Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold5
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: 1536239
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.33
Warning! 124408 characters in sequence are not A, C, G, or T
File 8 of 14
Found at i:955880 original size:21 final size:20
Alignment explanation
Indices: 955794--955880 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
955784 ATTTATTGTA
*
955794 AATTTAAT-AAATTAAACAT
1 AATTTAATAAAATTAAATAT
*
955813 AATTTTTAAT-AAATTTAATA-
1 AA--TTTAATAAAATTAAATAT
**
955833 AATATTAAATAAAATTATTTAT
1 AAT-TT-AATAAAATTAAATAT
955855 AAATTTAATAAATATTAAATAT
1 -AATTTAATAAA-ATTAAATAT
955877 AATT
1 AATT
955881 ACTCGTAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 5 0.09
21 31 0.58
22 9 0.17
23 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAATAAAATTAAATAT
Found at i:956080 original size:27 final size:26
Alignment explanation
Indices: 956032--956104 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
956022 TATTTTATAT
**
956032 TTAAAAATATTTTTAATATAATATAAA
1 TTAAAAATATTTAAAATATAATA-AAA
* *
956059 TTAAAAATATTTAAAATTTAATAAAC
1 TTAAAAATATTTAAAATATAATAAAA
*
956085 TTAAATAATATCTCAAAATA
1 TTAAA-AATAT-TTAAAATA
956105 CTATATTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.18
27 25 0.66
28 6 0.16
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (26 bp):
TTAAAAATATTTAAAATATAATAAAA
Found at i:957223 original size:20 final size:23
Alignment explanation
Indices: 957194--957245 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
957184 AATTAATATG
*
957194 AATATGATAT-TAAAA-AA-TTA
1 AATATTATATATAAAATAATTTA
957214 AATATTATATATAAAATAATTTA
1 AATATTATATATAAAATAATTTA
957237 AATATTATA
1 AATATTATA
957246 AAAATATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.32
21 5 0.18
22 2 0.07
23 12 0.43
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
AATATTATATATAAAATAATTTA
Found at i:958632 original size:2 final size:2
Alignment explanation
Indices: 958620--958660 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
958610 TGAAATTATT
*
958620 TA TA TA AA 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 TA TA TA TA T
958661 TGTGGCCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:958961 original size:24 final size:24
Alignment explanation
Indices: 958934--958981 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
958924 AATAAAATCG
958934 TAATTTAAAATAAAAAATTATTAA
1 TAATTTAAAATAAAAAATTATTAA
* * * *
958958 TAATTTGAATTATAAATTTATTAA
1 TAATTTAAAATAAAAAATTATTAA
958982 ATATTATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TAATTTAAAATAAAAAATTATTAA
Found at i:959757 original size:25 final size:25
Alignment explanation
Indices: 959706--959758 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
959696 ATGATATAAA
* * *
959706 AAATAATATAAATATTTTAAATTTT
1 AAATAAGATAAATATATTAAATATT
959731 AAATAAGATAAAT-TATTAATATATT
1 AAATAAGATAAATATATTAA-ATATT
959756 AAA
1 AAA
959759 ATTTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATAAGATAAATATATTAAATATT
Found at i:960618 original size:17 final size:18
Alignment explanation
Indices: 960596--960629 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
960586 CTTTAATAGA
*
960596 TATATTA-ATTTTTATTT
1 TATATTATATTTATATTT
960613 TATATTATATTTATATT
1 TATATTATATTTATATT
960630 AATTTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATTATATTTATATTT
Found at i:960627 original size:11 final size:11
Alignment explanation
Indices: 960607--960647 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
960597 ATATTAATTT
960607 TTAT-TTTATA
1 TTATATTTATA
960617 TTATATTTATA
1 TTATATTTATA
960628 TTA-ATTTAATA
1 TTATATTT-ATA
960639 TTATATTTA
1 TTATATTTA
960648 ATATCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.29
11 16 0.57
12 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATTTATA
Found at i:960888 original size:23 final size:23
Alignment explanation
Indices: 960817--960892 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 23
960807 ATTAAGTTAT
*
960817 TAAAATATAATTTTA-TATTAATA
1 TAAAATATATTTTTATTATTAA-A
*
960840 TACATATATATTTTTATTAAATTTAAA
1 TA-AAATATATTTTTATT--A-TTAAA
*
960867 TAAAATATTTTTTTATTATTAAA
1 TAAAATATATTTTTATTATTAAA
960890 TAA
1 TAA
960893 TAATTTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
23 10 0.23
24 12 0.27
25 1 0.02
26 13 0.30
27 4 0.09
28 4 0.09
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAATATATTTTTATTATTAAA
Found at i:961026 original size:412 final size:414
Alignment explanation
Indices: 960243--961067 Score: 1273
Period size: 412 Copynumber: 2.0 Consensus size: 414
960233 ATTTAGAAAA
*
960243 AAAAAAAAAAAAAATGGCAACCCAGTAATGCCCTACCTCACCTAACAGACGTCCCTCTTTCGTCC
1 AAAAAAAAAAAAAATGGCAACCCAGTAATGCCCTACCCCACCTAACAGACGTCCCTCTTTCGTCC
** * *
960308 TATCATTATCGGATCGAATAAAAAATAATTTAATTTTTTAATTATTTTTTTGAACTTAAATAGAT
66 TATCATTATAAGATCGAATAAAAAATAATTTAA-----TAATTATTTTTTTAAACATAAATAGAT
* * * * *
960373 TAATTTAAAAGTATATTTTATTTATTATGTTATTAAAATATTATTTTTTATTAATATTTATATAT
126 TAATTTAAAAGTATATTTTATCTATTAAGTTATTAAAATATAATTTTATATTAATATATATATAT
960438 TTTTATTAAATTTAAATAAAATATTATTTTATTATTAAATAATAATTTAAATATAATCAAATTAA
191 TTTTATTAAATTTAAATAAAATATTATTTTATTATTAAATAATAATTTAAATATAATCAAATTAA
* * *
960503 ATTTTAAAAAAATTATTTAAAATTTAATATTTAAATTTACGAACTAAACAAATAATTTTATTTTT
256 ATTTTAAAAAAATTATTTAAAATTTAATATTTAAATTTACGAACCAAACAAATAACTTTATCTTT
**
960568 AGATACATCTCTTCCTCTCTTTAATAGATATATTAATTTTTATTTTATATTATATTTATATTAAT
321 AGATACATCTCTTCCTCTCTTTAATAGATATATTAATTCGTATTTTATATTATATTTATATTAAT
960633 TTAATATTATATTTAATATCAAATTTAGT
386 TTAATATTATATTTAATATCAAATTTAGT
* ** *
960662 AAAAAAAAAAAAATTGGCAATGCAGTAATGCCCTACCCCACCTAACAGACGTCCCTCTTTTGTCC
1 AAAAAAAAAAAAAATGGCAACCCAGTAATGCCCTACCCCACCTAACAGACGTCCCTCTTTCGTCC
*
960727 TATCATTATAAGATTGAATAAAAAATAATTTAA-AA-T-TTTTTTTAAACATAAATAGATTAA-T
66 TATCATTATAAGATCGAATAAAAAATAATTTAATAATTATTTTTTTAAACATAAATAGATTAATT
960788 TAGAAAGTATATTTTATCTATTAAGTTATTAAAATATAATTTTATATTAATATACATATATATTT
131 TA-AAAGTATATTTTATCTATTAAGTTATTAAAATATAATTTTATATTAATAT--ATATATATTT
* *
960853 TTATTAAATTTAAATAAAATATTTTTTTATTATTAAATAATAATTTAAATTTAATCAAATTAAA-
193 TTATTAAATTTAAATAAAATATTATTTTATTATTAAATAATAATTTAAATATAATCAAATTAAAT
* * * * *
960917 TTTAAAAAAATTATTTAAAATTTAATATTTAAATTTATGAACCGAGCAAATAGCTTTGTCTTTAG
258 TTTAAAAAAATTATTTAAAATTTAATATTTAAATTTACGAACCAAACAAATAACTTTATCTTTAG
* * *
960982 ATAGATCTCTTTCTCTCTTTAATAGATATATTAATTCGTATTTTATATTATATTTATATTATTTT
323 ATACATCTCTTCCTCTCTTTAATAGATATATTAATTCGTATTTTATATTATATTTATATTAATTT
961047 AATATTATATTTAATATCAAA
388 AATATTATATTTAATATCAAA
961068 ATTATTATAT
Statistics
Matches: 373, Mismatches: 30, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
410 3 0.01
411 68 0.18
412 139 0.37
413 73 0.20
419 90 0.24
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (414 bp):
AAAAAAAAAAAAAATGGCAACCCAGTAATGCCCTACCCCACCTAACAGACGTCCCTCTTTCGTCC
TATCATTATAAGATCGAATAAAAAATAATTTAATAATTATTTTTTTAAACATAAATAGATTAATT
TAAAAGTATATTTTATCTATTAAGTTATTAAAATATAATTTTATATTAATATATATATATTTTTA
TTAAATTTAAATAAAATATTATTTTATTATTAAATAATAATTTAAATATAATCAAATTAAATTTT
AAAAAAATTATTTAAAATTTAATATTTAAATTTACGAACCAAACAAATAACTTTATCTTTAGATA
CATCTCTTCCTCTCTTTAATAGATATATTAATTCGTATTTTATATTATATTTATATTAATTTAAT
ATTATATTTAATATCAAATTTAGT
Found at i:961034 original size:22 final size:22
Alignment explanation
Indices: 961020--961063 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
961010 TATTAATTCG
*
961020 TATTTT-ATATTATATTTATAT
1 TATTTTAATATTATATTAATAT
961041 TATTTTAATATTATATTTAATAT
1 TATTTTAATATTATA-TTAATAT
961064 CAAAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTAATATTATATTAATAT
Found at i:961087 original size:18 final size:20
Alignment explanation
Indices: 961049--961094 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
961039 ATTATTTTAA
961049 TATTATATTTAATATCAAAAT
1 TATTATATTTAATAT-AAAAT
961070 TATTATATTT-ATAT-AAAT
1 TATTATATTTAATATAAAAT
961088 T-TTATAT
1 TATTATAT
961095 ATTTTAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
20 4 0.16
21 10 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATATTTAATATAAAAT
Found at i:961096 original size:40 final size:43
Alignment explanation
Indices: 961027--961119 Score: 106
Period size: 43 Copynumber: 2.2 Consensus size: 43
961017 TCGTATTTTA
* *
961027 TATTATATTTATATTATTTTAATATTATA-TTTAATATCA-AAAT
1 TATTATATTTATATAAATTT-ATATTATATTTTAAT-TCACAAAT
*
961070 TATTATATTTATATAAATTT-TA-TATATTTTAATTCACATAT
1 TATTATATTTATATAAATTTATATTATATTTTAATTCACAAAT
961111 T-TTATATTT
1 TATTATATTT
961120 TATTATGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
40 15 0.33
41 12 0.27
43 18 0.40
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (43 bp):
TATTATATTTATATAAATTTATATTATATTTTAATTCACAAAT
Found at i:962755 original size:21 final size:22
Alignment explanation
Indices: 962712--962765 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
962702 TTATGTTAAG
**
962712 TTAAAATTAAAATTTTA-AATT
1 TTAAAATTAAAATAATATAATT
**
962733 TTAAAATTAAAATAATATTTTT
1 TTAAAATTAAAATAATATAATT
*
962755 TTATAATTAAA
1 TTAAAATTAAA
962766 GTTATTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAAATTAAAATAATATAATT
Found at i:962821 original size:17 final size:17
Alignment explanation
Indices: 962787--962819 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
962777 TTAATCGATC
962787 ATTAAAATTAAAATTTT
1 ATTAAAATTAAAATTTT
962804 ATTAAAA-TAAAATTTT
1 ATTAAAATTAAAATTTT
962820 TAATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATTAAAATTTT
Found at i:963227 original size:11 final size:13
Alignment explanation
Indices: 963203--963242 Score: 59
Period size: 11 Copynumber: 3.3 Consensus size: 13
963193 GAAGTGTAAA
963203 ATATATTTTATTT
1 ATATATTTTATTT
963216 ATA-ATTTT-TTT
1 ATATATTTTATTT
963227 A-ATATTTTATTT
1 ATATATTTTATTT
963239 ATAT
1 ATAT
963243 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 9 0.38
12 9 0.38
13 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATATTTTATTT
Found at i:963750 original size:3 final size:3
Alignment explanation
Indices: 963744--963768 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
963734 AAAAAATTAA
963744 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
963769 GTGCAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:963901 original size:2 final size:2
Alignment explanation
Indices: 963894--963969 Score: 86
Period size: 2 Copynumber: 39.5 Consensus size: 2
963884 AAATCTTCTT
* *
963894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A GA TA TA TA TC T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
963934 TC T- TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
963970 CAAATAAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
1 3 0.05
2 62 0.95
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:964399 original size:25 final size:26
Alignment explanation
Indices: 964361--964416 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
964351 TCAATCACGT
* *
964361 TTAATTTTGAATTTTATTAAAAAATA
1 TTAAATTTGAATTTAATTAAAAAATA
*
964387 TTAAATTT-AATTTAATTAACAAATA
1 TTAAATTTGAATTTAATTAAAAAATA
964412 -TAAAT
1 TTAAAT
964417 AATTTAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 5 0.19
25 15 0.56
26 7 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TTAAATTTGAATTTAATTAAAAAATA
Found at i:964537 original size:25 final size:23
Alignment explanation
Indices: 964509--964563 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
964499 TATTTTTATT
*
964509 TTTAAATAATATCAAA-AATTAAAA
1 TTTAAATAACAT-AAATAA-TAAAA
964533 CTTTAACATAACATAAATAATAAAA
1 -TTTAA-ATAACATAAATAATAAAA
964558 TTTAAA
1 TTTAAA
964564 AATGATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
24 5 0.19
25 13 0.48
26 8 0.30
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (23 bp):
TTTAAATAACATAAATAATAAAA
Found at i:964943 original size:11 final size:11
Alignment explanation
Indices: 964927--964958 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
964917 TTATAAATTC
964927 ATATTATATTT
1 ATATTATATTT
964938 ATATTATATTT
1 ATATTATATTT
964949 ATATTATATT
1 ATATTATATT
964959 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATTATATTT
Found at i:964944 original size:5 final size:5
Alignment explanation
Indices: 964927--964961 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
964917 TTATAAATTC
964927 ATATT ATATTT ATATT ATATTT ATATT ATATT ATA
1 ATATT ATA-TT ATATT ATA-TT ATATT ATATT ATA
964962 ATTTAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:964955 original size:16 final size:17
Alignment explanation
Indices: 964930--964971 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
964920 TAAATTCATA
964930 TTATATTTATATTAT-AT
1 TTATA-TTATATTATAAT
964947 TTATATTATATTATAAT
1 TTATATTATATTATAAT
964964 TTA-ATTAT
1 TTATATTAT
964972 TTTTTACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATTATATTATAAT
Found at i:965109 original size:20 final size:19
Alignment explanation
Indices: 965086--965152 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
965076 TTTATTTTTA
965086 TTATAATTATATATAAAAT
1 TTATAATTATATATAAAAT
965105 ATTATATATT-TATAT-AAAT
1 -TTATA-ATTATATATAAAAT
965124 TT-TAA-TATAT-TAATAAT
1 TTATAATTATATATAA-AAT
965141 TTA-AATTATATA
1 TTATAATTATATA
965153 AATTTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
15 2 0.05
16 5 0.12
17 9 0.22
18 7 0.17
19 4 0.10
20 10 0.25
21 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATAATTATATATAAAAT
Found at i:965150 original size:32 final size:31
Alignment explanation
Indices: 965114--965179 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 31
965104 TATTATATAT
*
965114 TTATATAAATTTTAATATATTAATAATTTAAA
1 TTATATAAATTTTAAAATATTAAT-ATTTAAA
*
965146 TTATATAAATTTTAAAATATTTATATTTAAA
1 TTATATAAATTTTAAAATATTAATATTTAAA
965177 TTA
1 TTA
965180 AATTAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 10 0.31
32 22 0.69
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTATATAAATTTTAAAATATTAATATTTAAA
Found at i:965159 original size:16 final size:16
Alignment explanation
Indices: 965114--965179 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
965104 TATTATATAT
965114 TTATATAAATTTT-AA
1 TTATATAAATTTTAAA
*
965129 -TATATTAATAATTTAAA
1 TTATA-TAA-ATTTTAAA
965146 TTATATAAATTTTAAA
1 TTATATAAATTTTAAA
* * *
965162 ATATTTATA-TTTAAA
1 TTATATAAATTTTAAA
965177 TTA
1 TTA
965180 AATTAATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 4 0.10
15 11 0.27
16 17 0.41
17 5 0.12
18 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATATAAATTTTAAA
Found at i:966229 original size:49 final size:49
Alignment explanation
Indices: 966145--966263 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
966135 TAAATTTTTA
* * * *
966145 TTAATTA-AATAAAAT-TA--AACTTAACTTATCCTATCTTAAACTTGT
1 TTAATTAGAATAAAATCTATCAAATTAACATATCATATCTTAAACCTGT
966190 TTAATTAGAATAAAATCTATCAAATTAACATATCATATCTTAAACCTGT
1 TTAATTAGAATAAAATCTATCAAATTAACATATCATATCTTAAACCTGT
* *
966239 TTAA-TACGAACAAAATCCATCAAAT
1 TTAATTA-GAATAAAATCTATCAAAT
966264 CAAAGGGATA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
45 7 0.11
46 8 0.13
47 2 0.03
48 2 0.03
49 44 0.70
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.36
Consensus pattern (49 bp):
TTAATTAGAATAAAATCTATCAAATTAACATATCATATCTTAAACCTGT
Found at i:966824 original size:6 final size:6
Alignment explanation
Indices: 966815--966873 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
966805 TTTTATAATT
* *
966815 ATATAA ATATAA ATAT-A ATATAA ATATTAA ATAT-A TTA-AA ATTTTAA
1 ATATAA ATATAA ATATAA ATATAA ATA-TAA ATATAA ATATAA A-TATAA
966862 ATATAA ATATAA
1 ATATAA ATATAA
966874 TACATGCATT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 9 0.20
6 26 0.59
7 9 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAA
Found at i:966837 original size:17 final size:17
Alignment explanation
Indices: 966815--966873 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
966805 TTTTATAATT
966815 ATATAAATATAAATATA
1 ATATAAATATAAATATA
966832 ATATAAATATTAAATATA
1 ATATAAATA-TAAATATA
* *
966850 TTA-AAATTTTAAATATAA
1 ATATAAA-TATAAATAT-A
966868 ATATAA
1 ATATAA
966874 TACATGCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 19 0.54
18 14 0.40
19 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATAAATATAAATATA
Found at i:967477 original size:15 final size:16
Alignment explanation
Indices: 967457--967487 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
967447 ATTGTTCATG
967457 AATTAAATT-AGATCA
1 AATTAAATTAAGATCA
967472 AATTAAATTAAGATCA
1 AATTAAATTAAGATCA
967488 TCAAGCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (16 bp):
AATTAAATTAAGATCA
Found at i:967571 original size:22 final size:20
Alignment explanation
Indices: 967543--967582 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
967533 ATTAAAAAAT
967543 TATTTTTATATTAATATTTATG
1 TATTTTTA-ATTAA-ATTTATG
967565 TATTTTTAATTAAATTTA
1 TATTTTTAATTAAATTTA
967583 AGTAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTTTTAATTAAATTTATG
Found at i:968439 original size:14 final size:15
Alignment explanation
Indices: 968422--968450 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
968412 TATATTTTAA
968422 TAAA-TTTATATATT
1 TAAATTTTATATATT
968436 TAAATTTTATATATT
1 TAAATTTTATATATT
968451 ATATTATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAAATTTTATATATT
Found at i:968869 original size:24 final size:24
Alignment explanation
Indices: 968840--968892 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
968830 ATTTATGTTA
*
968840 AATTTAATTATATATTGATTTAAT
1 AATTTAATTATATATTAATTTAAT
* * * *
968864 AATTTATTTATTTTTTAATTTATT
1 AATTTAATTATATATTAATTTAAT
968888 AATTT
1 AATTT
968893 TTACATGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AATTTAATTATATATTAATTTAAT
Found at i:968871 original size:16 final size:16
Alignment explanation
Indices: 968840--968892 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
968830 ATTTATGTTA
* *
968840 AATTTAATTATATATT
1 AATTTAATAATTTATT
*
968856 GATTTAATAATTTATT
1 AATTTAATAATTTATT
* **
968872 TATTTTTTAATTTATT
1 AATTTAATAATTTATT
968888 AATTT
1 AATTT
968893 TTACATGTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
AATTTAATAATTTATT
Found at i:968893 original size:16 final size:16
Alignment explanation
Indices: 968863--968894 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
968853 ATTGATTTAA
*
968863 TAATTTATTTATTTTT
1 TAATTTATTAATTTTT
968879 TAATTTATTAATTTTT
1 TAATTTATTAATTTTT
968895 ACATGTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TAATTTATTAATTTTT
Found at i:968930 original size:17 final size:18
Alignment explanation
Indices: 968908--968941 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
968898 TGTGATATAA
968908 TATTTAATTT-AATTTTT
1 TATTTAATTTAAATTTTT
*
968925 TATTTATTTTAAATTTT
1 TATTTAATTTAAATTTT
968942 CTAGACTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTAATTTAAATTTTT
Found at i:969227 original size:19 final size:19
Alignment explanation
Indices: 969178--969231 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
969168 TAATATATAA
*
969178 TAAAAATATATAA-AATATTT
1 TAAAAATA-A-AATAATACTT
969198 TAAAAACTAAAATAATACTT
1 TAAAAA-TAAAATAATACTT
969218 TAAAAATAAAATAA
1 TAAAAATAAAATAA
969232 ACATTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 10 0.32
20 19 0.61
21 2 0.06
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAATAAAATAATACTT
Found at i:969238 original size:19 final size:20
Alignment explanation
Indices: 969191--969231 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
969181 AAATATATAA
*
969191 AATATTTTAAAAACTAAAAT
1 AATACTTTAAAAACTAAAAT
969211 AATACTTTAAAAA-TAAAAT
1 AATACTTTAAAAACTAAAAT
969230 AA
1 AA
969232 ACATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AATACTTTAAAAACTAAAAT
Found at i:969650 original size:21 final size:21
Alignment explanation
Indices: 969592--969661 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
969582 TTGTATGTTT
*
969592 AAATTTATTATTTATTTTATTAA
1 AAATTTATTATTT-TTATATT-A
969615 AAATATTATTTATTTTTATATTA
1 AAAT-TTA-TTATTTTTATATTA
*
969638 AAATTTATAATTTTTATAATTA
1 AAATTTATTATTTTTAT-ATTA
969660 AA
1 AA
969662 TTCAAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 9 0.21
22 9 0.21
23 9 0.21
24 9 0.21
25 6 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATTTATTATTTTTATATTA
Found at i:969702 original size:19 final size:21
Alignment explanation
Indices: 969668--969707 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
969658 TAAATTCAAA
*
969668 TAAAAATATATTATTTTAATT
1 TAAAAATATATTATTTAAATT
969689 TAAAAA-AT-TTATTTAAATT
1 TAAAAATATATTATTTAAATT
969708 AAATCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAAAATATATTATTTAAATT
Found at i:969709 original size:18 final size:21
Alignment explanation
Indices: 969668--969710 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 21
969658 TAAATTCAAA
*
969668 TAAAAATATATTATTTTAATT
1 TAAAAATATATTATTTTAAAT
969689 TAAAAA-AT-TTA-TTTAAAT
1 TAAAAATATATTATTTTAAAT
969707 TAAA
1 TAAA
969711 TCAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 2 0.10
21 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAAAATATATTATTTTAAAT
Found at i:969716 original size:10 final size:10
Alignment explanation
Indices: 969703--969773 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
969693 AAATTTATTT
*
969703 AAATTAAATC
1 AAATTAAATA
969713 AAATTAAATA
1 AAATTAAATA
*
969723 AAATAAAAATA
1 AAAT-TAAATA
*
969734 AAATTAATTA
1 AAATTAAATA
969744 ATAA-TAAATA
1 A-AATTAAATA
*
969754 TAATTATAATA
1 AAATTA-AATA
*
969765 TAA-TAAATA
1 AAATTAAATA
969774 TATATAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
9 6 0.12
10 27 0.53
11 18 0.35
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTAAATA
Found at i:969737 original size:21 final size:22
Alignment explanation
Indices: 969708--969771 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
969698 TATTTAAATT
*
969708 AAATCAAATTAAATAA-AATAA
1 AAATAAAATTAAATAATAATAA
*
969729 AAATAAAATTAATTAATAAT--
1 AAATAAAATTAAATAATAATAA
*
969749 AAATATAATTATAAT-ATAATAA
1 AAATAAAATTA-AATAATAATAA
969771 A
1 A
969772 TATATATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 15 0.43
21 16 0.46
22 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAAAATTAAATAATAATAA
Found at i:969757 original size:16 final size:15
Alignment explanation
Indices: 969734--969785 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
969724 AATAAAAATA
969734 AAAT-TAATTAATAAT
1 AAATATAATT-ATAAT
969749 AAATATAATTATAAT
1 AAATATAATTATAAT
969764 ATAATA-AA-TATATAT
1 A-AATATAATTATA-AT
969779 AAATATA
1 AAATATA
969786 CTATAAATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 8 0.24
15 16 0.48
16 9 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATAATTATAAT
Found at i:969758 original size:20 final size:19
Alignment explanation
Indices: 969723--969783 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
969713 AAATTAAATA
*
969723 AAATAA-AAATAAAATTAAT
1 AAATAATAAATATAATT-AT
*
969742 TAATAATAAATATAATTAT
1 AAATAATAAATATAATTAT
969761 AATATAATAAATAT-A-TAT
1 AA-ATAATAAATATAATTAT
969779 AAATA
1 AAATA
969784 TACTATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.08
18 5 0.14
19 9 0.24
20 20 0.54
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATAATAAATATAATTAT
Found at i:969778 original size:24 final size:23
Alignment explanation
Indices: 969719--969800 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
969709 AATCAAATTA
*
969719 AATAAAATAA-AAATA-AAAT-T
1 AATATAATAATAAATATAAATAT
*
969739 AAT-TAATAATAAATATAATTAT
1 AATATAATAATAAATATAAATAT
*
969761 AATATAATAAATATATATAAATAT
1 AATATAAT-AATAAATATAAATAT
*
969785 ACTATAAATACATAAA
1 AATAT-AATA-ATAAA
969801 AAATGTATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.10
20 8 0.16
21 3 0.06
22 4 0.08
23 4 0.08
24 18 0.37
25 7 0.14
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AATATAATAATAAATATAAATAT
Found at i:969792 original size:11 final size:10
Alignment explanation
Indices: 969747--969794 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
969737 TTAATTAATA
969747 ATAAATATA-
1 ATAAATATAT
969756 ATTATAATATA-
1 A-TA-AATATAT
969767 ATAAATATAT
1 ATAAATATAT
969777 ATAAATATACT
1 ATAAATATA-T
969788 ATAAATA
1 ATAAATA
969795 CATAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.20
10 13 0.37
11 15 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAAATATAT
Found at i:971769 original size:24 final size:25
Alignment explanation
Indices: 971730--971784 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
971720 TATAAATTAA
* *
971730 TATATTATTAATAAATTAAATAATT
1 TATATAATTAATAAATAAAATAATT
*
971755 TATATAATTAA-AAATAAAATTATT
1 TATATAATTAATAAATAAAATAATT
971779 TATATA
1 TATATA
971785 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TATATAATTAATAAATAAAATAATT
Found at i:972155 original size:11 final size:11
Alignment explanation
Indices: 972135--972273 Score: 57
Period size: 11 Copynumber: 13.4 Consensus size: 11
972125 TTTAATTATC
*
972135 TATTTGTATTA
1 TATTTATATTA
972146 TATTTATATTA
1 TATTTATATTA
972157 TATTT-TATT-
1 TATTTATATTA
*
972166 TA-AT-TATTA
1 TATTTATATTA
**
972175 T-TTTA-AAAA
1 TATTTATATTA
*
972184 TA-TTATATAA
1 TATTTATATTA
* *
972194 TAAGTT-TA-TG
1 T-ATTTATATTA
972204 TATTTATATTA
1 TATTTATATTA
972215 TATTTATA-TA
1 TATTTATATTA
* *
972225 TTTATTATTTTA
1 TAT-TTATATTA
972237 TATTT-TAATTA
1 TATTTAT-ATTA
* *
972248 TTTTTATGTTA
1 TATTTATATTA
* *
972259 TATTTTTATTG
1 TATTTATATTA
972270 TATT
1 TATT
972274 AGATTGAGTT
Statistics
Matches: 95, Mismatches: 20, Indels: 26
0.67 0.14 0.18
Matches are distributed among these distances:
8 5 0.05
9 13 0.14
10 16 0.17
11 54 0.57
12 7 0.07
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (11 bp):
TATTTATATTA
Found at i:972165 original size:16 final size:16
Alignment explanation
Indices: 972141--972179 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
972131 TATCTATTTG
*
972141 TATTATATTTATATTA-
1 TATTTTATTTA-ATTAT
972157 TATTTTATTTAATTAT
1 TATTTTATTTAATTAT
972173 TATTTTA
1 TATTTTA
972180 AAAATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTATTTAATTAT
Found at i:972176 original size:27 final size:27
Alignment explanation
Indices: 972142--972240 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
972132 ATCTATTTGT
*
972142 ATTA-TATTTATATTATATTTTATTTA
1 ATTATTATTTATATTATATTTTATATA
** *
972168 ATTATTATTT-TAAAAATATTATATAATA
1 ATTATTATTTAT-ATTATATTTTAT-ATA
972196 AGTTTATGTATTTATATTATA-TTTATATA
1 A--TTAT-TATTTATATTATATTTTATATA
*
972225 TTTATTATTTTATATT
1 ATTATTA-TTTATATT
972241 TTAATTATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
26 7 0.12
27 26 0.46
28 3 0.05
29 3 0.05
30 8 0.14
31 9 0.16
32 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTATTATTTATATTATATTTTATATA
Found at i:972237 original size:22 final size:22
Alignment explanation
Indices: 972206--972264 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
972196 AGTTTATGTA
972206 TTTATATTATA-TTT-ATATATT
1 TTTATATTATATTTTAAT-TATT
*
972227 TATTATTTTATATTTTAATTATT
1 T-TTATATTATATTTTAATTATT
*
972250 TTTATGTTATATTTT
1 TTTATATTATATTTT
972265 TATTGTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 1 0.03
22 22 0.67
23 8 0.24
24 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTATATTATATTTTAATTATT
Found at i:972238 original size:16 final size:15
Alignment explanation
Indices: 972204--972274 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 15
972194 TAAGTTTATG
972204 TATTTATATTATATTTA
1 TATTT-TATTAT-TTTA
972221 TATATTTATTATTTTA
1 TAT-TTTATTATTTTA
972237 TATTTTAATTATTTT-
1 TATTTT-ATTATTTTA
*
972252 TATGTTA-TATTTT-
1 TATTTTATTATTTTA
*
972265 TATTGTATTA
1 TATTTTATTA
972275 GATTGAGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
13 11 0.23
14 3 0.06
15 8 0.17
16 15 0.31
17 9 0.19
18 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTTTATTATTTTA
Found at i:973461 original size:4 final size:4
Alignment explanation
Indices: 973454--973490 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
973444 AGCCATGTAT
973454 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
973491 ACATCCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:974204 original size:2 final size:2
Alignment explanation
Indices: 974197--974229 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
974187 TATTTTCCTC
974197 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
974230 GCTTGTATAT
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:976018 original size:11 final size:10
Alignment explanation
Indices: 976002--976059 Score: 66
Period size: 11 Copynumber: 5.7 Consensus size: 10
975992 AAAAATTAGC
976002 ATATTTATTAT
1 ATATTTA-TAT
976013 ATATTTATAT
1 ATATTTATAT
*
976023 -TATTTTTAT
1 ATATTTATAT
976032 -TATATTATAT
1 ATAT-TTATAT
976042 ATATTTATAT
1 ATATTTATAT
976052 CATATTTA
1 -ATATTTA
976060 AAATTTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
9 11 0.26
10 14 0.33
11 17 0.40
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTATAT
Found at i:976035 original size:20 final size:21
Alignment explanation
Indices: 976002--976059 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
975992 AAAAATTAGC
976002 ATATTTATTA-TATATTTATAT
1 ATATTT-TTATTATATTTATAT
976023 -TATTTTTATTATA-TTATAT
1 ATATTTTTATTATATTTATAT
* *
976042 ATATTTATATCATATTTA
1 ATATTTTTATTATATTTA
976060 AAATTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 9 0.28
20 20 0.62
21 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTTTTATTATATTTATAT
Found at i:984502 original size:5 final size:5
Alignment explanation
Indices: 984488--984520 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
984478 AAAAACTTGA
*
984488 AAAAT AAAAT TAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
984521 GAATAGACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:989065 original size:21 final size:19
Alignment explanation
Indices: 989035--989074 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
989025 ATACGATATG
989035 AATATAATATTTAAAAAATAA
1 AATATAATA--TAAAAAATAA
*
989056 AATATGATATAAAAAATAA
1 AATATAATATAAAAAATAA
989075 TATAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AATATAATATAAAAAATAA
Found at i:989069 original size:12 final size:12
Alignment explanation
Indices: 989052--989156 Score: 54
Period size: 12 Copynumber: 8.3 Consensus size: 12
989042 TATTTAAAAA
*
989052 ATAAAATATGAT
1 ATAAAATATAAT
*
989064 ATAAAAAATAAT
1 ATAAAATATAAT
* *
989076 ATAAATTATGAT
1 ATAAAATATAAT
*
989088 ATGAATATATAAAT
1 AT-AAAATAT-AAT
989102 ATAAAAATATATAAT
1 AT--AAA-ATATAAT
*
989117 ATTTTAAATATAAT
1 A--TAAAATATAAT
*
989131 -TATAATAT-AT
1 ATAAAATATAAT
989141 A-AAAATATACAT
1 ATAAAATATA-AT
989153 ATAA
1 ATAA
989157 TATAATTACA
Statistics
Matches: 69, Mismatches: 14, Indels: 19
0.68 0.14 0.19
Matches are distributed among these distances:
10 8 0.12
11 6 0.09
12 24 0.35
13 7 0.10
14 11 0.16
15 8 0.12
16 4 0.06
17 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (12 bp):
ATAAAATATAAT
Found at i:989102 original size:8 final size:8
Alignment explanation
Indices: 989086--989155 Score: 52
Period size: 8 Copynumber: 8.4 Consensus size: 8
989076 ATAAATTATG
*
989086 ATATGAAT
1 ATATAAAT
989094 ATATAAAT
1 ATATAAAT
*
989102 ATAAAAAT
1 ATATAAAT
989110 ATAT-AAT
1 ATATAAAT
*
989117 ATTTTAAAT
1 A-TATAAAT
989126 ATAATTATAAT
1 AT-A-TA-AAT
*
989137 ATATAAAA
1 ATATAAAT
*
989145 ATATACAT
1 ATATAAAT
989153 ATA
1 ATA
989156 ATATAATTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
7 4 0.08
8 31 0.63
9 6 0.12
10 3 0.06
11 5 0.10
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
ATATAAAT
Found at i:989104 original size:38 final size:39
Alignment explanation
Indices: 989071--989159 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 39
989061 GATATAAAAA
*
989071 ATAATATAA-ATTAT-GATATGAATATATAA-ATAT-AAAA
1 ATAATATAATATTATAAATAT-AAT-TATAATATATAAAAA
*
989108 AT-ATATAATATTTTAAATATAATTATAATATATAAAAA
1 ATAATATAATATTATAAATATAATTATAATATATAAAAA
989146 TATACATATAATAT
1 -ATA-ATATAATAT
989160 AATTACATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
36 11 0.26
37 13 0.30
38 8 0.19
39 2 0.05
41 9 0.21
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (39 bp):
ATAATATAATATTATAAATATAATTATAATATATAAAAA
Found at i:989325 original size:6 final size:6
Alignment explanation
Indices: 989307--989400 Score: 79
Period size: 6 Copynumber: 15.3 Consensus size: 6
989297 TTAATAATTT
**
989307 TAAATA T-AATA TAAATA T-AATA TAAATATA TAAATA TAAAAATA TACTTA
1 TAAATA TAAATA TAAATA TAAATA T-AA-ATA TAAATA T--AAATA TAAATA
*
989357 TAAATA TAATTA T-AATA TAAATA TATAA-A TATAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TA-AATA TA-AATA TAAATA TA
989401 TAAATCATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
5 14 0.19
6 41 0.56
7 8 0.11
8 10 0.14
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (6 bp):
TAAATA
Found at i:989339 original size:8 final size:8
Alignment explanation
Indices: 989326--989405 Score: 63
Period size: 8 Copynumber: 9.0 Consensus size: 8
989316 TATAAATATA
989326 ATATAAAT
1 ATATAAAT
989334 ATATAAAT
1 ATATAAAT
*
989342 ATAAAAAT
1 ATATAAAT
989350 ATACTTATAA-
1 ATA--TA-AAT
989360 ATATAATTAT
1 ATATAA--AT
989370 AATATAAAT
1 -ATATAAAT
989379 ATATAAATAT
1 ATAT-AA-AT
989389 AATATAAAT
1 -ATATAAAT
989398 ATATAAAT
1 ATATAAAT
989406 CATAAAATTC
Statistics
Matches: 60, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
7 1 0.02
8 32 0.53
9 7 0.12
10 8 0.13
11 12 0.20
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:989434 original size:31 final size:31
Alignment explanation
Indices: 989396--989458 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
989386 TATAATATAA
* *
989396 ATATATAAATCAT-AAAATTCTATTATAAGTT
1 ATATATAAAT-ATAAAAATCCTATTACAAGTT
989427 ATATATAAATATAAAAATCCTATTACAAGTT
1 ATATATAAATATAAAAATCCTATTACAAGTT
989458 A
1 A
989459 CAAGTAGGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (31 bp):
ATATATAAATATAAAAATCCTATTACAAGTT
Found at i:990272 original size:18 final size:18
Alignment explanation
Indices: 990238--990289 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
990228 TTAGATTAAT
990238 TTAAA-AAA-ATTAAATA
1 TTAAATAAATATTAAATA
*
990254 TTAAATAAATATTATATA
1 TTAAATAAATATTAAATA
990272 TT-AATAAAATATTAAATA
1 TTAAAT-AAATATTAAATA
990290 AAATTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 5 0.16
17 6 0.19
18 20 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAATAAATATTAAATA
Found at i:990289 original size:29 final size:29
Alignment explanation
Indices: 990249--990311 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
990239 TAAAAAAATT
990249 AAATATTAAATAAATATTATATA-TTAATA
1 AAATATTAAATAAA-ATTATATATTTAATA
* *
990278 AAATATTAAATAAAATTATTTATTTAATT
1 AAATATTAAATAAAATTATATATTTAATA
990307 AAATA
1 AAATA
990312 ATATAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATATTAAATAAAATTATATATTTAATA
Found at i:990695 original size:21 final size:21
Alignment explanation
Indices: 990671--990737 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
990661 TAAATTGAGT
990671 AATATTAAATATAATTATATA
1 AATATTAAATATAATTATATA
* * *
990692 AATATTATATAAAAATAT-TA
1 AATATTAAATATAATTATATA
*
990712 AATATT-TATAT-ATTATA-A
1 AATATTAAATATAATTATATA
*
990730 ATTATTAA
1 AATATTAA
990738 CGTATTAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 10 0.27
19 4 0.11
20 8 0.22
21 15 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTAAATATAATTATATA
Found at i:992204 original size:6 final size:6
Alignment explanation
Indices: 992193--992226 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
992183 TCAAATTAGA
* *
992193 ATATGT ATATGT ATATGT ATATAT ATATAT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
992227 ATGAAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:992531 original size:16 final size:16
Alignment explanation
Indices: 992510--992543 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
992500 TCTAACAGCC
992510 AATTTGTTAATATATT
1 AATTTGTTAATATATT
992526 AATTTGTTAATATATT
1 AATTTGTTAATATATT
992542 AA
1 AA
992544 ATATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
AATTTGTTAATATATT
Found at i:992621 original size:2 final size:2
Alignment explanation
Indices: 992614--992647 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
992604 ATCGCTCTTT
*
992614 TA TA TA TA TA T- TA TA TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
992648 TTAGAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:994597 original size:18 final size:18
Alignment explanation
Indices: 994574--994608 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
994564 TAAAGATTAT
*
994574 ATAAATAAATTAATTAAA
1 ATAAATAAATAAATTAAA
*
994592 ATAAATACATAAATTAA
1 ATAAATAAATAAATTAA
994609 TAATTTTAAA
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:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATAAATAAATTAAA
Found at i:994955 original size:20 final size:20
Alignment explanation
Indices: 994930--994979 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
994920 ATGTAGGTAA
994930 ATTTATTTAAAGATTTAATG
1 ATTTATTTAAAGATTTAATG
* *
994950 ATTTATTCAAAGATTTAATT
1 ATTTATTTAAAGATTTAATG
994970 ATTTATTTAA
1 ATTTATTTAA
994980 TTTAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (20 bp):
ATTTATTTAAAGATTTAATG
Found at i:995120 original size:22 final size:23
Alignment explanation
Indices: 995070--995122 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
995060 TAATATATTT
995070 TTTTAAATTTAATTATAAAAATA
1 TTTTAAATTTAATTATAAAAATA
*
995093 TATT-AATATTAA-TAT-AAAATAA
1 TTTTAAAT-TTAATTATAAAAAT-A
995115 TTTTAAAT
1 TTTTAAAT
995123 AGTTATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 5 0.20
22 10 0.40
23 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTAAATTTAATTATAAAAATA
Found at i:996382 original size:21 final size:21
Alignment explanation
Indices: 996358--996397 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
996348 AAATATTATC
* *
996358 AAATTATTTTAATTTTTTAAA
1 AAATTATTTAAATTATTTAAA
*
996379 AAATTCTTTAAATTATTTA
1 AAATTATTTAAATTATTTA
996398 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTATTTAAATTATTTAAA
Found at i:996413 original size:30 final size:29
Alignment explanation
Indices: 996358--996417 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
996348 AAATATTATC
996358 AAATTATTTTAATTTTTTAAAAAATTCTTT
1 AAATTATTTTAATTTTTTAAAAAATT-TTT
996388 AAATTA-TTT-ATTTTTTAAAATAAATTTTT
1 AAATTATTTTAATTTTTT-AAA-AAATTTTT
996417 A
1 A
996418 TTTAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
AAATTATTTTAATTTTTTAAAAAATTTTT
Found at i:997815 original size:3 final size:3
Alignment explanation
Indices: 997809--997845 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
997799 AAAGATGATG
997809 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
997846 ACAACCAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1001689 original size:29 final size:30
Alignment explanation
Indices: 1001612--1001669 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1001602 AATTTTATGG
* *
1001612 ATATAAATTAAAGGTAAAAAATTTATTTAA
1 ATATAAATTAAAAGTTAAAAATTTATTTAA
*
1001642 ATATAAATTAAAAATTAAAAATTTATTT
1 ATATAAATTAAAAGTTAAAAATTTATTT
1001670 GAGTGTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (30 bp):
ATATAAATTAAAAGTTAAAAATTTATTTAA
Found at i:1001771 original size:31 final size:30
Alignment explanation
Indices: 1001720--1001781 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
1001710 TTAAGGGTTT
1001720 TTATTTTTTTAATTTAAAAATAATTA-AATAA
1 TTATTTTTTTAA-TTAAAAAT-ATTATAATAA
1001751 TTATTTTATTTAA-TACAAAATATTATAATAA
1 TTATTTT-TTTAATTA-AAAATATTATAATAA
1001782 ATAATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
30 6 0.21
31 17 0.61
32 5 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
TTATTTTTTTAATTAAAAATATTATAATAA
Found at i:1002174 original size:8 final size:8
Alignment explanation
Indices: 1002163--1002335 Score: 51
Period size: 8 Copynumber: 21.4 Consensus size: 8
1002153 CTAATTTTAA
*
1002163 ATATAATT
1 ATATAAAT
1002171 ATATAAAT
1 ATATAAAT
1002179 ATAATATAA-
1 AT-ATA-AAT
1002188 ATA-AAAT
1 ATATAAAT
*
1002195 AT-TATAT
1 ATATAAAT
*
1002202 ATATATAT
1 ATATAAAT
*
1002210 ATATATAT
1 ATATAAAT
1002218 GATATAATAT
1 -ATATAA-AT
*
1002228 AAATAAA-
1 ATATAAAT
* **
1002235 ATTTTTAT
1 ATATAAAT
* *
1002243 GATTTATAT
1 -ATATAAAT
1002252 AATATAAAT
1 -ATATAAAT
1002261 -TATTAACAT
1 ATA-TAA-AT
*
1002270 ATTAAAAAT
1 A-TATAAAT
1002279 ATATAAAT
1 ATATAAAT
1002287 -TATAAAAT
1 ATAT-AAAT
*
1002295 AATTTAAAT
1 -ATATAAAT
*
1002304 A-A-AATT
1 ATATAAAT
1002310 ATAATAAA-
1 AT-ATAAAT
1002318 ATA-AAAT
1 ATATAAAT
1002325 ATATAAAT
1 ATATAAAT
1002333 ATA
1 ATA
1002336 ATATTAAATA
Statistics
Matches: 126, Mismatches: 18, Indels: 42
0.68 0.10 0.23
Matches are distributed among these distances:
6 9 0.07
7 20 0.16
8 48 0.38
9 39 0.31
10 8 0.06
11 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:1002189 original size:25 final size:25
Alignment explanation
Indices: 1002160--1002346 Score: 73
Period size: 24 Copynumber: 7.8 Consensus size: 25
1002150 TTACTAATTT
1002160 TAAATATAATTATATAAATATAATA
1 TAAATATAATTATATAAATATAATA
* *
1002185 TAAATA-AAATAT-TATATAT-ATA
1 TAAATATAATTATATAAATATAATA
* *
1002207 TATATATATATGATAT-AATATAA-A
1 TAAATATA-ATTATATAAATATAATA
** **
1002231 TAAA-ATTTTTATGATTTATATAATA
1 TAAATATAATTAT-ATAAATATAATA
* *
1002256 TAAAT-T-ATTA-ACATAT-TAA-A
1 TAAATATAATTATATAAATATAATA
* *
1002276 -AATATATAAAT-TATAAA-ATAATT
1 TAA-ATATAATTATATAAATATAATA
* *
1002299 TAAATAAAATTATAATAAAATAAAATATA
1 TAAATATAATTAT-AT-AAAT-ATA-ATA
1002328 TAAATATAA-TAT-TAAATAT
1 TAAATATAATTATATAAATAT
1002347 TAAATTTATT
Statistics
Matches: 117, Mismatches: 24, Indels: 43
0.64 0.13 0.23
Matches are distributed among these distances:
19 2 0.02
20 3 0.03
21 4 0.03
22 23 0.20
23 17 0.15
24 29 0.25
25 20 0.17
26 4 0.03
28 5 0.04
29 10 0.09
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (25 bp):
TAAATATAATTATATAAATATAATA
Found at i:1002196 original size:16 final size:15
Alignment explanation
Indices: 1002160--1002234 Score: 68
Period size: 14 Copynumber: 5.3 Consensus size: 15
1002150 TTACTAATTT
*
1002160 TAAATATAAT-TATA
1 TAAATATAATATAAA
1002174 TAAATATAATATAAA
1 TAAATATAATATAAA
* *
1002189 TAAA-ATATTATATA
1 TAAATATAATATAAA
* *
1002203 TATATAT-ATATATA
1 TAAATATAATATAAA
*
1002217 T-GATATAATATAAA
1 TAAATATAATATAAA
1002231 TAAA
1 TAAA
1002235 ATTTTTATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
13 4 0.08
14 35 0.71
15 10 0.20
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (15 bp):
TAAATATAATATAAA
Found at i:1002204 original size:2 final size:2
Alignment explanation
Indices: 1002170--1002228 Score: 54
Period size: 2 Copynumber: 31.0 Consensus size: 2
1002160 TAAATATAAT
* * *
1002170 TA TA TA AA TA TA -A TA TA AA TA -A AA TA T- 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
1002209 TA TA TA TA TGA TA TA -A TA TA
1 TA TA TA TA T-A TA TA TA TA TA
1002229 AATAAAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
1 4 0.09
2 41 0.87
3 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1002227 original size:31 final size:29
Alignment explanation
Indices: 1002204--1002370 Score: 57
Period size: 29 Copynumber: 5.8 Consensus size: 29
1002194 TATTATATAT
*
1002204 ATATATATATATATGATATAATATAAATAAA
1 ATAT-TATATATA-AATATAATATAAATAAA
* ** *
1002235 AT-TTTTATGATTTATATAATATAAAT-TA
1 ATATTATAT-ATAAATATAATATAAATAAA
* ** *
1002263 TTAACATAT-TAAAAAT-ATATAAATTATAA
1 ATATTATATATAAATATAATATAAA-TA-AA
* *
1002292 A-A-TA-ATTTAAATAAAAT-TATAATAAA
1 ATATTATATATAAATATAATATA-AATAAA
**
1002318 ATAAAATATATAAATATAATATTAAATATTAA
1 ATATTATATATAAATATAATA-TAAATA--AA
*
1002350 AT-TTAT-TATAAATAAAATATA
1 ATATTATATATAAATATAATATA
1002371 TATTAATTAA
Statistics
Matches: 99, Mismatches: 22, Indels: 32
0.65 0.14 0.21
Matches are distributed among these distances:
26 12 0.12
27 16 0.16
28 8 0.08
29 34 0.34
30 19 0.19
31 6 0.06
32 4 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
ATATTATATATAAATATAATATAAATAAA
Found at i:1002229 original size:42 final size:41
Alignment explanation
Indices: 1002163--1002257 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 41
1002153 CTAATTTTAA
*
1002163 ATATAATTATATAAATATAATATAAATAAAATATTATAT-ATAT
1 ATATAA-TATAT-GATATAATATAAATAAAAT-TTATATGATAT
* *
1002206 ATATATATATATGATATAATATAAATAAAATTTTTATGATTT
1 ATATA-ATATATGATATAATATAAATAAAATTTATATGATAT
1002248 ATATAATATA
1 ATATAATATA
1002258 AATTATTAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 10 0.21
42 26 0.55
43 10 0.21
44 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (41 bp):
ATATAATATATGATATAATATAAATAAAATTTATATGATAT
Found at i:1002236 original size:5 final size:6
Alignment explanation
Indices: 1002160--1002370 Score: 65
Period size: 6 Copynumber: 35.3 Consensus size: 6
1002150 TTACTAATTT
* *
1002160 TAAATA TAATTATA TAAATA T-AATA TAAATA -AAATA T-TATA TATATA
1 TAAATA TAA--ATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
* * * ** **
1002207 TATATA TATATGA TATAATA TAAATA -AAATT TTTATGA TTTATA T-AATA
1 TAAATA TAAAT-A TA-AATA TAAATA TAAATA TAAAT-A TAAATA TAAATA
* *
1002256 TAAATTA TTAACATA TTAAA-A -ATATA TAAATTA TAAA-A T-AATT TAAATA
1 TAAA-TA -TAA-ATA -TAAATA TAAATA TAAA-TA TAAATA TAAATA TAAATA
*
1002305 -AAAT- TATAATA -AAATA AAATATA TAAATA T-AATA TTAAATA TTAAAT-
1 TAAATA TA-AATA TAAATA TAA-ATA TAAATA TAAATA -TAAATA -TAAATA
* *
1002352 TTATTA TAAATA -AAATA TA
1 TAAATA TAAATA TAAATA TA
1002371 TATTAATTAA
Statistics
Matches: 162, Mismatches: 16, Indels: 54
0.70 0.07 0.23
Matches are distributed among these distances:
4 4 0.02
5 47 0.29
6 58 0.36
7 35 0.22
8 17 0.10
9 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (6 bp):
TAAATA
Found at i:1002302 original size:17 final size:15
Alignment explanation
Indices: 1002270--1002332 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
1002260 TTATTAACAT
1002270 ATTAAAAATATATAA
1 ATTAAAAATATATAA
*
1002285 ATTATAAAATAATTTAA
1 ATTA-AAAAT-ATATAA
*
1002302 A-TAAAATTATAATAA
1 ATTAAAAATAT-ATAA
*
1002317 AAT-AAAATATATAA
1 ATTAAAAATATATAA
1002331 AT
1 AT
1002333 ATAATATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 7 0.18
15 18 0.46
16 8 0.21
17 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAAAAATATATAA
Found at i:1002350 original size:48 final size:46
Alignment explanation
Indices: 1002274--1002368 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 46
1002264 TAACATATTA
1002274 AAAATATATAAATTATAAAATAATTTAAATAAAATTAT-AATAAAAT
1 AAAATATATAAATTATAAAATAATTTAAAT-AAATTATAAATAAAAT
* **
1002320 AAAATATATAAA-TATAATATTAAATATTAAATTTATTATAAATAAAAT
1 AAAATATATAAATTATAA-AAT-AAT-TTAAATAAATTATAAATAAAAT
1002368 A
1 A
1002369 TATATTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 5 0.12
46 14 0.33
47 8 0.19
48 15 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (46 bp):
AAAATATATAAATTATAAAATAATTTAAATAAATTATAAATAAAAT
Found at i:1002359 original size:24 final size:23
Alignment explanation
Indices: 1002332--1002399 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
1002322 AATATATAAA
*
1002332 TATAATATTAAATATTAAATTTAT
1 TATAA-ATTAAATATTAAATTAAT
* *
1002356 TATAAATAAAATA-TATATTAAT
1 TATAAATTAAATATTAAATTAAT
1002378 TAATTAAATTAAATATTTAAAT
1 T-A-TAAATTAAATA-TTAAAT
1002400 ATAAAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 8 0.23
23 8 0.23
24 15 0.43
26 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATAAATTAAATATTAAATTAAT
Found at i:1002361 original size:18 final size:20
Alignment explanation
Indices: 1002182--1002402 Score: 71
Period size: 20 Copynumber: 11.2 Consensus size: 20
1002172 TATAAATATA
* *
1002182 ATATAAATAAAATATTATAT
1 ATATAAATATAATATTAAAT
* * *
1002202 ATATATATATATATATGATAT
1 ATATAAATATA-ATATTAAAT
* * *
1002223 AATATAAATAAAATTTTTATGAT
1 -ATATAAATATAA-TATTA-AAT
*
1002246 TTATATAATATAAATTATTAACAT
1 ATATA-AATAT-AA-TATTAA-AT
*
1002270 AT-TAAAAAT-ATA-TAAAT
1 ATATAAATATAATATTAAAT
1002287 -TATAAA-ATAAT-TTAAAT
1 ATATAAATATAATATTAAAT
* *
1002304 A-A-AATTATAATAAAATAAAAT
1 ATATAA--AT-ATAATATTAAAT
1002325 ATATAAATATAATATTAAAT
1 ATATAAATATAATATTAAAT
1002345 AT-TAAAT-T--TATTATAA-
1 ATATAAATATAATATTA-AAT
*
1002361 ATA-AAATAT-ATATTAATT
1 ATATAAATATAATATTAAAT
1002379 A-ATTAAAT-TAAATATTTAAAT
1 ATA-TAAATAT-AATA-TTAAAT
1002400 ATA
1 ATA
1002403 AAAAATTAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 56
0.67 0.09 0.25
Matches are distributed among these distances:
16 16 0.11
17 19 0.12
18 12 0.08
19 11 0.07
20 29 0.19
21 23 0.15
22 22 0.14
23 10 0.07
24 10 0.07
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
ATATAAATATAATATTAAAT
Found at i:1002366 original size:43 final size:39
Alignment explanation
Indices: 1002283--1002372 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 39
1002273 AAAAATATAT
1002283 AAAT-TATAAAATAATTTAAATAAAATTATAATAAAATA
1 AAATATATAAAATAATTTAAATAAAATTATAATAAAATA
*
1002321 AAATATATAAATATAATATTAAATATTAAATT-TATTATAAATA
1 AAATATATAAA-ATAAT-TTAAATA--AAATTATAATA-AAATA
1002364 AAATATATA
1 AAATATATA
1002373 TTAATTAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
38 4 0.09
39 6 0.13
40 5 0.11
41 7 0.16
42 4 0.09
43 19 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (39 bp):
AAATATATAAAATAATTTAAATAAAATTATAATAAAATA
Found at i:1002611 original size:22 final size:22
Alignment explanation
Indices: 1002583--1002630 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
1002573 ATTCGTCAAC
1002583 TTTAATAATACAAGACATTTAA
1 TTTAATAATACAAGACATTTAA
1002605 TTTAATAATACAAGACATTTAA
1 TTTAATAATACAAGACATTTAA
1002627 TTTA
1 TTTA
1002631 CACTCATCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (22 bp):
TTTAATAATACAAGACATTTAA
Found at i:1004810 original size:15 final size:14
Alignment explanation
Indices: 1004789--1004826 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
1004779 ATGTAATTAT
1004789 ATTATATTTATATA
1 ATTATATTTATATA
*
1004803 TTTTATATTT-TATA
1 -ATTATATTTATATA
1004817 ATTATATTTA
1 ATTATATTTA
1004827 AATTATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.40
14 4 0.20
15 8 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTATATTTATATA
Found at i:1005003 original size:20 final size:20
Alignment explanation
Indices: 1004978--1005156 Score: 57
Period size: 22 Copynumber: 8.6 Consensus size: 20
1004968 AATTTTGTAA
1004978 TTATATTATATTTATATATT
1 TTATATTATATTTATATATT
*
1004998 TTATATGTTATAATTATAT-TT
1 TTATA--TTATATTTATATATT
* *
1005019 AAATTATAATATAATTATATAAATT
1 ---TTATATTAT-ATT-TATATATT
* * **
1005044 TTA-ATTATTAATTATTTACA
1 TTATATTA-TATTTATATATT
* *
1005064 TTATATAAAATTTA-ATATAT
1 TTATATTATATTTATATAT-T
* *
1005084 TTATA-TAT-TTCGAT-TGTAT
1 TTATATTATATT-TATATAT-T
* *
1005103 TTATATTATTTTTATATTTT
1 TTATATTATATTTATATATT
1005123 ATTATATTATATATTAT-TATTAT
1 -TTATATTATAT-TTATATA-T-T
1005146 TTATATTATAT
1 TTATATTATAT
1005157 AATTATACTA
Statistics
Matches: 115, Mismatches: 24, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
18 2 0.02
19 13 0.11
20 27 0.23
21 25 0.22
22 34 0.30
23 3 0.03
24 9 0.08
25 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATATTATATTTATATATT
Found at i:1005055 original size:22 final size:21
Alignment explanation
Indices: 1005006--1005068 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
1004996 TTTTATATGT
1005006 TATAATTATATTTAAATTATAA
1 TATAATTATA-TTAAATTATAA
*
1005028 TATAATTATA-TAAATTTTAA
1 TATAATTATATTAAATTATAA
*
1005048 TTATTAATTAT-TTACATTATA
1 -TA-TAATTATATTAAATTATA
1005069 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 24 0.69
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TATAATTATATTAAATTATAA
Found at i:1005070 original size:31 final size:33
Alignment explanation
Indices: 1005032--1005093 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
1005022 TTATAATATA
*
1005032 ATTATATAAATTTTAAT-TATTAAT-TATTTAC
1 ATTATATAAAATTTAATATATTAATATATTTAC
*
1005063 ATTATATAAAATTTAATATATTTATATATTT
1 ATTATATAAAATTTAATATATTAATATATTT
1005094 CGATTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 16 0.59
32 6 0.22
33 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (33 bp):
ATTATATAAAATTTAATATATTAATATATTTAC
Found at i:1005076 original size:16 final size:15
Alignment explanation
Indices: 1005030--1005083 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
1005020 AATTATAATA
*
1005030 TAATTATATAAATTT
1 TAATTATATAAAATT
*
1005045 TAATTAT-TAATTATT
1 TAATTATATAA-AATT
1005060 TACATTATATAAAATT
1 TA-ATTATATAAAATT
1005076 TAA-TATAT
1 TAATTATAT
1005084 TTATATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 8 0.24
15 12 0.36
16 10 0.30
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTATATAAAATT
Found at i:1005112 original size:28 final size:27
Alignment explanation
Indices: 1005073--1005156 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 27
1005063 ATTATATAAA
*
1005073 ATTTA-ATATATTTATATATTTCGATTGT
1 ATTTATAT-TATTTATATATTT-GATTAT
* *
1005101 ATTTATATTATTTTTATATTTTATTAT
1 ATTTATATTATTTATATATTTGATTAT
*
1005128 ATTATATATTA-TTAT-TATTTATATTAT
1 ATT-TATATTATTTATATATTT-GATTAT
1005155 AT
1 AT
1005157 AATTATACTA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
26 5 0.10
27 18 0.37
28 24 0.49
29 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (27 bp):
ATTTATATTATTTATATATTTGATTAT
Found at i:1005120 original size:17 final size:16
Alignment explanation
Indices: 1005100--1005152 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 16
1005090 ATTTCGATTG
1005100 TATTTATATTATTTTTA
1 TATTT-TATTATTTTTA
*
1005117 TATTTTATTA-TATTA
1 TATTTTATTATTTTTA
*
1005132 TATATTATTATTATTTA
1 TATTTTATTATT-TTTA
1005149 TATT
1 TATT
1005153 ATATAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 13 0.43
16 6 0.20
17 11 0.37
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTATTATTTTTA
Found at i:1005171 original size:30 final size:30
Alignment explanation
Indices: 1005104--1005171 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
1005094 CGATTGTATT
*
1005104 TATATTATTTTTATATTTTATTATATTATA
1 TATATTATTTTTATATTATATTATATTATA
1005134 TATTATTATTATTTATATTATA-TA-ATTATA
1 TA-TATTATT-TTTATATTATATTATATTATA
1005164 CTATATTA
1 -TATATTA
1005172 CTTAATCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
30 13 0.38
31 11 0.32
32 10 0.29
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (30 bp):
TATATTATTTTTATATTATATTATATTATA
Found at i:1005448 original size:26 final size:25
Alignment explanation
Indices: 1005419--1005467 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1005409 AATTATTTAA
*
1005419 ATATTTAAATATATATTAAAATAATT
1 ATATTTAAATAT-TATAAAAATAATT
**
1005445 ATATTTTTATATTATAAAAATAA
1 ATATTTAAATATTATAAAAATAA
1005468 AAAATTTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTAAATATTATAAAAATAATT
Found at i:1005943 original size:17 final size:16
Alignment explanation
Indices: 1005921--1005981 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
1005911 ATTTTTATTG
1005921 AAATAAATTTTATTTTA
1 AAATAAATTTTA-TTTA
*
1005938 AAATAAAATTTAATTTA
1 AAAT-AAATTTTATTTA
*
1005955 AATTAATATTTTATTTA
1 AAATAA-ATTTTATTTA
1005972 AATATAAATT
1 AA-ATAAATT
1005982 AAAAGTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
16 2 0.05
17 25 0.68
18 10 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATAAATTTTATTTA
Found at i:1006633 original size:18 final size:18
Alignment explanation
Indices: 1006607--1006653 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1006597 ATTTATATAA
*
1006607 TATAAATTTTAAT-ATATT
1 TATATATTTTAATCATA-T
*
1006625 TATATATTTTTATCATAT
1 TATATATTTTAATCATAT
1006643 TATATTATTTT
1 TATA-TATTTT
1006654 TTATCCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTTTAATCATAT
Found at i:1015771 original size:42 final size:42
Alignment explanation
Indices: 1015712--1015798 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
1015702 CCCTAAAAAA
1015712 TTAGAACTAAAAATACTAAAAGAGAAATTGAATTATTTCACT
1 TTAGAACTAAAAATACTAAAAGAGAAATTGAATTATTTCACT
* *
1015754 TTAGAATTAAAAATACTAAAAGAGAAATTTAATTATTTCACT
1 TTAGAACTAAAAATACTAAAAGAGAAATTGAATTATTTCACT
1015796 TTA
1 TTA
1015799 AGTAAGTCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (42 bp):
TTAGAACTAAAAATACTAAAAGAGAAATTGAATTATTTCACT
Found at i:1017308 original size:23 final size:24
Alignment explanation
Indices: 1017282--1017355 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 24
1017272 ATGATTTAAT
1017282 TTGTTAATTATA-AAAATTAAATA
1 TTGTTAATTATATAAAATTAAATA
*
1017305 TTG-TAATT-TAATAAAATTAAACA
1 TTGTTAATTAT-ATAAAATTAAATA
*
1017328 TT-TATAATTTATATGAAATTAAATA
1 TTGT-TAA-TTATATAAAATTAAATA
1017353 TTG
1 TTG
1017356 ATGTTACTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
21 1 0.02
22 6 0.15
23 15 0.37
24 3 0.07
25 15 0.37
26 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (24 bp):
TTGTTAATTATATAAAATTAAATA
Found at i:1025342 original size:22 final size:21
Alignment explanation
Indices: 1025317--1025378 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
1025307 ATATAAAGAT
*
1025317 TAAATTTTAATTTATTTTTTAA
1 TAAATTTT-ATTAATTTTTTAA
*
1025339 TAAATTTTATTAATTTTTTTA
1 TAAATTTTATTAATTTTTTAA
**
1025360 TTCATTTT-TT-ATTTTTTAA
1 TAAATTTTATTAATTTTTTAA
1025379 AATATTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 8 0.23
20 2 0.06
21 17 0.49
22 8 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TAAATTTTATTAATTTTTTAA
Found at i:1025705 original size:30 final size:29
Alignment explanation
Indices: 1025643--1025707 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
1025633 GTCAAACTCT
* *
1025643 AATAAATTTAAAAAAAATTAATAAATAAA
1 AATAAATTTAAAAAAAATAAATAAACAAA
* * *
1025672 AATAAATATTGAAATAAATAAATAAACACA
1 AATAAAT-TTAAAAAAAATAAATAAACAAA
1025702 AATAAA
1 AATAAA
1025708 AATTTATTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.25
Consensus pattern (29 bp):
AATAAATTTAAAAAAAATAAATAAACAAA
Found at i:1026572 original size:22 final size:20
Alignment explanation
Indices: 1026544--1026610 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 20
1026534 TTTATTTATT
1026544 TTTTATACTAAGATATTATATA
1 TTTTATA-TAA-ATATTATATA
1026566 TTTTATATAAAT-TTA-ATA
1 TTTTATATAAATATTATATA
* *
1026584 TATTA-AT-AAT-TAATATA
1 TTTTATATAAATATTATATA
1026601 TTTTATATAA
1 TTTTATATAA
1026611 TTTTTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 5 0.13
17 9 0.23
18 9 0.23
19 4 0.10
20 2 0.05
21 3 0.08
22 7 0.18
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (20 bp):
TTTTATATAAATATTATATA
Found at i:1026887 original size:16 final size:17
Alignment explanation
Indices: 1026856--1026907 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
1026846 AAAAAATAAA
1026856 AAATATTT-TAA--ATT
1 AAATATTTATAATTATT
*
1026870 AAATATTTAT-ATTTTT
1 AAATATTTATAATTATT
*
1026886 AAATATTTTTAATTATT
1 AAATATTTATAATTATT
1026903 AAATA
1 AAATA
1026908 ATAATTCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 11 0.35
17 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATATTTATAATTATT
Found at i:1028049 original size:11 final size:11
Alignment explanation
Indices: 1028030--1028085 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
1028020 GATATTTATA
1028030 TATTAATATTT
1 TATTAATATTT
*
1028041 TATTCATATTT
1 TATTAATATTT
*
1028052 T-TTTATATTT
1 TATTAATATTT
1028062 ATATT-ATATTT
1 -TATTAATATTT
1028073 TATATAATATTT
1 TAT-TAATATTT
1028085 T
1 T
1028086 GATTTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 11 0.28
11 19 0.49
12 9 0.23
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTAATATTT
Found at i:1028065 original size:16 final size:18
Alignment explanation
Indices: 1028029--1028077 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
1028019 AGATATTTAT
1028029 ATATTA-ATATTT-TATTC
1 ATATTATAT-TTTATATTC
*
1028046 ATATT-T-TTTTATATTT
1 ATATTATATTTTATATTC
1028062 ATATTATATTTTATAT
1 ATATTATATTTTATAT
1028078 AATATTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 3 0.11
16 10 0.37
17 6 0.22
18 8 0.30
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
ATATTATATTTTATATTC
Found at i:1029737 original size:2 final size:2
Alignment explanation
Indices: 1029730--1029776 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1029720 TAATAGAAAA
1029730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1029772 AT AT A
1 AT AT A
1029777 AAGAAAGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1034563 original size:17 final size:16
Alignment explanation
Indices: 1034537--1034582 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
1034527 TGTATCGTAC
*
1034537 ATAATAAATATTATTAT
1 ATAATAAATATTA-TAA
*
1034554 ATAATTAATAATTATAA
1 ATAATAAAT-ATTATAA
1034571 ATAATAAATATT
1 ATAATAAATATT
1034583 GCAGGGTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 3 0.12
17 18 0.72
18 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAATAAATATTATAA
Found at i:1034812 original size:15 final size:16
Alignment explanation
Indices: 1034780--1034812 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1034770 ATGTAAACTC
1034780 TTGAATATCTATTTAT
1 TTGAATATCTATTTAT
*
1034796 TTGAATATGTA-TTAT
1 TTGAATATCTATTTAT
1034811 TT
1 TT
1034813 TTACAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (16 bp):
TTGAATATCTATTTAT
Found at i:1035142 original size:17 final size:19
Alignment explanation
Indices: 1035122--1035162 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1035112 TTAAATTTTA
*
1035122 AAATACTA-TACAA-ATAT
1 AAATACTATTAAAATATAT
*
1035139 AAATATTATTAAAATATAT
1 AAATACTATTAAAATATAT
1035158 AAATA
1 AAATA
1035163 TCTAATTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATACTATTAAAATATAT
Found at i:1037765 original size:3 final size:3
Alignment explanation
Indices: 1037757--1037797 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1037747 CTAATGCAAA
1037757 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1037798 AGAATAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1038642 original size:2 final size:2
Alignment explanation
Indices: 1038635--1038685 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1038625 TGCCTTTGAA
1038635 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1038677 AT AT AT AT A
1 AT AT AT AT A
1038686 AGAGTTAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1040436 original size:17 final size:16
Alignment explanation
Indices: 1040396--1040440 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
1040386 TTATTTTTAT
1040396 AATTAAATTTAAATAAA
1 AATT-AATTTAAATAAA
1040413 AATTAATATTAAATTAAA
1 AATTAAT-TTAAA-TAAA
1040431 AA-TAATTTAA
1 AATTAATTTAA
1040441 TAATTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.27
17 13 0.50
18 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAATTTAAATAAA
Found at i:1041769 original size:2 final size:2
Alignment explanation
Indices: 1041762--1041806 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1041752 CGGTAAAGTT
1041762 TC TC TC TC TC TC TC TC TC TC 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 TC TC TC TC
1041804 TC T
1 TC T
1041807 TATATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1041812 original size:2 final size:2
Alignment explanation
Indices: 1041807--1041834 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1041797 CTCTCTCTCT
1041807 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
1041835 GAACTTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.