Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 2 of 79
Found at i:438847 original size:13 final size:14
Alignment explanation
Indices: 438822--438853 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
438812 TCACCTAAAA
438822 ATATGTGTATATAT
1 ATATGTGTATATAT
438836 ATATGT-TATATAT
1 ATATGTGTATATAT
438849 ATATG
1 ATATG
438854 CTTTGGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (14 bp):
ATATGTGTATATAT
Found at i:440794 original size:15 final size:15
Alignment explanation
Indices: 440763--440805 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
440753 GTCAAGTTGG
* *
440763 TAGATTGGATTAGTT
1 TAGATTGGATCAATT
* *
440778 TAGGTTGGCTCAATT
1 TAGATTGGATCAATT
440793 TAGATTGGATCAA
1 TAGATTGGATCAA
440806 AACGGTTTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.40
Consensus pattern (15 bp):
TAGATTGGATCAATT
Found at i:444273 original size:22 final size:23
Alignment explanation
Indices: 444226--444289 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
444216 AATAAGATTA
*
444226 AAAATTAATATTAATATTCTTTTC
1 AAAATCAATATT-ATATTCTTTTC
444250 AAAATCAATATT-TATT-TTTATC
1 AAAATCAATATTATATTCTTT-TC
**
444272 AAAAGAAATAATTATATT
1 AAAATCAAT-ATTATATT
444290 TGATATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 3 0.09
22 13 0.38
23 3 0.09
24 15 0.44
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAATCAATATTATATTCTTTTC
Found at i:445003 original size:20 final size:20
Alignment explanation
Indices: 444956--444995 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
444946 AATATATGGT
444956 AAATGTAAAATTTAAATTTTA
1 AAAT-TAAAATTTAAATTTTA
444977 AAATTAAAATTTAGAATTT
1 AAATTAAAATTTA-AATTT
444996 AGAGTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AAATTAAAATTTAAATTTTA
Found at i:448820 original size:23 final size:23
Alignment explanation
Indices: 448792--448837 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
448782 CTATGATAAC
448792 CCCACCAATAAGACATCAAAAAA
1 CCCACCAATAAGACATCAAAAAA
*
448815 CCCACCAATAAGACGTCAAAAAA
1 CCCACCAATAAGACATCAAAAAA
448838 TTGGGGCAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.30, G:0.07, T:0.09
Consensus pattern (23 bp):
CCCACCAATAAGACATCAAAAAA
Found at i:461295 original size:148 final size:149
Alignment explanation
Indices: 460994--461680 Score: 576
Period size: 148 Copynumber: 4.6 Consensus size: 149
460984 TTGAAAACGT
* * ** * *
460994 TACTTCTTGATAACTATATTTGATAACTT-TAATTGAAATTTAAAAATTAAATTGATTTGATTTG
1 TACTTTTTGATAACTATATTTGTTAA-TTCTAATTGAAATTT-AAAATTGGATTAAATTGATTTG
* * * * *
461058 ATTATATAAAGTTAACAATTAAAAACGTGTTTAATTTAAATTCAACTGA-CC--C-CGGGTTTCG
64 ATTATATAAAGTTAACAATTAAAAACTTGTTCAATTTAAATTTAAATGATCCAACTCGGGTTCCG
461119 AAAACATTGCTTCTTGCTGCC
129 AAAACATTGCTTCTTGCTGCC
* * * * * *
461140 TCCTTTTTAATAACTATATTTGTTAATTCTAATTAAAATTTAAAAACT-GATTGAATTAATTTGA
1 TACTTTTTGATAACTATATTTGTTAATTCTAATTGAAATTT-AAAATTGGATTAAATTGATTTGA
* * * *
461204 TTATATAAAGTT-A-AATTAAAAACTTGTTCAATTTAAATTTAAATTATCCTAACTTGAGTTCCA
65 TTATATAAAGTTAACAATTAAAAACTTGTTCAATTTAAATTTAAATGATCC-AACTCGGGTTCCG
* *
461267 AAAACATTGCTTCATGTTGCC
129 AAAACATTGCTTCTTGCTGCC
* * *
461288 TACTTTTTGAT-A--A-ATTTGTTAATTATAATTGGAATTTAAAGTTGGA-TAAATTGATTTGAT
1 TACTTTTTGATAACTATATTTGTTAATTCTAATTGAAATTTAAAATTGGATTAAATTGATTTGAT
* * *
461348 TATATAAAGTTAACAATTAAAAATTTGTTCAATTTGAATTTAAACCGATCCCAACTCGGGGTTTC
66 TATATAAAGTTAACAATTAAAAACTTGTTCAATTTAAATTTAAA-TGAT-CCAACTC-GGG-TTC
* * *
461413 CGAAAACATTGTTTTTTACTGCC
127 CGAAAACATTGCTTCTTGCTGCC
* * * * * *
461436 TACTTTTTGATAACTATATTTATTGATTCTAATTGGAATGTTAAAATTGGGTTAAACTGATTGGA
1 TACTTTTTGATAACTATATTTGTTAATTCTAATTGAAAT-TTAAAATTGGATTAAATTGATTTGA
* ** * ** * *
461501 TTCTATAAAGTTAATGATTAAAAACTTGTTCAATTTGAATCCAAACTAATCCCAATTCGGGTTCC
65 TTATATAAAGTTAACAATTAAAAACTTGTTCAATTTAAATTTAAA-TGAT-CCAACTCGGGTTCC
* * * *
461566 G-AAACATTACTTCCTACTACC
128 GAAAACATTGCTTCTTGCTGCC
* * * ** **
461587 TACTTTCTCAATTTCTGATAACTATATATGTTAATTCTAATTGGAGTTTAAAA-TCAAGTCGAAT
1 TA----CT---TTT-TGATAACTATATTTGTTAATTCTAATTGAAATTTAAAATTGGA-TTAAAT
461651 TGATTTGATTATATAAAGTTAACAATTAAA
57 TGATTTGATTATATAAAGTTAACAATTAAA
461681 TACACATTTA
Statistics
Matches: 437, Mismatches: 76, Indels: 44
0.78 0.14 0.08
Matches are distributed among these distances:
143 55 0.13
144 27 0.06
145 56 0.13
146 45 0.10
147 6 0.01
148 64 0.15
149 1 0.00
151 18 0.04
152 24 0.05
153 12 0.03
154 60 0.14
155 2 0.00
157 1 0.00
158 38 0.09
159 28 0.06
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (149 bp):
TACTTTTTGATAACTATATTTGTTAATTCTAATTGAAATTTAAAATTGGATTAAATTGATTTGAT
TATATAAAGTTAACAATTAAAAACTTGTTCAATTTAAATTTAAATGATCCAACTCGGGTTCCGAA
AACATTGCTTCTTGCTGCC
Found at i:465737 original size:2 final size:2
Alignment explanation
Indices: 465730--465767 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
465720 CCAAGCATAA
465730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
465768 AAGTGCTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:472239 original size:29 final size:29
Alignment explanation
Indices: 472197--472271 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
472187 GACAAAATTG
*
472197 AATAGTT-GAGTGACCAATTTGTAACTTTT
1 AATAGTTGGA-TGACCAATTTCTAACTTTT
*
472226 AATAGTTGGATGACCATTTTCTAACTTTT
1 AATAGTTGGATGACCAATTTCTAACTTTT
* *
472255 CATAGTTGGGTGACCAA
1 AATAGTTGGATGACCAA
472272 AAAAGAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (29 bp):
AATAGTTGGATGACCAATTTCTAACTTTT
Found at i:474738 original size:16 final size:16
Alignment explanation
Indices: 474714--474751 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
474704 TGTGTTATTC
* *
474714 ATTCGAATTATTTTAG
1 ATTCAAATTATTTTAA
474730 ATTCAAATTATTTTAA
1 ATTCAAATTATTTTAA
474746 ATTCAA
1 ATTCAA
474752 GTAACAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTCAAATTATTTTAA
Found at i:475843 original size:3 final size:3
Alignment explanation
Indices: 475835--475860 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
475825 AGGGTTAACT
475835 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
475861 GGTCTGCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:478767 original size:25 final size:23
Alignment explanation
Indices: 478739--478790 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
478729 TTTTTTTTAA
478739 ATTTAATTTTTAACCAATTTTATAT
1 ATTTAATTTTTAA--AATTTTATAT
*
478764 ATTTTTCATTTTTAAAATTTTATAT
1 A--TTTAATTTTTAAAATTTTATAT
478789 AT
1 AT
478791 AGACATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
23 1 0.04
25 12 0.50
27 11 0.46
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTAATTTTTAAAATTTTATAT
Found at i:480949 original size:2 final size:2
Alignment explanation
Indices: 480937--480972 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
480927 CAAACACAAC
*
480937 AT AT TT 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 AT
480973 TTGTTACANN
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:482899 original size:15 final size:16
Alignment explanation
Indices: 482870--482901 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
482860 AGAGCCATAC
482870 AAATATATAATTAAAT
1 AAATATATAATTAAAT
482886 AAATATAT-ATTAAAT
1 AAATATATAATTAAAT
482901 A
1 A
482902 CGATAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATATAATTAAAT
Found at i:485260 original size:23 final size:23
Alignment explanation
Indices: 485234--485283 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
485224 CCAATCATTC
485234 ATAAATCAAAATCAATTACAATT
1 ATAAATCAAAATCAATTACAATT
485257 ATAAATCAAAATCAATTACAATT
1 ATAAATCAAAATCAATTACAATT
485280 ATAA
1 ATAA
485284 GTAGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAATCAAAATCAATTACAATT
Found at i:486575 original size:17 final size:17
Alignment explanation
Indices: 486553--486592 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
486543 AGATTAAGGT
*
486553 AATTTTAAGTTCGGGTC
1 AATTTTAAGTTCGGATC
* *
486570 AATTTTAATTTTGGATC
1 AATTTTAAGTTCGGATC
486587 AATTTT
1 AATTTT
486593 TGGATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (17 bp):
AATTTTAAGTTCGGATC
Found at i:505334 original size:25 final size:26
Alignment explanation
Indices: 505290--505342 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
505280 ACAAAGAAAA
*
505290 ACGAAATAAAAACAAGAGTTCAAATT
1 ACGAAATAAAAACAAAAGTTCAAATT
505316 ACGAAATAAAAA-AAAAGTTCAAATT
1 ACGAAATAAAAACAAAAGTTCAAATT
505341 AC
1 AC
505343 ACAATGTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.19
Consensus pattern (26 bp):
ACGAAATAAAAACAAAAGTTCAAATT
Found at i:506667 original size:12 final size:12
Alignment explanation
Indices: 506647--506683 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
506637 GAAGAAGATG
*
506647 ACGGTGGTGGAA
1 ACGGCGGTGGAA
*
506659 ACGGCGGTGCAA
1 ACGGCGGTGGAA
506671 ACGGCGGTGGAA
1 ACGGCGGTGGAA
506683 A
1 A
506684 TGGAAATAAC
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:0.27, C:0.16, G:0.46, T:0.11
Consensus pattern (12 bp):
ACGGCGGTGGAA
Found at i:508408 original size:32 final size:32
Alignment explanation
Indices: 508292--508410 Score: 109
Period size: 32 Copynumber: 3.8 Consensus size: 32
508282 TGACATTGAG
*
508292 TTTTG-GAGGGTTT-ATTTAAATTTTTCAAAAA
1 TTTTGAGA-GGTTTAATTAAAATTTTTCAAAAA
* * * *
508323 TTGTGAGGGGTTTAATTAAAAGTTTT-AAAAG
1 TTTTGAGAGGTTTAATTAAAATTTTTCAAAAA
** * * *
508354 TTTTGAGAGAATAAAATGAAATTTTTCAAAAA
1 TTTTGAGAGGTTTAATTAAAATTTTTCAAAAA
*
508386 TTTTGAAAGGTTTAATTAAAATTTT
1 TTTTGAGAGGTTTAATTAAAATTTT
508411 AGAACTATTG
Statistics
Matches: 65, Mismatches: 20, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
31 31 0.48
32 34 0.52
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.43
Consensus pattern (32 bp):
TTTTGAGAGGTTTAATTAAAATTTTTCAAAAA
Found at i:509595 original size:20 final size:20
Alignment explanation
Indices: 509566--509605 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
509556 GTTATGTGTT
*
509566 GTTAATAGTTAAAAATTTTA
1 GTTAAGAGTTAAAAATTTTA
509586 GTTAAGAGTTAAAAATTTTA
1 GTTAAGAGTTAAAAATTTTA
509606 ATTTTTCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (20 bp):
GTTAAGAGTTAAAAATTTTA
Found at i:529784 original size:6 final size:6
Alignment explanation
Indices: 529768--529810 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
529758 GCAGTAGCTT
529768 TTTTATA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTTA TTTTT
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTT
529811 CTCTTTGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:529790 original size:12 final size:12
Alignment explanation
Indices: 529768--529810 Score: 68
Period size: 13 Copynumber: 3.4 Consensus size: 12
529758 GCAGTAGCTT
529768 TTTTATATTTTTA
1 TTTT-TATTTTTA
529781 TTTTTATTTTTA
1 TTTTTATTTTTA
529793 TTTTTATTTTTTA
1 TTTTTA-TTTTTA
529806 TTTTT
1 TTTTT
529811 CTCTTTGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 14 0.48
13 15 0.52
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:529796 original size:18 final size:19
Alignment explanation
Indices: 529768--529810 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
529758 GCAGTAGCTT
529768 TTTTATATTTTTA-TTTTTA
1 TTTT-TATTTTTATTTTTTA
529787 TTTTTATTTTTATTTTTTA
1 TTTTTATTTTTATTTTTTA
529806 TTTTT
1 TTTTT
529811 CTCTTTGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTATTTTTATTTTTTA
Found at i:529903 original size:21 final size:21
Alignment explanation
Indices: 529863--529913 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
529853 GACAGACAGT
529863 AAAAAAACAATTGGAAAAATAC
1 AAAAAAACAATTGGAAAAAT-C
* *
529885 AAAAAAAGAATT-GAGAAATC
1 AAAAAAACAATTGGAAAAATC
*
529905 AATAAAACA
1 AAAAAAACA
529914 TCGCAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 6 0.24
22 11 0.44
ACGTcount: A:0.69, C:0.08, G:0.10, T:0.14
Consensus pattern (21 bp):
AAAAAAACAATTGGAAAAATC
Found at i:530964 original size:60 final size:61
Alignment explanation
Indices: 530850--530964 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 61
530840 TTTTATATAT
* * ***
530850 TTATACATACATATGTGTTTTATATTCTATAACTTTAATATATATATGTGTACATGCATTC
1 TTATACATACATATGTGTTTTACATTCTATAACTCTAATATATATATACATACATGCATTC
* *
530911 TTATA-ATATATATGTGTTTTACATTTTATAACTCCT-ATATATATATACATACAT
1 TTATACATACATATGTGTTTTACATTCTATAACT-CTAATATATATATACATACAT
530965 ATATTCTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 40 0.87
61 6 0.13
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (61 bp):
TTATACATACATATGTGTTTTACATTCTATAACTCTAATATATATATACATACATGCATTC
Found at i:531031 original size:26 final size:26
Alignment explanation
Indices: 531002--531055 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
530992 ATCTTAAAAT
* *
531002 ATACGTATACTTATATACATTTTATA
1 ATACATATACTTACATACATTTTATA
* *
531028 ATACATATATTTACATATATTTTATA
1 ATACATATACTTACATACATTTTATA
531054 AT
1 AT
531056 TTATAGACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (26 bp):
ATACATATACTTACATACATTTTATA
Found at i:533246 original size:11 final size:11
Alignment explanation
Indices: 533230--533275 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
533220 TAAACACAAA
533230 AAAAATATTTT
1 AAAAATATTTT
**
533241 AAAAATA--AA
1 AAAAATATTTT
533250 AAAAATATTTT
1 AAAAATATTTT
*
533261 AAAAGTATTTT
1 AAAAATATTTT
533272 AAAA
1 AAAA
533276 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
9 7 0.25
11 21 0.75
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:533250 original size:20 final size:20
Alignment explanation
Indices: 533227--533264 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
533217 TAATAAACAC
533227 AAAAAAAATATTTTAAAAAT
1 AAAAAAAATATTTTAAAAAT
533247 AAAAAAAATATTTTAAAA
1 AAAAAAAATATTTTAAAA
533265 GTATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAAAATATTTTAAAAAT
Found at i:533294 original size:14 final size:13
Alignment explanation
Indices: 533272--533305 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
533262 AAAGTATTTT
*
533272 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
533286 AAAAATAAAAATA
1 AAAAATAAAAATA
533299 AAAAATA
1 AAAAATA
533306 TGTATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:538868 original size:16 final size:16
Alignment explanation
Indices: 538857--538899 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
538847 TTTTCAAGTT
538857 ATTTCAAATTCAAATC
1 ATTTCAAATTCAAATC
* *
538873 ATTTCAATTTCATATC
1 ATTTCAAATTCAAATC
538889 AATTTCAAATT
1 -ATTTCAAATT
538900 TGATTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTCAAATTCAAATC
Found at i:538876 original size:27 final size:27
Alignment explanation
Indices: 538848--538898 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
538838 TTTAAACAAT
*
538848 TTTCAAGTT-ATTTCAAATTCAAATCA
1 TTTCAAGTTCATATCAAATTCAAATCA
* *
538874 TTTCAATTTCATATCAATTTCAAAT
1 TTTCAAGTTCATATCAAATTCAAAT
538899 TTGATTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (27 bp):
TTTCAAGTTCATATCAAATTCAAATCA
Found at i:542929 original size:22 final size:22
Alignment explanation
Indices: 542904--542945 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
542894 TCACTTGATT
542904 TAAATTGATTTTATGTAAAATA
1 TAAATTGATTTTATGTAAAATA
542926 TAAATTGATTTTATGTAAAA
1 TAAATTGATTTTATGTAAAA
542946 GATTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (22 bp):
TAAATTGATTTTATGTAAAATA
Found at i:543584 original size:10 final size:10
Alignment explanation
Indices: 543569--543616 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
543559 GAGTAAAATT
543569 GAACAGAATA
1 GAACAGAATA
*
543579 GAACAGAACA
1 GAACAGAATA
543589 GAACA-AAGTA
1 GAACAGAA-TA
*
543599 GAACAAAATA
1 GAACAGAATA
*
543609 GAGCAGAA
1 GAACAGAA
543617 CAGAGCATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.60, C:0.12, G:0.21, T:0.06
Consensus pattern (10 bp):
GAACAGAATA
Found at i:543591 original size:15 final size:15
Alignment explanation
Indices: 543569--543620 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
543559 GAGTAAAATT
543569 GAACAGAATAGAACA
1 GAACAGAATAGAACA
* *
543584 GAACAGAACA-AAGTA
1 GAACAGAATAGAA-CA
* *
543599 GAACAAAATAGAGCA
1 GAACAGAATAGAACA
543614 GAACAGA
1 GAACAGA
543621 GCATGTATCT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
14 2 0.07
15 25 0.89
16 1 0.04
ACGTcount: A:0.60, C:0.13, G:0.21, T:0.06
Consensus pattern (15 bp):
GAACAGAATAGAACA
Found at i:544618 original size:104 final size:104
Alignment explanation
Indices: 544435--544687 Score: 339
Period size: 104 Copynumber: 2.4 Consensus size: 104
544425 TTCATATGCC
* * * *
544435 ACACGGCCCGGACACACGCCCATGTCCTTGCCCGTGAGGCTCACACGGCCTAACACACGCACATG
1 ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTGGCTCACACAGCCTAACACACGCACATG
*
544500 TTATCTCCCTGTGTGGTTCTAAATCGTAAACAGTGAGTT
66 TTATCTCCCTGTGTGGTTCTAAATCATAAACAGTGAGTT
* * * * * *
544539 ACACGGCCTAGACACATACCCATGTCTTTGCTCGTGTGGCTCACACAGCTTGACACACGCACATG
1 ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTGGCTCACACAGCCTAACACACGCACATG
*
544604 TTGTCTGCCC-GTGTGGTTCTAAATCATAAACAGTGAGTT
66 TTATCT-CCCTGTGTGGTTCTAAATCATAAACAGTGAGTT
* * *
544643 ATACGGCCTGGACAGACGA-CCATGTCCTTGCCCATGTGGCTCACA
1 ACACGGCCTGGACACAC-ACCCATGTCCTTGCCCGTGTGGCTCACA
544688 TGGCCTTGGC
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
104 124 0.97
105 4 0.03
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (104 bp):
ACACGGCCTGGACACACACCCATGTCCTTGCCCGTGTGGCTCACACAGCCTAACACACGCACATG
TTATCTCCCTGTGTGGTTCTAAATCATAAACAGTGAGTT
Found at i:544763 original size:80 final size:80
Alignment explanation
Indices: 544630--544782 Score: 254
Period size: 80 Copynumber: 1.9 Consensus size: 80
544620 TTCTAAATCA
* *
544630 TAAACAGTGAGTTATACGGCCTGGACAGACGACCATGTCCTTGCCCATGTGGCTCACATGGCCTT
1 TAAACAGTGAGTTATACGGCCTGGACACACGACCATGTCCTTGCCCATGTGGCTCACACGG-CTT
544695 -GGCACACGAAAAGCG
65 GGGCACACGAAAAGCG
* *
544710 TAAACAGTGAGTTATACGGCCTGGACACACGTCCATTTCCTTGCCCATGTGGCTCACACGGCTTG
1 TAAACAGTGAGTTATACGGCCTGGACACACGACCATGTCCTTGCCCATGTGGCTCACACGGCTTG
544775 GGCACACG
66 GGCACACG
544783 CCCATGTCCT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
79 3 0.04
80 65 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (80 bp):
TAAACAGTGAGTTATACGGCCTGGACACACGACCATGTCCTTGCCCATGTGGCTCACACGGCTTG
GGCACACGAAAAGCG
Found at i:544851 original size:183 final size:184
Alignment explanation
Indices: 544524--544870 Score: 455
Period size: 183 Copynumber: 1.9 Consensus size: 184
544514 GGTTCTAAAT
* * * *
544524 CGTAAACAGTGAGTTACACGGCCTAGACACATACCCATGTCTTTGCTCGTGTGGCTCACACAGCT
1 CGTAAACAGTGAGTTACACGGCCTAGACACACACCCATGTCCTTGCCCATGTGGCTCACACAGCT
* * *
544589 TGACACACGCACATGTTGTCTGCCCGTGTGGTTCTAAATCATAAACAGTGAGTTATACGGCCTGG
66 TGACACACGCACATGTTGCCTGCCCGTGTGGTTCTAAAGCATAAACAGTGAGTTACACGGCCTGG
*
544654 ACAGACGACCATGTCCTTGCCCATGTGGCTCACATGGCCTTGGCACACGAAAAG
131 ACACACGACCATGTCCTTGCCCATGTGGCTCACATGGCCTTGGCACACGAAAAG
* * ** * *
544708 CGTAAACAGTGAGTTATACGGCCTGGACACACGTCCATTTCCTTGCCCATGTGGCTCACACGGCT
1 CGTAAACAGTGAGTTACACGGCCTAGACACACACCCATGTCCTTGCCCATGTGGCTCACACAGCT
* * *** * *
544773 TGGGCACACGCCCATG-T-CCTGGTTGTGTGGTTCTAAAGCGTAAATAGTGAGTTACACGGCCTG
66 T-GACACACGCACATGTTGCCTGCCCGTGTGGTTCTAAAGCATAAACAGTGAGTTACACGGCCTG
* **
544836 GACACACGCCCATGTCCTTGCCTGTGTGGCTCACA
130 GACACACGACCATGTCCTTGCCCATGTGGCTCACA
544871 CGTCTTAGGC
Statistics
Matches: 138, Mismatches: 24, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
183 69 0.50
184 57 0.41
185 12 0.09
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (184 bp):
CGTAAACAGTGAGTTACACGGCCTAGACACACACCCATGTCCTTGCCCATGTGGCTCACACAGCT
TGACACACGCACATGTTGCCTGCCCGTGTGGTTCTAAAGCATAAACAGTGAGTTACACGGCCTGG
ACACACGACCATGTCCTTGCCCATGTGGCTCACATGGCCTTGGCACACGAAAAG
Found at i:544883 original size:103 final size:103
Alignment explanation
Indices: 544704--545001 Score: 445
Period size: 103 Copynumber: 2.9 Consensus size: 103
544694 TGGCACACGA
* * * * **
544704 AAAGCGTAAACAGTGAGTTATACGGCCTGGACACACGTCCATTTCCTTGCCCATGTGGCTCACAC
1 AAAGCGTAAATAGTGAGTTACACGGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
* **
544769 GGCTTGGGCACACGCCCATGTCCTGGTTGTGTGGTTCT
66 GGCTTAGGCACACGCCCATGTCCTGGCCGTGTGGTTCT
544807 AAAGCGTAAATAGTGAGTTACACGGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
1 AAAGCGTAAATAGTGAGTTACACGGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
* *
544872 GTCTTAGGCACAC-CCCATGTCCTTGCCCGTGTGGTTCT
66 GGCTTAGGCACACGCCCATGTCC-TGGCCGTGTGGTTCT
*
544910 AAAGCGTAAATAGTGAGTTACACGGCTTGGACACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
1 AAAGCGTAAATAGTGAGTTACACGGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
* *
544975 GGCCTAGGCACACGCCTATGTTCCTGG
66 GGCTTAGGCACACGCCCATG-TCCTGG
545002 ACACCAGTAG
Statistics
Matches: 176, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
102 9 0.05
103 157 0.89
104 7 0.04
105 3 0.02
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.25
Consensus pattern (103 bp):
AAAGCGTAAATAGTGAGTTACACGGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCTCACAC
GGCTTAGGCACACGCCCATGTCCTGGCCGTGTGGTTCT
Found at i:544987 original size:286 final size:288
Alignment explanation
Indices: 544437--544988 Score: 720
Period size: 286 Copynumber: 1.9 Consensus size: 288
544427 CATATGCCAC
*
544437 ACGGCCCGGACACACGCCCATGTCCTTGCCCGTGAGGCTCACACGGCCTAACACACGCACATGTT
1 ACGGCCCGGACACACGCCCATGTCCTTGCCCATGAGGCTCACACGGCCTAACACACGCACATGTT
* * * *
544502 ATCTCCCTGTGTGGTTCTAAATCGTAAACAGTGAGTTACACGGCCTAGACACATACCCATGTCTT
66 ACCTCCCTGTGTGGTTCTAAAGCGTAAACAGTGAGTTACACGGCCTAGACACACACCCATGTCCT
** *
544567 TGCTCGTGTGGCTCACACAGCTTGACACACGCACATGTTGTCTGCCCGTGTGGTTCTAAATCATA
131 TGCTCGTGTGGCTCACACAGCTTGACACACGCACATGTCCTCTGCCCGTGTGGTTCTAAAGCATA
* * * *
544632 AACAGTGAGTTATACGGCCTGGACAGACGACCATGTCCTTGCCCATGTGGCTCACATGGCCTTGG
196 AACAGTGAGTTACACGGCCTGGACACACGACCATGTCCTTGCCCATGTGGCTCACACGGCCTAGG
544697 CACACGAAAAGCGTAAACAGTGAGTTAT
261 CACACGAAAAGCGTAAACAGTGAGTTAT
* * * * * ** *
544725 ACGGCCTGGACACACGTCCATTTCCTTGCCCATGTGGCTCACACGGCTTGGGCACACGCCCATG-
1 ACGGCCCGGACACACGCCCATGTCCTTGCCCATGAGGCTCACACGGCCT-AACACACGCACATGT
*** * * *
544789 T-CCTGGTTGTGTGGTTCTAAAGCGTAAATAGTGAGTTACACGGCCTGGACACACGCCCATGTCC
65 TACCTCCCTGTGTGGTTCTAAAGCGTAAACAGTGAGTTACACGGCCTAGACACACACCCATGTCC
* *
544853 TTGC-CTGTGTGGCTCACAC-GTCTTAGGCACAC-CCCATGTCCT-TGCCCGTGTGGTTCTAAAG
130 TTGCTC-GTGTGGCTCACACAG-CTT-GACACACGCACATGTCCTCTGCCCGTGTGGTTCTAAAG
* * * * **
544914 CGTAAATAGTGAGTTACACGGCTTGGACACACGCCCATGTCCTTGCCTGTGTGGCTCACACGGCC
192 CATAAACAGTGAGTTACACGGCCTGGACACACGACCATGTCCTTGCCCATGTGGCTCACACGGCC
544979 TAGGCACACG
257 TAGGCACACG
544989 CCTATGTTCC
Statistics
Matches: 226, Mismatches: 34, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
286 85 0.38
287 80 0.35
288 50 0.22
289 11 0.05
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (288 bp):
ACGGCCCGGACACACGCCCATGTCCTTGCCCATGAGGCTCACACGGCCTAACACACGCACATGTT
ACCTCCCTGTGTGGTTCTAAAGCGTAAACAGTGAGTTACACGGCCTAGACACACACCCATGTCCT
TGCTCGTGTGGCTCACACAGCTTGACACACGCACATGTCCTCTGCCCGTGTGGTTCTAAAGCATA
AACAGTGAGTTACACGGCCTGGACACACGACCATGTCCTTGCCCATGTGGCTCACACGGCCTAGG
CACACGAAAAGCGTAAACAGTGAGTTAT
Found at i:556827 original size:19 final size:19
Alignment explanation
Indices: 556799--556838 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
556789 TGAATAAATT
*
556799 ATATTGAATTAAAATATAA
1 ATATTAAATTAAAATATAA
* *
556818 ATATTAAATTTAAATTTAA
1 ATATTAAATTAAAATATAA
556837 AT
1 AT
556839 CGAATATAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATATTAAATTAAAATATAA
Found at i:566199 original size:16 final size:18
Alignment explanation
Indices: 566178--566213 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
566168 ACATTACCCG
566178 AACTTAAAA-TAA-TTCA
1 AACTTAAAATTAACTTCA
566194 AACTTAAAATTAACTTCA
1 AACTTAAAATTAACTTCA
566212 AA
1 AA
566214 TATAAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 3 0.17
18 6 0.33
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.31
Consensus pattern (18 bp):
AACTTAAAATTAACTTCA
Found at i:568710 original size:1 final size:1
Alignment explanation
Indices: 568694--568745 Score: 86
Period size: 1 Copynumber: 52.0 Consensus size: 1
568684 ATTTTAACTC
* *
568694 TTTTTTCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
568746 GATAAAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:568810 original size:1 final size:1
Alignment explanation
Indices: 568804--568842 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
568794 NNNNNNNNNN
568804 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
568843 GATGTTGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:573324 original size:15 final size:15
Alignment explanation
Indices: 573290--573333 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
573280 TTGTAAATTT
573290 AAATTTTAGTTTTTA
1 AAATTTTAGTTTTTA
*
573305 TAATTTTA-TTTTTA
1 AAATTTTAGTTTTTA
*
573319 AAAATTTAGTCTTTT
1 AAATTTTAGT-TTTT
573334 TTTCTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.50
15 8 0.33
16 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (15 bp):
AAATTTTAGTTTTTA
Found at i:574536 original size:47 final size:47
Alignment explanation
Indices: 574482--574578 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
574472 ACCTCATGTT
*
574482 ACATACAATATCTCTCCATAAAGAACCCTAAACAAGGAGTGTCTAAA
1 ACATACAATATCTCTCCATAAAGAACCCTAAACAAGGAATGTCTAAA
574529 ACATACAATATCTCTCCATAAAGAACCCTAAACAAGGAATGTCTAAA
1 ACATACAATATCTCTCCATAAAGAACCCTAAACAAGGAATGTCTAAA
574576 ACA
1 ACA
574579 CCCAAAACGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.21
Consensus pattern (47 bp):
ACATACAATATCTCTCCATAAAGAACCCTAAACAAGGAATGTCTAAA
Found at i:575036 original size:16 final size:16
Alignment explanation
Indices: 575010--575059 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
575000 AATTCGAATT
575010 TTTGG-TTGTTTTAAG
1 TTTGGATTGTTTTAAG
575025 TTTGGATTGTTTCTAA-
1 TTTGGATTGTTT-TAAG
*
575041 TTTGGATTATTTTAAG
1 TTTGGATTGTTTTAAG
575057 TTT
1 TTT
575060 AGGTCATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 8 0.26
16 20 0.65
17 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.20, T:0.60
Consensus pattern (16 bp):
TTTGGATTGTTTTAAG
Found at i:578169 original size:38 final size:38
Alignment explanation
Indices: 578118--578195 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
578108 AGACAAAAGG
578118 TAAGCTAAACGCACCGCACTTAATCGTTCATCCAAACT
1 TAAGCTAAACGCACCGCACTTAATCGTTCATCCAAACT
*
578156 TAAGCTAAACGCACCGCACTTAATCGTTCATCCAAGCT
1 TAAGCTAAACGCACCGCACTTAATCGTTCATCCAAACT
578194 TA
1 TA
578196 TCCTTAATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.24
Consensus pattern (38 bp):
TAAGCTAAACGCACCGCACTTAATCGTTCATCCAAACT
Found at i:603462 original size:14 final size:14
Alignment explanation
Indices: 603443--603470 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
603433 AAAAGATGAT
603443 ATTTATTATTTATA
1 ATTTATTATTTATA
603457 ATTTATTATTTATA
1 ATTTATTATTTATA
603471 TCCGTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTATTATTTATA
Found at i:611256 original size:220 final size:220
Alignment explanation
Indices: 610859--611273 Score: 512
Period size: 220 Copynumber: 1.9 Consensus size: 220
610849 CCAACAATGA
*
610859 TAGGTATTGTTCCTGAGTTGTGCCAAGATTTTGTCTCCCGCCTCTACTGAGAGCCGTGTACAGTT
1 TAGGTATTGTTCCTGAGTTGTGCCAAGATTTTGTCTCCCGCCTCTACCGAGAGCCGTGTACAGTT
* * * ** * * * * *
610924 TACATCCCCTTGGTGGGTGGCTGTGTGCCCAGGCATGACACGTTGCCTCGAGGCATTCCCCCTCC
66 CACATCCCCATGATGGCAGGCTGTGTGCCCAGGCATAACACGTTGCCTAGAGGCACTCCCCATAC
* * *
610989 ATGAACAATACACAACTCTCGGCAAAGACAACCCAAAGACTATACCTGCCATTGATGAGGATCCG
131 ATGAACAATACACAACTCTCAGCAAAGACAACCCAAAGACAATACCTGCCATTGATGAAGATCCG
611054 ACCGGCTGTAACCCAAAGATTATGG
196 ACCGGCTGTAACCCAAAGATTATGG
* * * **
611079 TAGGTATTGTT-CTCGGGTTGTGCCAAGATTTTGTCTTCCGCCTCTACCGAGAGGCGTGTATGGT
1 TAGGTATTGTTCCT-GAGTTGTGCCAAGATTTTGTCTCCCGCCTCTACCGAGAGCCGTGTACAGT
* * * * * *
611143 TCACGTCCCCATGATGAGCAGTC-GTGTGCCC-GCGTATAACCCGTTTCCTAGAGGCACTCTCCA
65 TCACATCCCCATGATG-GCAGGCTGTGTGCCCAG-GCATAACACGTTGCCTAGAGGCACTCCCCA
* * * * *
611206 TACATGAACCATACACAGCTCTCAGCAAAGACGACCCAGAGACAATACCTGCCATTGTTGAAGAT
128 TACATGAACAATACACAACTCTCAGCAAAGACAACCCAAAGACAATACCTGCCATTGATGAAGAT
611271 CCG
193 CCG
611274 GCCAGCTGCA
Statistics
Matches: 162, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
219 3 0.02
220 156 0.96
221 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (220 bp):
TAGGTATTGTTCCTGAGTTGTGCCAAGATTTTGTCTCCCGCCTCTACCGAGAGCCGTGTACAGTT
CACATCCCCATGATGGCAGGCTGTGTGCCCAGGCATAACACGTTGCCTAGAGGCACTCCCCATAC
ATGAACAATACACAACTCTCAGCAAAGACAACCCAAAGACAATACCTGCCATTGATGAAGATCCG
ACCGGCTGTAACCCAAAGATTATGG
Found at i:612060 original size:31 final size:31
Alignment explanation
Indices: 612025--612083 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
612015 AAATCATCAC
612025 TGAACTATTTAAAAG-TTTTCGTTTAAGTCAT
1 TGAACTATTTAAAAGATTTT-GTTTAAGTCAT
*
612056 TGAACTATTTGAAAGATTTTGTTTAAGT
1 TGAACTATTTAAAAGATTTTGTTTAAGT
612084 TAAGTAGGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (31 bp):
TGAACTATTTAAAAGATTTTGTTTAAGTCAT
Found at i:612528 original size:8 final size:8
Alignment explanation
Indices: 612517--612550 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
612507 AATATTAATG
612517 ATTTTATT
1 ATTTTATT
*
612525 ATTTCATT
1 ATTTTATT
612533 -TTTTATT
1 ATTTTATT
612540 ATTTTATT
1 ATTTTATT
612548 ATT
1 ATT
612551 ATTTGATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTATT
Found at i:612681 original size:29 final size:29
Alignment explanation
Indices: 612638--612715 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
612628 ACCAAATTTG
**
612638 ATACATGAATTTTGATTTAATGCA-ATTAT
1 ATACATGAAACTTGATTTAATGCATA-TAT
* *
612667 ATACATGAAACTTGAATTTAGTTCATATAT
1 ATACATGAAACTTG-ATTTAATGCATATAT
*
612697 ATACATAAAACATTGATTT
1 ATACATGAAAC-TTGATTT
612716 TGATTTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 12 0.29
30 25 0.61
31 4 0.10
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (29 bp):
ATACATGAAACTTGATTTAATGCATATAT
Found at i:616188 original size:114 final size:115
Alignment explanation
Indices: 615991--616201 Score: 307
Period size: 114 Copynumber: 1.8 Consensus size: 115
615981 CAGTACGTGG
** * * * *
615991 GGCAGAATCTGGCTACGGTTATCTTATCTGCCCGAACTTGAAGCCCGTGACATTCCCGGAGCTTG
1 GGCAGAATCCAGCTACGATTATCTTATCTGCCCGAAATTGAAGACCGTGACATTCCCGGAACTTG
* * *
616056 TTCTGGGGTGTTGTTGGGCTTTGGTAGTGTTCCAAGCTCATCGGACATGA
66 TTCTGAGGTGTCGCTGGGCTTTGGTAGTGTTCCAAGCTCATCGGACATGA
**
616106 GGCAGAATCCAGCTACGATTATCTTATCTGCCC-AAATTGAAGATTGTGACATTCCCGGAACTTG
1 GGCAGAATCCAGCTACGATTATCTTATCTGCCCGAAATTGAAGACCGTGACATTCCCGGAACTTG
*
616170 TTTTGAGGTGTCGCTGGGCTTTGGTAGTGTTC
66 TTCTGAGGTGTCGCTGGGCTTTGGTAGTGTTC
616202 AGGTTTAAGG
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
114 54 0.64
115 30 0.36
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (115 bp):
GGCAGAATCCAGCTACGATTATCTTATCTGCCCGAAATTGAAGACCGTGACATTCCCGGAACTTG
TTCTGAGGTGTCGCTGGGCTTTGGTAGTGTTCCAAGCTCATCGGACATGA
Found at i:616355 original size:136 final size:135
Alignment explanation
Indices: 616090--616342 Score: 321
Period size: 136 Copynumber: 1.9 Consensus size: 135
616080 TAGTGTTCCA
** * **
616090 AGCTCATCGGACATGAGGCAGAATCCAGCTACGATTATCTTATCTGCCCAAATTGAAGATTGTGA
1 AGCTCATCGGACAAAAGGCAGAATCCAGCTACGATTATCTTATCTGCCCAAATTGAACACCGTGA
* * *
616155 CATTCCCGGAACTTGTTTTGAGGTGTCGCTGGGCTTTGGTAGTGTTCAGGTTTAAGGTTTCAAGT
66 CATTCCCAGAACTTGTTTTGAGGTGTCGCTGGGCTTTGATAGTGTTCAGGGTTAAGGTTTCAAGT
616220 CACCG
131 CACCG
* * * *
616225 AGCTCATCGGACAAAAGGCAGAAT-CTGACTACGGTTATCTTATCTGCTCGAACTTGAACACCGT
1 AGCTCATCGGACAAAAGGCAGAATCCAG-CTACGATTATCTTATCTGC-CCAAATTGAACACCGT
* * * * *
616289 GATATTCCCATAACTTGTTTTGGGGTGTCGTTGGGCTTTGATAGT-TTTAGGGTT
64 GACATTCCCAGAACTTGTTTTGAGGTGTCGCTGGGCTTTGATAGTGTTCAGGGTT
616343 GGGGATTTCA
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
134 2 0.02
135 47 0.47
136 50 0.51
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (135 bp):
AGCTCATCGGACAAAAGGCAGAATCCAGCTACGATTATCTTATCTGCCCAAATTGAACACCGTGA
CATTCCCAGAACTTGTTTTGAGGTGTCGCTGGGCTTTGATAGTGTTCAGGGTTAAGGTTTCAAGT
CACCG
Found at i:624833 original size:7 final size:7
Alignment explanation
Indices: 624821--624847 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
624811 TTCACTTTGT
624821 TCAATTA
1 TCAATTA
624828 TCAATTA
1 TCAATTA
624835 TCAATTA
1 TCAATTA
624842 TCAATT
1 TCAATT
624848 TTTGTCCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (7 bp):
TCAATTA
Found at i:630054 original size:22 final size:20
Alignment explanation
Indices: 630023--630079 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
630013 TGTGTATTGC
*
630023 TTTAAGATTTGTTTTAGTCTCT
1 TTTAATATTTGTTTTA-T-TCT
* *
630045 TTTATTATTTGTTTT-TTGT
1 TTTAATATTTGTTTTATTCT
630064 TTTAATATTTGTTTTA
1 TTTAATATTTGTTTTA
630080 AAATTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 16 0.53
20 1 0.03
22 13 0.43
ACGTcount: A:0.18, C:0.04, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTAATATTTGTTTTATTCT
Found at i:630456 original size:18 final size:19
Alignment explanation
Indices: 630433--630484 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
630423 GTTATAAAAA
630433 ATATTATATTAAT-TATAT
1 ATATTATATTAATATATAT
* *
630451 ATATTA-AATAATATTTAT
1 ATATTATATTAATATATAT
*
630469 ATATTTATATTTATAT
1 ATA-TTATATTAATAT
630485 TAAATCACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 13 0.48
19 3 0.11
20 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTATATTAATATATAT
Found at i:630476 original size:28 final size:29
Alignment explanation
Indices: 630427--630489 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
630417 TATTATGTTA
*
630427 TAAAAAATATTATATTAATTATA-TATAT
1 TAAATAATATTATATTAATTATATTATAT
*
630455 TAAATAATATT-TATATATTTATATTTATAT
1 TAAATAATATTATAT-TAATTATA-TTATAT
630485 TAAAT
1 TAAAT
630490 CACCAACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.10
28 17 0.57
30 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAAATAATATTATATTAATTATATTATAT
Found at i:653115 original size:28 final size:27
Alignment explanation
Indices: 653067--653131 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 27
653057 TAATTCCATA
* *
653067 AAAAAATTTAAATTAATTC-TTAAACTT
1 AAAATATTTTAATTAATTCTTTAAA-TT
653094 CAAAATATTTTAATTCAA-TCTTTAAATT
1 -AAAATATTTTAATT-AATTCTTTAAATT
*
653122 AAATTATTTT
1 AAAATATTTT
653132 TCCAAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 9 0.28
28 16 0.50
29 7 0.22
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (27 bp):
AAAATATTTTAATTAATTCTTTAAATT
Found at i:654496 original size:22 final size:23
Alignment explanation
Indices: 654457--654499 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
654447 TTGACGTTTA
**
654457 TTATAATAATTTCCTTATTAATT
1 TTATAATAATTTAATTATTAATT
654480 TTATAA-AATTTAATTATTAA
1 TTATAATAATTTAATTATTAA
654500 ATATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATAATAATTTAATTATTAATT
Found at i:671906 original size:112 final size:112
Alignment explanation
Indices: 671709--672157 Score: 889
Period size: 112 Copynumber: 4.0 Consensus size: 112
671699 TCATCCATTT
671709 TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
1 TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
671774 AGTTATTTAACTTGCTAAATGTGTTATTTGAACGAAGAAATATAGTA
66 AGTTATTTAACTTGCTAAATGTGTTATTTGAACGAAGAAATATAGTA
671821 TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
1 TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
671886 AGTTATTTAACTTGCTAAATGTGTTATTTGAACGAAGAAATATAGTA
66 AGTTATTTAACTTGCTAAATGTGTTATTTGAACGAAGAAATATAGTA
671933 TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
1 TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
671998 AGTTATTTAACTTGCTAAATGTGTTATTTGAACGAAGAAATATAGTA
66 AGTTATTTAACTTGCTAAATGTGTTATTTGAACGAAGAAATATAGTA
672045 TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
1 TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
*
672110 AGTTATTTAACTTGCTAAATGTGTTATTTGAATGAAGAAATATAGTA
66 AGTTATTTAACTTGCTAAATGTGTTATTTGAACGAAGAAATATAGTA
672157 T
1 T
672158 AAAATCAGTA
Statistics
Matches: 336, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 336 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (112 bp):
TTGTTGCTTTTGGGAAAGGTAAGTTCTCATGAAACTTACTATATTTTCATGTTGTTGTGTGTGCT
AGTTATTTAACTTGCTAAATGTGTTATTTGAACGAAGAAATATAGTA
Found at i:682705 original size:44 final size:44
Alignment explanation
Indices: 682656--682744 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
682646 TTTTGATAGT
* * *
682656 TGAACATCACTTGACCACTAAACTTCTAAATACTCAAATTTGAG
1 TGAACATCACTTGACCACTAAACCTCTAAAGACTCAAACTTGAG
* *
682700 TGAACATCCCTTGACCATTAAACCTCTAAAGACTCAAACTTGAG
1 TGAACATCACTTGACCACTAAACCTCTAAAGACTCAAACTTGAG
682744 T
1 T
682745 AGATTATATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (44 bp):
TGAACATCACTTGACCACTAAACCTCTAAAGACTCAAACTTGAG
Found at i:682789 original size:134 final size:134
Alignment explanation
Indices: 682562--682811 Score: 324
Period size: 134 Copynumber: 1.9 Consensus size: 134
682552 GATTCAACCC
* * * *
682562 TGAGTGAACATCCCTTAGCCATTAAATCTCTGAAGACTCAAACTTGAGTGGATTCTATAGTTGAA
1 TGAGTGAACATCCCTTAGCCATTAAACCTCTAAAGACTCAAACTTGAGTAGATTATATAGTTGAA
* ** ** *
682627 CATTCCTTGACCACTAAATTTTTGATAGTTGAACATCACTTGACCACTAAACTTCTAAATACTCA
66 CATCCCTTGACCACTAAACCTTCAATAGTTAAACATCACTTGACCACTAAACTTCTAAATACTCA
682692 AATT
131 AATT
*
682696 TGAGTGAACATCCCTT-GACCATTAAACCTCTAAAGACTCAAACTTGAGTAGATTATATGGTTGA
1 TGAGTGAACATCCCTTAG-CCATTAAACCTCTAAAGACTCAAACTTGAGTAGATTATATAGTTGA
* * * * *
682760 ATATCCCTCT-ATCACTAAGCCTTCAATAGTTAAACATCTCTTGACCATTAAA
65 ACATCCCT-TGACCACTAAACCTTCAATAGTTAAACATCACTTGACCACTAAA
682812 TCTCTGAAGA
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
133 1 0.01
134 96 0.98
135 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (134 bp):
TGAGTGAACATCCCTTAGCCATTAAACCTCTAAAGACTCAAACTTGAGTAGATTATATAGTTGAA
CATCCCTTGACCACTAAACCTTCAATAGTTAAACATCACTTGACCACTAAACTTCTAAATACTCA
AATT
Found at i:682834 original size:134 final size:132
Alignment explanation
Indices: 682536--682838 Score: 317
Period size: 134 Copynumber: 2.3 Consensus size: 132
682526 ATCCAAACCC
* * *
682536 ACCATAAATCTCTAATGATTCAACCCTGAGTGAACATCCCTTAGCCATTAAATCTCTGAAGACTC
1 ACCATAAATCTCTAA-GATTCAACTCTGAGTGAACATCCCTTAGCCATTAAACCTCTAAAGACTC
* * * ** ** *
682601 AAACTTGAGTGGATTCTATAGTTGAACATTCCTTGACCACTAAATTTTTGATAGTTGAACATCAC
65 AAACTTGAGTAGATTATATAGTTGAACATCCCTTGACCACTAAACCTTCAATAGTTAAACATCAC
682666 TTG
130 TTG
* *
682669 ACCACTAAA-CTTCTAA-ATACTCAAATTTGAGTGAACATCCCTT-GACCATTAAACCTCTAAAG
1 ACCA-TAAATC-TCTAAGAT--TCAACTCTGAGTGAACATCCCTTAG-CCATTAAACCTCTAAAG
* * * *
682731 ACTCAAACTTGAGTAGATTATATGGTTGAATATCCCTCT-ATCACTAAGCCTTCAATAGTTAAAC
61 ACTCAAACTTGAGTAGATTATATAGTTGAACATCCCT-TGACCACTAAACCTTCAATAGTTAAAC
*
682795 ATCTCTTG
125 ATCACTTG
**
682803 ACCATTAAATCTCTGAAGATTTGACTCTGAGTGAAC
1 ACCA-TAAATCTCT-AAGATTCAACTCTGAGTGAAC
682839 TTTATGGTTG
Statistics
Matches: 138, Mismatches: 23, Indels: 17
0.78 0.13 0.10
Matches are distributed among these distances:
132 2 0.01
133 6 0.04
134 124 0.90
135 4 0.03
136 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.32
Consensus pattern (132 bp):
ACCATAAATCTCTAAGATTCAACTCTGAGTGAACATCCCTTAGCCATTAAACCTCTAAAGACTCA
AACTTGAGTAGATTATATAGTTGAACATCCCTTGACCACTAAACCTTCAATAGTTAAACATCACT
TG
Found at i:684746 original size:17 final size:16
Alignment explanation
Indices: 684714--684759 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
684704 TTATAATTTT
684714 AAAAAA-TATATTTATC
1 AAAAAATTA-ATTTATC
684730 AAAAAATTAATTATATC
1 AAAAAATTAATT-TATC
*
684747 TAAAAATTAATTT
1 AAAAAATTAATTT
684760 TAAGTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAAAATTAATTTATC
Found at i:687035 original size:29 final size:29
Alignment explanation
Indices: 687003--687091 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
686993 AACTGAATAG
*
687003 TTGAGTGACCATTTTATAACTTTTTATAA
1 TTGAATGACCATTTTATAACTTTTTATAA
* *** * * *
687032 TTGATTGA-C-TAAAAAAAATTTATCAATAA
1 TTGAATGACCATTTTATAACTTT-T-TATAA
687061 TTGAATGACCATTTTATAACTTTTTATAA
1 TTGAATGACCATTTTATAACTTTTTATAA
687090 TT
1 TT
687092 AAATAACAAA
Statistics
Matches: 42, Mismatches: 14, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
27 7 0.17
28 2 0.05
29 24 0.57
30 2 0.05
31 7 0.17
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (29 bp):
TTGAATGACCATTTTATAACTTTTTATAA
Found at i:687250 original size:72 final size:72
Alignment explanation
Indices: 687146--687301 Score: 224
Period size: 72 Copynumber: 2.2 Consensus size: 72
687136 CCCATGATGT
* * *
687146 AATCTCAACCG-TTATATTTGACTACCGATCATGTTAATTTTCAGATCATAGAAGGAAAATATCC
1 AATCTCAACCGTTTATATTTGACCACCGATCATGTTAATTTTCAGATCACAAAAGGAAAATATCC
687210 TTGTTGC
66 TTGTTGC
* ** * **
687217 AATCTCAATCGTTTATATTTGACCATTGGTCATGTTAATTTTCAGATCACAAAAGTCAAATATCC
1 AATCTCAACCGTTTATATTTGACCACCGATCATGTTAATTTTCAGATCACAAAAGGAAAATATCC
687282 TTGTTGC
66 TTGTTGC
687289 AATCTCAACCGTT
1 AATCTCAACCGTT
687302 AATTCTTAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 10 0.14
72 64 0.86
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (72 bp):
AATCTCAACCGTTTATATTTGACCACCGATCATGTTAATTTTCAGATCACAAAAGGAAAATATCC
TTGTTGC
Found at i:691427 original size:2 final size:2
Alignment explanation
Indices: 691420--691445 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
691410 CTTAAAAATA
691420 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
691446 GAGTTGGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:693630 original size:3 final size:3
Alignment explanation
Indices: 693622--693652 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
693612 AAGGAACATG
693622 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
693653 TTTCATGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:695925 original size:11 final size:11
Alignment explanation
Indices: 695909--695968 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
695899 ATATTGTTGT
*
695909 TTTTTTAATGA
1 TTTTTTAATTA
695920 TTTTTTATAATTA
1 -TTTTT-TAATTA
*
695933 TTTTTAAATTA
1 TTTTTTAATTA
*
695944 TTTTTTTA-TA
1 TTTTTTAATTA
*
695954 ATTTTTATATTA
1 TTTTTTA-ATTA
695966 TTT
1 TTT
695969 ATTGACGTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
10 7 0.18
11 12 0.32
12 14 0.37
13 5 0.13
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTTTTAATTA
Found at i:695930 original size:13 final size:13
Alignment explanation
Indices: 695908--695956 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
695898 AATATTGTTG
*
695908 TTTTTT-TAATGA
1 TTTTTTATAATTA
695920 TTTTTTATAATTA
1 TTTTTTATAATTA
695933 -TTTTTA-AATTA
1 TTTTTTATAATTA
695944 TTTTTTTATAATT
1 -TTTTTTATAATT
695957 TTTATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.16
12 12 0.38
13 11 0.34
14 4 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTTTATAATTA
Found at i:695947 original size:22 final size:22
Alignment explanation
Indices: 695922--695968 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
695912 TTTAATGATT
*
695922 TTTTATAATTATTTTTAAATTA
1 TTTTATAATAATTTTTAAATTA
* * *
695944 TTTTTTTATAATTTTTATATTA
1 TTTTATAATAATTTTTAAATTA
695966 TTT
1 TTT
695969 ATTGACGTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTATAATAATTTTTAAATTA
Found at i:698810 original size:156 final size:156
Alignment explanation
Indices: 698526--698819 Score: 498
Period size: 156 Copynumber: 1.9 Consensus size: 156
698516 ATGTAATTTC
* * *
698526 TTTTTTGATTGGTATAGTGTTGCTTGCTTAATTTTTGAATCTGGATGAAAGTGTTGGTTAAATTT
1 TTTTTTGATTGGTATAGTGTTACTTGCTTAATTTTTGAATCTGGATGAAAGTGTTAGTCAAATTT
*
698591 TAATCATATAGTATTGGTTGTAAGTGACCATTAAGTATAGAAGGTGTCTTAGACTAGTATGCATT
66 TAATCATATAGTATTGGTTGTAAGTGACCATTAAGTATAGAAGGTGTCTTAGACTAATATGCATT
698656 AATTTCTTGTTTGAATCAAATGTCAT
131 AATTTCTTGTTTGAATCAAATGTCAT
* *
698682 TTTTTTGATTGGTATAGTGTTACTTGCTTAATTTTTGAATGTGGATGGAAGTGTTAGTCAAATTT
1 TTTTTTGATTGGTATAGTGTTACTTGCTTAATTTTTGAATCTGGATGAAAGTGTTAGTCAAATTT
* * * *
698747 TAATGATATAGTATTGGTTTTAAGTGACCATTGAGTATAGAGGGTGTCTTAGACTAATATGCATT
66 TAATCATATAGTATTGGTTGTAAGTGACCATTAAGTATAGAAGGTGTCTTAGACTAATATGCATT
698812 AATTTCTT
131 AATTTCTT
698820 TTTATTTTTT
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
156 128 1.00
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.45
Consensus pattern (156 bp):
TTTTTTGATTGGTATAGTGTTACTTGCTTAATTTTTGAATCTGGATGAAAGTGTTAGTCAAATTT
TAATCATATAGTATTGGTTGTAAGTGACCATTAAGTATAGAAGGTGTCTTAGACTAATATGCATT
AATTTCTTGTTTGAATCAAATGTCAT
Found at i:703933 original size:42 final size:42
Alignment explanation
Indices: 703863--703943 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
703853 AAAAGGCTTT
* * *
703863 TATCATTATGAGTTTATGACTTTAAAATATTGTATAATAGTA
1 TATCATTATGAGTTTATGACTCTAAAATACTGTAGAATAGTA
703905 TATCATT-TCGAGTTTATGACTACT-AAATACTGTAGAATA
1 TATCATTAT-GAGTTTATGACT-CTAAAATACTGTAGAATA
703944 TTTAATTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 32 0.94
43 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (42 bp):
TATCATTATGAGTTTATGACTCTAAAATACTGTAGAATAGTA
Found at i:712265 original size:13 final size:14
Alignment explanation
Indices: 712233--712269 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
712223 CTGCTGCCAT
712233 GGAGAG-AAAGAGA
1 GGAGAGAAAAGAGA
712246 GGA-AGAAAAG-GA
1 GGAGAGAAAAGAGA
712258 GGAGAGAAAAGA
1 GGAGAGAAAAGA
712270 ATGAATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (14 bp):
GGAGAGAAAAGAGA
Found at i:725902 original size:26 final size:27
Alignment explanation
Indices: 725872--725928 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
725862 ATCATTTAGG
725872 GTTTTGAAGCCGAAAGGAAATAATTA-
1 GTTTTGAAGCCGAAAGGAAATAATTAT
*
725898 GTTTTGAAGCTGAAAGGAAATAATTAT
1 GTTTTGAAGCCGAAAGGAAATAATTAT
725925 GTTT
1 GTTT
725929 CCCTCTTCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (27 bp):
GTTTTGAAGCCGAAAGGAAATAATTAT
Found at i:734146 original size:21 final size:21
Alignment explanation
Indices: 734121--734164 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
734111 AATTAAAATG
*
734121 TTCAATTTGTTACTTGAGCTT
1 TTCAATTTGATACTTGAGCTT
*
734142 TTCAATTTGATACTTGAGTTT
1 TTCAATTTGATACTTGAGCTT
734163 TT
1 TT
734165 TTTTTGTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.55
Consensus pattern (21 bp):
TTCAATTTGATACTTGAGCTT
Found at i:736867 original size:18 final size:17
Alignment explanation
Indices: 736832--736877 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
736822 AAATTATTTG
*
736832 AAAAAATAAAGCTAAAA
1 AAAAAAAAAAGCTAAAA
736849 AATAAACAAAAAG-TAAAA
1 AA-AAA-AAAAAGCTAAAA
736867 AAAAAAAAAAG
1 AAAAAAAAAAG
736878 AACAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
18 10 0.38
19 5 0.19
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAAAAAAAAGCTAAAA
Found at i:738007 original size:115 final size:118
Alignment explanation
Indices: 737873--738108 Score: 293
Period size: 115 Copynumber: 2.0 Consensus size: 118
737863 ACAAGCTTTG
* * **
737873 TTCATGTTAGATTCGTTTAATAAATAA-ACTGTAAAATTTTGTTCAAATTTATTTATGCAACTTG
1 TTCATGTTAGATTCGTTTAATAAATAAGACT-TAAAATATTATTCAAATCCATTTATGCAACTTG
* *
737937 AT-AA-A-CAAACA-CTTAAATGTTGATGAACTATAAATCAAATTTTCTATTCAT
65 ATAAAGAGCAAACATC-TAAATGTTAATGAACAATAAATCAAATTTTCTATTCAT
* * * * *
737988 TTCATGTTCGATTCGTTTAATAAATAAGTCTTAAAATATTATTCAAATCCGTTTATTCAGCTTGA
1 TTCATGTTAGATTCGTTTAATAAATAAGACTTAAAATATTATTCAAATCCATTTATGCAACTTGA
* *
738053 TAAATGAGCAAACATCTAAATGTTAATGAAGAATTAATCAAATTTTCTATTCAT
66 TAAA-GAGCAAACATCTAAATGTTAATGAACAATAAATCAAATTTTCTATTCAT
738107 TT
1 TT
738109 ACAACTCTAT
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
115 54 0.53
116 4 0.04
118 1 0.01
119 42 0.41
120 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (118 bp):
TTCATGTTAGATTCGTTTAATAAATAAGACTTAAAATATTATTCAAATCCATTTATGCAACTTGA
TAAAGAGCAAACATCTAAATGTTAATGAACAATAAATCAAATTTTCTATTCAT
Found at i:738185 original size:31 final size:31
Alignment explanation
Indices: 738147--738213 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
738137 TTTGAAGTAG
738147 AAGTATATGTTAACAAAATCTTATGCACGGA
1 AAGTATATGTTAACAAAATCTTATGCACGGA
*
738178 AAGTATATGTTAACAAAATCTTATGCACTGA
1 AAGTATATGTTAACAAAATCTTATGCACGGA
738209 AAGTA
1 AAGTA
738214 CGGATACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (31 bp):
AAGTATATGTTAACAAAATCTTATGCACGGA
Found at i:742259 original size:21 final size:22
Alignment explanation
Indices: 742216--742262 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
742206 CTCCTAATAT
**
742216 ATAAAAAAAATTACTCTTAAAA
1 ATAAAAAAAATTACTAATAAAA
*
742238 ATAAAAAAAATTA-TAATCAAA
1 ATAAAAAAAATTACTAATAAAA
742259 ATAA
1 ATAA
742263 CAACGCATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAAAAAATTACTAATAAAA
Found at i:746208 original size:27 final size:25
Alignment explanation
Indices: 746153--746210 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
746143 ACAGAGGAGA
* * * *
746153 TAGAGAGAGAAAGGAGGGGAATTCT
1 TAGAGAGAGAAAAGAGGGAAAATCG
746178 TAGAGAGAGAAAAGAGGGTAAAATCGG
1 TAGAGAGAGAAAAGAGGG-AAAATC-G
746205 TAGAGA
1 TAGAGA
746211 ATTCTTAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 17 0.63
26 4 0.15
27 6 0.22
ACGTcount: A:0.45, C:0.03, G:0.38, T:0.14
Consensus pattern (25 bp):
TAGAGAGAGAAAAGAGGGAAAATCG
Found at i:750488 original size:5 final size:5
Alignment explanation
Indices: 750480--750536 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
750470 TTAGTTTATT
* *
750480 TAATA TAATA TAATA TAACA TAATA TATTATA TTATA TAATA -AA-A TAATA
1 TAATA TAATA TAATA TAATA TAATA TA--ATA TAATA TAATA TAATA TAATA
750530 T-ATA TAA
1 TAATA TAA
750537 AACATAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.19
5 30 0.70
7 4 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:752094 original size:24 final size:24
Alignment explanation
Indices: 752062--752146 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
752052 TTAAGTAGTG
752062 ATACATAATAAATTTAAAATAATA
1 ATACATAATAAATTTAAAATAATA
* * *
752086 ATACATAATAAACTTATAATAAAAA
1 ATACATAATAAATTTAAAAT-AATA
* *
752111 ATACATTATAATTTTTAAAA-AAGTA
1 ATACATAATAA-ATTTAAAATAA-TA
752136 ATA-ATATATAA
1 ATACATA-ATAA
752147 CGTTTGAGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
24 22 0.46
25 21 0.44
26 5 0.10
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (24 bp):
ATACATAATAAATTTAAAATAATA
Found at i:753082 original size:25 final size:26
Alignment explanation
Indices: 753028--753082 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
753018 GACGAACACA
*
753028 AAATGAAAGAAAAAAAAGTAACCAGC
1 AAATGAAAGAAAAAAAAGAAACCAGC
*
753054 AAATGAAA-AAACAAAAGAAACTCAG-
1 AAATGAAAGAAAAAAAAGAAAC-CAGC
753079 AAAT
1 AAAT
753083 CACCTCTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.67, C:0.11, G:0.13, T:0.09
Consensus pattern (26 bp):
AAATGAAAGAAAAAAAAGAAACCAGC
Found at i:761854 original size:31 final size:30
Alignment explanation
Indices: 761819--761890 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
761809 TTACTAGTTG
*
761819 GTACTTAAATTTAGCCTT-AATATTTAATTT
1 GTACTTAAATTT-GCCTTCAATATTTAAATT
* * *
761849 AGTACTTCAGTTTGGCTTCAATATTTAAATT
1 -GTACTTAAATTTGCCTTCAATATTTAAATT
761880 GATACTTAAAT
1 G-TACTTAAAT
761891 CAAATGTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (30 bp):
GTACTTAAATTTGCCTTCAATATTTAAATT
Found at i:762474 original size:18 final size:17
Alignment explanation
Indices: 762444--762479 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
762434 TAACTGGGAC
762444 AAAAAATTTAATTAATT
1 AAAAAATTTAATTAATT
*
762461 AAAAATTTTAAATTAATT
1 AAAAAATTT-AATTAATT
762479 A
1 A
762480 CACCTTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAAATTTAATTAATT
Found at i:765451 original size:30 final size:31
Alignment explanation
Indices: 765412--765481 Score: 101
Period size: 30 Copynumber: 2.3 Consensus size: 31
765402 TTTTTATAGT
*
765412 TTAT-ATTTTTATAATTTTTAAA-AGATTAAA
1 TTATAATTTTTATAA-TTTTAAAGAGAATAAA
765442 TTA-AATTTTTATAATTTTAAAGAGAATAAA
1 TTATAATTTTTATAATTTTAAAGAGAATAAA
765472 TTATAATTTT
1 TTATAATTTT
765482 ACATTTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 7 0.19
30 23 0.64
31 6 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (31 bp):
TTATAATTTTTATAATTTTAAAGAGAATAAA
Found at i:766290 original size:18 final size:17
Alignment explanation
Indices: 766242--766290 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
766232 TTTATGATTT
*
766242 TTTTTATAAATTTTAAG
1 TTTTTATAAATTTTAAA
* *
766259 TTTATATCAATTTTAATA
1 TTTTTATAAATTTTAA-A
766277 TTTTTATAAATTTT
1 TTTTTATAAATTTT
766291 TACAACTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTTATAAATTTTAAA
Found at i:766375 original size:17 final size:17
Alignment explanation
Indices: 766350--766405 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
766340 ACTATTTTAA
*
766350 ATAAGTTTATTAATTTT
1 ATAATTTTATTAATTTT
*
766367 ATAATTTTATAATATTTTT
1 ATAATTTTAT--TAATTTT
* *
766386 ATAATTTTAATAAGTTT
1 ATAATTTTATTAATTTT
766403 ATA
1 ATA
766406 TCGATTTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 17 0.53
19 15 0.47
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
ATAATTTTATTAATTTT
Found at i:766380 original size:28 final size:28
Alignment explanation
Indices: 766328--766405 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
766318 TTAATGCATT
*
766328 TTTAAAATTTTAACT-ATTTTA-AATAAG
1 TTTATAATTTTAA-TAATTTTATAATAAG
**
766355 TTTATTAATTTT-ATAATTTTATAATATT
1 TTTA-TAATTTTAATAATTTTATAATAAG
*
766383 TTTATAATTTTAATAAGTTTATA
1 TTTATAATTTTAATAATTTTATA
766406 TCGATTTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
26 1 0.02
27 18 0.42
28 24 0.56
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (28 bp):
TTTATAATTTTAATAATTTTATAATAAG
Found at i:766385 original size:19 final size:18
Alignment explanation
Indices: 766268--766394 Score: 64
Period size: 19 Copynumber: 6.8 Consensus size: 18
766258 GTTTATATCA
* * *
766268 ATTTTAATATTTTTATAA
1 ATTTTTATAATTTTATAT
*
766286 ATTTTTACAACTTTTAT-T
1 ATTTTTATAA-TTTTATAT
* *
766304 TTTTTTAAAGAATTTTA-AT
1 ATTTTT--ATAATTTTATAT
*
766323 GCATTTTTAAAATTTTA-ACT
1 --ATTTTTATAATTTTATA-T
* *
766343 ATTTTAAATAAGTTTAT-T
1 ATTTT-TATAATTTTATAT
*
766361 AATTTTATAATTTTATAAT
1 ATTTTTATAATTTTAT-AT
766380 ATTTTTATAATTTTA
1 ATTTTTATAATTTTA
766395 ATAAGTTTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 21
0.70 0.13 0.18
Matches are distributed among these distances:
17 9 0.11
18 22 0.27
19 43 0.52
20 4 0.05
21 5 0.06
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTTTATAATTTTATAT
Found at i:766404 original size:36 final size:36
Alignment explanation
Indices: 766328--766405 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
766318 TTAATGCATT
* * * *
766328 TTTAAAATTTTAACTATTTTAAATAAGTTTATTAAT
1 TTTATAATTTTAAATATTTTAAATAAGTTTAATAAG
* *
766364 TTTATAATTTTATAATATTTT-TATAATTTTAATAAG
1 TTTATAATTTTA-AATATTTTAAATAAGTTTAATAAG
766400 TTTATA
1 TTTATA
766406 TCGATTTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 28 0.80
37 7 0.20
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (36 bp):
TTTATAATTTTAAATATTTTAAATAAGTTTAATAAG
Found at i:768566 original size:18 final size:17
Alignment explanation
Indices: 768518--768566 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
768508 TTTATGATTT
*
768518 TTTTTATAAATTTTAAG
1 TTTTTATAAATTTTAAA
* *
768535 TTTATATCAATTTTAATA
1 TTTTTATAAATTTTAA-A
768553 TTTTTATAAATTTT
1 TTTTTATAAATTTT
768567 TACAACTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTTATAAATTTTAAA
Found at i:768651 original size:17 final size:17
Alignment explanation
Indices: 768626--768681 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
768616 ACTATTTTAA
*
768626 ATAAGTTTATTAATTTT
1 ATAATTTTATTAATTTT
*
768643 ATAATTTTATAATATTTTT
1 ATAATTTTAT--TAATTTT
* *
768662 ATAATTTTAATAAGTTT
1 ATAATTTTATTAATTTT
768679 ATA
1 ATA
768682 TCGATTTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 17 0.53
19 15 0.47
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
ATAATTTTATTAATTTT
Found at i:768656 original size:28 final size:28
Alignment explanation
Indices: 768605--768681 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
768595 TAATGCATTT
768605 TTTA-AATTTTAACT-ATTTTA-AATAAG
1 TTTATAATTTTAA-TAATTTTATAATAAG
**
768631 TTTATTAATTTT-ATAATTTTATAATATT
1 TTTA-TAATTTTAATAATTTTATAATAAG
*
768659 TTTATAATTTTAATAAGTTTATA
1 TTTATAATTTTAATAATTTTATA
768682 TCGATTTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
26 5 0.12
27 14 0.33
28 24 0.56
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTATAATTTTAATAATTTTATAATAAG
Found at i:783505 original size:6 final size:6
Alignment explanation
Indices: 783494--783519 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
783484 TATATTATAA
783494 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
783520 TAAAANNNNN
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:785357 original size:167 final size:168
Alignment explanation
Indices: 785165--785499 Score: 663
Period size: 167 Copynumber: 2.0 Consensus size: 168
785155 AATTTGATTA
785165 ATTCAATTGATTTGTCGGTCTAATCGAATAAATTATTAAAAAATATATATTAAAAAAATAGTAAA
1 ATTCAATTGATTTGTCGGTCTAATCGAATAAATTATTAAAAAATATATATTAAAAAAATAGTAAA
785230 AAGAACTTGTTTAACCGATTTGCAACACCTTTTTCCGGATTAATACCCTAACCGATTCTTGGTCC
66 AAGAACTTGTTTAACCGATTTGCAACACCTTTTTCCGGATTAATACCCTAACCGATTCTTGGTCC
785295 AACTAGTACACCCACCCAACAATTATCATTAGAAAATT
131 AACTAGTACACCCACCCAACAATTATCATTAGAAAATT
785333 ATTCAATTGA-TTGTCGGTCTAATCGAATAAATTATTAAAAAATATATATTAAAAAAATAGTAAA
1 ATTCAATTGATTTGTCGGTCTAATCGAATAAATTATTAAAAAATATATATTAAAAAAATAGTAAA
785397 AAGAACTTGTTTAACCGATTTGCAACACCTTTTTCCGGATTAATACCCTAACCGATTCTTGGTCC
66 AAGAACTTGTTTAACCGATTTGCAACACCTTTTTCCGGATTAATACCCTAACCGATTCTTGGTCC
785462 AACTAGTACACCCACCCAACAATTATCATTAGAAAATT
131 AACTAGTACACCCACCCAACAATTATCATTAGAAAATT
785500 TAGATTTGAT
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
167 157 0.94
168 10 0.06
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (168 bp):
ATTCAATTGATTTGTCGGTCTAATCGAATAAATTATTAAAAAATATATATTAAAAAAATAGTAAA
AAGAACTTGTTTAACCGATTTGCAACACCTTTTTCCGGATTAATACCCTAACCGATTCTTGGTCC
AACTAGTACACCCACCCAACAATTATCATTAGAAAATT
Found at i:790397 original size:37 final size:37
Alignment explanation
Indices: 790356--790440 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
790346 TTTCATGTTT
*
790356 AATAAAATATATTTAGATATTCAAAATTTGATAA-AAA
1 AATAAAATATATTTA-ATATTCAAAATTTAATAATAAA
* *
790393 AATAAAAAATATTTTTAATATTCAAATTTTAATAATAAA
1 AAT--AAAATATATTTAATATTCAAAATTTAATAATAAA
*
790432 AACAAAATA
1 AATAAAATA
790441 GTATCTAACG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 9 0.22
38 16 0.39
39 16 0.39
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (37 bp):
AATAAAATATATTTAATATTCAAAATTTAATAATAAA
Found at i:797836 original size:106 final size:106
Alignment explanation
Indices: 797696--797897 Score: 305
Period size: 106 Copynumber: 1.9 Consensus size: 106
797686 GGGTTACAAA
* * * * *
797696 TTAAGAGGATATTTGGCTATTTGGTCGAATGAGAAATCGAGACCCAACACGTTAGGGCACGTTTT
1 TTAAGAGAATATTTGACTATTTGGTCGAACGAGAAATCGAAACCCAACACATTAGGGCACGTTTT
* * *
797761 ATCGAATTTCTAAACGCAAAATATTGCCTTACTTTGAAATT
66 ATCGAATTTCCAAACACAAAACATTGCCTTACTTTGAAATT
*
797802 TTAAGAGAATATTTGACTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTT
1 TTAAGAGAATATTTGACTATTTGGTCGAACGAGAAATCGAAACCCAACACATTAGGGCACGTTTT
* *
797867 CTCGAATTTCCAAACATAAAACATTGCCTTA
66 ATCGAATTTCCAAACACAAAACATTGCCTTA
797898 TTTTAAAACT
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 85 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (106 bp):
TTAAGAGAATATTTGACTATTTGGTCGAACGAGAAATCGAAACCCAACACATTAGGGCACGTTTT
ATCGAATTTCCAAACACAAAACATTGCCTTACTTTGAAATT
Found at i:813124 original size:70 final size:71
Alignment explanation
Indices: 813002--813133 Score: 223
Period size: 70 Copynumber: 1.9 Consensus size: 71
812992 CATTCACCCA
* *
813002 CCTAAACTTTATTTTTAATTGAATTTGAGAATTCATGTGCCAAATTGTGTTTTTTTTTTTTTTAC
1 CCTAAACTTTATTTTTAATTGAATCTGAGAATTCATGTGCCAAATTGAGTTTTTTTTTTTTTTAC
813067 TTTAAG
66 TTTAAG
813073 CCTAAA-TTTATTTTTAATTGAAGTCT-AGAATTCATGTGCCAAATTGAGTTTTTTTTTTTTT
1 CCTAAACTTTATTTTTAATTGAA-TCTGAGAATTCATGTGCCAAATTGAGTTTTTTTTTTTTT
813134 AAACCTTTGA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
70 50 0.86
71 8 0.14
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (71 bp):
CCTAAACTTTATTTTTAATTGAATCTGAGAATTCATGTGCCAAATTGAGTTTTTTTTTTTTTTAC
TTTAAG
Found at i:813296 original size:99 final size:97
Alignment explanation
Indices: 813075--813314 Score: 295
Period size: 99 Copynumber: 2.5 Consensus size: 97
813065 ACTTTAAGCC
* ** * *
813075 TAAATTTATTTTTAATTGAAGTCTAGAATTCATGTGCCAAATTGAGTTTTTTTTTTTTTAAACCT
1 TAAATTTATTTTTAATTGAAGTCGAGAATTCATGTGCCAAATTGAAATTATGTTTTTTTAAACCT
* * *
813140 TTGAGTGTGAAATGGCCTCATTGACCCTTACT
66 TTAAGTGTGAAATGACCTCATTCACCCTTACT
** *
813172 TAAATTTAAATTTAATTGAAGTCGAGAATTCATGTGCCAAATTGCCAAATTATGTTTTTTTATAC
1 TAAATTTATTTTTAATTGAAGTCGAGAATTCATGTGCCAAATTG--AAATTATGTTTTTTTAAAC
*
813237 CTTTCAAGTGTGAAATGATCTCATTCACCCTTTAC-
64 CTTT-AAGTGTGAAATGACCTCATTCACCC-TTACT
* * *
813272 T-AATTTTTTTTTATTTGAAGTCGAGAATTCACGTGCCAAATTG
1 TAAATTTATTTTTAATTGAAGTCGAGAATTCATGTGCCAAATTG
813315 TGTTTTTTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
97 41 0.34
99 55 0.45
100 22 0.18
101 4 0.03
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (97 bp):
TAAATTTATTTTTAATTGAAGTCGAGAATTCATGTGCCAAATTGAAATTATGTTTTTTTAAACCT
TTAAGTGTGAAATGACCTCATTCACCCTTACT
Found at i:819882 original size:3 final size:3
Alignment explanation
Indices: 819874--819967 Score: 93
Period size: 3 Copynumber: 31.3 Consensus size: 3
819864 ATCATTTTCT
*
819874 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * *
819922 TTA CTA TTG TTA TTA GTA -TA TTTA TTA ATA TTA TTT TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
819967 T
1 T
819968 GTTTGTATTT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 3 0.04
3 69 0.93
4 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:821158 original size:15 final size:14
Alignment explanation
Indices: 821127--821176 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
821117 GAAATAAAAA
821127 TATTAGATATT-TAT
1 TATTA-ATATTATAT
821141 TATTAATATTAATAT
1 TATTAATATT-ATAT
*
821156 TATTTGATATTATAT
1 TA-TTAATATTATAT
821171 TATTAA
1 TATTAA
821177 ATAAGTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 8 0.26
15 11 0.35
16 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (14 bp):
TATTAATATTATAT
Found at i:821408 original size:6 final size:6
Alignment explanation
Indices: 821399--821425 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
821389 GAGAAAAGGG
821399 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
821426 AAAGGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:822174 original size:27 final size:27
Alignment explanation
Indices: 822088--822168 Score: 135
Period size: 27 Copynumber: 3.0 Consensus size: 27
822078 AATTGAGTTG
822088 AATGATAATTATGTATTGGTATTGAAT
1 AATGATAATTATGTATTGGTATTGAAT
* *
822115 AATGATAATTATATATAGGTATTGAAT
1 AATGATAATTATGTATTGGTATTGAAT
*
822142 AATGATAATTATGTATTGGCATTGAAT
1 AATGATAATTATGTATTGGTATTGAAT
822169 TGTGATTGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.42
Consensus pattern (27 bp):
AATGATAATTATGTATTGGTATTGAAT
Found at i:822232 original size:18 final size:17
Alignment explanation
Indices: 822180--822228 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
822170 GTGATTGAAT
822180 AATTAAATTGAAAATGA
1 AATTAAATTGAAAATGA
** *
822197 GTTTGGAATTGAAAATGA
1 AATT-AAATTGAAAATGA
822215 AATTAAATTGAAAA
1 AATTAAATTGAAAA
822229 ATGATTTGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (17 bp):
AATTAAATTGAAAATGA
Found at i:822347 original size:21 final size:21
Alignment explanation
Indices: 822323--822389 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 21
822313 GGCTTTGTCG
822323 ATTAGGCACTATATGTGTTGT
1 ATTAGGCACTATATGTGTTGT
822344 ATTA-G-A-TATCATGTG-TGT
1 ATTAGGCACTAT-ATGTGTTGT
*
822362 CATATCAGGCACTTTATGTGTTGT
1 -AT-T-AGGCACTATATGTGTTGT
822386 ATTA
1 ATTA
822390 CTGCTTCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 16
0.69 0.02 0.30
Matches are distributed among these distances:
18 6 0.16
19 8 0.22
20 2 0.05
21 6 0.16
22 2 0.05
23 8 0.22
24 5 0.14
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.43
Consensus pattern (21 bp):
ATTAGGCACTATATGTGTTGT
Found at i:835856 original size:28 final size:28
Alignment explanation
Indices: 835824--835901 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
835814 GAAGTCTGCT
* **
835824 AAGGACTATCTTAAGTGGAATGAATTCC
1 AAGGACTATCTTAGGTGGAATGAACGCC
835852 AAGGACTATCTTAGGTGGAATGAACGCC
1 AAGGACTATCTTAGGTGGAATGAACGCC
*
835880 AATGACTATCTTAGGTGGAATG
1 AAGGACTATCTTAGGTGGAATG
835902 TCCACCAGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (28 bp):
AAGGACTATCTTAGGTGGAATGAACGCC
Found at i:838190 original size:26 final size:26
Alignment explanation
Indices: 838156--838205 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
838146 GGGGAAGTGT
*
838156 TGAAAAGATAATCATTAGTTAGTTGC
1 TGAAAAGATAATCATCAGTTAGTTGC
*
838182 TGAAGAGATAATCATCAGTTAGTT
1 TGAAAAGATAATCATCAGTTAGTT
838206 AGTTGGTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (26 bp):
TGAAAAGATAATCATCAGTTAGTTGC
Found at i:853967 original size:14 final size:14
Alignment explanation
Indices: 853948--853999 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
853938 GTTGTTAATA
853948 CTATTAAAATTCTT
1 CTATTAAAATTCTT
*
853962 CTATTAAACTT-TT
1 CTATTAAAATTCTT
*
853975 C-ACTGTAACATTCTT
1 CTA-T-TAAAATTCTT
853990 CTATTAAAAT
1 CTATTAAAAT
854000 ATAAAGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
12 1 0.03
13 4 0.13
14 20 0.67
15 4 0.13
16 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (14 bp):
CTATTAAAATTCTT
Found at i:856232 original size:16 final size:16
Alignment explanation
Indices: 856207--856241 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
856197 TTTTATTTAA
856207 TTTAATAAAAAATTGAT
1 TTTAATAAAAAA-TGAT
856224 TTTAA-AAAAAATGAT
1 TTTAATAAAAAATGAT
856239 TTT
1 TTT
856242 CAATTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 6 0.33
17 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (16 bp):
TTTAATAAAAAATGAT
Found at i:875645 original size:29 final size:29
Alignment explanation
Indices: 875605--875675 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
875595 TTTTAAATTT
* *
875605 AAATTCTT-ATTAAGCCCCTAATTTTTTTA
1 AAATT-TTAATTAAACCCCTAAATTTTTTA
*
875634 AAATTTTAATTAAACCCCTAAATTTTTTG
1 AAATTTTAATTAAACCCCTAAATTTTTTA
*
875663 AAATTTTACTTAA
1 AAATTTTAATTAA
875676 CTTGCCTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 2 0.05
29 35 0.95
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (29 bp):
AAATTTTAATTAAACCCCTAAATTTTTTA
Found at i:877282 original size:11 final size:11
Alignment explanation
Indices: 877268--877309 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 11
877258 TTTGGATTTA
877268 TTTAATTTTTT
1 TTTAATTTTTT
877279 TTTAATTGCTTTCT
1 TTTAATT--TTT-T
877293 TTTAATTTTTT
1 TTTAATTTTTT
877304 TTTAAT
1 TTTAAT
877310 CTAACTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 14 0.50
12 3 0.11
13 3 0.11
14 8 0.29
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTAATTTTTT
Found at i:899892 original size:42 final size:43
Alignment explanation
Indices: 899809--899893 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
899799 ACATAAAATA
* * *
899809 GTCGTTATGGATTTAATGCTTGAGTGACTAAAATGAAAGCATT
1 GTCGTTAAGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
899852 GTCGTTAAGGATTTAATACTTG-GTAACTAAAATGAAAGCATT
1 GTCGTTAAGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
899894 CTTTAACAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 19 0.49
43 20 0.51
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.34
Consensus pattern (43 bp):
GTCGTTAAGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
Found at i:905505 original size:18 final size:17
Alignment explanation
Indices: 905472--905510 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
905462 TTTTATAAAT
905472 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
905490 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
905507 TGTG
1 TGTG
905511 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:905763 original size:23 final size:23
Alignment explanation
Indices: 905736--905788 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
905726 AGTGTTATTG
905736 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
905759 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
905782 ATCAGTG
1 ATCAGTG
905789 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:910194 original size:27 final size:24
Alignment explanation
Indices: 910164--910215 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 24
910154 TTTATTTGCC
910164 TATTTATTATTTCTTTACTTTTTGTTA
1 TATTTA-TATTTCTTTA-TTTTT-TTA
*
910191 TATTTATATTTTTTTATTTTTTTA
1 TATTTATATTTCTTTATTTTTTTA
910215 T
1 T
910216 CGGGCATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 5 0.21
26 9 0.38
27 6 0.25
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (24 bp):
TATTTATATTTCTTTATTTTTTTA
Found at i:910255 original size:3 final size:3
Alignment explanation
Indices: 910231--910288 Score: 59
Period size: 3 Copynumber: 19.0 Consensus size: 3
910221 ATCTATTTAT
910231 TTA TT- TTA TT- TTA TTA TCTA TTA TTA TTA TTA TTA TTA TATA TTTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA -TTA
910277 TGTA TT- TTA TTA
1 T-TA TTA TTA TTA
910289 CAAATTGCAC
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
2 6 0.12
3 31 0.65
4 10 0.21
5 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:913677 original size:4 final size:4
Alignment explanation
Indices: 913668--913714 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
913658 ATCAATGAAC
* * *
913668 CATA CATA CATG CATA TATA CATA CATG CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
913715 CTCCATTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (4 bp):
CATA
Found at i:913690 original size:16 final size:16
Alignment explanation
Indices: 913668--913710 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
913658 ATCAATGAAC
913668 CATACATACATGCATA
1 CATACATACATGCATA
*
913684 TATACATACATGCATA
1 CATACATACATGCATA
913700 CATACATACAT
1 CATACATACAT
913711 ACATCTCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (16 bp):
CATACATACATGCATA
Done.