAGGATGAATATTTCTCATTCTAACTGAAATAAAAGGAATACA
521 GAAATTAATCCCTAAAATACTTTAGGATGAATATTTCTCATTCTAACTGAAATAAAAGGAATACA
*
14168521 ATAATTTCTGCCAAGAATTTGAGATTAAAATAATTTAATTCGATCAAAGAAAAAAATAAGTAATA
586 ATAATTTCTGCCAAGAATTTGAGATTAAAATAATTTAATTCGATCAAAGAAAAAAATAAATAATA
14168586 AAAACAATTAAGCCAATTAATCCAAATTATATTAATCATGCTAGATGATGAAAGTTTAAACTAGA
651 AAAACAATTAAGCCAATTAATCCAAATTATATTAATCATGCTAGATGATGAAAGTTTAAACTAGA
14168651 ATGGTAAAAACATATACACAATAAAAATAAAAGGCACAAAAATAATTATCACA
716 ATGGTAAAAACATATACACAATAAAAATAAAAGGCACAAAAATAATTATCACA
14168704 CAACATGTCAAAGAAGATAAAATATTTATCCATTCGTGTAGCATTGTTGTTTTAAAAACCTTCTA
1 CAACATGTCAAAGAAGATAAAATATTTATCCATTCGTGTAGCATTGTTGTTTTAAAAACCTTCTA
*
14168769 ATTTTTATAATTACTGATGACACTGTTTTTCGCCCGAGCGGGGGAAAAACTTGGTACGACTTGAG
66 ATTTTTATAATTACTGATGACACTGTTTTTCGCCCGAGCGGGGAAAAAACTTGGTACGACTTGAG
*
14168834 GGTTTTGTTTTGAAAAGGTTTTGAAAGGTTTATGAGTCGCCATCAAACTTTTGGGTTAGGTAGGT
131 GGTTTTATTTTGAAAAGGTTTTGAAAGGTTTATGAGTCGCCATCAAACTTTTGGGTTAGGTAGGT
14168899 CGAATACCTAAAAACGCCTTTTAAAAGAGTTTTGAAGAAAACATCATTTTAAAAGATAATTCTGT
196 CGAATACCTAAAAACGCCTTTTAAAAGAGTTTTGAAGAAAACATCATTTTAAAAGATAATTCTGT
14168964 CTACGTGTAAATAAAGATTCATTCTTTTTGAAATAAAAAAGGGGTTTGGGGATCGATTACGTGTG
261 CTACGTGTAAATAAAGATTCATTCTTTTTGAAATAAAAAAGGGGTTTGGGGATCGATTACGTGTG
*
14169029 GGGAAGGATAAGTACCTCCACAACGCCCAAAATTAGTACCCCATCGATTATAAATTGTCTCTAAT
326 GGGAAGGATAAGTACCTCCACAACGCCCAAAATTAGTACCCCATCGATTATAAATTGTCCCTAAT
14169094 AGTGGAAATCTAAGAATTCAGATATAAATTTAAATTATGATCCCATTATTCCAAATTCAACCATA
391 AGTGGAAATCTAAGAATTCAGATATAAATTTAAATTATGATCCCATTATTCCAAATTCAACCATA
14169159 CAATTTTTATTGAATGAAAAATTCTAATGAGAAATAGAAAATATTCCAATATTTCCAATCGAAGA
456 CAATTTTTATTGAATGAAAAATTCTAATGAGAAATAGAAAATATTCCAATATTTCCAATCGAAGA
14169224 GAAATTAATCCCTAAAATACTTTAGGATGAATATTTCTCATTCTAACTGAAATAAAAGGAATACA
521 GAAATTAATCCCTAAAATACTTTAGGATGAATATTTCTCATTCTAACTGAAATAAAAGGAATACA
*
14169289 ATAATTTCTGCCAAGAATTTGTGATTAAAATAATTTAATTCGATCAAAGAAAAAAATAAATAATA
586 ATAATTTCTGCCAAGAATTTGAGATTAAAATAATTTAATTCGATCAAAGAAAAAAATAAATAATA
14169354 AAAACAATTAAGCCAATTAATCCAAATTATATTAATCATGCTAGATGATGAAAGTTTAAACTAGA
651 AAAACAATTAAGCCAATTAATCCAAATTATATTAATCATGCTAGATGATGAAAGTTTAAACTAGA
14169419 ATGGTAAAAACATATACACAATAAAAATAAAAGGCACAAAAATAATTATCACA
716 ATGGTAAAAACATATACACAATAAAAATAAAAGGCACAAAAATAATTATCACA
14169472 CAA
1 CAA
14169475 ATATAAGTGG
Statistics
Matches: 766, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
768 766 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (768 bp):
CAACATGTCAAAGAAGATAAAATATTTATCCATTCGTGTAGCATTGTTGTTTTAAAAACCTTCTA
ATTTTTATAATTACTGATGACACTGTTTTTCGCCCGAGCGGGGAAAAAACTTGGTACGACTTGAG
GGTTTTATTTTGAAAAGGTTTTGAAAGGTTTATGAGTCGCCATCAAACTTTTGGGTTAGGTAGGT
CGAATACCTAAAAACGCCTTTTAAAAGAGTTTTGAAGAAAACATCATTTTAAAAGATAATTCTGT
CTACGTGTAAATAAAGATTCATTCTTTTTGAAATAAAAAAGGGGTTTGGGGATCGATTACGTGTG
GGGAAGGATAAGTACCTCCACAACGCCCAAAATTAGTACCCCATCGATTATAAATTGTCCCTAAT
AGTGGAAATCTAAGAATTCAGATATAAATTTAAATTATGATCCCATTATTCCAAATTCAACCATA
CAATTTTTATTGAATGAAAAATTCTAATGAGAAATAGAAAATATTCCAATATTTCCAATCGAAGA
GAAATTAATCCCTAAAATACTTTAGGATGAATATTTCTCATTCTAACTGAAATAAAAGGAATACA
ATAATTTCTGCCAAGAATTTGAGATTAAAATAATTTAATTCGATCAAAGAAAAAAATAAATAATA
AAAACAATTAAGCCAATTAATCCAAATTATATTAATCATGCTAGATGATGAAAGTTTAAACTAGA
ATGGTAAAAACATATACACAATAAAAATAAAAGGCACAAAAATAATTATCACA
Found at i:14171363 original size:124 final size:126
Alignment explanation
Indices: 14171156--14171490 Score: 458
Period size: 124 Copynumber: 2.6 Consensus size: 126
14171146 TTGAACAATT
*
14171156 TCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTATTCTCATTATGAACTCTCCATTTG
1 TCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTG
** *
14171221 AAATGTTGATCCCTCAAGCGAGGCGT-C-ATGTCGTGAATCGAGTGATAGGTTAAACAAGC
66 AAATGTTGATCCCTCAAGCGAGGCGTACTATGTCGTGAATCGAGTGATAGGCCAAACAAAC
* * *
14171280 TCTTCTCATTATGAACTTATTCTTCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTT
1 TCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTG
* *
14171345 AAATGTTGATCCCTCAAGCGAGGCGTCACTGATTTGAAATGTCGTGAATCGAGTTATAGGCCGAA
66 AAATGTTGATCCCTCAAGCGAGGCGT-AC-----T---ATGTCGTGAATCGAGTGATAGGCCAAA
14171410 CAAAC
122 CAAAC
* * *
14171415 TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATAAGTTCTTCTCATTATGAACTCTCCATTG
1 TCTTCTCATTATGAACTTCTTCTCCTTC-ATCGGATGAGTTCTTCTCATTATGAACTCTCCATTT
14171480 GAAATGTTGAT
65 GAAATGTTGAT
14171491 TGGTTTTCCC
Statistics
Matches: 184, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
124 87 0.47
126 1 0.01
135 52 0.28
136 44 0.24
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (126 bp):
TCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTTG
AAATGTTGATCCCTCAAGCGAGGCGTACTATGTCGTGAATCGAGTGATAGGCCAAACAAAC
Found at i:14172750 original size:53 final size:53
Alignment explanation
Indices: 14172589--14172988 Score: 348
Period size: 53 Copynumber: 7.7 Consensus size: 53
14172579 TACAATTATT
* *
14172589 ATCAAGAAACCCCTAAAAATTAGGCTTAGTTT-TTGTAAAATTCATTTGAAAAC
1 ATCAAGAAACTCCTAAAAATTAGGCTTAGTTTCTT-TCAAATTCATTTGAAAAC
* * * * * * * * * *
14172642 ATCAAGAAGCCCCT-GAAATTCAAGCCTAATTTCTTTGAAAGATCA----CATA-
1 ATCAAGAAACTCCTAAAAATT-AGGCTTAGTTTCTTTCAAA-TTCATTTGAAAAC
*
14172691 ATCAAGAAACTTCC-AAAAATT-GGACTTATTTTCTTTCAAATTCATTTGAAAAC
1 ATCAAGAAAC-TCCTAAAAATTAGG-CTTAGTTTCTTTCAAATTCATTTGAAAAC
* * *
14172744 ATCAAGAAACCCCTAAAAATTAGGCTTTGCTTCTTTCAAATTCATTTGAAAAC
1 ATCAAGAAACTCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAAC
*
14172797 ATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAAC
1 ATCAAGAAACTCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAAC
* * * * *
14172850 ATTAAGAAACTCCTTAAAATTAGGCTTAATTTCTTTTGAAATATCA----AATA-
1 ATCAAGAAACTCCTAAAAATTAGGCTTAGTTTC-TTTCAAAT-TCATTTGAAAAC
* *
14172900 ATCAAGAAACTTCC-AAAAATT-GGACTTAGTTTCTTTCAAATTCATTTAAAAATA
1 ATCAAGAAAC-TCCTAAAAATTAGG-CTTAGTTTCTTTCAAATTCATTTGAAAA-C
* *
14172954 ATCAAGAAACTTCC-AAAAATCAGACTTAGTTTCTT
1 ATCAAGAAAC-TCCTAAAAATTAGGCTTAGTTTCTT
14172989 AAAAAATCGC
Statistics
Matches: 285, Mismatches: 38, Indels: 47
0.77 0.10 0.13
Matches are distributed among these distances:
48 7 0.02
49 31 0.11
50 32 0.11
51 6 0.02
52 12 0.04
53 148 0.52
54 45 0.16
55 4 0.01
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (53 bp):
ATCAAGAAACTCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAAC
Found at i:14173170 original size:4 final size:4
Alignment explanation
Indices: 14173161--14173186 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14173151 TTGTAAGAAT
14173161 TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TA
14173187 ATTAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:14174277 original size:29 final size:29
Alignment explanation
Indices: 14174235--14174294 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
14174225 TTAGGCTGAC
14174235 TTGGGAAGGTAATGTGTTTCAGGTTAATT
1 TTGGGAAGGTAATGTGTTTCAGGTTAATT
*
14174264 TTGGGAAGGTAATGTGTTTCAGGTTAGTT
1 TTGGGAAGGTAATGTGTTTCAGGTTAATT
14174293 TT
1 TT
14174295 TTGCGTCCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.03, G:0.32, T:0.43
Consensus pattern (29 bp):
TTGGGAAGGTAATGTGTTTCAGGTTAATT
Found at i:14180318 original size:38 final size:39
Alignment explanation
Indices: 14180276--14180358 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 39
14180266 CATACAATAT
* *
14180276 TACATATACATAT-CATACAATAATGTACGTAA-A-ATAAA
1 TACATATA-ATATACATAAAATAA-ATACGTAATACATAAA
14180314 TACATAATAATATACATAAAATAAATACGTAATACATAAA
1 TACAT-ATAATATACATAAAATAAATACGTAATACATAAA
14180354 -ACATA
1 TACATA
14180359 CTTGATGGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
38 17 0.44
39 17 0.44
40 5 0.13
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.28
Consensus pattern (39 bp):
TACATATAATATACATAAAATAAATACGTAATACATAAA
Found at i:14180323 original size:25 final size:25
Alignment explanation
Indices: 14180294--14180347 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
14180284 CATATCATAC
* *
14180294 AATAATGTACGTAAAATAAATACAT
1 AATAATATACATAAAATAAATACAT
*
14180319 AATAATATACATAAAATAAATACGT
1 AATAATATACATAAAATAAATACAT
14180344 AATA
1 AATA
14180348 CATAAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (25 bp):
AATAATATACATAAAATAAATACAT
Found at i:14181610 original size:17 final size:17
Alignment explanation
Indices: 14181588--14181622 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14181578 CCTAAGAGAC
*
14181588 CGGGTCGGATCCCGAGT
1 CGGGTCAGATCCCGAGT
14181605 CGGGTCAGATCCCGAGT
1 CGGGTCAGATCCCGAGT
14181622 C
1 C
14181623 AGTTCTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.17
Consensus pattern (17 bp):
CGGGTCAGATCCCGAGT
Found at i:14182105 original size:73 final size:72
Alignment explanation
Indices: 14181988--14182169 Score: 267
Period size: 73 Copynumber: 2.5 Consensus size: 72
14181978 TTCTGCTTCG
* *
14181988 AGGGAAACTATCTCAAGCA-AGATAAAATTCGTTTCAAAAGAAACTGTCTCAAGGGAGACGAAAT
1 AGGGAAACTATCTCAAG-AGAGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGGGAGACGAAAT
14182052 TTGTTTCA
65 TTGTTTCA
* * * *
14182060 AGGGAAACTGTATCAAGAGAGACAAAACTTTGTTTCAATAGAAACTGTCTCAAGGGAGATGAAAT
1 AGGGAAACTATCTCAAGAGAGACAAAA-TTTGTTTCAAAAGAAACTGTCTCAAGGGAGACGAAAT
14182125 TTGTTTCA
65 TTGTTTCA
* *
14182133 AGGGAAACTATCTTAAGAGAGACAAAATTTATTTCAA
1 AGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAA
14182170 GAGACACGTT
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
71 1 0.01
72 31 0.32
73 66 0.67
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (72 bp):
AGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGGGAGACGAAATT
TGTTTCA
Found at i:14182170 original size:36 final size:36
Alignment explanation
Indices: 14181988--14182170 Score: 197
Period size: 36 Copynumber: 5.1 Consensus size: 36
14181978 TTCTGCTTCG
* * *
14181988 AGGGAAACTATCTCAAGCA-AGATAAAATTCGTTTCA
1 AGGGAAACTGTCTCAAG-AGAGACAAAATTTGTTTCA
** * *
14182024 AAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCA
1 AGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCA
*
14182060 AGGGAAACTGTATCAAGAGAGACAAAACTTTGTTTCA
1 AGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCA
** * **
14182097 ATAGAAACTGTCTCAAGGGAGATGAAATTTGTTTCA
1 AGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCA
* * *
14182133 AGGGAAACTATCTTAAGAGAGACAAAATTTATTTCA
1 AGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCA
14182169 AG
1 AG
14182171 AGACACGTTT
Statistics
Matches: 119, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
36 89 0.75
37 30 0.25
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (36 bp):
AGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCA
Found at i:14182369 original size:36 final size:35
Alignment explanation
Indices: 14182320--14182428 Score: 110
Period size: 36 Copynumber: 3.0 Consensus size: 35
14182310 ACAAAATTCA
*
14182320 TTTTTTAGAGAAAACAATCTCAAGTGAGATTAATTT
1 TTTTTTAG-GAAAACTATCTCAAGTGAGATTAATTT
* * * **
14182356 TTTTTTAAGGAAAATTATCTCCAGCGAGACAAAATTT
1 TTTTTT-AGGAAAACTATCTCAAGTGAGA-TTAATTT
* * *
14182393 GTTCTTAGGAAAACTATCTCATGTGAGATTAATTT
1 TTTTTTAGGAAAACTATCTCAAGTGAGATTAATTT
14182428 T
1 T
14182429 GTTCTAAATA
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
35 5 0.09
36 40 0.71
37 11 0.20
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (35 bp):
TTTTTTAGGAAAACTATCTCAAGTGAGATTAATTT
Found at i:14183898 original size:12 final size:12
Alignment explanation
Indices: 14183881--14183930 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
14183871 AGTTTTATTG
14183881 TATACATACATA
1 TATACATACATA
14183893 TATACAT--ATA
1 TATACATACATA
*
14183903 TATATATACATA
1 TATACATACATA
* *
14183915 TATATATATATA
1 TATACATACATA
14183927 TATA
1 TATA
14183931 TATATTATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 9 0.26
12 25 0.74
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATACATACATA
Found at i:14183903 original size:2 final size:2
Alignment explanation
Indices: 14183890--14183935 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
14183880 GTATACATAC
* *
14183890 AT AT AT AC AT AT AT AT AT AT AC 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 AT AT AT AT AT AT AT
14183932 AT AT
1 AT AT
14183936 TATGGGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:14183909 original size:14 final size:14
Alignment explanation
Indices: 14183890--14183935 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
14183880 GTATACATAC
14183890 ATATATACATATAT
1 ATATATACATATAT
14183904 ATATATACATATAT
1 ATATATACATATAT
*
14183918 ATATATATATATAT
1 ATATATACATATAT
14183932 ATAT
1 ATAT
14183936 TATGGGTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATATACATATAT
Found at i:14190455 original size:14 final size:14
Alignment explanation
Indices: 14190436--14190487 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
14190426 ATACATATCA
*
14190436 TAAAATAATGTACG
1 TAAAATAATATACG
14190450 TAAAATAA-ATAC-
1 TAAAATAATATACG
*
14190462 -ATAATAATATACG
1 TAAAATAATATACG
14190475 TAAAATAA-ATACG
1 TAAAATAATATACG
14190488 AAATACATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 6 0.19
12 4 0.12
13 8 0.25
14 14 0.44
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (14 bp):
TAAAATAATATACG
Found at i:14190474 original size:25 final size:25
Alignment explanation
Indices: 14190439--14190486 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
14190429 CATATCATAA
*
14190439 AATAATGTACGTAAAATAAATACAT
1 AATAATATACGTAAAATAAATACAT
14190464 AATAATATACGTAAAATAAATAC
1 AATAATATACGTAAAATAAATAC
14190487 GAAATACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (25 bp):
AATAATATACGTAAAATAAATACAT
Found at i:14190492 original size:25 final size:24
Alignment explanation
Indices: 14190438--14190492 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
14190428 ACATATCATA
*
14190438 AAATAATGTACGTAAAATAAATAC
1 AAATAATATACGTAAAATAAATAC
14190462 ATAATAATATACGTAAAATAAATAC
1 A-AATAATATACGTAAAATAAATAC
14190487 GAAATA
1 -AAATA
14190493 CATAAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.25
Consensus pattern (24 bp):
AAATAATATACGTAAAATAAATAC
Found at i:14194981 original size:14 final size:14
Alignment explanation
Indices: 14194962--14195008 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
14194952 ATACATATCA
*
14194962 TAAAATAATGTACG
1 TAAAATAATATACG
14194976 TAAAATAA-ATAC-
1 TAAAATAATATACG
*
14194988 -ATAATAATATACG
1 TAAAATAATATACG
14195001 TAAAATAA
1 TAAAATAA
14195009 ATATGTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
13 3 0.11
14 14 0.52
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (14 bp):
TAAAATAATATACG
Found at i:14197545 original size:14 final size:14
Alignment explanation
Indices: 14197522--14197574 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
14197512 TTACATATAC
14197522 ATAT-CATAAAATA
1 ATATACATAAAATA
*
14197535 ATGTACATAAAATA
1 ATATACATAAAATA
14197549 A-ATACAT--AATA
1 ATATACATAAAATA
*
14197560 ATATACGTAAAATA
1 ATATACATAAAATA
14197574 A
1 A
14197575 ATATGTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 8 0.24
14 15 0.45
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (14 bp):
ATATACATAAAATA
Found at i:14199897 original size:25 final size:25
Alignment explanation
Indices: 14199858--14199911 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
14199848 CATATCATAA
* *
14199858 AATAATGTACGTAAAATAAATACAT
1 AATAATATACATAAAATAAATACAT
*
14199883 AATAATATACATAAAATAAATACGT
1 AATAATATACATAAAATAAATACAT
14199908 AATA
1 AATA
14199912 CATAAAACGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (25 bp):
AATAATATACATAAAATAAATACAT
Found at i:14209599 original size:37 final size:37
Alignment explanation
Indices: 14209553--14209626 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
14209543 CTCTACATAC
* *
14209553 AATATTACAT-ATACATAT-CATAAAATAATGTACGTAA
1 AATAATACATAATA-ATATACATAAAATAA-ATACGTAA
*
14209590 AATAATACATAATAATATACGTAAAATAAATACGTAA
1 AATAATACATAATAATATACATAAAATAAATACGTAA
14209627 TACATAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 20 0.62
38 12 0.38
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (37 bp):
AATAATACATAATAATATACATAAAATAAATACGTAA
Found at i:14209605 original size:24 final size:25
Alignment explanation
Indices: 14209576--14209628 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
14209566 CATATCATAA
*
14209576 AATAATGTACGTAAAAT-AATACAT
1 AATAATATACGTAAAATAAATACAT
*
14209600 AATAATATACGTAAAATAAATACGT
1 AATAATATACGTAAAATAAATACAT
14209625 AATA
1 AATA
14209629 CATAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.28
Consensus pattern (25 bp):
AATAATATACGTAAAATAAATACAT
Found at i:14209622 original size:13 final size:14
Alignment explanation
Indices: 14209573--14209626 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
14209563 ATACATATCA
*
14209573 TAAAATAATGTACG
1 TAAAATAATATACG
14209587 TAAAAT-A-ATAC-
1 TAAAATAATATACG
*
14209598 -ATAATAATATACG
1 TAAAATAATATACG
14209611 TAAAATAA-ATACG
1 TAAAATAATATACG
14209624 TAA
1 TAA
14209627 TACATAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
10 4 0.12
11 1 0.03
12 7 0.21
13 9 0.27
14 12 0.36
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (14 bp):
TAAAATAATATACG
Found at i:14210945 original size:16 final size:17
Alignment explanation
Indices: 14210912--14210945 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14210902 CCTTATGTTT
*
14210912 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
14210929 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
14210945 T
1 T
14210946 AATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:14214325 original size:20 final size:21
Alignment explanation
Indices: 14214289--14214330 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
14214279 AAATTATTAA
*
14214289 ATCATTAAATATTTAAAATAT
1 ATCAATAAATATTTAAAATAT
14214310 ATCAATAAAT-TTTAAAATAT
1 ATCAATAAATATTTAAAATAT
14214330 A
1 A
14214331 ATATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
ATCAATAAATATTTAAAATAT
Found at i:14214341 original size:20 final size:20
Alignment explanation
Indices: 14214296--14214342 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
14214286 TAAATCATTA
14214296 AATA-TTTAAAATATATCAAT
1 AATATTTTAAAATATAT-AAT
14214316 AA-ATTTTAAAATATA-ATAT
1 AATATTTTAAAATATATA-AT
14214335 AATATTTT
1 AATATTTT
14214343 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 1 0.04
19 5 0.21
20 18 0.75
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATTTTAAAATATATAAT
Found at i:14214352 original size:20 final size:20
Alignment explanation
Indices: 14214329--14214399 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
14214319 TTTTAAAATA
14214329 TAATATAATATTTTTTATTT
1 TAATATAATATTTTTTATTT
* * *
14214349 TAATATTATATTTTTCAGTAT
1 TAATATAATATTTTTTA-TTT
14214370 T-ATAATAATA--TTTTATTT
1 TAAT-ATAATATTTTTTATTT
14214388 TAATA-AATATTT
1 TAATATAATATTT
14214400 AATATAATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
17 4 0.10
18 4 0.10
19 7 0.17
20 17 0.43
21 8 0.20
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TAATATAATATTTTTTATTT
Found at i:14214391 original size:16 final size:17
Alignment explanation
Indices: 14214367--14214412 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
14214357 TATTTTTCAG
14214367 TATTATAAT-AATATTT
1 TATTATAATAAATATTT
*
14214383 TATTTTAATAAATA-TT
1 TATTATAATAAATATTT
* *
14214399 TAATATAATTAATA
1 TATTATAATAAATA
14214413 ATATTCATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATAATAAATATTT
Found at i:14214411 original size:59 final size:62
Alignment explanation
Indices: 14214347--14214485 Score: 153
Period size: 64 Copynumber: 2.3 Consensus size: 62
14214337 TATTTTTTAT
* * * * *
14214347 TTTAATATTATATTTTTCAGT-ATTATA-ATAATA-TTTTATTTTAATAAATATTTAATATAA
1 TTTAATAATATATTTTT-AGTAATAAAATATAATATTTTTATTTTAATAAAGATATAATATAA
*
14214407 -TTAATAATATTCATTATTTATTAATAAAATATAATATTTTTATTTTAATAAAGATATAATATAA
1 TTTAATAATA-T-ATT-TTTAGTAATAAAATATAATATTTTTATTTTAATAAAGATATAATATAA
14214471 TTTAA-AATATATTTT
1 TTTAATAATATATTTT
14214486 GGTACATTAG
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
59 8 0.12
60 1 0.02
61 7 0.11
62 10 0.15
63 7 0.11
64 29 0.44
65 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (62 bp):
TTTAATAATATATTTTTAGTAATAAAATATAATATTTTTATTTTAATAAAGATATAATATAA
Found at i:14214440 original size:27 final size:25
Alignment explanation
Indices: 14214410--14214468 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
14214400 AATATAATTA
14214410 ATAATATTCATTATTTATTAATAAA-AT
1 ATAATATT-ATTA-TT-TTAATAAAGAT
*
14214437 ATAATATTTTTATTTTAATAAAGAT
1 ATAATATTATTATTTTAATAAAGAT
14214462 ATAATAT
1 ATAATAT
14214469 AATTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 8 0.27
25 11 0.37
26 3 0.10
27 8 0.27
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
ATAATATTATTATTTTAATAAAGAT
Found at i:14216356 original size:200 final size:196
Alignment explanation
Indices: 14215909--14216604 Score: 766
Period size: 200 Copynumber: 3.5 Consensus size: 196
14215899 TAAGTAAACA
*
14215909 GATATATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
1 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * *
14215974 TTTGGATCGATACAATTTT-A-AATGTATCGACACTTTATGCGTACACCTCGTTCGGCATTTATT
66 TTGGGATCGATAC--TTTTAATAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATT
* * * * *
14216037 CTGGA-AACAAGTATCGACACAAACTTAAAGAGTGTCGAT-CATTATTTAGA-TATATTTTTTCA
129 ATGGACAACAAGTATCGACACAAA-TTAAA-AGTGTTGATACTTTATAT-GACT-TATTTTCTCA
*
14216099 CAAAATC
190 AAAAATC
* * ** * *
14216106 GATATATTTCTATCGACTACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCGATGTTT
1 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
**
14216171 TTGGGATCGATACTTTTAATGAATGTATCGACGTTTTATGCGTGCACC-CGTTTGGCATTCATTA
66 TTGGGATCGATACTTTTAAT-AATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTA
14216235 TGGACAA-AATGTATCGACACAAATTTAATAAGTGTTGATACTTTATGATGACTTATTTTCTCAA
130 TGGACAACAA-GTATCGACACAAA-TTAA-AAGTGTTGATACTTTAT-ATGACTTATTTTCTC-A
14216299 AAAAATC
190 AAAAATC
* * **
14216306 GATATATTTATACCGGTTACATTGTAAATTTACATATTACATTATAATTATTGGTTTTTAT-TTT
1 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* *
14216370 ATTGGGATCGATACTTTTAATAATTGTATTGACACTTTATGCGTGCACCTTGTTTAGGCATTCAT
66 -TTGGGATCGATACTTTTAATAA-TGTATCGACACTTTATGCGTGCACCTCGTTT-GGCATTCAT
* * * *
14216435 TTTGGACAATAAATATCGACACAAATTACACAAGTGTTGATACATTATATAT-ACCTATTTTCT-
128 TATGGACAACAAGTATCGACACAAATTA-A-AAGTGTTGATAC-TT-TATATGACTTATTTTCTC
** *
14216498 AATTAACC
189 AAAAAATC
* * * * * *
14216506 GGTATATTTATACCAGTTACATTGTTAATTTACCTATTACATTATAACTATTGGGTTCGATGTTT
1 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG-TT
* *
14216571 TTTGGG-TCGATACTTTTAGAAAAAGTATCGACAC
65 TTTGGGATCGATACTTTTA-ATAATGTATCGACAC
14216605 ATATTTAGAC
Statistics
Matches: 426, Mismatches: 52, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
195 4 0.01
196 1 0.00
197 89 0.21
198 51 0.12
199 21 0.05
200 181 0.42
201 15 0.04
202 55 0.13
203 6 0.01
204 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (196 bp):
GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGGATCGATACTTTTAATAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTAT
GGACAACAAGTATCGACACAAATTAAAAGTGTTGATACTTTATATGACTTATTTTCTCAAAAAAT
C
Found at i:14221280 original size:201 final size:198
Alignment explanation
Indices: 14220578--14221749 Score: 1381
Period size: 201 Copynumber: 5.9 Consensus size: 198
14220568 TGTTATTTAC
* * * ** **
14220578 AAGTATTGACACAAA-TCTAAAACATGTCGATACATTATGTTCACCTATTTTCTTATAAAACTGG
1 AAGTATCGACACAAATTCCAAAA-GTGTCGATACATTATGTAGACCTATTTTCACATAAAACTGG
* *
14220642 TACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* *
14220707 GGGATCGATACTTTTTAAAAAATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCATTTT
130 GGGATCGATACTTTTT-AAAAATGTATCGACACTTTATGGGTGC-ACCCTTTTGG-ATTCATTCT
*
14220772 GAACAAA
192 GGACAAA
* ** *
14220779 AAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACTGG
1 AAGTATCGACACAAATTCCAAAA-GTGTCGATACATTATGTAGACCTATTTTCACATAAAACTGG
*
14220843 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* ** * *
14220908 GGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTTCACCCTTTTGTACATTCATTCTG
130 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTG--GATTCATTCTG
14220973 GACAAA
193 GACAAA
* * * * *
14220979 ACA-TATCGACACATCATT-CAAAAGTGTCGACACATTATGTAGACCTATTCTAACATAAAACCG
1 A-AGTATCGACACA-AATTCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACTG
* ** * * * *
14221042 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCAATGTTTT
64 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * *
14221107 AGGGATCAATACTATTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGATTTTCCTTG
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCC-TTTTGGA--TTCATTC
*
14221172 TGGACCAA
191 TGGACAAA
* * * * *
14221180 AAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAACTGAT
1 AAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACTGGT
* * *
14221245 TTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* ** * *
14221310 GGATCGATACTTTTTATAAATGTATCGACACTTTATGTATTCACCCCTTTGGGCATTCATTCTGG
131 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCA-CCCTTTTGG-ATTCATTCTGG
14221375 ACAAA
194 ACAAA
*
14221380 AAGTATCGACACAACATT-CAAAAGTGTCGACACATTATGTAGACCTATTTTCACATAAAA-TCG
1 AAGTATCGACACAA-ATTCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACT-G
* * * * * ** * *
14221443 TTATTTTTATATCAGTTATATTACAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTT
64 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
14221508 TGGGATTGATACTTTTTTAAAAA-GTATCGACCCTTTATGGGTGCACCCTTTTTGGGCATTCCTT
129 TGGGATCGATAC-TTTTTAAAAATGTATCGACACTTTATGGGTGCACCC-TTTT-GG-ATTCATT
14221572 CTGGACAAA
190 CTGGACAAA
* * * *
14221581 AAATATCGACACAAATTCCAGAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA-TCGG
1 AAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACT-GG
* * * * * *
14221645 TTTAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATTTA-CGGATTTTGATGTTTC
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTTCGATGTTTT
* *
14221709 TGGGATCGATACTTTTTCAAACTGTATCGACACTTTATGGG
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGG
14221750 AAACTTTAAG
Statistics
Matches: 833, Mismatches: 118, Indels: 40
0.84 0.12 0.04
Matches are distributed among these distances:
199 14 0.02
200 350 0.42
201 464 0.56
202 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (198 bp):
AAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACTGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
GGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGATTCATTCTGGAC
AAA
Found at i:14221355 original size:401 final size:400
Alignment explanation
Indices: 14220632--14221747 Score: 1550
Period size: 401 Copynumber: 2.8 Consensus size: 400
14220622 CTATTTTCTT
* * * ** * *
14220632 ATAAAACTGGTACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTT
1 ATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATAGGTTT
* *
14220697 CGATATTTTTGGGATCGATACTTTTTAAAAAATGTATCGACACTTTATGCGTGCAACCC-TTTTG
66 CGATGTTTTTGGGATCGATACTTTTT-AAAAATGTATCGACACTTTATGGGTGC-ACCCTTTTTG
* * * *
14220761 GCATTCATTTTGAACAAAAAGTATCGACACAAA-TCTAAAACGTGTCGATACATTATGT-TCACC
129 G-ATTCCTTCTGGACAAAAAGTATCGACACAAATTCCAAAA-GTGTCGATACATTATGTAT-ACC
** *
14220824 TATTTTAACATAAAACTGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAAT
191 TATTTTCTCATAAAACTGGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAAT
* *
14220889 TATCAGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTAT-TCGTTCAC
256 TATCGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTCATTCAC
* * *
14220953 CCTTTTGTACATTCATTCTGGACAAAACA-TATCGACACATCATTCAAAAGTGTCGACACATTAT
321 CCCTTTGGACATTCATTCTGGACAAAA-AGTATCGACACAACATTCAAAAGTGTCGACACATTAT
14221017 GTAGACCTATTCTAAC
385 GTAGACCTATTCTAAC
* *
14221033 ATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTT
1 ATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATAGGTTT
* * * *
14221098 CAATGTTTTAGGGATCAATACTATTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGA
66 CGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGA
* * *
14221163 TTTTCCTTGTGGACCAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTATATCTAT
131 --TTCCTTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTATACCTAT
* * *
14221228 TTTCTCAAAAAACTGATTTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTAT
194 TTTCTCATAAAACTGGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTAT
*
14221293 CGGTTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGT-ATTCACCCC
259 CGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTCATTCACCCC
*
14221357 TTTGGGCATTCATTCTGGACAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAG
324 TTTGGACATTCATTCTGGACAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAG
* *
14221422 ACCTATTTTCAC
389 ACCTATTCTAAC
* * * * *
14221434 ATAAAATCGTTATTTTTATATCAGTTATATTACAAAATTACCTATTACATTATAATTATAGGTTT
1 ATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATAGGTTT
* *
14221499 CGATGTTTTTGGGATTGATACTTTTTTAAAAA-GTATCGACCCTTTATGGGTGCACCCTTTTTGG
66 CGATGTTTTTGGGATCGATAC-TTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTT-G
* * *
14221563 GCATTCCTTCTGGACAAAAAATATCGACACAAATTCCAGAAGTGTCGATACATTATGTAGACCTA
129 G-ATTCCTTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTATACCTA
* * * *
14221628 TTCTCTCATAAAA-TCGGTTTAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATTT
193 TTTTCTCATAAAACT-GGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATT
* * *
14221692 A-CGGATTTTGATGTTTCTGGGATCGATACTTTTTCA-AACTGTATCGACACTTTATG
257 ATCGG-TTTCGATGTTTTTGGGATCGATACTTTTT-ATAAATGTATCGACACTTTATG
14221748 GGAAACTTTA
Statistics
Matches: 637, Mismatches: 65, Indels: 26
0.88 0.09 0.04
Matches are distributed among these distances:
399 5 0.01
400 37 0.06
401 574 0.90
402 20 0.03
403 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (400 bp):
ATAAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATAGGTTT
CGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGA
TTCCTTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTATACCTATTT
TCTCATAAAACTGGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCG
GTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGTCATTCACCCCTT
TGGACATTCATTCTGGACAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGAC
CTATTCTAAC
Found at i:14221768 original size:15 final size:15
Alignment explanation
Indices: 14221748--14221786 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14221738 ACACTTTATG
*
14221748 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTAT
*
14221763 GGAAACTTTATGTAT
1 GGAAACTTTAAGTAT
*
14221778 GAAAACTTT
1 GGAAACTTT
14221787 GTTGTGGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (15 bp):
GGAAACTTTAAGTAT
Found at i:14224102 original size:2 final size:2
Alignment explanation
Indices: 14224095--14224128 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14224085 TAGTTTTCGG
14224095 AT AT AT 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 AT AT AT
14224129 CCTTCCCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14225169 original size:56 final size:56
Alignment explanation
Indices: 14225101--14225211 Score: 159
Period size: 56 Copynumber: 2.0 Consensus size: 56
14225091 ATATTTATGG
* * * * *
14225101 GTTTCGATGTTTTTGGTATCGATACTTTTTATAAATATATCGAGACTTTATGCGTT
1 GTTTCAATGTTTTTGGGATCGACACTTTTTAAAAATATATCGACACTTTATGCGTT
* *
14225157 GTTTCAATGTTTTTGGGATCGACAGTTTTTAAAAATGTATCGACACTTTATGCGT
1 GTTTCAATGTTTTTGGGATCGACACTTTTTAAAAATATATCGACACTTTATGCGT
14225212 GCAACGCTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (56 bp):
GTTTCAATGTTTTTGGGATCGACACTTTTTAAAAATATATCGACACTTTATGCGTT
Found at i:14225356 original size:256 final size:256
Alignment explanation
Indices: 14224901--14225409 Score: 955
Period size: 256 Copynumber: 2.0 Consensus size: 256
14224891 ATAATTATAG
*
14224901 GTTTCAATGTTTTTGGGATTGACACTTGTTAAAAATGTATCGACACTTTATGCGTGCAACGCTTT
1 GTTTCAATGTTTTTGGGATCGACACTTGTTAAAAATGTATCGACACTTTATGCGTGCAACGCTTT
14224966 TGGCATTCCTTTTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATGTTGTAGACC
66 TGGCATTCCTTTTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATGTTGTAGACC
*
14225031 TATTCTCTCATTAAACTGGTATAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATT
131 TATTCTCTCATTAAACCGGTATAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATT
* * *
14225096 TATGGGTTTCGATGTTTTTGGTATCGATACTTTTTATAAATATATCGAGACTTTATGCGTT
196 TATGGGTTACGATGTTTCTGGTATCGACACTTTTTATAAATATATCGAGACTTTATGCGTT
* *
14225157 GTTTCAATGTTTTTGGGATCGACAGTTTTTAAAAATGTATCGACACTTTATGCGTGCAACGCTTT
1 GTTTCAATGTTTTTGGGATCGACACTTGTTAAAAATGTATCGACACTTTATGCGTGCAACGCTTT
14225222 TGGCATTCCTTTTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATGTTGTAGACC
66 TGGCATTCCTTTTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATGTTGTAGACC
14225287 TATTCTCTCATTAAACCGGTATAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATT
131 TATTCTCTCATTAAACCGGTATAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATT
14225352 TATGGGTTACGATGTTTCTGGTATCGACACTTTTTATAAATATATCGAGACTTTATGC
196 TATGGGTTACGATGTTTCTGGTATCGACACTTTTTATAAATATATCGAGACTTTATGC
14225410 ATTCATCATT
Statistics
Matches: 246, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
256 246 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (256 bp):
GTTTCAATGTTTTTGGGATCGACACTTGTTAAAAATGTATCGACACTTTATGCGTGCAACGCTTT
TGGCATTCCTTTTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATGTTGTAGACC
TATTCTCTCATTAAACCGGTATAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATT
TATGGGTTACGATGTTTCTGGTATCGACACTTTTTATAAATATATCGAGACTTTATGCGTT
Found at i:14225539 original size:200 final size:200
Alignment explanation
Indices: 14225157--14226204 Score: 1249
Period size: 200 Copynumber: 5.2 Consensus size: 200
14225147 TTTATGCGTT
* * *
14225157 GTTTCAATGTTTTTGGGATCGACAGTTTTTAAAAATGTATCGACACTTTATGCGTGCAACGC-TT
1 GTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGC-AC-CATT
* *
14225221 TT-GGCATTCCTTTTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATGT-TGTAG
64 TTGGGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACAT-TATGTAG
* * * * * ** *
14225284 ACCTATTCTC-TCATTAAACCGGTATAGTTATACTGGTTACATTGTAAATTTACCTATTACATTA
128 ACCTATTCTCAT-ATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTA
*
14225348 TATTTATGG
192 TAATTATGG
* * * * * * * *
14225357 GTTACGATGTTTCTGGTATCGACACTTTTTATAAATATATCGAGACTTTATGCATTCATCATTTT
1 GTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTT
* * * *
14225422 GGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACA
66 GGGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACC
* * *
14225487 TATTCTCATATAAAATCGATATATTTATACCGATTATATTACAAAATTACCTATTATATTATAAT
131 TATTCTCATATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAAT
14225552 TATGG
196 TATGG
* *
14225557 GTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTAATG-GTGCACCCTTTT
1 GTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCA-CCATTT
* * * *
14225621 TGGGCATTCCTTCTTGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACA-TATTGTATA
65 TGGGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTA-TGTAGA
* * *
14225685 CCTATTCTCTTATAAAACCGGTATATGTATACC-AGTTACATTGA-AAAATTACCTATTACATTA
129 CCTATTCTCATATAAAACCGGTATATTTATACCGA-TTATATT-ACAAAATTACCTATTACATTA
14225748 TAATTATGG
192 TAATTATGG
* * *
14225757 GTTTCAATGTTTTTGGGATCGATACTTGTTTATAAATGTATCGACAC-TTATTGCGTGCACCCTT
1 GTTTCGATGTTTTTGGGATCGACACTT-TTTATAAATGTATCGACACTTTA-TGCGTGCA-CCAT
* *
14225821 TTTGGGCATTCCTTCTGGACAAACAA-TATCGACACAAATTCCAGAAGTGTCGATACATTATGTA
63 TTTGGGCATTCCTTCTGGACAAA-AAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTA
* * * * ** *
14225885 GACCTATTCT-TTCATAAAACCGGTTTAGTTATA-CTAGTTATATTGTAAATTTACCTATTACAT
127 GACCTATTCTCAT-ATAAAACCGGTATATTTATACCGA-TTATATTACAAAATTACCTATTACAT
* *
14225948 TATATTTATGA
190 TATAATTATGG
* ** * * *
14225959 GTTTCGATGTTTATGGGATCGACACTTTCAATAAATGTATCAACACTTTATGCGTTCATCATTTT
1 GTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTT
** * *
14226024 GGGCATTTATTATGGACAAAAAGTATCGACACATATTGA-AAAAGTGTCGATACATTATGTAGAC
66 GGGCATTCCTTCTGGACAAAAAGTATCGACACAAATT-ACAAAAGTGTCGATACATTATGTAGAC
* * * *
14226088 CTATTCTCACATAAAACCGATATATTTATACTGGTTATATTACAAAATTACCTATTACATTATAA
130 CTATTCTCATATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAA
14226153 TTATGG
195 TTATGG
* * *
14226159 GTTACGATGTTTTTGAGATCGACACTTTTTATAACTGTATCGACAC
1 GTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACAC
14226205 ATATGCTTAC
Statistics
Matches: 723, Mismatches: 104, Indels: 42
0.83 0.12 0.05
Matches are distributed among these distances:
198 1 0.00
199 14 0.02
200 505 0.70
201 49 0.07
202 150 0.21
203 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (200 bp):
GTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTT
GGGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACATTATGTAGACC
TATTCTCATATAAAACCGGTATATTTATACCGATTATATTACAAAATTACCTATTACATTATAAT
TATGG
Found at i:14226026 original size:402 final size:398
Alignment explanation
Indices: 14225157--14226204 Score: 1315
Period size: 402 Copynumber: 2.6 Consensus size: 398
14225147 TTTATGCGTT
* * *
14225157 GTTTCAATGTTTTTGGGATCGACAGTTTTTAA-AAATGTATCGACACTTTATGCGTGCAACGCTT
1 GTTTCGATGTTTTTGGGATCGACA-CTTTTAATAAATGTATCGACACTTTATGCGTGCAAC-ATT
14225221 TT-GGCATTCCTTTTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATGTTGTAGA
64 TTGGGCATTCCTTTT-GACAAAAAGTATCGACACAAATTACACAAGTGTCGATACAT-TTGTAGA
* * *
14225285 CCTATTCTCTCATTAAACCGGTATA-GTTATACTGGTTACATTGTAAATTTACCTATTACATTAT
127 CCTATTCTCTCATAAAACCGGTATATG-TATACTGGTTACATTGAAAAATTACCTATTACATTAT
* * * * * *
14225349 ATTTATGGGTTACGATGTTTCTGGTATCGACACTTTTTATAAATATATCGAGACTTTATGCATTC
191 AATTATGGGTTACGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATGCATGC
*
14225414 ATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTA
256 ACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTA
* * * *
14225479 TGTAGACATATTCTCATATAAAATCGATATATTTATACCGATTATATTACAAAATTACCTATTAT
321 TGTAGACATATTCTCATATAAAACCGATATAGTTATACAGATTATATTACAAAATTACCTATTAC
*
14225544 ATTATAATTATGG
386 ATTATAATTATGA
* * * *
14225557 GTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTAATG-GTGCACCCTTTT
1 GTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCA-ACATTT
* *
14225621 TGGGCATTCCTTCTTGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACATATTGTATAC
65 TGGGCATTCCTT-TTGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACAT-TTGTAGAC
* **
14225686 CTATTCTCTTATAAAACCGGTATATGTATACCAGTTACATTGAAAAATTACCTATTACATTATAA
128 CTATTCTCTCATAAAACCGGTATATGTATACTGGTTACATTGAAAAATTACCTATTACATTATAA
* * * *
14225751 TTATGGGTTTCAATGTTTTTGGGATCGATACTTGTTTATAAATGTATCGACAC-TTATTGCGTGC
193 TTATGGGTTACGATGTTTTTGGGATCGACACTT-TTTATAAATGTATCGACACTTTA-TGCATGC
* * * ** *
14225815 ACCCTTTTTGGGCATTCCTTCTGGACAAACAA-TATCGACACAAATTCCAGAAGTGTCGATACAT
256 A-CCATTTTGGGCATTCATTCTGGACAAA-AAGTATCGACACAAAATAAAAAAGTGTCGATACAT
* * * * ** *
14225879 TATGTAGACCTATTCT-TTCATAAAACCGGTTTAGTTATACTAG-TTATATTGTAAATTTACCTA
319 TATGTAGACATATTCTCAT-ATAAAACCGATATAGTTATAC-AGATTATATTACAAAATTACCTA
*
14225942 TTACATTATATTTATGA
382 TTACATTATAATTATGA
* * * * *
14225959 GTTTCGATGTTTATGGGATCGACACTTTCAATAAATGTATCAACACTTTATGCGTTCATCATTTT
1 GTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAACATTTT
** * * *
14226024 GGGCATTTATTATGGACAAAAAGTATCGACACATATTGA-AAAAGTGTCGATACATTATGTAGAC
66 GGGCATTCCTT-TTGACAAAAAGTATCGACACAAATT-ACACAAGTGTCGATACATT-TGTAGAC
* * * *
14226088 CTATTCTCACATAAAACCGATATATTTATACTGGTTATATT-ACAAAATTACCTATTACATTATA
128 CTATTCTCTCATAAAACCGGTATATGTATACTGGTTACATTGA-AAAATTACCTATTACATTATA
* *
14226152 ATTATGGGTTACGATGTTTTTGAGATCGACACTTTTTATAACTGTATCGACAC
192 ATTATGGGTTACGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACAC
14226205 ATATGCTTAC
Statistics
Matches: 560, Mismatches: 73, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
399 14 0.03
400 187 0.33
401 47 0.08
402 304 0.54
403 8 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (398 bp):
GTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGTGCAACATTTT
GGGCATTCCTTTTGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATTTGTAGACCTA
TTCTCTCATAAAACCGGTATATGTATACTGGTTACATTGAAAAATTACCTATTACATTATAATTA
TGGGTTACGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACACTTTATGCATGCACCAT
TTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAG
ACATATTCTCATATAAAACCGATATAGTTATACAGATTATATTACAAAATTACCTATTACATTAT
AATTATGA
Found at i:14226578 original size:19 final size:19
Alignment explanation
Indices: 14226554--14226602 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
14226544 TTACATCCAC
14226554 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
14226573 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
14226592 ATACAAAATTA
1 ATACAAAATTA
14226603 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:14228133 original size:18 final size:18
Alignment explanation
Indices: 14228118--14228180 Score: 117
Period size: 18 Copynumber: 3.5 Consensus size: 18
14228108 ATTTCCTCAA
14228118 TCTTTTCTTCTTCCTCTC
1 TCTTTTCTTCTTCCTCTC
14228136 TCTTTTCTTCTTCCTCTC
1 TCTTTTCTTCTTCCTCTC
*
14228154 TCTTTTCTTCTTCCTCCC
1 TCTTTTCTTCTTCCTCTC
14228172 TCTTTTCTT
1 TCTTTTCTT
14228181 GTTCATATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTTTTCTTCTTCCTCTC
Found at i:14228409 original size:33 final size:33
Alignment explanation
Indices: 14228368--14228467 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
14228358 CCATCTTAAG
14228368 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
14228401 TTCACCCCTCAACACCTCAACTTCTTTCACCAT
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
* *
14228434 TTCACCCTTCAATACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
14228467 T
1 T
14228468 CTATCTATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.31
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:14228526 original size:21 final size:21
Alignment explanation
Indices: 14228501--14228544 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14228491 CCCCTTATGC
14228501 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
*
14228522 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
14228543 CT
1 CT
14228545 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:14231193 original size:20 final size:20
Alignment explanation
Indices: 14231168--14231221 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
14231158 TGGTCGCTCT
14231168 ATACCGGTTTTGTCCTTTAG
1 ATACCGGTTTTGTCCTTTAG
14231188 ATACCGGTTTTGTCCTTTAG
1 ATACCGGTTTTGTCCTTTAG
**
14231208 ATACATGTTTTGTC
1 ATACCGGTTTTGTC
14231222 ATATTTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.46
Consensus pattern (20 bp):
ATACCGGTTTTGTCCTTTAG
Found at i:14231736 original size:182 final size:181
Alignment explanation
Indices: 14231189--14231745 Score: 798
Period size: 182 Copynumber: 3.1 Consensus size: 181
14231179 GTCCTTTAGA
* * * *
14231189 TACCGGTTTTGTCCTTTAGATACATG-TTTTGTCATATTTTTACTTGTTATATCGTTATGGATCG
1 TACCGGTTTTGTCCTTTAGAGAC-CGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCG
*
14231253 ATACATTTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
65 ATACATTTTATAAAGAATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
* ** * *
14231318 TGTCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGGTCCCTCTA
130 TGTCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGATAGCGCTT
* * * *
14231370 TAACGGTTTTGTCCTTTAGATACCGGTTTTTTCATATTTTTACCTGTTATATCGTTGTGGATCGA
1 TACCGGTTTTGTCCTTTAGAGACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGA
* ***
14231435 TAGATTGTTATAAA-ATATCGACACTTTATATAAGCTAAAACTGCTTCTCTTTTAAATTCACAAA
66 TACATT-TTATAAAGA-ATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAA
14231499 GTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATCC-AGTAGCGCTT
129 GTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGA-TAGCGCTT
* * * *
14231552 TACCGGTTTTGTCTTTTCGAGATCGATTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGA
1 TACCGGTTTTGTCCTTTAGAGACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGA
* *
14231617 TACATATTTATAAAGAATCGACACTTTATAGGCGCTAAAA-TGGCTTCTCCTTTAAATTCACAAT
66 TACAT-TTTATAAAGAATCGACACTTTATAGGCGCTAAAACT-GCTTCTCTTTTAAATTCACAAA
* *
14231681 GTGTCGATACTTATATTAAAGTATCGACACTTTAAATATATCCGATAGAGCTT
129 GTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGATAGCGCTT
14231734 TACCGGTTTTGT
1 TACCGGTTTTGT
14231746 TATATTTTTA
Statistics
Matches: 337, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
180 1 0.00
181 64 0.19
182 269 0.80
183 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (181 bp):
TACCGGTTTTGTCCTTTAGAGACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGA
TACATTTTATAAAGAATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGT
GTCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGATAGCGCTT
Found at i:14231854 original size:162 final size:162
Alignment explanation
Indices: 14231578--14231963 Score: 621
Period size: 162 Copynumber: 2.4 Consensus size: 162
14231568 TCGAGATCGA
14231578 TTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
1 TTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
14231643 TATAGGCGCTAAAATGGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGA
66 TATAGGCGCTAAAATGGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGA
14231708 CACTTTAAATATATCCGATAGAGCTTTACCGG
131 CACTTTAAATATATCCGATAGAGCTTTACCGG
* *
14231740 TTTTGTTATATTTTTACCTCTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
1 TTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
* *
14231805 TATAGGTGCTAAAACT-GCTTCTCCTTTAAATTCACAATGTGTGGATACTTATATTAAAGTATCG
66 TATAGGCGCTAAAA-TGGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCG
* * *
14231869 ACACTTTCAATATATCCGGTAGCGCTTTACCGG
130 ACACTTTAAATATATCCGATAGAGCTTTACCGG
* * * * ** * *
14231902 TTTTGTCATATTTTTTCCTGTTATATTGATGTGGATCGATATTTTTTTATAAAGTATCGACA
1 TTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
14231964 TAAACCGACA
Statistics
Matches: 207, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
162 206 1.00
163 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.41
Consensus pattern (162 bp):
TTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
TATAGGCGCTAAAATGGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGA
CACTTTAAATATATCCGATAGAGCTTTACCGG
Found at i:14234717 original size:146 final size:147
Alignment explanation
Indices: 14234444--14234722 Score: 345
Period size: 146 Copynumber: 1.9 Consensus size: 147
14234434 AAATCATATT
* * *
14234444 TTAATAGTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCCTTTTA
1 TTAATAGTTAGTTATTTTTTAATACTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTA
* * * * * * *
14234509 CGATATTCTTAAATAAATAAATATCATATTTTTATAAATTATATATTAATTTATTTTAATTAT-T
66 CAATATTCTTAAATAAATAAATATCATATTTATAAAAATAAAATATTAATTGATATTAATTATAT
14234573 TTTAGAGAAATGGTTTA
131 TTTAGAGAAATGGTTTA
* *
14234590 TTAATATTTAGTTATTTTTTAATACTATGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTT-
1 TTAATAGTTAGTTATTTTTTAATACTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTA
* *
14234654 CTAATATT-TCTAAGTAAATAAATATCTTATTTATAAAAATAAGAATA-T-ATCTAGATATT-AT
66 C-AATATTCT-TAAATAAATAAATATCATATTTATAAAAATAA-AATATTAAT-T-GATATTAAT
14234715 TATATTTT
126 TATATTTT
14234723 TTTAAAATTA
Statistics
Matches: 113, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
145 4 0.04
146 98 0.87
147 11 0.10
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (147 bp):
TTAATAGTTAGTTATTTTTTAATACTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTA
CAATATTCTTAAATAAATAAATATCATATTTATAAAAATAAAATATTAATTGATATTAATTATAT
TTTAGAGAAATGGTTTA
Found at i:14235286 original size:28 final size:28
Alignment explanation
Indices: 14235216--14235272 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
14235206 AATTCTTTCC
14235216 TTTCA-AATTTTTTATATATACTTATTAT
1 TTTCATAA-TTTTTATATATACTTATTAT
*
14235244 TTTCATAATATTTATATATA-TTATT-T
1 TTTCATAATTTTTATATATACTTATTAT
14235270 TTT
1 TTT
14235273 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 4 0.15
27 5 0.19
28 16 0.59
29 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTCATAATTTTTATATATACTTATTAT
Found at i:14239337 original size:21 final size:22
Alignment explanation
Indices: 14239311--14239391 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 22
14239301 CAGAACCCTA
*
14239311 GGGGGGTATCGATTCCCCT-AT
1 GGGGGGAATCGATTCCCCTCAT
* *
14239332 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATTCCCC-TCAT
* *
14239355 AGGGGGAATCGGTT-CCCTCAT
1 GGGGGGAATCGATTCCCCTCAT
*
14239376 -GGGGGTATCGATTCCC
1 GGGGGGAATCGATTCCC
14239392 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 11 0.22
21 21 0.42
22 4 0.08
23 14 0.28
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.25
Consensus pattern (22 bp):
GGGGGGAATCGATTCCCCTCAT
Found at i:14239392 original size:20 final size:21
Alignment explanation
Indices: 14239312--14239393 Score: 69
Period size: 20 Copynumber: 3.9 Consensus size: 21
14239302 AGAACCCTAG
* *
14239312 GGGGGTATCGATTCCC-CTAT
1 GGGGGAATCGATTCCCTCAAT
* *
14239332 GGGGGGAATCGGTTCCCCTTCAAA
1 -GGGGGAATCGATT-CCC-TCAAT
*
14239356 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGATTCCCTCAAT
*
14239376 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
14239394 TGCACCAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 17 0.33
21 13 0.25
22 6 0.12
23 13 0.25
24 2 0.04
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.26
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTCAAT
Found at i:14246284 original size:43 final size:43
Alignment explanation
Indices: 14246223--14246308 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
14246213 TGGCTTTAGA
* *
14246223 GAAGTTAGGAGGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGTTATCCCATATATGTAAAGTTTTGTT
* *
14246266 GAAGTTAGGACTGAAAGTTGTCCCATATATGTAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGTTATCCCATATATGTAAAGTTTTGTT
14246309 TGATGCACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (43 bp):
GAAGTTAGGACGGAAAGTTATCCCATATATGTAAAGTTTTGTT
Found at i:14254663 original size:22 final size:22
Alignment explanation
Indices: 14254635--14254714 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
14254625 TAAATCCACA
14254635 CTCTTCAAAGATGATAGATTTT
1 CTCTTCAAAGATGATAGATTTT
14254657 CTCTTCAAAGATGATAGATTTT
1 CTCTTCAAAGATGATAGATTTT
* *
14254679 CTCTTCAAAGTTGATAGATTCT
1 CTCTTCAAAGATGATAGATTTT
*
14254701 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
14254715 ATGCTTTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTTT
Found at i:14255681 original size:39 final size:39
Alignment explanation
Indices: 14255583--14255681 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
14255573 GGCCATGTAG
* *
14255583 AGTTCAAAATGAGAAGAACTCATCTGAAGAAGAAAAAGA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAAGAAAAAGA
* * *
14255622 AGTTCATAATGAGAAGAACTTATTTGAAGAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAAGAAAAAGA
*
14255661 AGTTCATAATAAGAAGAACTT
1 AGTTCATAATGAGAAGAACTT
14255682 GTCCAACCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.21
Consensus pattern (39 bp):
AGTTCATAATGAGAAGAACTTATCTGAAGAAGAAAAAGA
Found at i:14255881 original size:121 final size:120
Alignment explanation
Indices: 14255619--14256055 Score: 632
Period size: 121 Copynumber: 3.6 Consensus size: 120
14255609 AAGAAGAAAA
* * *
14255619 AGAAGT-TCATAATGAGAAGAACTTATTTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAACTTG
1 AGAAGTGTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* *
14255683 TCCAACCTTTTGC-TAGATTCTATCACAGATA-GAGATAGATCAGCATCAACATTTCC
66 TTCAACC-TTTGCAT-GACTCTATCACAGA-AGGAGATAGATCAGCATCAACATTTCC
* *
14255739 AGAAGTGTTACTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGACGAACTT
1 AGAAGTGTCA-TAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * *
14255804 GTTCAACCTTTGCATGACTATATCACAGAAGGAGATATATCAGCATCAACATTTCT
65 GTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCC
14255860 AGAAGTGATCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 AGAAGTG-TCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTT
14255925 GTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCC
65 GTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCC
* * * * *
14255981 GACAAAGT-TCATAATGAGAAGAACTCATCTAAAGAAGG-AGAAGAAATCCATAATGAGAAGAAT
1 -A-GAAGTGTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAAC
14256044 TTGTTCAACCTT
63 TTGTTCAACCTT
14256056 GCCTTAATTC
Statistics
Matches: 289, Mismatches: 20, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
120 7 0.02
121 214 0.74
122 64 0.22
123 4 0.01
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (120 bp):
AGAAGTGTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTCC
Found at i:14256402 original size:3 final size:3
Alignment explanation
Indices: 14256396--14256446 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
14256386 TTTTTTCATT
* *
14256396 TTA TTA TTA TTA TTA TTG TTA -TA TTA TTA TTA TTA TTA TTTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
14256441 TTA TTA
1 TTA TTA
14256447 AATAAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14256422 original size:14 final size:14
Alignment explanation
Indices: 14256396--14256446 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
14256386 TTTTTTCATT
14256396 TTATTATTATTATTA
1 TTATTA-TATTATTA
*
14256411 TTGTTATATTATTA
1 TTATTATATTATTA
*
14256425 TTATTATTATTTATTT
1 TTATTA-TA-TTATTA
14256441 TTATTA
1 TTATTA
14256447 AATAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.42
15 7 0.23
16 11 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:14256422 original size:17 final size:17
Alignment explanation
Indices: 14256400--14256446 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
14256390 TTCATTTTAT
*
14256400 TATTATTATTATTGTTA
1 TATTATTATTATTATTA
14256417 TATTATTATTATTATTA
1 TATTATTATTATTATTA
*
14256434 T-TTATTTTTATTA
1 TATTATTATTATTA
14256447 AATAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:14257965 original size:41 final size:41
Alignment explanation
Indices: 14257885--14257965 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
14257875 GCTTTTTATA
* *
14257885 TTTTAATATTATAGTTTTAATTTCATTTATTTTAGTTATTG
1 TTTTAATATTATAGTTTTAATTTCATATATTTTAATTATTG
* *
14257926 TTTTAATTTTATA-TGTTTATTTTCA-ATATATTTAATTATT
1 TTTTAATATTATAGT-TTTAATTTCATATAT-TTTAATTATT
14257966 ATTATTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.64
Consensus pattern (41 bp):
TTTTAATATTATAGTTTTAATTTCATATATTTTAATTATTG
Found at i:14258381 original size:146 final size:147
Alignment explanation
Indices: 14258111--14258388 Score: 339
Period size: 146 Copynumber: 1.9 Consensus size: 147
14258101 TAGTCATATT
* * * *
14258111 TTAATATTTATTTATTTATTAATATTAATAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTC
1 TTAATATTTAGTTATTTATTAATATTAAGAAATGGGATGTCTTAAAGCACCTAGAAATCATTTTC
* * * ** *
14258176 TAATATTCTTAAATAAATAAATATCCTATTTCTATAAATTATATATTAATTTATTTTAAT-TATT
66 TAATATTCTTAAATAAATAAATATCCTATTTATATAAATAAAATATTAATAGATATTAATATATT
14258240 TTTAGAGAAATGTTTTC
131 TTTAGAGAAATGTTTTC
* * * *
14258257 TTAATATTTAGTTATTTTTTAATATTAAGAAATTGGATGTCTTAAAGCACGTAGAAATTATTTTC
1 TTAATATTTAGTTATTTATTAATATTAAGAAATGGGATGTCTTAAAGCACCTAGAAATCATTTTC
* * **
14258322 TGATATT-TCTAAGTAAATAAATATTTTATTTATA-AAATAAAA-ATATATATAGATATTAATAT
66 TAATATTCT-TAAATAAATAAATATCCTATTTATATAAATAAAATAT-TA-ATAGATATTAATAT
14258384 ATTTT
128 ATTTT
14258389 CTTAAAATTA
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
144 2 0.02
145 9 0.08
146 93 0.85
147 6 0.05
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (147 bp):
TTAATATTTAGTTATTTATTAATATTAAGAAATGGGATGTCTTAAAGCACCTAGAAATCATTTTC
TAATATTCTTAAATAAATAAATATCCTATTTATATAAATAAAATATTAATAGATATTAATATATT
TTTAGAGAAATGTTTTC
Found at i:14259283 original size:24 final size:24
Alignment explanation
Indices: 14259251--14259296 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
14259241 CCATAAGGAT
14259251 CGTACCACAAGACTAGAGAAAACA
1 CGTACCACAAGACTAGAGAAAACA
* *
14259275 CGTACCACATGAGTAGAGAAAA
1 CGTACCACAAGACTAGAGAAAA
14259297 GCGTATCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.11
Consensus pattern (24 bp):
CGTACCACAAGACTAGAGAAAACA
Found at i:14266900 original size:35 final size:35
Alignment explanation
Indices: 14266860--14266929 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
14266850 CTACAGTAAC
14266860 CAAAACAGGATTCTTCCCTTCATTTTTAGAGTTGT
1 CAAAACAGGATTCTTCCCTTCATTTTTAGAGTTGT
14266895 CAAAACAGGATTCTTCCCTTCATTTTTAGAGTTGT
1 CAAAACAGGATTCTTCCCTTCATTTTTAGAGTTGT
14266930 TAGGGGTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (35 bp):
CAAAACAGGATTCTTCCCTTCATTTTTAGAGTTGT
Found at i:14267934 original size:20 final size:21
Alignment explanation
Indices: 14267909--14267949 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
14267899 AACCAAATGA
14267909 GTAGTATCGGTACTAC-ATAG
1 GTAGTATCGGTACTACTATAG
14267929 GTAGTATCGGTACTACTATAG
1 GTAGTATCGGTACTACTATAG
14267950 TGCATGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (21 bp):
GTAGTATCGGTACTACTATAG
Found at i:14269817 original size:12 final size:12
Alignment explanation
Indices: 14269800--14269836 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
14269790 GTCATTTCTT
*
14269800 GAGGATTAGGAG
1 GAGGATTTGGAG
*
14269812 GAGGATTTGGAA
1 GAGGATTTGGAG
14269824 GAGGATTTGGAG
1 GAGGATTTGGAG
14269836 G
1 G
14269837 TGGGTTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.49, T:0.22
Consensus pattern (12 bp):
GAGGATTTGGAG
Found at i:14275337 original size:27 final size:27
Alignment explanation
Indices: 14275299--14275356 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
14275289 CCTTCATGTA
*
14275299 TGGCTTGGATCTTATACCATATCTCCT
1 TGGCTTGGATCTTATACCATATCTCAT
*
14275326 TGGCTTGGATCTTATATCATATCTCAT
1 TGGCTTGGATCTTATACCATATCTCAT
14275353 TGGC
1 TGGC
14275357 CTCTAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (27 bp):
TGGCTTGGATCTTATACCATATCTCAT
Found at i:14277693 original size:20 final size:20
Alignment explanation
Indices: 14277656--14277699 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
14277646 GAGTACAAAT
*
14277656 TAATATTTTAAAACTTTGAG
1 TAATATTTTAAAACTTTGAA
*
14277676 TAATATTTGTAATA-TTTGAA
1 TAATATTT-TAAAACTTTGAA
14277696 TAAT
1 TAAT
14277700 TGAATCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (20 bp):
TAATATTTTAAAACTTTGAA
Found at i:14284251 original size:64 final size:64
Alignment explanation
Indices: 14284160--14284281 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
14284150 ATTGTTCAAG
* * * * *
14284160 GTGTATCTATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGAAGTGCATCGATACACCCCTTTAAAATAAAAACATCGAATGCCATCA
* * *
14284224 GTGTATCGATGCCCAAGTAGTGCATCGATACACCCCTTTAAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGAAGTGCATCGATACACCCCTTTAAAATAAAAACATCGAATG
14284282 GGATTTATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (64 bp):
GTGTATCGATGCACAAGAAGTGCATCGATACACCCCTTTAAAATAAAAACATCGAATGCCATCA
Found at i:14284309 original size:64 final size:63
Alignment explanation
Indices: 14284178--14284322 Score: 159
Period size: 64 Copynumber: 2.3 Consensus size: 63
14284168 ATGCACATGA
* * *
14284178 AGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGCCATCAGTGTATCGATGCCCAAGT
1 AGTGCATCGATGCACCCCTTTAAAATAAAAACATCGAATGCCATCAGTGTACCGATG-CCAAGT
* * ** *
14284242 AGTGCATCGATACACCCCTTTAAAATACAAACATCGAATGGGATTTA-TGTACCGATG-CATAGA
1 AGTGCATCGATGCACCCCTTTAAAATAAAAACATCGAATGCCA-TCAGTGTACCGATGCCA-AG-
14284305 T
63 T
*
14284306 AGTGCATTGATGCACCC
1 AGTGCATCGATGCACCC
14284323 GTCAAGGGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
62 2 0.03
63 2 0.03
64 62 0.91
65 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (63 bp):
AGTGCATCGATGCACCCCTTTAAAATAAAAACATCGAATGCCATCAGTGTACCGATGCCAAGT
Found at i:14289977 original size:64 final size:64
Alignment explanation
Indices: 14289909--14290030 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
14289899 ATTGTTCAAG
* * ** *
14289909 GTGTATCGATGCACATGAAGTGTATCAATGCACTTCTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGAAGTGCATCAATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
* * * *
14289973 GTGTATCGGTGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGAAGTGCATCAATGCACCCCCTTAAAATAAAAACATCGAATG
14290031 AGATTTATGT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (64 bp):
GTGTATCGATGCACAAGAAGTGCATCAATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
Found at i:14311193 original size:29 final size:29
Alignment explanation
Indices: 14311139--14311228 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 29
14311129 ACGTTAGAGG
*
14311139 ATCCTATACAGAATCAAGATGGGGATATA
1 ATCCTATACAGAATCAAGACGGGGATATA
* *
14311168 ATTCTATACAGAAT-AATGACGTGGATATA
1 ATCCTATACAGAATCAA-GACGGGGATATA
* *
14311197 ATCCCATACAGAACCAAGA-GGAGGATATA
1 ATCCTATACAGAATCAAGACGG-GGATATA
14311226 ATC
1 ATC
14311229 TCATGTAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.06
29 46 0.90
30 2 0.04
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (29 bp):
ATCCTATACAGAATCAAGACGGGGATATA
Found at i:14311298 original size:29 final size:29
Alignment explanation
Indices: 14311247--14311315 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
14311237 AATTACAACG
*
14311247 GGGATCAAAT-TCAATGAATAATCAGGACT
1 GGGATCAAATCTCAATGAAGAATCAGGA-T
*
14311276 GGGATCAAATCTC-ATGTAGAATCAGGAT
1 GGGATCAAATCTCAATGAAGAATCAGGAT
14311304 GGGATTCAAATC
1 GGGA-TCAAATC
14311316 CTATCATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 5 0.14
29 29 0.81
30 2 0.06
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (29 bp):
GGGATCAAATCTCAATGAAGAATCAGGAT
Found at i:14323359 original size:12 final size:12
Alignment explanation
Indices: 14323323--14323352 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14323313 GCTTATTTAG
*
14323323 TATATATGATAA
1 TATATATAATAA
14323335 TATATATAATAA
1 TATATATAATAA
14323347 TATATA
1 TATATA
14323353 GTATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
TATATATAATAA
Found at i:14323424 original size:37 final size:37
Alignment explanation
Indices: 14323360--14323582 Score: 163
Period size: 37 Copynumber: 6.0 Consensus size: 37
14323350 ATAGTATAAT
*
14323360 TTTTA-AAAATA-TTTTTGAAAACGTATAATATATAG
1 TTTTAGAAAATATTTTTTGAAAACATATAATATATAG
* *
14323395 TTTTAGAAAATGTTTTTTGAAATCATATAATATATAGTG
1 TTTTAGAAAATATTTTTTGAAAACATATAATATATA--G
* ** *
14323434 TTTTA-AAAGTCGGTTTTTGAAAACATAT-ATAATATGG
1 TTTTAGAAAAT-ATTTTTTGAAAACATATAAT-ATATAG
* **
14323471 TTTT-GAAAACATATTTTTGAAAATGTATAATATATAG
1 TTTTAGAAAATAT-TTTTTGAAAACATATAATATATAG
* * * *
14323508 TTTAAAAAAATCATTTTTTAAAAACATAT-ATAAAATAG
1 TTTTAGAAAAT-ATTTTTTGAAAACATATAAT-ATATAG
* * *
14323546 TTTT-GAAAACATATTTTTGAATATATATATATATATA
1 TTTTAGAAAATAT-TTTTTGAAAACATATA-ATATATA
14323583 TATATATATA
Statistics
Matches: 145, Mismatches: 28, Indels: 27
0.73 0.14 0.14
Matches are distributed among these distances:
35 5 0.03
36 7 0.05
37 68 0.47
38 36 0.25
39 29 0.20
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (37 bp):
TTTTAGAAAATATTTTTTGAAAACATATAATATATAG
Found at i:14323488 original size:76 final size:74
Alignment explanation
Indices: 14323364--14323582 Score: 239
Period size: 75 Copynumber: 2.9 Consensus size: 74
14323354 TATAATTTTT
* **
14323364 AAAAAT-A-TTTTTGAAAACGTATA-ATATATAGTTTTAGAAAATGT-TTTTTGAAATCATATAA
1 AAAAATCAGTTTTTGAAAACATATATA-ATATAGTTTT-GAAAACATATTTTTGAAAT-ATATAA
**
14323425 TATATAGTGTTTT
63 TATATAGT-TTAA
* * * *
14323438 AAAAGTCGGTTTTTGAAAACATATATAATATGGTTTTGAAAACATATTTTTGAAAATGTATAATA
1 AAAAATCAGTTTTTGAAAACATATATAATATAGTTTTGAAAACATATTTTTG-AAATATATAATA
14323503 TATAGTTTAA
65 TATAGTTTAA
* * *
14323513 AAAAATCATTTTTTAAAAACATATATAAAATAGTTTTGAAAACATATTTTTGAATATATATATAT
1 AAAAATCAGTTTTTGAAAACATATATAATATAGTTTTGAAAACATATTTTTGAA-ATATATA-AT
14323578 ATATA
64 ATATA
14323583 TATATATATA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
74 7 0.06
75 60 0.49
76 50 0.41
77 5 0.04
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.42
Consensus pattern (74 bp):
AAAAATCAGTTTTTGAAAACATATATAATATAGTTTTGAAAACATATTTTTGAAATATATAATAT
ATAGTTTAA
Found at i:14323562 original size:38 final size:37
Alignment explanation
Indices: 14323447--14323563 Score: 114
Period size: 36 Copynumber: 3.1 Consensus size: 37
14323437 TAAAAGTCGG
* * *
14323447 TTTTTGAAAACATATATAATATGGTTTTGAAAACATA
1 TTTTTTAAAACATATATAAAATAGTTTTGAAAACATA
* * * *
14323484 -TTTTTGAAA-ATGTATAATATATAG-TTTAAAAAAATCA
1 TTTTTTAAAACATATATAA-A-ATAGTTTTGAAAACAT-A
14323521 TTTTTTAAAAACATATATAAAATAGTTTTGAAAACATA
1 TTTTTT-AAAACATATATAAAATAGTTTTGAAAACATA
14323559 TTTTT
1 TTTTT
14323564 GAATATATAT
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
35 7 0.11
36 16 0.26
37 4 0.06
38 15 0.24
39 13 0.21
40 7 0.11
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTTTTAAAACATATATAAAATAGTTTTGAAAACATA
Found at i:14323573 original size:2 final size:2
Alignment explanation
Indices: 14323566--14323600 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14323556 ATATTTTTGA
14323566 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 A
14323601 GTTTTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14323660 original size:22 final size:22
Alignment explanation
Indices: 14323634--14323684 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
14323624 CATATATAAT
*
14323634 ATATATAATTTTTGAAAACATA
1 ATATATAATTTTTAAAAACATA
* * *
14323656 TTATATAGTTTTTAAAAATATA
1 ATATATAATTTTTAAAAACATA
14323678 ATATATA
1 ATATATA
14323685 TTATATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (22 bp):
ATATATAATTTTTAAAAACATA
Found at i:14323685 original size:29 final size:33
Alignment explanation
Indices: 14323653--14323723 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 33
14323643 TTTTGAAAAC
*
14323653 ATATTATATAGTTTTT-AA-AAATATA-A-TAT
1 ATATTATATAATTTTTAAATAAATATATAGTAT
14323682 ATATTATATAATTTTTAAATAAATATATAGTAT
1 ATATTATATAATTTTTAAATAAATATATAGTAT
*
14323715 GTATTATAT
1 ATATTATAT
14323724 TTATAGTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 15 0.42
30 2 0.06
31 7 0.19
32 1 0.03
33 11 0.31
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (33 bp):
ATATTATATAATTTTTAAATAAATATATAGTAT
Found at i:14325103 original size:46 final size:44
Alignment explanation
Indices: 14325010--14325103 Score: 107
Period size: 46 Copynumber: 2.1 Consensus size: 44
14325000 TCTTTTAAAA
* * *
14325010 TTTAACATTTTCTTCATTTTATTATTTTTTATTTTTATTTCTCT
1 TTTAACATTTTCTTCAATTTATTATTCTTTATTTTTATTTATCT
* * * *
14325054 TTTAACATTTTTACTTTAATTTATTATTCTTTCTTTTTTTTTATTT
1 TTTAACA-TTTT-CTTCAATTTATTATTCTTTATTTTTATTTATCT
14325100 TTTA
1 TTTA
14325104 TTTTCTTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 7 0.17
45 4 0.10
46 30 0.73
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (44 bp):
TTTAACATTTTCTTCAATTTATTATTCTTTATTTTTATTTATCT
Found at i:14330460 original size:18 final size:18
Alignment explanation
Indices: 14330437--14330473 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14330427 ATCTTTTTTT
14330437 ATACCATACCTTTTAAAA
1 ATACCATACCTTTTAAAA
14330455 ATACCATACCTTTTAAAA
1 ATACCATACCTTTTAAAA
14330473 A
1 A
14330474 AGAAGAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (18 bp):
ATACCATACCTTTTAAAA
Found at i:14331796 original size:22 final size:23
Alignment explanation
Indices: 14331765--14331807 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
14331755 CTCCAAATTA
14331765 GGTTCAAGAGCCAATT-AATATG
1 GGTTCAAGAGCCAATTCAATATG
*
14331787 GGTTCGAGAGCCAATTCAATA
1 GGTTCAAGAGCCAATTCAATA
14331808 ATGAATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (23 bp):
GGTTCAAGAGCCAATTCAATATG
Found at i:14332100 original size:41 final size:42
Alignment explanation
Indices: 14332032--14332119 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
14332022 CGAAATGGAA
* * *
14332032 TCATCTAAAGAATTAAGATCGA-TTTAAACTGCAAAAGGGAG
1 TCATCTAAAGAATCAAGATAGACTTAAAACTGCAAAAGGGAG
* * * *
14332073 TCATCTAAAGAATCATGATAGGCTTAAAACTGCGAATGGGAG
1 TCATCTAAAGAATCAAGATAGACTTAAAACTGCAAAAGGGAG
*
14332115 CCATC
1 TCATC
14332120 CTTCACTTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 18 0.47
42 20 0.53
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (42 bp):
TCATCTAAAGAATCAAGATAGACTTAAAACTGCAAAAGGGAG
Found at i:14332488 original size:201 final size:200
Alignment explanation
Indices: 14332138--14333207 Score: 1322
Period size: 201 Copynumber: 5.3 Consensus size: 200
14332128 AGAGGAACCG
* * * * ** * * *
14332138 TTTATAACATAGCTCATGGCGAGAAGTACTATCTGTCAATGAAAACTTTTGAGTTCGATTTCATT
1 TTTACAACATAGCTTAAGTCGAGAAAAACTATCTGTCAACGAAAACTTTCGAGTTCGATTCCATT
* * ** * * *
14332203 CAGCTCGAGGGCATATTAATTGCATGGTAGCAGCGAGGAACTGCTTTCCGGTTAAAGTTTAAACT
66 CAGCTCGAGGGTATATCAACCGCATGGTAGCAGCGAGGAACTACTTTCCGGTTGAAGTTTAAACC
* * *
14332268 GAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTATGATTTAGCGACAAGAAATTATCTCTTA
131 GAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGATTTAGCGACAAG-AACTATCTCCTA
14332333 GCCTAA
195 GCCTAA
* * *
14332339 TTTACAACATAGTTTAAGTCGAGAAAAGCTATTTGTCAACGAAAACTTTCGAGTTC-ACTTCCAT
1 TTTACAACATAGCTTAAGTCGAGAAAAACTATCTGTCAACGAAAACTTTCGAGTTCGA-TTCCAT
* *
14332403 TCATCTCAAGGGTATATCAACCGCATGGTAGCAGCGAGGGAA-TACTTTCCGGTTGAAGTTTAAA
65 TCAGCTCGAGGGTATATCAACCGCATGGTAGCAGCGA-GGAACTACTTTCCGGTTGAAGTTTAAA
* * *
14332467 CCGAGGTCTCTAAGCCAAGAAGAAGACATAGGTTAGTTGTGATTTAGCGACAAGGAACTATCTCC
129 CCGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGATTTAGCGACAA-GAACTATCTCC
*
14332532 TAGTCTAA
193 TAGCCTAA
* * * * * * *
14332540 TTTACAACATAGCTTAAATCGAGAAAAACTATCTATCATCAAAAATTTTCGACTTCTATTCCATT
1 TTTACAACATAGCTTAAGTCGAGAAAAACTATCTGTCAACGAAAACTTTCGAGTTCGATTCCATT
* *** * * * **
14332605 -AACTCGAGGGTATATCAACCGCATGGTAGCAAAAAGGAATTACTTTCTGATTGAAGTTTAAATT
66 CAGCTCGAGGGTATATCAACCGCATGGTAGCAGCGAGGAACTACTTTCCGGTTGAAGTTTAAACC
* * * *
14332669 GAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGGGATTTAGAGACAATGAACTATCTCCTA
131 GAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGATTTAGCGACAA-GAACTATCTCCTA
14332734 -CCTAA
195 GCCTAA
* * * *
14332739 TTTATAA-ATAACTTAAGTCGAGAAAAACTATCTGTCAACGAAAACTTTTGAGTTCGATTTCATT
1 TTTACAACATAGCTTAAGTCGAGAAAAACTATCTGTCAACGAAAACTTTCGAGTTCGATTCCATT
* * * **
14332803 CAGCTCGAGGGTATATCAACCGCATTGTAGAAGCGAGGAACTACTTTTCAATTGAAGTTTAAACC
66 CAGCTCGAGGGTATATCAACCGCATGGTAGCAGCGAGGAACTACTTTCCGGTTGAAGTTTAAACC
* * *
14332868 GAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTTGCTGTGATTTAGAGACAATGAACTATCTCCCA
131 GAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGATTTAGCGACAA-GAACTATCTCCTA
14332933 GCCTAA
195 GCCTAA
* *
14332939 TTTACAACATAGCTTAAGTCGTGAAAAACTATATGTCAACGAAAACTTTCGAGTTCGATTCCATT
1 TTTACAACATAGCTTAAGTCGAGAAAAACTATCTGTCAACGAAAACTTTCGAGTTCGATTCCATT
* * *
14333004 CAGCTCGAGTGTATATCAACCGCATAGTAGCAGTGAGGAACTACTTTCCGGTTGAAGTTTAAACC
66 CAGCTCGAGGGTATATCAACCGCATGGTAGCAGCGAGGAACTACTTTCCGGTTGAAGTTTAAACC
* * * * * *
14333069 GAGGTCTTTAAGCCAAGAAGAAGACTTATGTTAGTTGTGATTTAACGACAAGAAACTATTTCCCA
131 GAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGATTTAGCGACAAG-AACTATCTCCTA
* *
14333134 ACATAA
195 GCCTAA
* * * * * * *
14333140 TTTACAACATAGATTAAGTCAAGAAAAGCTATCTATCAACGAAAACTTTCTAATTTGATTCCATT
1 TTTACAACATAGCTTAAGTCGAGAAAAACTATCTGTCAACGAAAACTTTCGAGTTCGATTCCATT
14333205 CAG
66 CAG
14333208 TTCAAGGAAC
Statistics
Matches: 747, Mismatches: 113, Indels: 18
0.85 0.13 0.02
Matches are distributed among these distances:
198 47 0.06
199 127 0.17
200 120 0.16
201 447 0.60
202 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (200 bp):
TTTACAACATAGCTTAAGTCGAGAAAAACTATCTGTCAACGAAAACTTTCGAGTTCGATTCCATT
CAGCTCGAGGGTATATCAACCGCATGGTAGCAGCGAGGAACTACTTTCCGGTTGAAGTTTAAACC
GAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGATTTAGCGACAAGAACTATCTCCTAG
CCTAA
Found at i:14332946 original size:399 final size:400
Alignment explanation
Indices: 14332179--14333189 Score: 1260
Period size: 399 Copynumber: 2.5 Consensus size: 400
14332169 TCTGTCAATG
* * * * * * ** * ***
14332179 AAAACTTTTGAGTTCGATTTCATTCAGCTCGAGGGCATATTAATTGCATGGTAGCAGCGAGGAAC
1 AAAACTTTCGACTTCGATTCCATTCAACTCGAGGGTATATCAACCGCATAGTAGCAAAAAGGAAC
* * * *
14332244 TGCTTTCCGGTTAAAGTTTAAACTGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTATGAT
66 TACTTTCCGATTGAAGTTTAAACTGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGAT
* * * * *
14332309 TTAGCGACAAGAAATTATCTCTTAGCCTAATTTACAACATAGTTTAAGTCGAGAAAAGCTATTTG
131 TTAGAGACAAGAAACTATCTCCTA-CCTAATTTACAACATA-ATTAAGTCGAGAAAAGCTATCTG
* *
14332374 TCAACGAAAACTTTCGAGTTCACTTCCATTCATCTCAAGGGTATATCAACCGCATGGTAGCAGCG
194 TCAACGAAAACTTTCGAGTTCACTTCCATTCAGCTCAAGGGTATATCAACCGCATGGTAGAAGCG
** *
14332439 AGGGAATACTTTCCGGTTGAAGTTTAAACCGAGGTCTCTAAGCCAAGAAGAAGACATAGGTTAGT
259 AGGGAATACTTTCCAATTGAAGTTTAAACCGAGGTCTCTAAGCCAAGAAGAAGACATAGGTTAGC
* * *
14332504 TGTGATTTAGCGACAAGGAACTATCTCCTAGTCTAATTTACAACATAGCTTAAATCGAGAAAAAC
324 TGTGATTTAGAGACAAGGAACTATCTCCCAGCCTAATTTACAACATAGCTTAAATCGAGAAAAAC
* *
14332569 TATCTATCATCA
389 TATATATCAACA
* * * *
14332581 AAAATTTTCGACTTCTATTCCATT-AACTCGAGGGTATATCAACCGCATGGTAGCAAAAAGGAAT
1 AAAACTTTCGACTTCGATTCCATTCAACTCGAGGGTATATCAACCGCATAGTAGCAAAAAGGAAC
* * * * *
14332645 TACTTTCTGATTGAAGTTTAAATTGAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGCTGGGAT
66 TACTTTCCGATTGAAGTTTAAACTGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGAT
* *
14332710 TTAGAGACAATG-AACTATCTCCTACCTAATTTATAA-ATAACTTAAGTCGAGAAAAACTATCTG
131 TTAGAGACAA-GAAACTATCTCCTACCTAATTTACAACATAA-TTAAGTCGAGAAAAGCTATCTG
* * * *
14332773 TCAACGAAAACTTTTGAGTTCGA-TTTCATTCAGCTCGAGGGTATATCAACCGCATTGTAGAAGC
194 TCAACGAAAACTTTCGAGTTC-ACTTCCATTCAGCTCAAGGGTATATCAACCGCATGGTAGAAGC
* * * *
14332837 GA-GGAACTACTTTTCAATTGAAGTTTAAACCGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTT
258 GAGGGAA-TACTTTCCAATTGAAGTTTAAACCGAGGTCTCTAAGCCAAGAAGAAGACATAGGTTA
* * *
14332901 GCTGTGATTTAGAGACAATGAACTATCTCCCAGCCTAATTTACAACATAGCTTAAGTCGTGAAAA
322 GCTGTGATTTAGAGACAAGGAACTATCTCCCAGCCTAATTTACAACATAGCTTAAATCGAGAAAA
* *
14332966 ACTATATGTCAACG
387 ACTATATATCAACA
* * * ***
14332980 AAAACTTTCGAGTTCGATTCCATTCAGCTCGAGTGTATATCAACCGCATAGTAGCAGTGAGGAAC
1 AAAACTTTCGACTTCGATTCCATTCAACTCGAGGGTATATCAACCGCATAGTAGCAAAAAGGAAC
* * * * *
14333045 TACTTTCCGGTTGAAGTTTAAACCGAGGTCTTTAAGCCAAGAAGAAGACTTATGTTAGTTGTGAT
66 TACTTTCCGATTGAAGTTTAAACTGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGAT
* * * *
14333110 TTA-ACGACAAGAAACTATTTCCCAACATAATTTACAACATAGATTAAGTCAAGAAAAGCTATCT
131 TTAGA-GACAAGAAACTATCT-CCTACCTAATTTACAACATA-ATTAAGTCGAGAAAAGCTATCT
*
14333174 ATCAACGAAAACTTTC
193 GTCAACGAAAACTTTC
14333190 TAATTTGATT
Statistics
Matches: 518, Mismatches: 81, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
398 4 0.01
399 223 0.43
400 115 0.22
401 119 0.23
402 56 0.11
403 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (400 bp):
AAAACTTTCGACTTCGATTCCATTCAACTCGAGGGTATATCAACCGCATAGTAGCAAAAAGGAAC
TACTTTCCGATTGAAGTTTAAACTGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGCTGTGAT
TTAGAGACAAGAAACTATCTCCTACCTAATTTACAACATAATTAAGTCGAGAAAAGCTATCTGTC
AACGAAAACTTTCGAGTTCACTTCCATTCAGCTCAAGGGTATATCAACCGCATGGTAGAAGCGAG
GGAATACTTTCCAATTGAAGTTTAAACCGAGGTCTCTAAGCCAAGAAGAAGACATAGGTTAGCTG
TGATTTAGAGACAAGGAACTATCTCCCAGCCTAATTTACAACATAGCTTAAATCGAGAAAAACTA
TATATCAACA
Found at i:14333355 original size:174 final size:173
Alignment explanation
Indices: 14333039--14333379 Score: 434
Period size: 174 Copynumber: 2.0 Consensus size: 173
14333029 AGTAGCAGTG
* * * * *
14333039 AGGAACTACTTTCCGGTTGAAGTTTAAACCGAGGTCTTTAAGCCAAGAAGAAGACTTATGTTAGT
1 AGGAACTACTTTCCAGTTGAAGTTTAAACAGAGGTCTTTAAGCCAAGAAAAAGACCTATGTTAGC
* * * *
14333104 TGTGATTTAACGACAAGAAACTATTTCCCAACATAATTTACAACATAGATTAAGTCAAGAAAAGC
66 TGTGATTTAACGACAAGAAACTATCTCCAAACATAATTTACAACATAGATTAAATCAAGAAAAAC
* *
14333169 TATCTATCAACGAAAACTTTCTAATTTGATTCCATTCAGTTCA
131 TATCTATCAACGAAAACTTTCGAATTCGATTCCATTCAGTTCA
* * *
14333212 AGGAACTACTTTTTCAGTTGAAGTTTAAATAGAGGTCTTTAAGCCAAGAAAAAGACCTA-GTTTG
1 AGGAACTAC-TTTCCAGTTGAAGTTTAAACAGAGGTCTTTAAGCCAAGAAAAAGACCTATG-TTA
* ** * *
14333276 GCTGTGATTTAGCGACAAGGTACTATCTCCAAACCTAATTTACAACATAGCTTAAAT-AGAGAAA
64 GCTGTGATTTAACGACAAGAAACTATCTCCAAACATAATTTACAACATAGATTAAATCA-AGAAA
* * * *
14333340 AATTGTCTTTCAACGAAAACTTTCGAGTTCGATTCCATTC
128 AACTATCTATCAACGAAAACTTTCGAATTCGATTCCATTC
14333380 GGATCGAGAG
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
173 11 0.08
174 131 0.92
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (173 bp):
AGGAACTACTTTCCAGTTGAAGTTTAAACAGAGGTCTTTAAGCCAAGAAAAAGACCTATGTTAGC
TGTGATTTAACGACAAGAAACTATCTCCAAACATAATTTACAACATAGATTAAATCAAGAAAAAC
TATCTATCAACGAAAACTTTCGAATTCGATTCCATTCAGTTCA
Found at i:14334164 original size:12 final size:12
Alignment explanation
Indices: 14334147--14334176 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14334137 GCTTATTTAG
*
14334147 TATATATGATAA
1 TATATATAATAA
14334159 TATATATAATAA
1 TATATATAATAA
14334171 TATATA
1 TATATA
14334177 GTATAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
TATATATAATAA
Found at i:14334274 original size:39 final size:37
Alignment explanation
Indices: 14334170--14334377 Score: 180
Period size: 37 Copynumber: 5.6 Consensus size: 37
14334160 ATATATAATA
14334170 ATAT-ATAGTATAGTTTTTGAAAATA-TTTTTGAAAAC
1 ATATAATA-TATAGTTTTTGAAAATAGTTTTTGAAAAC
* * *
14334206 ATATAATATATAGTTTTAGAAAATGGTTTTTGAAATC
1 ATATAATATATAGTTTTTGAAAATAGTTTTTGAAAAC
*
14334243 ATATAATATATAGTTTTTTAAAAGTAAGTTTTTGAAAAC
1 ATATAATATATAGTTTTTGAAAA-T-AGTTTTTGAAAAC
* * *
14334282 ATAT-ATA-ATATGGTTTTGAAAA-CGTATTTTGAAAAT
1 ATATAATATATA-GTTTTTGAAAATAGT-TTTTGAAAAC
* * * *
14334318 GTATAATATATAATTTTT-AAAAAACGGTTATTGAAAAC
1 ATATAATATATAGTTTTTGAAAATA--GTTTTTGAAAAC
*
14334356 GTAT-ATAATATA-TTTTTGAAAA
1 ATATAAT-ATATAGTTTTTGAAAA
14334378 CATATATATA
Statistics
Matches: 142, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
35 2 0.01
36 35 0.25
37 51 0.36
38 37 0.26
39 17 0.12
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (37 bp):
ATATAATATATAGTTTTTGAAAATAGTTTTTGAAAAC
Found at i:14334374 original size:23 final size:24
Alignment explanation
Indices: 14334348--14334392 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
14334338 AAAACGGTTA
*
14334348 TTGAAAACGTATATA-ATATATTT
1 TTGAAAACATATATATATATATTT
14334371 TTGAAAACATATATATATATAT
1 TTGAAAACATATATATATATAT
14334393 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (24 bp):
TTGAAAACATATATATATATATTT
Found at i:14334384 original size:2 final size:2
Alignment explanation
Indices: 14334379--14334413 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14334369 TTTTGAAAAC
14334379 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 A
14334414 GTTTTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14334576 original size:25 final size:25
Alignment explanation
Indices: 14334547--14334594 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14334537 TTATAGTGTT
14334547 ATTTATTAAAATAATTATTTTATTA
1 ATTTATTAAAATAATTATTTTATTA
* **
14334572 ATTTATTTACTTAATTATTTTAT
1 ATTTATTAAAATAATTATTTTAT
14334595 ATTCATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTATTAAAATAATTATTTTATTA
Found at i:14335761 original size:22 final size:23
Alignment explanation
Indices: 14335733--14335775 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
14335723 ATTATCTTCA
14335733 TTTTTA-TTATTTCTTTTTTACT
1 TTTTTATTTATTTCTTTTTTACT
14335755 TTTTTATTTATTTCTTTTTTA
1 TTTTTATTTATTTCTTTTTTA
14335776 ATAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTATTTATTTCTTTTTTACT
Found at i:14335774 original size:37 final size:38
Alignment explanation
Indices: 14335724--14335799 Score: 93
Period size: 37 Copynumber: 2.0 Consensus size: 38
14335714 AAATTTAACA
* * *
14335724 TTATCTTCATTTTT-ATTATTTCTTTTTTACTTTTTTAT
1 TTATCTTCATTTTTAATAATTT-TATTTTACTTTATTAT
*
14335762 TTAT-TTCTTTTTTAATAATTTTATTTTACTTTATTAT
1 TTATCTTCATTTTTAATAATTTTATTTTACTTTATTAT
14335799 T
1 T
14335800 CTGTTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 23 0.70
38 10 0.30
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (38 bp):
TTATCTTCATTTTTAATAATTTTATTTTACTTTATTAT
Found at i:14335810 original size:37 final size:39
Alignment explanation
Indices: 14335748--14335821 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 39
14335738 ATTATTTCTT
*
14335748 TTTTACTTTTTTATTTATTTCTTTTT-TAA-TAATTTTA
1 TTTTACTTTATTATTTATTTCTTTTTCTAATTAATTTTA
*
14335785 TTTTACTTTATTATTCTGTTT-TTTTTCTAATTAATTT
1 TTTTACTTTATTATT-TATTTCTTTTTCTAATTAATTT
14335822 AACCCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 19 0.59
38 7 0.22
39 6 0.19
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (39 bp):
TTTTACTTTATTATTTATTTCTTTTTCTAATTAATTTTA
Found at i:14335847 original size:4 final size:4
Alignment explanation
Indices: 14335840--14335870 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
14335830 TTTTTCTTTG
14335840 ATTT ATTT A-TT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
14335871 TACAATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:14341790 original size:111 final size:111
Alignment explanation
Indices: 14341596--14341918 Score: 291
Period size: 111 Copynumber: 2.8 Consensus size: 111
14341586 AATGAGTATA
*
14341596 AGGATCAATCATTTTCAAATAGAGTTCATAATGAGAAAAACTCATCCAAAGAGGGAGAAAAAGTT
1 AGGATCAATAATTTTCAAATAGAGTTCATAATGAGAAAAACTCATCCAAAGAGGGAGAAAAAGTT
* * * * *
14341661 CATAATTATAATAACTTGTTTGACCTTTTCCTATCACGAAAAAAGG
66 CACAATAAGAAGAACTTGTTAGACCTTTTCCTATCACGAAAAAAGG
* * * * *
14341707 AGGATCAA-AATTTTC-AATGAGGAGTTCATAATGAGAATAACTTATCTAAAGAGGGTGAAGAAG
1 AGGATCAATAATTTTCAAAT-A-GAGTTCATAATGAGAAAAACTCATCCAAAGAGGGAGAAAAAG
*
14341770 TTCACAATAAGAAGAACTTGTTAGACCTTTTTCTTAAATCCATC-ACAAAAGGAGG
64 TTCACAATAAGAAGAACTTGTTAGACC-TTTTCCT--AT-CA-CGA-AAAA--AGG
* * * *
14341825 TGGATC-ATCATTTT-AAATTGAGAGTTCATAATGAGAAGAACTCATCC-AA-ATGGAGAAAAAT
1 AGGATCAATAATTTTCAAA-T-AGAGTTCATAATGAGAAAAACTCATCCAAAGAGGGAG-AAAA-
* * **
14341886 AGTTCATAATGAGAAGAACTTGTTCCACCTTTT
62 AGTTCACAATAAGAAGAACTTGTTAGACCTTTT
14341919 GCTAAAATCT
Statistics
Matches: 173, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
109 3 0.02
110 7 0.04
111 67 0.39
112 6 0.03
114 2 0.01
115 3 0.02
116 9 0.05
117 10 0.06
118 63 0.36
119 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (111 bp):
AGGATCAATAATTTTCAAATAGAGTTCATAATGAGAAAAACTCATCCAAAGAGGGAGAAAAAGTT
CACAATAAGAAGAACTTGTTAGACCTTTTCCTATCACGAAAAAAGG
Found at i:14341860 original size:118 final size:117
Alignment explanation
Indices: 14341597--14342018 Score: 400
Period size: 118 Copynumber: 3.6 Consensus size: 117
14341587 ATGAGTATAA
*
14341597 GGATCAATCATTTTCAAAT-A-GAGTTCATAATGAGAAAAACTCATCCAAAGAGGGAGAAAAAGT
1 GGATC-ATCATTTT-AAATGAGGAGTTCATAATGAGAAGAACTCATCCAAAGAGGGAGAAAAAGT
* * * * * *
14341660 TCATAATTATAATAACTTGTTTGACC-TTTTCCT--AT-CA-CGAAAAA--AGGA
64 TCATAATAAGAAGAACTTGTTAGACCTTTTTCTTAAATCCATC-AAAAAGGAGGT
** * * * * * *
14341708 GGATCAAAATTTTCAATGAGGAGTTCATAATGAGAATAACTTATCTAAAGAGGGTGAAGAAGTTC
1 GGATCATCATTTTAAATGAGGAGTTCATAATGAGAAGAACTCATCCAAAGAGGGAGAAAAAGTTC
*
14341773 ACAATAAGAAGAACTTGTTAGACCTTTTTCTTAAATCCATCACAAAAGGAGGT
66 ATAATAAGAAGAACTTGTTAGACCTTTTTCTTAAATCCATCA-AAAAGGAGGT
*
14341826 GGATCATCATTTTAAATTGA-GAGTTCATAATGAGAAGAACTCATCC-AA-ATGGAGAAAAATAG
1 GGATCATCATTTTAAA-TGAGGAGTTCATAATGAGAAGAACTCATCCAAAGAGGGAG-AAAA-AG
* ** * * *
14341888 TTCATAATGAGAAGAACTTGTTCCACCTTTTGCTAAAATCTATCATAAAAGGAGGT
63 TTCATAATAAGAAGAACTTGTTAGACCTTTTTCTTAAATCCATCA-AAAAGGAGGT
* ** * * * * * *
14341944 GGATCAGCATTTCCAATGAGGAATTCATTATAAGAAGAACTCGTCCAAAGAAGGAGAAGAAGTTC
1 GGATCATCATTTTAAATGAGGAGTTCATAATGAGAAGAACTCATCCAAAGAGGGAGAAAAAGTTC
14342009 ATAATAAGAA
66 ATAATAAGAA
14342019 CTTGTAGCTC
Statistics
Matches: 253, Mismatches: 42, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
109 3 0.01
110 7 0.03
111 64 0.25
112 6 0.02
114 2 0.01
115 3 0.01
116 9 0.04
117 8 0.03
118 138 0.55
119 8 0.03
120 5 0.02
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (117 bp):
GGATCATCATTTTAAATGAGGAGTTCATAATGAGAAGAACTCATCCAAAGAGGGAGAAAAAGTTC
ATAATAAGAAGAACTTGTTAGACCTTTTTCTTAAATCCATCAAAAAGGAGGT
Found at i:14341910 original size:20 final size:20
Alignment explanation
Indices: 14341847--14341910 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
14341837 TTAAATTGAG
14341847 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* *
14341867 CA-TCCA-AATGGAGAA-AAAT
1 -AGTTCATAAT-GAGAAGAACT
14341886 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
14341906 TGTTC
1 AGTTC
14341911 CACCTTTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
18 1 0.03
19 14 0.41
20 18 0.53
21 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:14344287 original size:30 final size:32
Alignment explanation
Indices: 14344225--14344287 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
14344215 GTTAAAATTT
* *
14344225 GTTAGATTTTAATATTAGATCCTTCAATTTAG
1 GTTAAATTTTAATATTAGATCCTTAAATTTAG
*
14344257 GTTAAATTTTACTA-TAG-TCCTTAAATTTAG
1 GTTAAATTTTAATATTAGATCCTTAAATTTAG
14344287 G
1 G
14344288 AGAATATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 13 0.46
31 3 0.11
32 12 0.43
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.46
Consensus pattern (32 bp):
GTTAAATTTTAATATTAGATCCTTAAATTTAG
Found at i:14344900 original size:18 final size:18
Alignment explanation
Indices: 14344871--14344913 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14344861 AAAATATTGA
14344871 TATTTTAGTAAAATAATTT
1 TATTTTAGT-AAATAATTT
* *
14344890 T-TTTTATTAAATTATTT
1 TATTTTAGTAAATAATTT
14344907 TATTTTA
1 TATTTTA
14344914 ATTGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 11 0.52
19 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTTAGTAAATAATTT
Found at i:14345817 original size:17 final size:18
Alignment explanation
Indices: 14345790--14345826 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14345780 AAATGATTAT
*
14345790 ATATGAATTATATTTAAA
1 ATATGAATTATATTAAAA
14345808 ATAT-AATTATATTAAAA
1 ATATGAATTATATTAAAA
14345825 AT
1 AT
14345827 TATTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATGAATTATATTAAAA
Found at i:14346820 original size:20 final size:17
Alignment explanation
Indices: 14346794--14346840 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
14346784 TGAACCAAAG
14346794 AAAAAAATACATAAAAACT
1 AAAAAAATA-ATAAAAA-T
*
14346813 ACAAAAAATAATTAAAAT
1 A-AAAAAATAATAAAAAT
14346831 AAAAAAATAA
1 AAAAAAATAA
14346841 ATCAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 9 0.35
18 2 0.08
19 7 0.27
20 8 0.31
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAAATAATAAAAAT
Found at i:14346868 original size:9 final size:9
Alignment explanation
Indices: 14346817--14346875 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
14346807 AAAACTACAA
14346817 AAAATAATT
1 AAAATAATT
*
14346826 AAAATAA-A
1 AAAATAATT
*
14346834 AAAATAAAT
1 AAAATAATT
* * *
14346843 CAAAGAAAT
1 AAAATAATT
14346852 AAAA-AATT
1 AAAATAATT
*
14346860 GAAATAATT
1 AAAATAATT
14346869 AAAATAA
1 AAAATAA
14346876 AAAAAGAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 13 0.32
9 27 0.68
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAATAATT
Found at i:14346976 original size:23 final size:24
Alignment explanation
Indices: 14346949--14347006 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
14346939 GCAAACATAA
* *
14346949 ATAATACTAAT-ATTAATAAAAAT
1 ATAATAATAATAATAAATAAAAAT
14346972 ATAATAATAATAATAAAT-AAAAT
1 ATAATAATAATAATAAATAAAAAT
*
14346995 AAAATAA-AATAA
1 ATAATAATAATAA
14347007 AGACTTTAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.16
23 21 0.68
24 5 0.16
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
ATAATAATAATAATAAATAAAAAT
Found at i:14346980 original size:3 final size:3
Alignment explanation
Indices: 14346948--14347006 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
14346938 AGCAAACATA
* * *
14346948 AAT AAT ACT AAT ATT AAT AAA AAT -AT AAT AAT AAT AAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
14346992 AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AA
14347007 AGACTTTAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 8 0.18
3 34 0.76
4 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:14348095 original size:12 final size:13
Alignment explanation
Indices: 14348078--14348111 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
14348068 AAAGGAATTA
14348078 ATAATAA-AAAAG
1 ATAATAATAAAAG
14348090 ATAATAATAAAAG
1 ATAATAATAAAAG
14348103 -TAATAATAA
1 ATAATAATAA
14348112 TAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (13 bp):
ATAATAATAAAAG
Found at i:14348096 original size:15 final size:15
Alignment explanation
Indices: 14348054--14348114 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
14348044 AAAAAGAAAC
*
14348054 AAAAG-TAAAAATAA
1 AAAAGATAATAATAA
*
14348068 AAAGGAATTAATAATAA
1 AAAAG-A-TAATAATAA
14348085 AAAAGATAATAATAA
1 AAAAGATAATAATAA
*
14348100 AAGTA-ATAATAATAA
1 AA-AAGATAATAATAA
14348115 TATATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 4 0.10
15 21 0.54
16 2 0.05
17 12 0.31
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.21
Consensus pattern (15 bp):
AAAAGATAATAATAA
Found at i:14348142 original size:25 final size:26
Alignment explanation
Indices: 14348104--14348159 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
14348094 TAATAAAAGT
14348104 AATA-ATAATAATATATATATTCTAA
1 AATATATAATAATATATATATTCTAA
*
14348129 AATATATAAT-ATATATATATTTTAA
1 AATATATAATAATATATATATTCTAA
14348154 AA-ATAT
1 AATATAT
14348160 TTTTAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 20 0.69
26 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATATAATAATATATATATTCTAA
Found at i:14348172 original size:13 final size:13
Alignment explanation
Indices: 14348116--14348175 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
14348106 TAATAATAAT
*
14348116 ATATATATTCTAA
1 ATATATATTTTAA
** *
14348129 A-ATATATAATAT
1 ATATATATTTTAA
14348141 ATATATATTTTAA
1 ATATATATTTTAA
*
14348154 AAATAT-TTTTAA
1 ATATATATTTTAA
14348166 ATTATATATT
1 A-TATATATT
14348176 ATATTTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
12 16 0.44
13 18 0.50
14 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATATTTTAA
Found at i:14349105 original size:45 final size:46
Alignment explanation
Indices: 14349020--14349107 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
14349010 AAAAAACCTG
* *
14349020 AGTGCATCAATGCATAGTCTTGTGCATCGATACATCAAATGCACTA
1 AGTGCATCAATGCATAGTCATGTGCATCGATACATAAAATGCACTA
* * *
14349066 AGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 AGTGCATCAATGCATAGTCATGTGCATCGATACATAAAATGCA
14349108 TTCAATGTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 21 0.57
46 16 0.43
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (46 bp):
AGTGCATCAATGCATAGTCATGTGCATCGATACATAAAATGCACTA
Found at i:14351864 original size:44 final size:44
Alignment explanation
Indices: 14351775--14351869 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
14351765 GCTCTTGTGC
* *
14351775 ATCGATGCACATTCAAGGGCGTGCATCGGTGCATCAGCTGATGT
1 ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTAATGT
* *
14351819 ATCGATGCACATTCAAAGGG-ATGCATCGGTGCA-CTGTTAAGTGT
1 ATCGATGCACATTC-AAGGGCATGCATCGGTGCATCAGCTAA-TGT
14351863 ATCGATG
1 ATCGATG
14351870 AATTAAGCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 4 0.09
44 36 0.80
45 5 0.11
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTAATGT
Found at i:14356274 original size:37 final size:37
Alignment explanation
Indices: 14356196--14356395 Score: 244
Period size: 36 Copynumber: 5.3 Consensus size: 37
14356186 CATCAAAATG
* *
14356196 TTTTCAACAAATATTTTTAAAACTATATATTATATA-A
1 TTTTCAA-AAATGTTTTAAAAACTATATATTATATATA
* *
14356233 TTTTCAAAAATGTTTTCAAAACTATATATTATATATG
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATATA
*
14356270 TTTTC-AAAATGAATTTAAAAACTATATATTATATATATA
1 TTTTCAAAAATG-TTTTAAAAACTATATA-T-TATATATA
* *
14356309 TTTTCTAAAATGTTTTAAAAACTATATATTATATACA
1 TTTTCAAAAATGTTTTAAAAACTATATATTATATATA
14356346 TTTTC-AAAATGTTTTTTAAAAACTATATATTATATACTTA
1 TTTTCAAAAATG--TTTTAAAAACTATATATTATATA--TA
14356386 TTTTCAAAAA
1 TTTTCAAAAA
14356396 ACCGTTTGCA
Statistics
Matches: 144, Mismatches: 9, Indels: 16
0.85 0.05 0.09
Matches are distributed among these distances:
36 38 0.26
37 38 0.26
38 25 0.17
39 27 0.19
40 12 0.08
41 4 0.03
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (37 bp):
TTTTCAAAAATGTTTTAAAAACTATATATTATATATA
Done.