Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008639.1 Hibiscus syriacus cultivar Beakdansim tig00111614_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: 1076872
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:769155 original size:12 final size:12
Alignment explanation
Indices: 769121--769155 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
769111 TATCATGTTC
**
769121 TCATATCACAGG
1 TCATATCACATA
769133 TCATATCACATA
1 TCATATCACATA
769145 TCATATCACAT
1 TCATATCACAT
769156 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:769572 original size:64 final size:64
Alignment explanation
Indices: 769464--769640 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 64
769454 TAATGAAGGT
* * * ** ** * * **
769464 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATACATCGATGCACGAATTGCATTCGATGT-GTCACTATTAATGGG
* *
769528 ATGCATCGATGCACTCCTTATACATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATACATCGATGCA-CGAATTGCATTCGATGTGTCACTATTAATGGG
*
769592 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATACATCGATGCACGAATTGCATTCGATGT
769641 CTTTATTTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
63 3 0.03
64 92 0.97
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATACATCGATGCACGAATTGCATTCGATGTGTCACTATTAATGGG
Found at i:769661 original size:64 final size:63
Alignment explanation
Indices: 769527--769688 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 63
769517 TTATTGCTGG
* * * *
769527 GATGCATCGATGCACTCCTTATACATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTTTCACTATTAAAGA
* *
769591 GATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTCTTTA-TTTTAAA-A
1 GATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT-TTCACTATTAAAGA
** *
769654 GAGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 GA-TGCATCGATGCACTACTTATGCATCGATGCAC
769689 ATTCAAATAA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 4 0.05
64 79 0.92
65 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (63 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTTTCACTATTAAAGA
Found at i:773359 original size:30 final size:30
Alignment explanation
Indices: 773324--773418 Score: 129
Period size: 30 Copynumber: 3.2 Consensus size: 30
773314 TTTAAAAAAA
773324 ATATTTTATTTTTGTTTTAATTTATTAAAT
1 ATATTTTATTTTTGTTTTAATTTATTAAAT
* * *
773354 ATATTTTATCTTTGTTTTAACTTATTAAAA
1 ATATTTTATTTTTGTTTTAATTTATTAAAT
* * *
773384 ATATTTTATTTTTATTTTAATATATT-TAT
1 ATATTTTATTTTTGTTTTAATTTATTAAAT
773413 ATATTT
1 ATATTT
773419 CATAAATTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
29 7 0.12
30 49 0.88
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (30 bp):
ATATTTTATTTTTGTTTTAATTTATTAAAT
Found at i:773804 original size:122 final size:123
Alignment explanation
Indices: 773677--773908 Score: 362
Period size: 122 Copynumber: 1.9 Consensus size: 123
773667 GTTAGGATTA
* * *
773677 TCTAAATAATTTTAATA-TAATTTTATTTTTAATATAATTTATATATTATTA-TTTAAAAAATAA
1 TCTAAATAATTTTAATACCAA-ATTATTTTTAATAGAATTTATATATTATTACTTT-AAAAATAA
* *
773740 TTGTAAAAAATAATCTATATAAAAATATTAAACTCA-ATTTTATTTTGTGATTTGAATTC
64 TTATAAAAAATAATCTAAATAAAAATATTAAACTCATATTTTATTTTGTGATTTGAATTC
773799 TCTAAATAATTTTAATACCAAATTATTTTTAATAGAATTTATATATTATTACTTTAAAAATAATT
1 TCTAAATAATTTTAATACCAAATTATTTTTAATAGAATTTATATATTATTACTTTAAAAATAATT
* *
773864 ATAAAAAATAATTTAAATAAAAATATTAAACTCATTTTTTATTTT
66 ATAAAAAATAATCTAAATAAAAATATTAAACTCATATTTTATTTT
773909 TAAATCTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
122 86 0.86
123 14 0.14
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (123 bp):
TCTAAATAATTTTAATACCAAATTATTTTTAATAGAATTTATATATTATTACTTTAAAAATAATT
ATAAAAAATAATCTAAATAAAAATATTAAACTCATATTTTATTTTGTGATTTGAATTC
Found at i:778658 original size:23 final size:24
Alignment explanation
Indices: 778631--778689 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
778621 AAATACTTTA
*
778631 AATATTTATTTATTT-TTTAAAAT
1 AATATTAATTTATTTATTTAAAAT
* *
778654 CATA-TAATTTATTTATTTGAAAT
1 AATATTAATTTATTTATTTAAAAT
778677 AATATTAACTTTA
1 AATATTAA-TTTA
778690 AATTATCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 9 0.31
23 13 0.45
24 3 0.10
25 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (24 bp):
AATATTAATTTATTTATTTAAAAT
Found at i:781255 original size:10 final size:10
Alignment explanation
Indices: 781240--781269 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
781230 TTTTTCATTG
781240 AAAAGAAAAA
1 AAAAGAAAAA
781250 AAAAGAAAAA
1 AAAAGAAAAA
781260 AAAAGAAAAA
1 AAAAGAAAAA
781270 GGCAACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:782712 original size:16 final size:16
Alignment explanation
Indices: 782691--782721 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
782681 GACAAAGGAA
782691 CCTAAAACAATAAGAT
1 CCTAAAACAATAAGAT
*
782707 CCTAAAGCAATAAGA
1 CCTAAAACAATAAGA
782722 ATCAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.10, T:0.16
Consensus pattern (16 bp):
CCTAAAACAATAAGAT
Found at i:785387 original size:27 final size:28
Alignment explanation
Indices: 785343--785397 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
785333 ATTTTGATTT
*
785343 TTTTCGGTTATTGATTTT-TTGGATTGG
1 TTTTCGGTTATTGATTTTATCGGATTGG
**
785370 TTTTCGGTTATTTTTTTTATCGGATTGG
1 TTTTCGGTTATTGATTTTATCGGATTGG
785398 ATCTGAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.11, C:0.05, G:0.24, T:0.60
Consensus pattern (28 bp):
TTTTCGGTTATTGATTTTATCGGATTGG
Found at i:786920 original size:20 final size:20
Alignment explanation
Indices: 786897--786935 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
786887 CTCTATAGTG
*
786897 TATCGGTACATTTCTTAACA
1 TATCAGTACATTTCTTAACA
786917 TATCAGTACATTTCTTAAC
1 TATCAGTACATTTCTTAAC
786936 GTGCGTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (20 bp):
TATCAGTACATTTCTTAACA
Found at i:790437 original size:10 final size:10
Alignment explanation
Indices: 790407--790447 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
790397 CCCTTTCTTT
790407 AATATTAAAA
1 AATATTAAAA
*
790417 AATA--AATA
1 AATATTAAAA
790425 AATATTAAAA
1 AATATTAAAA
*
790435 AATATGAAAA
1 AATATTAAAA
790445 AAT
1 AAT
790448 TTTCTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
8 7 0.27
10 19 0.73
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
AATATTAAAA
Found at i:790600 original size:125 final size:124
Alignment explanation
Indices: 790457--790701 Score: 409
Period size: 125 Copynumber: 2.0 Consensus size: 124
790447 TTTTCTAAAA
* *
790457 AATAATTTAAATAAAACTAGATTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATGACA
1 AATAATTTAAATAAAACTAAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATGACA
** * *
790522 TCTAGTTATTTTAAGATATCCAATTTCTTTAATATTAAAAAATAAATAAATATTAATAAC
66 TCTAGTTACCTTAAGACAACCAATTTC-TTAATATTAAAAAATAAATAAATATTAATAAC
790582 AATAATTTAAATAAAACTAAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATGACA
1 AATAATTTAAATAAAACTAAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATGACA
* *
790647 TTTAGTTACCTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATTAA
66 TCTAGTTACCTTAAGACAACCAATTTCTTAATATTAAAAAATAAATAAATATTAA
790702 AATTTAATTA
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
124 28 0.25
125 84 0.75
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (124 bp):
AATAATTTAAATAAAACTAAAGTAAATATAATATTTTATTTATTTAAAAATATCAGAAAATGACA
TCTAGTTACCTTAAGACAACCAATTTCTTAATATTAAAAAATAAATAAATATTAATAAC
Found at i:794952 original size:10 final size:10
Alignment explanation
Indices: 794890--794952 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
794880 GTAGCCAATC
794890 ACCAAAAACA
1 ACCAAAAACA
* *
794900 ACCCAAAATA
1 ACCAAAAACA
794910 ATCCAAAAATCA
1 A-CCAAAAA-CA
* *
794922 ACCAAAATCC
1 ACCAAAAACA
*
794932 ACGACAAAACA
1 ACCA-AAAACA
794943 ACCAAAAACA
1 ACCAAAAACA
794953 TTTGAAATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
10 19 0.47
11 19 0.47
12 2 0.05
ACGTcount: A:0.62, C:0.30, G:0.02, T:0.06
Consensus pattern (10 bp):
ACCAAAAACA
Found at i:796230 original size:235 final size:232
Alignment explanation
Indices: 795819--796272 Score: 730
Period size: 235 Copynumber: 1.9 Consensus size: 232
795809 TCATCCTCCC
* * *
795819 TCTCTTCAAAAGGATTCGACCTCAAATCTAAAACATCAAAGGGAGAAGCGTTAGAACCTTTTAAT
1 TCTCTTCAAAAGGATTCGACATCAAATCTAAAACATCAAAGGGAGAAACATTAGAACCTTTTAAT
* * **
795884 GATTCACTCACATTATATCTACCGAATATATGTGATTTGAATCTTCGGGACTTTGTTCTTCTAAT
66 GATTCACTCACATTATATCTACCGAATATATATGATTTAAATCTTCAAGACTTTGTTCTTCTAAT
* *
795949 AGGTTTGAGTAGAAACATTAGTCCAAAGAAGCATGTATTTATGTACTCTGGTGCATGTATCACTT
131 AGGTTCGAATAGAAACATTAGTCCAAAGAAGCATGTATTTATGTACTCTGGTGCATGTATCAC-T
* *
796014 ATATAATCTTAAGTTCCTTATTTACTCGCATTATCCTCAT
195 -TATAATCTTAAATTCC-TATTCACTCGCATTATCCTCAT
* *
796054 TCTCTTCAAAAGGATTCGACATCGAATCTAAAACATCAAAGGGAGAAACATTATAACCTTTTAAT
1 TCTCTTCAAAAGGATTCGACATCAAATCTAAAACATCAAAGGGAGAAACATTAGAACCTTTTAAT
*
796119 GATTCACTCACATTATA-CTTATCGAATATATATGATTTAAATCTTCAAGACTTTGTTCTTCTAA
66 GATTCACTCACATTATATC-TACCGAATATATATGATTTAAATCTTCAAGACTTTGTTCTTCTAA
*
796183 TAGGTTCGAATAGAAACATTAGTCCAAAGATGCATGTATTTATGTACTCTGGTGCATGTATCACT
130 TAGGTTCGAATAGAAACATTAGTCCAAAGAAGCATGTATTTATGTACTCTGGTGCATGTATCACT
796248 TATAATCTTAAATTCCTATTCACTC
195 TATAATCTTAAATTCCTATTCACTC
796273 ACTTTTAAGT
Statistics
Matches: 203, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
232 8 0.04
233 15 0.07
234 2 0.01
235 178 0.88
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (232 bp):
TCTCTTCAAAAGGATTCGACATCAAATCTAAAACATCAAAGGGAGAAACATTAGAACCTTTTAAT
GATTCACTCACATTATATCTACCGAATATATATGATTTAAATCTTCAAGACTTTGTTCTTCTAAT
AGGTTCGAATAGAAACATTAGTCCAAAGAAGCATGTATTTATGTACTCTGGTGCATGTATCACTT
ATAATCTTAAATTCCTATTCACTCGCATTATCCTCAT
Found at i:796841 original size:114 final size:119
Alignment explanation
Indices: 796632--796858 Score: 356
Period size: 114 Copynumber: 1.9 Consensus size: 119
796622 GCGACCGCGC
** *
796632 AGGGCCCCCAAAAATAGGGCCCCAAAAAAGTATATATATATAGTGGTGTTTTTCCAATAAACGCC
1 AGGGCCCCCAAAAATAGGGCCCCAAAAAAG-ATATATATATAGTGACGTTTTTCCAATAAACACC
*
796697 ACTATAGATGGACCTATTGCGACGTTTTTTCTAAA-AACGCCACTATTATTGTGT
65 ACTATAGATGGACCTATTGCGACGTTTTTTCAAAACAACGCCACTATTATTGTGT
* *
796751 AGGG-CCCCAAAAA-A-TGCCCTAAAAAAG-TATATATATAGTGACGTTTTTCCAATAAACACCA
1 AGGGCCCCCAAAAATAGGGCCCCAAAAAAGATATATATATAGTGACGTTTTTCCAATAAACACCA
796812 CTATAGATGGACCTATTGCGACGTTTTTTCAAAACAACGCCACTATT
66 CTATAGATGGACCTATTGCGACGTTTTTTCAAAACAACGCCACTATT
796859 GTTTCCCTGA
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
114 64 0.63
115 12 0.12
116 11 0.11
117 1 0.01
118 9 0.09
119 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (119 bp):
AGGGCCCCCAAAAATAGGGCCCCAAAAAAGATATATATATAGTGACGTTTTTCCAATAAACACCA
CTATAGATGGACCTATTGCGACGTTTTTTCAAAACAACGCCACTATTATTGTGT
Found at i:797466 original size:18 final size:18
Alignment explanation
Indices: 797430--797489 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
797420 TAACTGAGAT
*
797430 AAGGAAAGAGAAAAAAAA
1 AAGGAAAAAGAAAAAAAA
797448 AAGGAAAAAGAAGAGAAAAGA
1 AAGGAAAAAGAA-A-AAAA-A
*
797469 AA-AAAAAATGAAAAAAAA
1 AAGGAAAAA-GAAAAAAAA
797487 AAG
1 AAG
797490 TCAAGGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
20 10 0.29
21 6 0.17
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (18 bp):
AAGGAAAAAGAAAAAAAA
Found at i:801087 original size:21 final size:21
Alignment explanation
Indices: 801060--801115 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 21
801050 AAAATAATAT
801060 TATTTAAAAATATTAAATTAAA
1 TATTTAAAAATATT-AATTAAA
801082 TA-TTAATTAAA-ATTAATTAAA
1 TATTTAA--AAATATTAATTAAA
801103 TATTTAAAAATAT
1 TATTTAAAAATAT
801116 AAAAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 9 0.30
23 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTTAAAAATATTAATTAAA
Found at i:801091 original size:25 final size:25
Alignment explanation
Indices: 801046--801103 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
801036 ATATTTGGAA
* *
801046 AATTAAAATAATATTATTTAAAAAT
1 AATTAAATTAATATTAATTAAAAAT
*
801071 -ATTAAATTAAATATTAATTAAAATT
1 AATTAAATT-AATATTAATTAAAAAT
801096 AATTAAAT
1 AATTAAAT
801104 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.25
25 14 0.50
26 7 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTAAATTAATATTAATTAAAAAT
Found at i:801109 original size:12 final size:11
Alignment explanation
Indices: 801067--801106 Score: 64
Period size: 10 Copynumber: 3.6 Consensus size: 11
801057 TATTATTTAA
801067 AAATATTAAATT
1 AAATATT-AATT
801079 AAATATTAATT
1 AAATATTAATT
801090 AAA-ATTAATT
1 AAATATTAATT
801100 AAATATT
1 AAATATT
801107 TAAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.37
11 10 0.37
12 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATATTAATT
Found at i:801152 original size:43 final size:44
Alignment explanation
Indices: 801044--801168 Score: 107
Period size: 43 Copynumber: 2.8 Consensus size: 44
801034 AGATATTTGG
** * *
801044 AAAATTAAAATAATATTATTTAAAAATATTAAATTAAATATTAATT
1 AAAATTATTATAAT-TT-TTTAAAAATATAAAAATAAATATTAATT
* *
801090 AAAATTAATTA-AA-TATTTAAAAATATAAAAAT-ATTATTAATT
1 AAAATT-ATTATAATTTTTTAAAAATATAAAAATAAATATTAATT
801132 AAATATT-TTATAATTTTTTAAAGAAT-TAAAATATAAA
1 AAA-ATTATTATAATTTTTTAAA-AATATAAAA-ATAAA
801169 AAAAATATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
41 3 0.05
42 14 0.22
43 30 0.47
44 6 0.09
45 1 0.02
46 8 0.12
47 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.42
Consensus pattern (44 bp):
AAAATTATTATAATTTTTTAAAAATATAAAAATAAATATTAATT
Found at i:801171 original size:51 final size:50
Alignment explanation
Indices: 801064--801170 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 50
801054 TAATATTATT
* *
801064 TAAAAATATTAAATTAAATATTAATTAAAATTAATTAAATATTTAAAAATA
1 TAAAAATATTAAATTAAATATT-ATTAAAATTAATTAAAGAATTAAAAATA
* **
801115 TAAAAATATTATTAATTAAATATT-TTATAATTTTTTAAAGAATT-AAAATA
1 TAAAAATATTA--AATTAAATATTATTAAAATTAATTAAAGAATTAAAAATA
801165 TAAAAA
1 TAAAAA
801171 AAATATTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
50 12 0.24
51 26 0.53
53 11 0.22
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (50 bp):
TAAAAATATTAAATTAAATATTATTAAAATTAATTAAAGAATTAAAAATA
Found at i:801173 original size:53 final size:52
Alignment explanation
Indices: 801065--801183 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 52
801055 AATATTATTT
* * *
801065 AAAAATATTA--AATTAAATATTAATTAAAATTAATTAAATATTTAAAAATAT
1 AAAAATATTATTAATTAAATATT-ATTAAAATTAATTAAAGAATTAAAAATAA
* **
801116 AAAAATATTATTAATTAAATATT-TTATAATTTTTTAAAGAATTAAAATATAAA
1 AAAAATATTATTAATTAAATATTATTAAAATTAATTAAAGAATTAAAA-AT-AA
*
801169 AAAAATATTTTTAAT
1 AAAAATATTATTAAT
801184 AAACTAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
51 29 0.51
52 2 0.04
53 26 0.46
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (52 bp):
AAAAATATTATTAATTAAATATTATTAAAATTAATTAAAGAATTAAAAATAA
Found at i:806498 original size:7 final size:7
Alignment explanation
Indices: 806473--806639 Score: 100
Period size: 7 Copynumber: 23.9 Consensus size: 7
806463 ACATAACTGA
806473 GTTTAGG
1 GTTTAGG
*
806480 GTTTATG
1 GTTTAGG
*
806487 TTTTAGG
1 GTTTAGG
*
806494 GTTTAGT
1 GTTTAGG
** *
806501 ACTTATG
1 GTTTAGG
*
806508 GTTTAAG
1 GTTTAGG
**
806515 GTTTAAA
1 GTTTAGG
* *
806522 GATTAAG
1 GTTTAGG
806529 GTTTAGG
1 GTTTAGG
*
806536 GCTTAGG
1 GTTTAGG
*
806543 GTTTAGT
1 GTTTAGG
**
806550 GTTTATA
1 GTTTAGG
* *
806557 GCTTAAG
1 GTTTAGG
*
806564 GTTTAAG
1 GTTTAGG
*
806571 GTTTAGT
1 GTTTAGG
*
806578 GTTTATG
1 GTTTAGG
* *
806585 GCTTATG
1 GTTTAGG
*
806592 GCTTAGG
1 GTTTAGG
806599 GTTTAGG
1 GTTTAGG
806606 GTTTAGG
1 GTTTAGG
806613 GTTTAGG
1 GTTTAGG
**
806620 GTTTATA
1 GTTTAGG
*
806627 GCTTAGG
1 GTTTAGG
806634 GTTTAG
1 GTTTAG
806640 AAATTAGGGT
Statistics
Matches: 121, Mismatches: 39, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 121 1.00
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:806646 original size:14 final size:14
Alignment explanation
Indices: 806601--806652 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
806591 GGCTTAGGGT
* *
806601 TTAGGGTTTAGGGT
1 TTAGGGTTTAGAGA
* *
806615 TTAGGGTTTATAGC
1 TTAGGGTTTAGAGA
*
806629 TTAGGGTTTAGAAA
1 TTAGGGTTTAGAGA
806643 TTAGGGTTTA
1 TTAGGGTTTA
806653 AGGTTCATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (14 bp):
TTAGGGTTTAGAGA
Found at i:806647 original size:35 final size:35
Alignment explanation
Indices: 806473--806657 Score: 151
Period size: 35 Copynumber: 5.3 Consensus size: 35
806463 ACATAACTGA
* *
806473 GTTTAGGGTTTAT-GTTTTAGGGTTTAGTA-CTTATG
1 GTTTAGGGTTTATAG-CTTAGGGTTTAG-AGCTTAGG
* * * * *
806508 GTTTAAGGTTTAAAGATTAAGGTTTAGGGCTTAGG
1 GTTTAGGGTTTATAGCTTAGGGTTTAGAGCTTAGG
* * * *
806543 GTTTAGTGTTTATAGCTTAAGGTTTA-AGGTTTAGT
1 GTTTAGGGTTTATAGCTTAGGGTTTAGA-GCTTAGG
* * * * *
806578 GTTTATGGCTTATGGCTTAGGGTTTAGGGTTTAGG
1 GTTTAGGGTTTATAGCTTAGGGTTTAGAGCTTAGG
**
806613 GTTTAGGGTTTATAGCTTAGGGTTTAGAAATTAGG
1 GTTTAGGGTTTATAGCTTAGGGTTTAGAGCTTAGG
*
806648 GTTTAAGGTT
1 GTTTAGGGTT
806658 CATTACCAAT
Statistics
Matches: 119, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
35 118 0.99
36 1 0.01
ACGTcount: A:0.22, C:0.03, G:0.31, T:0.44
Consensus pattern (35 bp):
GTTTAGGGTTTATAGCTTAGGGTTTAGAGCTTAGG
Found at i:812343 original size:18 final size:19
Alignment explanation
Indices: 812293--812350 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
812283 CGCATCTTAT
*
812293 TAATTATTA-TTATTATGA
1 TAATTGTTATTTATTATGA
*
812311 TAATTGTTTTTTATTAT-A
1 TAATTGTTATTTATTATGA
*
812329 TATATT-TTATTTATTAGGA
1 TA-ATTGTTATTTATTATGA
812348 TAA
1 TAA
812351 ACTACACTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 20 0.61
19 13 0.39
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TAATTGTTATTTATTATGA
Found at i:818102 original size:20 final size:21
Alignment explanation
Indices: 818079--818117 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
818069 AACTTATATC
818079 ATATATATACT-ATTTATTTT
1 ATATATATACTCATTTATTTT
* *
818099 ATATCTATTCTCATTTATT
1 ATATATATACTCATTTATT
818118 AATATAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATATATACTCATTTATTTT
Found at i:820399 original size:22 final size:21
Alignment explanation
Indices: 820367--820420 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
820357 TACTCGGGGT
*
820367 AGTATCAATACCCTAG-TATGAG
1 AGTATCGATACCCTAGTTA-G-G
*
820389 AGTATCGATACTCTAGTTAGG
1 AGTATCGATACCCTAGTTAGG
820410 AGTATCGATAC
1 AGTATCGATAC
820421 TACCTAGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.41
22 15 0.52
23 2 0.07
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
AGTATCGATACCCTAGTTAGG
Found at i:821105 original size:21 final size:21
Alignment explanation
Indices: 821079--821120 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
821069 TTTGTGTGGC
821079 ACTGAGCTTGTGAGCTCGAGT
1 ACTGAGCTTGTGAGCTCGAGT
821100 ACTGAGCTTGTGAGCTCGAGT
1 ACTGAGCTTGTGAGCTCGAGT
821121 TTGGAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (21 bp):
ACTGAGCTTGTGAGCTCGAGT
Found at i:825477 original size:2 final size:2
Alignment explanation
Indices: 825470--825497 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
825460 ACTTTAAAAA
825470 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
825498 ATTTGATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:830907 original size:19 final size:18
Alignment explanation
Indices: 830861--830907 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
830851 ATATTAATTA
830861 AATATTTAAAAATTTTAT
1 AATATTTAAAAATTTTAT
*
830879 AGATAGTTAAATAATGTTT-T
1 A-ATATTTAAA-AAT-TTTAT
830899 AATATTTAA
1 AATATTTAA
830908 TGTCTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 15 0.62
20 5 0.21
21 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
AATATTTAAAAATTTTAT
Found at i:832642 original size:2 final size:2
Alignment explanation
Indices: 832635--832707 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
832625 TGTTAAAAGT
832635 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
832677 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
832708 TTGAAATTAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:842430 original size:2 final size:2
Alignment explanation
Indices: 842425--842454 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
842415 ATACGGCTAA
842425 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
842455 CGTGTATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:850416 original size:17 final size:17
Alignment explanation
Indices: 850391--850429 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
850381 TTATCCAAGA
*
850391 ACACTGAAGGCCCTAGC
1 ACACCGAAGGCCCTAGC
*
850408 ACACCGAAGGCCCTATC
1 ACACCGAAGGCCCTAGC
850425 ACACC
1 ACACC
850430 ACCTGCTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.41, G:0.18, T:0.10
Consensus pattern (17 bp):
ACACCGAAGGCCCTAGC
Found at i:854715 original size:34 final size:34
Alignment explanation
Indices: 854677--854743 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
854667 TTTGATACGC
*
854677 GAAAACTTTAGGCGTTTCTCTGTTTTACATAAGA
1 GAAAACTTTAGGCATTTCTCTGTTTTACATAAGA
* * *
854711 GAAAATTTTGGGCATTTCTCTGTTTTTCATAAG
1 GAAAACTTTAGGCATTTCTCTGTTTTACATAAG
854744 CAACCACCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (34 bp):
GAAAACTTTAGGCATTTCTCTGTTTTACATAAGA
Found at i:855674 original size:13 final size:14
Alignment explanation
Indices: 855656--855688 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
855646 CTGTTCTTCT
855656 CCACCAACGC-CAA
1 CCACCAACGCGCAA
*
855669 CCACCATCGCGCAA
1 CCACCAACGCGCAA
855683 CCACCA
1 CCACCA
855689 CCACCAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.33, C:0.55, G:0.09, T:0.03
Consensus pattern (14 bp):
CCACCAACGCGCAA
Found at i:856065 original size:14 final size:14
Alignment explanation
Indices: 856046--856074 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
856036 GTTGAATCAA
856046 CATAAGTAATAACC
1 CATAAGTAATAACC
856060 CATAAGTAATAACC
1 CATAAGTAATAACC
856074 C
1 C
856075 TCTTTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (14 bp):
CATAAGTAATAACC
Found at i:856881 original size:16 final size:16
Alignment explanation
Indices: 856860--856890 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
856850 TTATAAATAA
856860 AAATAAACATTTATAT
1 AAATAAACATTTATAT
*
856876 AAATAAATATTTATA
1 AAATAAACATTTATA
856891 ACACTTCCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATAAACATTTATAT
Found at i:860890 original size:21 final size:21
Alignment explanation
Indices: 860866--860915 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
860856 TTAATTACAT
860866 ATAATTTTAATAATTATTAAA
1 ATAATTTTAATAATTATTAAA
* * * *
860887 ATAAATTTCATATTTTTTAAA
1 ATAATTTTAATAATTATTAAA
860908 ATATATTT
1 ATA-ATTT
860916 CGAGTTATCC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAATTTTAATAATTATTAAA
Found at i:861302 original size:20 final size:20
Alignment explanation
Indices: 861277--861319 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
861267 CAATGGTTTC
*
861277 TATCTCATTAGATTTAATAT
1 TATCTCATTAAATTTAATAT
*
861297 TATCTCCTTAAATTTAATAT
1 TATCTCATTAAATTTAATAT
861317 TAT
1 TAT
861320 AAGTTGAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (20 bp):
TATCTCATTAAATTTAATAT
Found at i:864273 original size:29 final size:29
Alignment explanation
Indices: 864231--864324 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
864221 GAATTCTACA
864231 GCGACCTTGGAGGTCGCCATGGCATCCGG
1 GCGACCTTGGAGGTCGCCATGGCATCCGG
*
864260 GCGACCTTGGAGGTCGTCATGGCATCCGG
1 GCGACCTTGGAGGTCGCCATGGCATCCGG
*
864289 GCGACCTTGGAGGTCGCCATGGCATCCGA
1 GCGACCTTGGAGGTCGCCATGGCATCCGG
864318 GCGACCT
1 GCGACCT
864325 GTGTGGTGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (29 bp):
GCGACCTTGGAGGTCGCCATGGCATCCGG
Found at i:864409 original size:20 final size:20
Alignment explanation
Indices: 864384--864456 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
864374 GTATTGGAGC
864384 ATGCATGGGGGAGTTGTGGG
1 ATGCATGGGGGAGTTGTGGG
**
864404 ATGCATGCTGTGCATGG-GACGTGGG
1 ATGCATG--G-G---GGAGTTGTGGG
864429 AATGCATGGGGGAGTTGTGGG
1 -ATGCATGGGGGAGTTGTGGG
864450 ATGCATG
1 ATGCATG
864457 CTGTGCATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
20 16 0.39
21 6 0.15
22 1 0.02
23 2 0.05
24 1 0.02
25 6 0.15
26 9 0.22
ACGTcount: A:0.18, C:0.10, G:0.48, T:0.25
Consensus pattern (20 bp):
ATGCATGGGGGAGTTGTGGG
Found at i:864434 original size:46 final size:46
Alignment explanation
Indices: 864384--864476 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
864374 GTATTGGAGC
864384 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
1 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
*
864430 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTTGGA
1 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
864476 A
1 A
864477 CTGTGCATGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.18, C:0.11, G:0.46, T:0.25
Consensus pattern (46 bp):
ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
Found at i:865047 original size:21 final size:21
Alignment explanation
Indices: 865022--865065 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
865012 AATCTAGTTA
865022 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
865043 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
865064 AT
1 AT
865066 ATTATATTAG
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:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:865075 original size:28 final size:30
Alignment explanation
Indices: 865042--865104 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
865032 TAGTATAAAT
*
865042 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
865070 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
865100 TATTA
1 TATTA
865105 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:865165 original size:43 final size:48
Alignment explanation
Indices: 865064--865177 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 48
865054 AGTTTAAGTT
865064 ATATTATATTAGTTTATTAGTTTAAGTTATATATTATATTATATAAAAAA
1 ATATTA-ATTAGTTTATTAGTTTAAGTTATATA-TATATTATATAAAAAA
* *
865114 TTAGTTAATTAGTTTCTTAGTTTAAGTTAT-TA-A-A-TATA-AAAAAA
1 ATA-TTAATTAGTTTATTAGTTTAAGTTATATATATATTATATAAAAAA
* *
865158 ATATTAATTAATTTGTTAGT
1 ATATTAATTAGTTTATTAGT
865178 GTCTTTAAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
43 15 0.26
44 8 0.14
45 4 0.07
46 1 0.02
47 1 0.02
49 2 0.03
50 24 0.41
51 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (48 bp):
ATATTAATTAGTTTATTAGTTTAAGTTATATATATATTATATAAAAAA
Found at i:865944 original size:26 final size:25
Alignment explanation
Indices: 865915--865973 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
865905 AAATCATATT
*
865915 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
865941 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
865967 ATTATTA
1 ATTATTA
865974 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:868879 original size:26 final size:26
Alignment explanation
Indices: 868850--869152 Score: 239
Period size: 26 Copynumber: 12.2 Consensus size: 26
868840 TTTGATGATT
868850 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
868876 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
868902 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
868928 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
868950 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
868974 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
869000 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
869026 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** * *
869052 TAAAAATGA-TT--TAATAAT-GTTT
1 TAGTAATGATTTGATAATAATCATTA
* * * *
869074 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
869098 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
869124 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
869149 TAGT
1 TAGT
869153 TATTATTTAG
Statistics
Matches: 232, Mismatches: 24, Indels: 43
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.01
20 10 0.04
22 8 0.03
23 19 0.08
24 14 0.06
25 23 0.10
26 144 0.62
27 12 0.05
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:869015 original size:124 final size:124
Alignment explanation
Indices: 868795--869188 Score: 686
Period size: 124 Copynumber: 3.2 Consensus size: 124
868785 ATGTATTTAT
868795 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
868860 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
868919 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
868984 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
*
869043 TAATCATTATAAAAATGATTTAATAATGTTTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * * *
869108 TTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
869166 TTAT--TTATAATAATGATTTAATA
1 TAATCATTATAAAAATGATTTAATA
869189 CTAATGATTT
Statistics
Matches: 261, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
121 18 0.07
123 17 0.07
124 226 0.87
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:869195 original size:14 final size:14
Alignment explanation
Indices: 868853--869204 Score: 128
Period size: 14 Copynumber: 26.1 Consensus size: 14
868843 GATGATTTAG
*
868853 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
868867 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
868879 TAATGATTTGATAA
1 TAATGATTTAATAA
*
868893 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
868905 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
868919 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
868931 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
868942 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
868958 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
868977 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
868991 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
869003 TAATGATTTGATAA
1 TAATGATTTAATAA
*
869017 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
869029 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
869043 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
869055 AAATGA-TT--TAA
1 TAATGATTTAATAA
* *
869066 TAATGTTTTAAATATT
1 TAATGATTT-AATA-A
*
869082 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
869101 TAATGATTTGATAA
1 TAATGATTTAATAA
*
869115 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
869127 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
869141 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
869153 T-ATTATTTAGTAA
1 TAATGATTTAATAA
869166 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
869176 TAATGATTTAATAC
1 TAATGATTTAATAA
869190 TAATGATTTAATAA
1 TAATGATTTAATAA
869204 T
1 T
869205 TATTACTAAT
Statistics
Matches: 260, Mismatches: 44, Indels: 68
0.70 0.12 0.18
Matches are distributed among these distances:
10 4 0.02
11 29 0.11
12 68 0.26
13 29 0.11
14 81 0.31
15 4 0.02
16 21 0.08
18 2 0.01
19 18 0.07
20 4 0.02
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:869227 original size:38 final size:38
Alignment explanation
Indices: 869157--869230 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
869147 TTTAGTTATT
* **
869157 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAAAATACTAATG
*
869195 ATTTAATAATTA-TTACTAATAATTATAAAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAAAATACTAA
869231 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAAAATACTAATG
Found at i:869437 original size:17 final size:17
Alignment explanation
Indices: 869412--869444 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
869402 ACTAAATATT
*
869412 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
869429 TAATGATTTGATACTA
1 TAATGATTTGATACTA
869445 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:869437 original size:25 final size:23
Alignment explanation
Indices: 869358--869437 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
869348 GATTTATTGT
869358 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
869379 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
869406 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
869428 GTAATGATTT
1 -TAAT-ATTT
869438 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:871621 original size:15 final size:14
Alignment explanation
Indices: 871598--871628 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
871588 TACAACACTA
871598 AACTTTAATATAAT
1 AACTTTAATATAAT
871612 AACTTATAATATAAT
1 AACTT-TAATATAAT
871627 AA
1 AA
871629 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:871636 original size:16 final size:16
Alignment explanation
Indices: 871603--871649 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
871593 CACTAAACTT
*
871603 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
871618 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
871634 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
871650 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:871770 original size:32 final size:34
Alignment explanation
Indices: 871690--871771 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
871680 CTAAACCCTT
*
871690 AAAC-AACTAATAAAATATTCTTTTATATAACTA
1 AAACTAACTAATAAACTATTCTTTTATATAACTA
871723 AAACTAACTAATAAACTATT-TTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTCTTTT-A-TATAACTA
*
871756 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
871772 TACTAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 11 0.25
33 12 0.27
34 16 0.36
35 5 0.11
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTCTTTTATATAACTA
Found at i:871889 original size:46 final size:48
Alignment explanation
Indices: 871812--871903 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 48
871802 CAACAAACAA
*
871812 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATT-AATAATTTTTTTT
*
871861 ATATAAC-TAACTA-TTAAC-AAAACAAACTAATTAATTATTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTT
871904 AACTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 10 0.24
46 13 0.32
47 5 0.12
48 6 0.15
49 7 0.17
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTTTT
Found at i:871914 original size:47 final size:48
Alignment explanation
Indices: 871812--871916 Score: 135
Period size: 47 Copynumber: 2.2 Consensus size: 48
871802 CAACAAACAA
* *
871812 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
*
871861 ATATAACTAACTA-TTAAC-AAAACAAACTAATT-AATTATTTTTTAACT
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT--CT
871908 ATATAACTA
1 ATATAACTA
871917 TCAAACATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
45 10 0.20
46 13 0.25
47 15 0.29
48 6 0.12
49 7 0.14
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
Found at i:871972 original size:41 final size:40
Alignment explanation
Indices: 871884--871972 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
871874 TTAACAAAAC
* *
871884 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
871925 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
871966 AAACTAA
1 AAACTAA
871973 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:872531 original size:29 final size:30
Alignment explanation
Indices: 872489--872564 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
872479 AGGACTACAT
**
872489 GGGACTACATGGCGACCTACTTGGTCG-CC
1 GGGACTACATGGCGACCTACAAGGTCGCCC
872518 GGGACTACATGGCGACCTACAAGGTCGCCC
1 GGGACTACATGGCGACCTACAAGGTCGCCC
* *
872548 AGG-CTGCATGGCGACCT
1 GGGACTACATGGCGACCT
872565 CTCCATTGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 38 0.90
30 4 0.10
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.17
Consensus pattern (30 bp):
GGGACTACATGGCGACCTACAAGGTCGCCC
Found at i:872615 original size:28 final size:28
Alignment explanation
Indices: 872583--872639 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
872573 GCTCGTATGA
*
872583 CTCGTCTAAGACTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
872611 CTCGTATAAGACTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
872639 C
1 C
872640 ATTGGCTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (28 bp):
CTCGTATAAGACTGCATGGCGACCTCTC
Found at i:872694 original size:21 final size:21
Alignment explanation
Indices: 872668--872714 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
872658 TATATGGCTT
872668 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
872689 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
872710 GTATG
1 GTATG
872715 TCGCCTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATGGCTCGTATGTCACCCC
Found at i:873925 original size:30 final size:31
Alignment explanation
Indices: 873876--873953 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 31
873866 AAACATGAAC
* *
873876 AATTCAAAAATTCATTGAGTAAAGT-GAAAAA
1 AATT-AAAAATTCAGTGAGTAAAATAGAAAAA
* *
873907 AATTAAAAATACAGTGAGTAAAATAGAAAAG
1 AATTAAAAATTCAGTGAGTAAAATAGAAAAA
873938 AA-T-AAAATTCAGTGAG
1 AATTAAAAATTCAGTGAG
873954 AAATGATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 12 0.29
30 18 0.44
31 11 0.27
ACGTcount: A:0.56, C:0.05, G:0.15, T:0.23
Consensus pattern (31 bp):
AATTAAAAATTCAGTGAGTAAAATAGAAAAA
Found at i:874031 original size:32 final size:32
Alignment explanation
Indices: 873990--874054 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
873980 ATTACTTGTC
873990 TTCTTTATTCAATATTGGCAATGGAAATAAAA
1 TTCTTTATTCAATATTGGCAATGGAAATAAAA
*
874022 TTCTTTATTCAATATTGTCAATGGAAATAAAA
1 TTCTTTATTCAATATTGGCAATGGAAATAAAA
874054 T
1 T
874055 AGAGATCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (32 bp):
TTCTTTATTCAATATTGGCAATGGAAATAAAA
Found at i:875826 original size:2 final size:2
Alignment explanation
Indices: 875819--875851 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
875809 TTTAATATGT
875819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
875852 GACACCAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:876568 original size:69 final size:66
Alignment explanation
Indices: 876481--876640 Score: 178
Period size: 66 Copynumber: 2.4 Consensus size: 66
876471 AATTATTTGG
* * * * *
876481 TTAAATAAATTTCAGTTCGATTAATAGTTACAGAAAAAA-ATTCGGTTAATTCGATTCGGTTAAT
1 TTAAATAAATTTCGGTTCGATTAACAGTTAAAGAAAAAATAAT---TT-ATTCGATTCGGCTAAT
876545 AATTT
62 AATTT
* **
876550 TTAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGCTAATAATT
1 TTAAATAAATTTCGGTTCGATTAACAGTTAAAGAAAAAATAATTTATTCGATTCGGCTAATAATT
876615 T
66 T
* * *
876616 TCAAATAAATTTTGATTCGATTAAC
1 TTAAATAAATTTCGGTTCGATTAAC
876641 GGTCAAATAA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
66 40 0.51
67 2 0.03
69 35 0.44
70 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (66 bp):
TTAAATAAATTTCGGTTCGATTAACAGTTAAAGAAAAAATAATTTATTCGATTCGGCTAATAATT
T
Found at i:876664 original size:92 final size:95
Alignment explanation
Indices: 876552--876737 Score: 270
Period size: 94 Copynumber: 2.0 Consensus size: 95
876542 AATAATTTTT
* *
876552 AAATAAATTTCGGTTCGATTAACGGTTAAAG-AAAAAAT-AATTTATTTTATTCGGCTAATAATT
1 AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGCTAATAATT
*
876615 TTCAAATAAATTTTGATTCGATTAACGGTC
66 TTCAAATAAATCTTGATTCGATTAACGGTC
* ** * *
876645 AAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATT
1 AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGCTAATAATT
*
876709 TTCAAATAAATCTTGTTTCGATTAACGGT
66 TTCAAATAAATCTTGATTCGATTAACGGT
876738 TAAAGAAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
92 25 0.30
93 11 0.13
94 46 0.56
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (95 bp):
AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGCTAATAATT
TTCAAATAAATCTTGATTCGATTAACGGTC
Found at i:876760 original size:160 final size:163
Alignment explanation
Indices: 876483--876860 Score: 530
Period size: 160 Copynumber: 2.3 Consensus size: 163
876473 TTATTTGGTT
* *
876483 AAATAAATTTCAGTTCGATTAATAGTTACAGAAAAAAATTCGGTTAATTCGATTCGGTTAATAAT
1 AAAT-AATTTCGGTTCGATTAATAGTTAAAGAAAAAAATTCGGTTAATTCGATTCGGTTAATAAT
*
876548 TTTTAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGG-C-TAAT
65 TTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTCGTAAT
* *
876611 AATTTTCAAATAAATTTTGATTCGATTAACGGTC
130 AATTTCCAAATAAATTTGGATTCGATTAACGGTC
* * * *
876645 AAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAA-TCGGTTGATTTGGTTCGGTTAATAATT
1 AAATAATTTCGGTTCGATTAATAGTTAAAGAAAAAAATTCGGTTAATTCGATTCGGTTAATAATT
*
876709 TTCAAATAAATCTT-GTTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATTC
66 TTCAAATAAAT-TTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGG-----TC
* *
876773 GGTTAATAATTTCCAAATAAATTTGGGTTCGATTAACGTTC
125 -G-TAATAATTTCCAAATAAATTTGGATTCGATTAACGGTC
*
876814 AAATAATTTCGGTTCGATTAATTGTTAAAGAAAAAAATTCGGTTAAT
1 AAATAATTTCGGTTCGATTAATAGTTAAAGAAAAAAATTCGGTTAAT
876861 AATTTTCAAA
Statistics
Matches: 191, Mismatches: 14, Indels: 14
0.87 0.06 0.06
Matches are distributed among these distances:
160 76 0.40
161 32 0.17
162 4 0.02
166 1 0.01
169 70 0.37
170 8 0.04
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (163 bp):
AAATAATTTCGGTTCGATTAATAGTTAAAGAAAAAAATTCGGTTAATTCGATTCGGTTAATAATT
TTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTCGTAATA
ATTTCCAAATAAATTTGGATTCGATTAACGGTC
Found at i:876827 original size:26 final size:26
Alignment explanation
Indices: 876786--876915 Score: 102
Period size: 26 Copynumber: 4.8 Consensus size: 26
876776 TAATAATTTC
*
876786 CAAATAAATTTGGGTTCGATTAACGTT
1 CAAAT-AATTTCGGTTCGATTAACGTT
*
876813 CAAATAATTTCGGTTCGATTAATTGTT
1 CAAATAATTTCGGTTCGATTAA-CGTT
* * * * **
876840 AAAGAAAAAAATTCGGTT--AATAATTTT
1 ---CAAATAATTTCGGTTCGATTAACGTT
**
876867 CAAATAAATTTCGGTTCGATTAACAAT
1 CAAAT-AATTTCGGTTCGATTAACGTT
876894 CAAATAATTTCGGTTCGATTAA
1 CAAATAATTTCGGTTCGATTAA
876916 TGTTAAAGAA
Statistics
Matches: 82, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
24 3 0.04
25 9 0.11
26 33 0.40
27 21 0.26
28 4 0.05
30 12 0.15
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (26 bp):
CAAATAATTTCGGTTCGATTAACGTT
Found at i:876879 original size:25 final size:26
Alignment explanation
Indices: 876770--876909 Score: 81
Period size: 26 Copynumber: 5.3 Consensus size: 26
876760 ATTCGGTTAA
*
876770 TTCGGTT-AATAATTTCCAAATAAAT
1 TTCGGTTCAATAATTTTCAAATAAAT
* * **
876795 TTGGGTTCGATTAACGTTCAAAT-AAT
1 TTCGGTTC-AATAATTTTCAAATAAAT
* * * *
876821 TTCGGTTCGATTAATTGTTAAAGAAAAAAA
1 TTCGGTTC-AATAATT-TT-CA-AATAAAT
876851 TTCGGTT-AATAATTTTCAAATAAAT
1 TTCGGTTCAATAATTTTCAAATAAAT
* ***
876876 TTCGGTTCGATTAACAATCAAAT-AAT
1 TTCGGTTC-AATAATTTTCAAATAAAT
876902 TTCGGTTC
1 TTCGGTTC
876910 GATTAATGTT
Statistics
Matches: 88, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
25 18 0.20
26 28 0.32
27 24 0.27
28 7 0.08
29 2 0.02
30 9 0.10
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (26 bp):
TTCGGTTCAATAATTTTCAAATAAAT
Found at i:876958 original size:81 final size:81
Alignment explanation
Indices: 876768--876938 Score: 283
Period size: 81 Copynumber: 2.1 Consensus size: 81
876758 TTATTCGGTT
* * **
876768 AATTCGGTTAATAATTTCCAAATAAATTTGGGTTCGATTAACGTTCAAATAATTTCGGTTCGATT
1 AATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAATCAAATAATTTCGGTTCGATT
876833 AATTGTTAAAGAAAAA
66 AATTGTTAAAGAAAAA
876849 AATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAATCAAATAATTTCGGTTCGATT
1 AATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAATCAAATAATTTCGGTTCGATT
876914 AA-TGTTAAAG-AAAA
66 AATTGTTAAAGAAAAA
*
876928 AATTCTGTTAA
1 AATTCGGTTAA
876939 ATTGGTTCGG
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
79 14 0.16
80 8 0.09
81 63 0.74
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (81 bp):
AATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAATCAAATAATTTCGGTTCGATT
AATTGTTAAAGAAAAA
Found at i:876983 original size:249 final size:250
Alignment explanation
Indices: 876600--877059 Score: 755
Period size: 249 Copynumber: 1.8 Consensus size: 250
876590 AATTTATTTT
* **
876600 ATTCGGCTAATAATTTTCAAATAAATTTTGATTCGATTAACGGTCAAATAATTTCGGTTCGATTA
1 ATTCGGCTAATAATTTTCAAATAAATTTCGATTCGATTAACAATCAAATAATTTCGGTTCGATTA
* * *
876665 ATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATCTTGTTTCGA
66 ATGGTTAAAGAAAAAAATCGGTTAAATTGGTTCGGCTAATAATTTTCAAATAAATCTTGTTTCGA
**
876730 TTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATTCGGTTAATAATTTCCAAATAAAT
131 TTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATTCAATTAATAATTTCCAAATAAAT
*
876795 TTGGGTTCGATTAACGTTCAAATAATTTCGGTTCGATTAATTGTTAAAGAAAAAA
196 TTCGGTTCGATTAACGTTCAAATAATTTCGGTTCGATTAATTGTTAAAGAAAAAA
* *
876850 ATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAATCAAATAATTTCGGTTCGATTA
1 ATTCGGCTAATAATTTTCAAATAAATTTCGATTCGATTAACAATCAAATAATTTCGGTTCGATTA
* *
876915 AT-GTTAAAGAAAAAATTCTGTTAAATTGGTTCGGCTAATAATTTTCAAATAAAT-TTCGGTTT-
66 ATGGTTAAAGAAAAAAATCGGTTAAATTGGTTCGGCTAATAATTTTCAAATAAATCTT--GTTTC
*
876977 GATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATTCAATTAATAATTTCTAAATAA
129 GATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATTCAATTAATAATTTCCAAATAA
877042 ATTTCGGTTCGATTAACG
194 ATTTCGGTTCGATTAACG
877060 GTTAAAAAAA
Statistics
Matches: 194, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
248 2 0.01
249 126 0.65
250 66 0.34
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (250 bp):
ATTCGGCTAATAATTTTCAAATAAATTTCGATTCGATTAACAATCAAATAATTTCGGTTCGATTA
ATGGTTAAAGAAAAAAATCGGTTAAATTGGTTCGGCTAATAATTTTCAAATAAATCTTGTTTCGA
TTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATTCAATTAATAATTTCCAAATAAAT
TTCGGTTCGATTAACGTTCAAATAATTTCGGTTCGATTAATTGTTAAAGAAAAAA
Found at i:877087 original size:17 final size:17
Alignment explanation
Indices: 877061--877099 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
877051 CGATTAACGG
877061 TTAAAAAAATAATTTAT
1 TTAAAAAAATAATTTAT
* *
877078 TTAAACAAATAATTTGT
1 TTAAAAAAATAATTTAT
877095 TTAAA
1 TTAAA
877100 TTTTTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
TTAAAAAAATAATTTAT
Found at i:877286 original size:20 final size:20
Alignment explanation
Indices: 877263--877330 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 20
877253 TTAAAAAATT
877263 ATTTAATTAAATAGTTTAAA
1 ATTTAATTAAATAGTTTAAA
* *
877283 ATTT-ATTGAAATGGTTAAAAAAATA
1 ATTTAATT-AAATAGTT----TAA-A
877308 ATTTAATTAAATAGTTTAAA
1 ATTTAATTAAATAGTTTAAA
877328 ATT
1 ATT
877331 CATAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 3 0.08
20 15 0.41
21 2 0.05
24 2 0.05
25 12 0.32
26 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (20 bp):
ATTTAATTAAATAGTTTAAA
Found at i:883852 original size:20 final size:21
Alignment explanation
Indices: 883789--883921 Score: 102
Period size: 20 Copynumber: 6.6 Consensus size: 21
883779 ACCCAGTTTC
*
883789 CAAATTCGCAACGC-GAATTT
1 CAAATTCGCAACACTGAATTT
* * **
883809 GTAAA-TCGCAACAC-AAAAGT
1 -CAAATTCGCAACACTGAATTT
*
883829 CAAATTCGCAAC-GT-AATTT
1 CAAATTCGCAACACTGAATTT
883848 CCAAATTCGCAACACTGAATTT
1 -CAAATTCGCAACACTGAATTT
* *
883870 CAAATTCGCAACTC-GATTTT
1 CAAATTCGCAACACTGAATTT
*
883890 CGAATTCGCAACAC-GAATTT
1 CAAATTCGCAACACTGAATTT
*
883910 -AATTTCGCAACA
1 CAAATTCGCAACA
883922 GGTTTTAGTT
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
19 16 0.18
20 52 0.58
21 17 0.19
22 5 0.06
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (21 bp):
CAAATTCGCAACACTGAATTT
Found at i:883881 original size:41 final size:40
Alignment explanation
Indices: 883749--883920 Score: 129
Period size: 40 Copynumber: 4.3 Consensus size: 40
883739 AAATGATCAA
* * * * *
883749 CAAATTCGCAACGCGAA-CTCCAATTTCGCAAC-CCAGTTT
1 CAAATTCGCAACG-TAATTTCCAAATTCGCAACACGAATTT
* ** * **
883788 CCAAATTCGCAACGCGAATTTGTAAA-TCGCAACACAAAAGT
1 -CAAATTCGCAACG-TAATTTCCAAATTCGCAACACGAATTT
883829 CAAATTCGCAACGTAATTTCCAAATTCGCAACACTGAATTT
1 CAAATTCGCAACGTAATTTCCAAATTCGCAACAC-GAATTT
* * *
883870 CAAATTCGCAAC-TCGATTTTCGAATTCGCAACACGAATTT
1 CAAATTCGCAACGT-AATTTCCAAATTCGCAACACGAATTT
*
883910 -AATTTCGCAAC
1 CAAATTCGCAAC
883921 AGGTTTTAGT
Statistics
Matches: 109, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 18 0.17
40 53 0.49
41 38 0.35
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (40 bp):
CAAATTCGCAACGTAATTTCCAAATTCGCAACACGAATTT
Found at i:883918 original size:19 final size:20
Alignment explanation
Indices: 883753--883921 Score: 89
Period size: 20 Copynumber: 8.4 Consensus size: 20
883743 GATCAACAAA
* * *
883753 TTCGCAACGCGAACTCCAAT
1 TTCGCAACACGAATTTCAAT
* * *
883773 TTCGCAAC-CCAGTTTCCAAA
1 TTCGCAACACGAATTT-CAAT
* *
883793 TTCGCAACGCGAATTTGTAA-
1 TTCGCAACACGAATTT-CAAT
* * ** *
883813 ATCGCAACACAAAAGTCAAA
1 TTCGCAACACGAATTTCAAT
*
883833 TTCGC-A-ACGTAATTTCCAAA
1 TTCGCAACACG-AATTT-CAAT
*
883853 TTCGCAACACTGAATTTCAAA
1 TTCGCAACAC-GAATTTCAAT
* *
883874 TTCGCAACTCGATTTTCGAA-
1 TTCGCAACACGAATTTC-AAT
883894 TTCGCAACACGAATTT-AAT
1 TTCGCAACACGAATTTCAAT
883913 TTCGCAACA
1 TTCGCAACA
883922 GGTTTTAGTT
Statistics
Matches: 116, Mismatches: 23, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
18 4 0.03
19 18 0.16
20 63 0.54
21 23 0.20
22 7 0.06
23 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (20 bp):
TTCGCAACACGAATTTCAAT
Found at i:884098 original size:16 final size:16
Alignment explanation
Indices: 884077--884116 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
884067 TCCCCATCTC
*
884077 TAATTTTTTTTTTACA
1 TAATTTTTTTTCTACA
* *
884093 TAATTTTATTTCTATA
1 TAATTTTTTTTCTACA
884109 TAATTTTT
1 TAATTTTT
884117 CAATGATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTTTTCTACA
Found at i:884884 original size:24 final size:24
Alignment explanation
Indices: 884857--884910 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
884847 GTATTCGAAA
884857 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
884881 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
884905 TTTGAT
1 TTTGAT
884911 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:887260 original size:29 final size:29
Alignment explanation
Indices: 887222--887282 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
887212 AAATTCGCAA
* *
887222 CGCAAAAATCGCAATGCAAATTTGACTTT
1 CGCAAAAATCACAACGCAAATTTGACTTT
* * *
887251 CGCAACAATCACAACGCGAATTTTACTTT
1 CGCAAAAATCACAACGCAAATTTGACTTT
887280 CGC
1 CGC
887283 GTTGCGAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (29 bp):
CGCAAAAATCACAACGCAAATTTGACTTT
Found at i:887410 original size:25 final size:25
Alignment explanation
Indices: 887361--887410 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
887351 AAATCAATTA
* **
887361 AACATTGTTTTGGGTATTTTATTTG
1 AACATTGTTATGGGTACATTATTTG
*
887386 AACATTGTTATGGGTACATTCTTTG
1 AACATTGTTATGGGTACATTATTTG
887411 GAAAATAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:887818 original size:18 final size:18
Alignment explanation
Indices: 887797--887831 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
887787 TAATTGGAGT
887797 TTGAATTTAAATTTCAAG
1 TTGAATTTAAATTTCAAG
* *
887815 TTGAGTTTGAATTTCAA
1 TTGAATTTAAATTTCAA
887832 TATATATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (18 bp):
TTGAATTTAAATTTCAAG
Found at i:889033 original size:14 final size:14
Alignment explanation
Indices: 889016--889055 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
889006 AAGAAATGCG
*
889016 AAATCGCAACGTGA
1 AAATCGCAACGCGA
889030 AAATCGCAACGCGA
1 AAATCGCAACGCGA
889044 AAATCGCAACGC
1 AAATCGCAACGC
889056 CAATTTGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.28, G:0.20, T:0.10
Consensus pattern (14 bp):
AAATCGCAACGCGA
Found at i:889082 original size:20 final size:20
Alignment explanation
Indices: 889057--889094 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
889047 TCGCAACGCC
*
889057 AATTTGACTTTCACGTTGCG
1 AATTTGACTTTCGCGTTGCG
*
889077 AATTTGACTTTCACGTTG
1 AATTTGACTTTCGCGTTG
889095 TTTCGCGTTG
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:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCG
Found at i:889106 original size:30 final size:30
Alignment explanation
Indices: 889065--889124 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
889055 CCAATTTGAC
* *
889065 TTTCACGTTGCGAATTTGACTTTCACGTTG
1 TTTCACGTTGCGAAATTGACTATCACGTTG
* *
889095 TTTCGCGTTGCGAAATTGACTATCGCGTTG
1 TTTCACGTTGCGAAATTGACTATCACGTTG
889125 CGAATTTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (30 bp):
TTTCACGTTGCGAAATTGACTATCACGTTG
Found at i:889122 original size:20 final size:20
Alignment explanation
Indices: 889097--889225 Score: 141
Period size: 20 Copynumber: 6.5 Consensus size: 20
889087 TCACGTTGTT
*
889097 TCGCGTTGCGAAATTGACTA
1 TCGCGTTGCGAATTTGACTA
*
889117 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
* * *
889137 TTGCATTGCGAATTTGAATA
1 TCGCGTTGCGAATTTGACTA
** * *
889157 TCGCAATGCAAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
889177 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
*** *
889197 TCGCAACGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTA
889217 TCGCGTTGC
1 TCGCGTTGC
889226 AAAAGTGTAT
Statistics
Matches: 87, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 87 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:889159 original size:40 final size:40
Alignment explanation
Indices: 889095--889225 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
889085 TTTCACGTTG
* * **
889095 TTTCGCGTTGCGAAATTGACTATCGCGTTGCGAATTTGAC
1 TTTCGCATTGCGAATTTGACTATCGCAATGCGAATTTGAC
* * *
889135 TTTTGCATTGCGAATTTGAATATCGCAATGCAAATTTGAC
1 TTTCGCATTGCGAATTTGACTATCGCAATGCGAATTTGAC
* *
889175 TTTCGCGTTGCGAATTTGACTATCGCAACGCGAATTTGAC
1 TTTCGCATTGCGAATTTGACTATCGCAATGCGAATTTGAC
*
889215 TTTCGCGTTGC
1 TTTCGCATTGC
889226 AAAAGTGTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTCGCATTGCGAATTTGACTATCGCAATGCGAATTTGAC
Found at i:889227 original size:60 final size:59
Alignment explanation
Indices: 889095--889228 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 59
889085 TTTCACGTTG
* * **
889095 TTTCGCGTTGCGAAATTGACTATCGCGTTGCGAATTTGACTTTTGCATTGCGAATTTGAA
1 TTTCGCGTTGC-AAATTGACTATCGCGTTGCGAATTTGACTATCGCAACGCGAATTTGAA
* ** * *
889155 TATCGCAATGCAAATTTGACTTTCGCGTTGCGAATTTGACTATCGCAACGCGAATTTGAC
1 TTTCGCGTTGCAAA-TTGACTATCGCGTTGCGAATTTGACTATCGCAACGCGAATTTGAA
889215 TTTCGCGTTGCAAA
1 TTTCGCGTTGCAAA
889229 AGTGTATCTT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 3 0.05
60 58 0.95
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (59 bp):
TTTCGCGTTGCAAATTGACTATCGCGTTGCGAATTTGACTATCGCAACGCGAATTTGAA
Found at i:889364 original size:64 final size:64
Alignment explanation
Indices: 889285--889442 Score: 291
Period size: 64 Copynumber: 2.5 Consensus size: 64
889275 GAAATTTAAC
889285 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACA-CATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTT-CATCATCAATTA
889349 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCATCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCATCATCAATTA
889413 AACAAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
889443 ATTCAATTAA
Statistics
Matches: 92, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
63 2 0.02
64 86 0.93
65 4 0.04
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCATCATCAATTA
Found at i:890848 original size:42 final size:42
Alignment explanation
Indices: 890788--890885 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
890778 GTGAATCGGG
* * * *
890788 CTCTTGAAAGGTGGGAGGGACCTCTTGAACGAT-GACAGGGGC
1 CTCTTGAACGATGAGAGGGACCTCTTAAACGATAG-CAGGGGC
* * *
890830 CTCTTGAACGATGAGAGGGGCCTCTTAAACGATAGGAGGTGC
1 CTCTTGAACGATGAGAGGGACCTCTTAAACGATAGCAGGGGC
890872 CTCTTGAACGATGA
1 CTCTTGAACGATGA
890886 CAGGTGAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGATGAGAGGGACCTCTTAAACGATAGCAGGGGC
Found at i:890891 original size:21 final size:21
Alignment explanation
Indices: 890803--890889 Score: 113
Period size: 21 Copynumber: 4.1 Consensus size: 21
890793 GAAAGGTGGG
*
890803 AGGGACCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
*
890824 AGGGGCCTCTTGAACGATGAG
1 AGGGGCCTCTTGAACGATGAC
* *
890845 AGGGGCCTCTTAAACGAT-AGG
1 AGGGGCCTCTTGAACGATGA-C
*
890866 AGGTGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
890887 AGG
1 AGG
890890 TGAATCGGGC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.20
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:891061 original size:4 final size:4
Alignment explanation
Indices: 891029--891082 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
891019 GGGCCGCTGA
* * * *
891029 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
891077 AAAT AA
1 AAAT AA
891083 TGTCAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:891202 original size:21 final size:21
Alignment explanation
Indices: 891178--891227 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
891168 TGAAACAATC
*
891178 TCACGTAGAGCAGCTACCTCA
1 TCACGTAGAGCAGATACCTCA
* *
891199 TCACGTAAAGTAGATACCTCA
1 TCACGTAGAGCAGATACCTCA
*
891220 CCACGTAG
1 TCACGTAG
891228 CGCACCATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (21 bp):
TCACGTAGAGCAGATACCTCA
Found at i:893069 original size:20 final size:20
Alignment explanation
Indices: 893044--893095 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
893034 CTTAAATTAT
893044 CAACGC-AAACATGAAAATCG
1 CAACGCGAAA-ATGAAAATCG
893064 CAACGCGAAAATGAAAATCG
1 CAACGCGAAAATGAAAATCG
*
893084 CAACGAGAAAAT
1 CAACGCGAAAAT
893096 CGCAACGCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.52, C:0.21, G:0.17, T:0.10
Consensus pattern (20 bp):
CAACGCGAAAATGAAAATCG
Found at i:893075 original size:14 final size:14
Alignment explanation
Indices: 893076--893107 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
893066 ACGCGAAAAT
893076 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
893090 GAAAATCGCAACGC
1 GAAAATCGCAACGA
893104 GAAA
1 GAAA
893108 CTAAAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:893681 original size:19 final size:20
Alignment explanation
Indices: 893659--893696 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
893649 AATATTGTGT
893659 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
893678 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
893697 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:893728 original size:20 final size:20
Alignment explanation
Indices: 893703--893774 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
893693 TAAACGCGCT
*
893703 TTGCGAAATTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
*
893723 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTATGTG
*
893743 TTGCGAATTTGAAATTCA-GTG
1 TTGCGAATTTG-ACTT-ATGTG
893764 TTGCGAATTTG
1 TTGCGAATTTG
893775 GAAACTGGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:893766 original size:21 final size:20
Alignment explanation
Indices: 893720--893774 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
893710 ATTGACTTAT
* *
893720 GTGTTGCGAATTTGACTTCT
1 GTGTTGCGAATTTGAATTCA
893740 GTGTTGCGAATTTGAAATTCA
1 GTGTTGCGAATTTG-AATTCA
893761 GTGTTGCGAATTTG
1 GTGTTGCGAATTTG
893775 GAAACTGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.42
Consensus pattern (20 bp):
GTGTTGCGAATTTGAATTCA
Found at i:893787 original size:41 final size:41
Alignment explanation
Indices: 893703--893814 Score: 104
Period size: 41 Copynumber: 2.8 Consensus size: 41
893693 TAAACGCGCT
* * ** *
893703 TTGCGAAATTG-ACTTATGTGTTGCGAATTT-GACTTCTGTG
1 TTGCGAAATTGAAATT-CGTGTTGCGAATTTGGACAACTGGG
*
893743 TTGCGAATTTGAAATTCAGTGTTGCGAATTTGGA-AACTGGG
1 TTGCGAAATTGAAATTC-GTGTTGCGAATTTGGACAACTGGG
* * *
893784 TTGCGAAATTGGAGTTCGCGTTGCGAATTTG
1 TTGCGAAATTGAAATTCGTGTTGCGAATTTG
893815 TTGGTCATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 23 0.39
41 34 0.58
42 2 0.03
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.38
Consensus pattern (41 bp):
TTGCGAAATTGAAATTCGTGTTGCGAATTTGGACAACTGGG
Found at i:893981 original size:15 final size:15
Alignment explanation
Indices: 893963--893996 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
893953 TATCTTTTTT
893963 AAAATAATTTT-AAGA
1 AAAAT-ATTTTAAAGA
893978 AAAATATTTTAAAGA
1 AAAATATTTTAAAGA
893993 AAAA
1 AAAA
893997 GTTTGATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAAATATTTTAAAGA
Found at i:894780 original size:20 final size:20
Alignment explanation
Indices: 894755--894795 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
894745 AAACAACCTT
*
894755 TACATTACTGACCCTACCCC
1 TACATTACTGACCCGACCCC
894775 TACATTACTGACCCGACCCC
1 TACATTACTGACCCGACCCC
894795 T
1 T
894796 TTTCCTGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.44, G:0.07, T:0.24
Consensus pattern (20 bp):
TACATTACTGACCCGACCCC
Found at i:895603 original size:5 final size:5
Alignment explanation
Indices: 895593--895619 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
895583 GACACTATCA
895593 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
895620 ATTTAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:904196 original size:38 final size:37
Alignment explanation
Indices: 904142--904223 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
904132 TTAAATTATA
*
904142 TCAGGTCGGAGTCGGGTGG-GAGATATATACTTTTCAGG
1 TCAGGTCGGAGTCGGGTGGAG-GATACATA-TTTTCAGG
* *
904180 TCGGGTCGG-GTTCGGGTGGAGGGTACATATTTTCAGG
1 TCAGGTCGGAG-TCGGGTGGAGGATACATATTTTCAGG
904217 TCAGGTC
1 TCAGGTC
904224 AGATTGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
37 15 0.39
38 22 0.58
39 1 0.03
ACGTcount: A:0.17, C:0.15, G:0.39, T:0.29
Consensus pattern (37 bp):
TCAGGTCGGAGTCGGGTGGAGGATACATATTTTCAGG
Found at i:906591 original size:37 final size:36
Alignment explanation
Indices: 906527--906849 Score: 233
Period size: 36 Copynumber: 8.6 Consensus size: 36
906517 AATATATATG
* *
906527 TATATATTATATAATTTTGAAAACATTTTGAAAATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAATA
* * * *
906563 TGTATAATATATGGTTTTTTAAAACA-TTTCAAAA-A
1 TATATATTATATAG-TTTTTAAAACATTTTGAAAATA
* * * *
906598 TATATAGTATGTAATTTTTAAAATATTTTTGAAAACGTA
1 TATATATTATATAGTTTTTAAAACA-TTTTGAAAA--TA
* *
906637 TATATATTATATAGTTTTTAAAATATTTTGAAAACA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAATA
*
906673 TATATATTATATAGTTTTTAAAACATTTTAAAAAACATAAATA
1 TATATATTATATAGTTTTTAAAACATTTT------GA-AAATA
* *
906716 TATATATATATTATAATTTTTAAAACGTTTTTGAAAAATA
1 TATATAT-TA-TATAGTTTTTAAAAC-ATTTTG-AAAATA
* * **
906756 TATATAATATATAAG-TTTTAAAAAAAATTGAAAATA
1 TATATATTATAT-AGTTTTTAAAACATTTTGAAAATA
* * ** *
906792 TA-A-ATTATATAGTTTTGAAAATTATTTTTTAAACA
1 TATATATTATATAGTTTTTAAAA-CATTTTGAAAATA
*
906827 TATATATTATATAGTTTTAAAAA
1 TATATATTATATAGTTTTTAAAA
906850 ATGTTTTTTA
Statistics
Matches: 227, Mismatches: 38, Indels: 43
0.74 0.12 0.14
Matches are distributed among these distances:
33 2 0.01
34 23 0.10
35 20 0.09
36 62 0.27
37 30 0.13
38 20 0.09
39 26 0.11
40 11 0.05
41 1 0.00
42 1 0.00
43 11 0.05
44 2 0.01
45 14 0.06
46 4 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (36 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAATA
Found at i:906722 original size:45 final size:45
Alignment explanation
Indices: 906672--906768 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 45
906662 TTTTGAAAAC
906672 ATATATATTATATAGTTTTTAAAACATTTTAAAAAACATAAATAT-AT
1 ATATATATTATA-A-TTTTTAAAACATTTTAAAAAA-ATAAATATAAT
* ** *
906719 ATATATATTATAATTTTTAAAACGTTTTTGAAAAATATATATAAT
1 ATATATATTATAATTTTTAAAACATTTTAAAAAAATAAATATAAT
906764 ATATA
1 ATATA
906769 AGTTTTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
44 7 0.16
45 25 0.56
46 1 0.02
47 12 0.27
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (45 bp):
ATATATATTATAATTTTTAAAACATTTTAAAAAAATAAATATAAT
Found at i:906801 original size:83 final size:83
Alignment explanation
Indices: 906635--906802 Score: 197
Period size: 83 Copynumber: 2.0 Consensus size: 83
906625 TTTGAAAACG
* **
906635 TATATATATTATATAGTTTTTAAAATATTTTGAAAACATATATATTATATAGTTTTTAAAACATT
1 TATATATATTATATAGTTTTTAAAATATTTTGAAAACATATATATTATATAGTTTTTAAAAAAAA
906700 TTAAAAAACATAAATATA
66 TTAAAAAACATAAATATA
906718 TATATATATTATA-A-TTTTTAAAACGT-TTTTGAAAA-ATATATATAATATATAAG-TTTTAAA
1 TATATATATTATATAGTTTTTAAAA--TATTTTGAAAACATATATAT--TATAT-AGTTTTTAAA
* *
906778 AAAAATT-GAAAATATAAAT-TA
61 AAAAATTAAAAAACATAAATATA
906799 TATA
1 TATA
906803 GTTTTGAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
81 23 0.31
82 20 0.27
83 30 0.40
84 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (83 bp):
TATATATATTATATAGTTTTTAAAATATTTTGAAAACATATATATTATATAGTTTTTAAAAAAAA
TTAAAAAACATAAATATA
Found at i:906859 original size:37 final size:36
Alignment explanation
Indices: 906719--906857 Score: 110
Period size: 37 Copynumber: 3.9 Consensus size: 36
906709 ATAAATATAT
* *
906719 ATATATATTATA-A-TTTT-TAAAACGTTTTTGAAAA
1 ATATATATTATATAGTTTTAAAAAATGTTTTTG-AAA
**
906753 ATATATATAATATATAAGTTTTAAAAAA---AATTGAAA
1 ATATATAT--TATAT-AGTTTTAAAAAATGTTTTTGAAA
* * * * *
906789 ATATAAATTATATAGTTTTGAAAATTATTTTTTAAA
1 ATATATATTATATAGTTTTAAAAAATGTTTTTGAAA
906825 CATATATATTATATAGTTTTAAAAAATGTTTTT
1 -ATATATATTATATAGTTTTAAAAAATGTTTTT
906858 TATTACATTT
Statistics
Matches: 82, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
33 10 0.12
34 13 0.16
36 19 0.23
37 31 0.38
38 1 0.01
39 4 0.05
40 4 0.05
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATATATTATATAGTTTTAAAAAATGTTTTTGAAA
Found at i:908324 original size:13 final size:13
Alignment explanation
Indices: 908306--908335 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
908296 CGAATCGAGT
908306 TTTTAAATTTTAA
1 TTTTAAATTTTAA
908319 TTTTAAATTTTAA
1 TTTTAAATTTTAA
908332 TTTT
1 TTTT
908336 TGCAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:911111 original size:73 final size:72
Alignment explanation
Indices: 910988--911136 Score: 235
Period size: 73 Copynumber: 2.1 Consensus size: 72
910978 TTTTTGGTTA
*
910988 TCATTTGGTGATTTCTTCCTATTATTGGTACCAAGAAACCAGAACCATATGCAACAAGATTCCAA
1 TCATTTGGTGATTTCTTCCTATTATTGGTACCAAGAAACCAGAACAATATGCAACAAGATT-CAA
911053 GTTTTTGC
65 GTTTTTGC
* * * **
911061 TCATTTGGTGTTTTCTTCCTATTCTTGGTGCCAAGAAATTAGAACAATATGCAACAAGATTCAAG
1 TCATTTGGTGATTTCTTCCTATTATTGGTACCAAGAAACCAGAACAATATGCAACAAGATTCAAG
911126 TTTTTGC
66 TTTTTGC
911133 TCAT
1 TCAT
911137 AATTGTTATA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 15 0.21
73 55 0.79
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (72 bp):
TCATTTGGTGATTTCTTCCTATTATTGGTACCAAGAAACCAGAACAATATGCAACAAGATTCAAG
TTTTTGC
Found at i:912248 original size:60 final size:60
Alignment explanation
Indices: 912178--912290 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
912168 ACAGGTGACT
* ** *
912178 ATTTTGTAACTTTTAATAGTC-GAGGGACTTGACAAAACAATATCCTATAGTTGAATGATC
1 ATTTTATAACTTTTAATAGTCAGA-GGACTCAACAAAACAACATCCTATAGTTGAATGATC
* *
912238 ATTTTATAACTTTTAATAGTCAGATGACTCAATAAAACAACATCCTATAGTTG
1 ATTTTATAACTTTTAATAGTCAGAGGACTCAACAAAACAACATCCTATAGTTG
912291 GGGGACTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.35
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCAGAGGACTCAACAAAACAACATCCTATAGTTGAATGATC
Found at i:913883 original size:14 final size:14
Alignment explanation
Indices: 913864--913910 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
913854 GAGATTTTGA
913864 TATTTTATTTTATT
1 TATTTTATTTTATT
913878 TATTTTATTTTA-T
1 TATTTTATTTTATT
* *
913891 TAATTGATTTTTATT
1 TATTTTA-TTTTATT
913906 TATTT
1 TATTT
913911 AGATAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.21
14 17 0.61
15 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:915050 original size:23 final size:22
Alignment explanation
Indices: 915024--915087 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
915014 TATAAAATTA
915024 TCCCGAAGGACCACGTAGAAATG
1 TCCCGAAGGACCAC-TAGAAATG
* * *
915047 TCCCGAAAGACCA-TATATATG
1 TCCCGAAGGACCACTAGAAATG
915068 TCCCGAAGGACCACATAGAA
1 TCCCGAAGGACCAC-TAGAA
915088 CCCTCGACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 18 0.55
23 15 0.45
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.16
Consensus pattern (22 bp):
TCCCGAAGGACCACTAGAAATG
Found at i:919492 original size:39 final size:39
Alignment explanation
Indices: 919438--919516 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
919428 AAGGGCAAGG
*
919438 TAACCTCATTGTAACAGCATCTATCATAATATGAAGTCT
1 TAACCTCATTGTAACAGCATCTATCATAAGATGAAGTCT
*
919477 TAACCTCATTGTAACATCATCTATCATAAGATGAAGTCT
1 TAACCTCATTGTAACAGCATCTATCATAAGATGAAGTCT
919516 T
1 T
919517 TCTTTGATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (39 bp):
TAACCTCATTGTAACAGCATCTATCATAAGATGAAGTCT
Found at i:922028 original size:13 final size:14
Alignment explanation
Indices: 922010--922048 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
922000 TTGATTGTTG
*
922010 ATATATTTATAA-A
1 ATATATTAATAATA
922023 ATATATTAATAATA
1 ATATATTAATAATA
922037 ATA-ATTAATAAT
1 ATATATTAATAAT
922049 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATTAATAATA
Found at i:922420 original size:144 final size:145
Alignment explanation
Indices: 922024--922604 Score: 806
Period size: 145 Copynumber: 4.0 Consensus size: 145
922014 ATTTATAAAA
* * * * *
922024 TATATTAATAATAATAATTAATAATTTTTTTATATAGTCTAAGATAATTACAAAATAATATCGGT
1 TATATTAATTATAATAATTAAT-AGTTTTTTAAATAATCTAAGATAATTACAAAGTAATATCGGT
* * * * *
922089 TTAAAATTTTCTTAACTCAAGACAACGCACAATGTAGACATCCCTGCTCGAACCCAAAATTTTTA
65 TTAAAATTTTCTTAACCCATGACAACGCACAATGTAGACATCGCTACTCGAACCCAAGATTTTTA
*
922154 TGGAGATTAGCATTCT
130 TGGAGATTAACATTCT
*
922170 TATATTAATTATAATAATTAATAGTTTTTTAAATAATCTAAGATAATTACACAGTAATATCGGTT
1 TATATTAATTATAATAATTAATAGTTTTTTAAATAATCTAAGATAATTACAAAGTAATATCGGTT
* * * **
922235 TAAAATTTTCTTAACCCATGACAATGCATAATGTAGACATCGTTGTTCGAACCCAAGATTTTTAT
66 TAAAATTTTCTTAACCCATGACAACGCACAATGTAGACATCGCTACTCGAACCCAAGATTTTTAT
*
922300 GGATATTAACATTCT
131 GGAGATTAACATTCT
* * *
922315 TATATTAATTATAATAATTAATAGTTTTTT-AATAATATAAGATAATTACACAGTAATATCGATT
1 TATATTAATTATAATAATTAATAGTTTTTTAAATAATCTAAGATAATTACAAAGTAATATCGGTT
* * *
922379 TAAAATTTTCATAACCCATGACAACACACATTGTAGACATCGCTACTCGAACCCAAGATTTTTAT
66 TAAAATTTTCTTAACCCATGACAACGCACAATGTAGACATCGCTACTCGAACCCAAGATTTTTAT
*
922444 GGAGGTTAACATTCT
131 GGAGATTAACATTCT
* *
922459 TATATTAATTATAATAATTAATAATTTTTTAAATAATCTAAGATAATTACAAAGTAATATCTG-T
1 TATATTAATTATAATAATTAATAGTTTTTTAAATAATCTAAGATAATTACAAAGTAATATCGGTT
* * * * *
922523 TAAAAGTTTCTTAACCTATCGACAATGCACAATGTAGAAATCGCTACTCGAACCCAATATTTTTT
66 TAAAATTTTCTTAACCCAT-GACAACGCACAATGTAGACATCGCTACTCGAACCCAAGA--TTTT
* *
922588 TATTGAGAATAACATTC
128 TATGGAGATTAACATTC
922605 ATTTTTTACA
Statistics
Matches: 387, Mismatches: 44, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
144 148 0.38
145 200 0.52
146 21 0.05
147 18 0.05
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (145 bp):
TATATTAATTATAATAATTAATAGTTTTTTAAATAATCTAAGATAATTACAAAGTAATATCGGTT
TAAAATTTTCTTAACCCATGACAACGCACAATGTAGACATCGCTACTCGAACCCAAGATTTTTAT
GGAGATTAACATTCT
Found at i:922474 original size:289 final size:291
Alignment explanation
Indices: 922024--922586 Score: 844
Period size: 289 Copynumber: 1.9 Consensus size: 291
922014 ATTTATAAAA
* * * *
922024 TATATTAATAATAATAATTAATAATTTTTTTATATAGTCTAAGATAATTACAAAATAATATCGGT
1 TATATTAATAATAATAATTAATAAGTTTTTTATATAATATAAGATAATTACAAAATAATATCGAT
* * * *
922089 TTAAAATTTTCTTAACTCAAGACAACGCACAATGTAGACATCCCTGCTCGAACCCAAAATTTTTA
66 TTAAAATTTTCATAACCCAAGACAACACACAATGTAGACATCCCTACTCGAACCCAAAATTTTTA
* *
922154 TGGAGATTAGCATTCTTATATTAATTATAATAATTAATAGTTTTTTAAATAATCTAAGATAATTA
131 TGGAGATTAACATTCTTATATTAATTATAATAATTAATAATTTTTTAAATAATCTAAGATAATTA
* * * * * **
922219 CACAGTAATATCGGTTTAAAATTTTCTTAACCCAT-GACAATGCATAATGTAGACATCGTTGTTC
196 CAAAGTAATATCGG-TTAAAAGTTTCTTAACCCATCGACAATGCACAATGTAGAAATCGCTACTC
922283 GAACCCAAGATTTTTATGGATATTAACATTCT
260 GAACCCAAGATTTTTATGGATATTAACATTCT
* * *
922315 TATATTAATTATAATAATTAAT-AGTTTTTTA-ATAATATAAGATAATTACACAGTAATATCGAT
1 TATATTAATAATAATAATTAATAAGTTTTTTATATAATATAAGATAATTACAAAATAATATCGAT
* * * *
922378 TTAAAATTTTCATAACCCATGACAACACACATTGTAGACATCGCTACTCGAACCCAAGATTTTTA
66 TTAAAATTTTCATAACCCAAGACAACACACAATGTAGACATCCCTACTCGAACCCAAAATTTTTA
*
922443 TGGAGGTTAACATTCTTATATTAATTATAATAATTAATAATTTTTTAAATAATCTAAGATAATTA
131 TGGAGATTAACATTCTTATATTAATTATAATAATTAATAATTTTTTAAATAATCTAAGATAATTA
* *
922508 CAAAGTAATATCTGTTAAAAGTTTCTTAACCTATCGACAATGCACAATGTAGAAATCGCTACTCG
196 CAAAGTAATATCGGTTAAAAGTTTCTTAACCCATCGACAATGCACAATGTAGAAATCGCTACTCG
*
922573 AACCCAATATTTTT
261 AACCCAAGATTTTT
922587 TTATTGAGAA
Statistics
Matches: 243, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
288 18 0.07
289 196 0.81
290 8 0.03
291 21 0.09
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (291 bp):
TATATTAATAATAATAATTAATAAGTTTTTTATATAATATAAGATAATTACAAAATAATATCGAT
TTAAAATTTTCATAACCCAAGACAACACACAATGTAGACATCCCTACTCGAACCCAAAATTTTTA
TGGAGATTAACATTCTTATATTAATTATAATAATTAATAATTTTTTAAATAATCTAAGATAATTA
CAAAGTAATATCGGTTAAAAGTTTCTTAACCCATCGACAATGCACAATGTAGAAATCGCTACTCG
AACCCAAGATTTTTATGGATATTAACATTCT
Found at i:927367 original size:24 final size:26
Alignment explanation
Indices: 927308--927370 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
927298 TTTTTCAGAT
* *
927308 AAAAAACTGGTTTTTTATCCGGTTTGAA
1 AAAAAACCGGTTTTTAATCCGG-TT-AA
927336 AAAAAACCGGTTTTTAATCCGG-T-A
1 AAAAAACCGGTTTTTAATCCGGTTAA
927360 AAAAAACCGGT
1 AAAAAACCGGT
927371 CGTTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 12 0.36
26 1 0.03
28 20 0.61
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (26 bp):
AAAAAACCGGTTTTTAATCCGGTTAA
Found at i:936226 original size:2 final size:2
Alignment explanation
Indices: 936219--936252 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
936209 CTTTCCATTT
* *
936219 TC TC TC TC TT TG TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
936253 GAGAATCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (2 bp):
TC
Found at i:947162 original size:18 final size:18
Alignment explanation
Indices: 947136--947185 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
947126 AAAGTCAATC
*
947136 TTTGCTTTTGAAAACTAT
1 TTTGATTTTGAAAACTAT
947154 TTTGATTTTGAAAACTAT
1 TTTGATTTTGAAAACTAT
947172 TTTGATTTTGAAAA
1 TTTGATTTTGAAAA
947186 ATAAGCGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (18 bp):
TTTGATTTTGAAAACTAT
Found at i:950601 original size:9 final size:8
Alignment explanation
Indices: 950568--950646 Score: 50
Period size: 8 Copynumber: 9.0 Consensus size: 8
950558 AAATAGTAAG
950568 TAAAATAAA
1 TAAAA-AAA
*
950577 TATAAAAA
1 TAAAAAAA
*
950585 TATAAAAA
1 TAAAAAAA
950593 TAAAGAAAAA
1 T-AA-AAAAA
*
950603 GAAGAAAAAA
1 -TA-AAAAAA
* *
950613 TATATAAA
1 TAAAAAAA
950621 TAAAACAAA
1 TAAAA-AAA
950630 TAAAAAAA
1 TAAAAAAA
950638 TTAAAAAAA
1 -TAAAAAAA
950647 ATAATATATA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
8 22 0.39
9 22 0.39
10 11 0.20
11 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (8 bp):
TAAAAAAA
Done.