Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
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: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 6 of 32
Found at i:959910 original size:25 final size:28
Alignment explanation
Indices: 959882--959932 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
959872 TTTACTTCAT
959882 TATTATATTTT-TT-TATT-TAATTAAA
1 TATTATATTTTATTATATTATAATTAAA
959907 TATTATATTTTATTATATTATAATTA
1 TATTATATTTTATTATATTATAATTA
959933 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
27 4 0.17
28 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TATTATATTTTATTATATTATAATTAAA
Found at i:959920 original size:22 final size:21
Alignment explanation
Indices: 959892--959937 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
959882 TATTATATTT
959892 TTTTATT-TAATTAAATATTATA
1 TTTTATTAT-ATTAAA-ATTATA
*
959914 TTTTATTATATTATAATTATA
1 TTTTATTATATTAAAATTATA
959935 TTT
1 TTT
959938 AAAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 12 0.55
23 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATTATATTAAAATTATA
Found at i:959983 original size:14 final size:14
Alignment explanation
Indices: 959941--960003 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
959931 TATATTTAAA
*
959941 ATATTTTATAA-TT
1 ATATTTAATAATTT
959954 ATA--TAAT-ATTT
1 ATATTTAATAATTT
959965 AATATTTAATAATTT
1 -ATATTTAATAATTT
*
959980 ATATTTAATTAAATAT
1 ATATTTAA-T-AATTT
959996 ATATTTAA
1 ATATTTAA
960004 CCATGTATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
10 1 0.02
11 5 0.12
12 3 0.07
13 3 0.07
14 12 0.29
15 5 0.12
16 12 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATATTTAATAATTT
Found at i:959991 original size:25 final size:24
Alignment explanation
Indices: 959908--959991 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 24
959898 TTAATTAAAT
*
959908 ATTATATTTTATT-ATA-TT-ATA
1 ATTATATTTAATTAATATTTAATA
*
959929 ATTATATTTAA--AATATTTTATA
1 ATTATATTTAATTAATATTTAATA
* *
959951 ATTATATAATATTTAATATTTAATA
1 ATTATAT-TTAATTAATATTTAATA
959976 ATTTATATTTAATTAA
1 A-TTATATTTAATTAA
959992 ATATATATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.06
21 12 0.24
22 10 0.20
23 2 0.04
25 17 0.34
26 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTATATTTAATTAATATTTAATA
Found at i:961335 original size:35 final size:35
Alignment explanation
Indices: 961240--961338 Score: 107
Period size: 33 Copynumber: 2.9 Consensus size: 35
961230 TTAGAAACGG
*
961240 AAAA-TTTT-AAATATAATTTCACAAATATATATAT
1 AAAATTTTTAAAATATAATTT-ATAAATATATATAT
** * *
961274 AAAATAATAAAAATAT-A-TTATAAATATATATTT
1 AAAATTTTTAAAATATAATTTATAAATATATATAT
*
961307 AAAATTTTTAAAATATAATTTATTAATATATA
1 AAAATTTTTAAAATATAATTTATAAATATATA
961339 AAATTTATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
33 25 0.48
34 7 0.13
35 14 0.27
36 6 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (35 bp):
AAAATTTTTAAAATATAATTTATAAATATATATAT
Found at i:961548 original size:30 final size:32
Alignment explanation
Indices: 961492--961560 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
961482 ATTTAAATTG
961492 ATTAAAAAAATTTATATCATTAAATATTAAAA
1 ATTAAAAAAATTTATATCATTAAATATTAAAA
* * * *
961524 ATTAAAAATATTTTTAT-ATT-AATATTTATA
1 ATTAAAAAAATTTATATCATTAAATATTAAAA
961554 ATTAAAA
1 ATTAAAA
961561 TTAAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 15 0.45
31 3 0.09
32 15 0.45
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
ATTAAAAAAATTTATATCATTAAATATTAAAA
Found at i:961592 original size:37 final size:37
Alignment explanation
Indices: 961521--961603 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
961511 TTAAATATTA
* * *
961521 AAAATTAAA-AATATTTTTATATTAATATTTATAATT
1 AAAATTAAATAATATTTTTATATAAATAATAATAATT
961557 AAAATTAAATAATATTTTTAT-TAAATAAATAATAATT
1 AAAATTAAATAATATTTTTATATAAAT-AATAATAATT
*
961594 TAAATTAAAT
1 AAAATTAAAT
961604 TAAATAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
36 13 0.32
37 28 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (37 bp):
AAAATTAAATAATATTTTTATATAAATAATAATAATT
Found at i:962807 original size:19 final size:19
Alignment explanation
Indices: 962763--962809 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
962753 AAATTATTTT
* *
962763 TATAATATATTTAAATTTAA
1 TATAATA-ATTAAAAATTAA
962783 TATAATAATTAAAAATTAA
1 TATAATAATTAAAAATTAA
*
962802 TTTAATAA
1 TATAATAA
962810 AATCTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TATAATAATTAAAAATTAA
Found at i:963071 original size:22 final size:22
Alignment explanation
Indices: 963017--963078 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
963007 AAATTATATG
*
963017 TTTATATTTAATTTTATATTATA
1 TTTATATTT-ATTTTATATAATA
*
963040 TTT-TAATTATTTT-TATAATA
1 TTTATATTTATTTTATATAATA
*
963060 TTTATAGTTTATTTAATAT
1 TTTATA-TTTATTTTATAT
963079 TATGGAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 9 0.28
21 7 0.22
22 10 0.31
23 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATATTTATTTTATATAATA
Found at i:966791 original size:2 final size:2
Alignment explanation
Indices: 966778--966811 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
966768 ACATCTACGC
*
966778 AT AT AA 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
966812 TTCATTGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:967026 original size:2 final size:2
Alignment explanation
Indices: 967019--967044 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
967009 ATCTAAGAAC
967019 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
967045 TTGCTACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:967166 original size:27 final size:28
Alignment explanation
Indices: 967135--967189 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
967125 TAAATATTAA
*
967135 TAAATAATTTTTATTTT-TA-TTATTTTT
1 TAAAT-ATTTATATTTTATATTTATTTTT
967162 TAAATATTTATATTTTATATTTATTTTT
1 TAAATATTTATATTTTATATTTATTTTT
967190 ATATTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
27 7 0.28
28 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
TAAATATTTATATTTTATATTTATTTTT
Found at i:967186 original size:11 final size:12
Alignment explanation
Indices: 967144--967194 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
967134 ATAAATAATT
967144 TTTATTTTTATTA
1 TTTATTTTTA-TA
**
967157 TTT-TTTAAATA
1 TTTATTTTTATA
967168 TTTATATTTTATA
1 TTTAT-TTTTATA
967181 TTTATTTTTATA
1 TTTATTTTTATA
967193 TT
1 TT
967195 CAAATATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 5 0.16
12 14 0.44
13 13 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTTTTATA
Found at i:973232 original size:22 final size:22
Alignment explanation
Indices: 973207--973262 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
973197 GCTGAATTTA
973207 AAATTTTTAAATTAAATTCGAG
1 AAATTTTTAAATTAAATTCGAG
*
973229 AAATTTTTAAATTAAATTTGAG
1 AAATTTTTAAATTAAATTCGAG
973251 AAATTTTTAAAT
1 AAATTTTTAAAT
973263 ACATATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (22 bp):
AAATTTTTAAATTAAATTCGAG
Found at i:973582 original size:19 final size:20
Alignment explanation
Indices: 973558--973599 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
973548 AAATTGGAGG
973558 AAAATAATA-ATTTTTAATT
1 AAAATAATATATTTTTAATT
*
973577 AAAATAATATATTTTTATTT
1 AAAATAATATATTTTTAATT
973597 AAA
1 AAA
973600 TTTAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAATAATATATTTTTAATT
Found at i:973626 original size:22 final size:21
Alignment explanation
Indices: 973596--973637 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
973586 TATTTTTATT
973596 TAAATTTAAT-TATAAAATATA
1 TAAATTTAATAT-TAAAATATA
973617 TAAATATTAATATTAAAATAT
1 TAAAT-TTAATATTAAAATAT
973638 TTTATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 13 0.68
23 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTAATATTAAAATATA
Found at i:975069 original size:16 final size:16
Alignment explanation
Indices: 975048--975103 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 16
975038 TATATATATA
975048 TAATTAAATTAATTTT
1 TAATTAAATTAATTTT
975064 TAATTAAATTAATTTAT
1 TAATTAAATTAATTT-T
* *
975081 CAATCAAATTTAATTTTT
1 TAATTAAA-TTAA-TTTT
975099 TAATT
1 TAATT
975104 CATATATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 15 0.45
17 7 0.21
18 8 0.24
19 3 0.09
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTAAATTAATTTT
Found at i:976842 original size:17 final size:17
Alignment explanation
Indices: 976820--976859 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
976810 ATTTTATATA
* *
976820 ATATAAAATTATTTAAT
1 ATATAAAAATATATAAT
*
976837 ATATAAAAATATATATT
1 ATATAAAAATATATAAT
976854 ATATAA
1 ATATAA
976860 TTAAAACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATAAAAATATATAAT
Found at i:976870 original size:20 final size:18
Alignment explanation
Indices: 976812--976873 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 18
976802 ATATATATAT
*
976812 TTTATATAATATAAAATTA
1 TTTATATAAT-TAAAAATA
*
976831 TTTA-ATATATAAAAATATA
1 TTTATATA-ATTAAAA-ATA
976850 TATTATATAATTAAAACATA
1 T-TTATATAATTAAAA-ATA
976870 TTTA
1 TTTA
976874 AATTTGAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 7 0.20
19 12 0.34
20 13 0.37
21 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTATATAATTAAAAATA
Found at i:979510 original size:23 final size:22
Alignment explanation
Indices: 979480--979545 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
979470 TTAATTAATG
* * *
979480 AATTTAATAAAAAAATTTATTTA
1 AATTTAATATAAAAATATA-CTA
979503 AATTTAATTATAAAAATATACTA
1 AATTTAA-TATAAAAATATACTA
979526 AATATTAATATAAAAATATA
1 AAT-TTAATATAAAAATATA
979546 ATTTTAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 24 0.63
24 14 0.37
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTAATATAAAAATATACTA
Found at i:979953 original size:5 final size:5
Alignment explanation
Indices: 979943--979968 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
979933 CTTAAGAGAC
979943 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
979969 CTTTATCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:980526 original size:14 final size:13
Alignment explanation
Indices: 980490--980517 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
980480 TCTCATAATT
980490 AATAATTATTAAA
1 AATAATTATTAAA
980503 AATAATTATTAAA
1 AATAATTATTAAA
980516 AA
1 AA
980518 ATGAATATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATAATTATTAAA
Found at i:980766 original size:2 final size:2
Alignment explanation
Indices: 980754--980791 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
980744 CTTACTCTAC
*
980754 AT AT CT 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
980792 TCAAATCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:982119 original size:19 final size:20
Alignment explanation
Indices: 982075--982120 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
982065 AATTCGGTTT
*
982075 AATTTATTATTTATTAATTA
1 AATTTAATATTTATTAATTA
*
982095 AA-TTAATATTT-TTATTTA
1 AATTTAATATTTATTAATTA
982113 AATTTAAT
1 AATTTAAT
982121 TTAAAGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 8 0.35
19 13 0.57
20 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTAATATTTATTAATTA
Found at i:982828 original size:18 final size:18
Alignment explanation
Indices: 982787--982828 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
982777 CGAATTAGAT
*
982787 TTGAGCAAAAATATTAAA
1 TTGAACAAAAATATTAAA
982805 TATGAACAAAAATA-TAATA
1 T-TGAACAAAAATATTAA-A
982824 TTGAA
1 TTGAA
982829 GCTTAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (18 bp):
TTGAACAAAAATATTAAA
Found at i:985964 original size:17 final size:17
Alignment explanation
Indices: 985944--986000 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
985934 TATATAAATA
985944 TTAAAATAAAAATAATT
1 TTAAAATAAAAATAATT
* **
985961 TTAATATATTAATATATT
1 TTAAAATAAAAATA-ATT
985979 TTACATAATAAAAAT-ATT
1 TTA-A-AATAAAAATAATT
985997 TTAA
1 TTAA
986001 GCCAATATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
17 12 0.39
18 12 0.39
19 1 0.03
20 6 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATAAAAATAATT
Found at i:985981 original size:18 final size:17
Alignment explanation
Indices: 985948--986000 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
985938 TAAATATTAA
985948 AATAA-AAATA-ATTTT
1 AATAATAAATATATTTT
*
985963 AATATATTAATATATTTT
1 AATA-ATAAATATATTTT
*
985981 ACATAATAAAAATATTTT
1 A-ATAATAAATATATTTT
985999 AA
1 AA
986001 GCCAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.13
16 1 0.03
17 5 0.16
18 18 0.58
19 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AATAATAAATATATTTT
Found at i:986556 original size:14 final size:14
Alignment explanation
Indices: 986537--986573 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
986527 TTATTTTTTA
*
986537 ATTATATAATATAT
1 ATTATATAATATAC
*
986551 ATTATATAATTTAC
1 ATTATATAATATAC
986565 ATTATATAA
1 ATTATATAA
986574 AAAATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATATAATATAC
Found at i:986600 original size:12 final size:12
Alignment explanation
Indices: 986535--986609 Score: 55
Period size: 14 Copynumber: 6.0 Consensus size: 12
986525 ATTTATTTTT
986535 TAATTATATAATA
1 TAATTA-ATAATA
*
986548 TATATTATATAATT
1 TA-ATTA-ATAATA
986562 TACATTATATAA-A
1 TA-ATTA-ATAATA
* *
986575 AAATAAATAATA
1 TAATTAATAATA
*
986587 TAATTAATATTA
1 TAATTAATAATA
986599 TAATT-ATAATA
1 TAATTAATAATA
986610 CTAAAAATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
11 9 0.18
12 18 0.35
13 3 0.06
14 21 0.41
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTAATAATA
Found at i:986707 original size:16 final size:16
Alignment explanation
Indices: 986688--986751 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
986678 AAAATATTTA
*
986688 TAAATATAAATTAACT
1 TAAATATAAATTAAAT
986704 TAAATA-AAATTTAAAT
1 TAAATATAAA-TTAAAT
986720 TAAAT-TAAATTTAAAT
1 TAAATATAAA-TTAAAT
*
986736 CAACATATAATATTAA
1 TAA-ATATAA-ATTAA
986752 TAAGTCCAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 3 0.07
16 28 0.68
17 2 0.05
18 7 0.17
19 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATATAAATTAAAT
Found at i:986713 original size:21 final size:21
Alignment explanation
Indices: 986653--986729 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
986643 CGTAATTAAA
*
986653 AAATTAAATT-ATTAAAA-AT
1 AAATTAAATTAAATAAAATAT
* **
986672 AAATTAAAAATATTTATAAATAT
1 AAATT-AAATTAAATA-AAATAT
* *
986695 AAATTAACTTAAATAAAATTT
1 AAATTAAATTAAATAAAATAT
986716 AAATTAAATTAAAT
1 AAATTAAATTAAAT
986730 TTAAATCAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.11
20 4 0.09
21 21 0.46
22 9 0.20
23 7 0.15
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTAAATTAAATAAAATAT
Found at i:986722 original size:5 final size:5
Alignment explanation
Indices: 986688--986735 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
986678 AAAATATTTA
* *
986688 TAAAT ATAAAT TAACT TAAAT AAAATT TAAAT TAAAT TAAATT TAAAT
1 TAAAT -TAAAT TAAAT TAAAT TAAA-T TAAAT TAAAT TAAA-T TAAAT
986736 CAACATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 22 0.61
6 14 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:988395 original size:2 final size:2
Alignment explanation
Indices: 988388--988412 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
988378 GTTGCCAAGG
988388 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
988413 GCTGCTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:988957 original size:16 final size:19
Alignment explanation
Indices: 988944--988983 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
988934 ATATAATTAT
988944 AATAT-ATAAAAATTAATA
1 AATATAATAAAAATTAATA
*
988962 AATATAATAAAAATAAATA
1 AATATAATAAAAATTAATA
988981 AAT
1 AAT
988984 TGTTCCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATATAATAAAAATTAATA
Found at i:988979 original size:23 final size:23
Alignment explanation
Indices: 988936--988979 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
988926 GTTCAAATAT
* *
988936 ATAATTATAATATATAAAAATTA
1 ATAAATATAATATAAAAAAATTA
988959 ATAAATATAATA-AAAATAAAT
1 ATAAATATAATATAAAA-AAAT
988980 AAATTGTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAAATATAATATAAAAAAATTA
Found at i:1001599 original size:19 final size:20
Alignment explanation
Indices: 1001563--1001600 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1001553 TTTTTTTAAT
* *
1001563 TTAATTTAAATTATTATTTA
1 TTAATTAAAAATATTATTTA
1001583 TTAATTAAAAATA-TATTT
1 TTAATTAAAAATATTATTT
1001601 TAATTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATTAAAAATATTATTTA
Found at i:1001699 original size:15 final size:16
Alignment explanation
Indices: 1001679--1001711 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
1001669 TATTTTAAAC
1001679 ATAAATTTAAA-TTAA
1 ATAAATTTAAATTTAA
1001694 ATAAATTTAAATTTAA
1 ATAAATTTAAATTTAA
1001710 AT
1 AT
1001712 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAATTTAAATTTAA
Found at i:1003445 original size:46 final size:47
Alignment explanation
Indices: 1003380--1003474 Score: 165
Period size: 46 Copynumber: 2.0 Consensus size: 47
1003370 GATTCTTAAA
*
1003380 AGAAAGAAAAAAAAGGAATTGAAGTTTGAGAAATACCATAGATGGAG
1 AGAAAGAAAAAAAAGGAATTGAAATTTGAGAAATACCATAGATGGAG
*
1003427 AGAAAG-AAAAAAAGGAATTGAAATTTGAGAAATACTATAGATGGAG
1 AGAAAGAAAAAAAAGGAATTGAAATTTGAGAAATACCATAGATGGAG
1003473 AG
1 AG
1003475 CGAATCGTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 40 0.87
47 6 0.13
ACGTcount: A:0.54, C:0.03, G:0.25, T:0.18
Consensus pattern (47 bp):
AGAAAGAAAAAAAAGGAATTGAAATTTGAGAAATACCATAGATGGAG
Found at i:1011886 original size:27 final size:27
Alignment explanation
Indices: 1011840--1011891 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1011830 TTAAAAAAAA
* * *
1011840 ATTTATAATTTAATATTTAATATTTAT
1 ATTTATAAATTAATAATTAAAATTTAT
*
1011867 ATTTATAAATTATTAATTAAAATTT
1 ATTTATAAATTAATAATTAAAATTT
1011892 TTAATTCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTATAAATTAATAATTAAAATTTAT
Found at i:1012790 original size:12 final size:13
Alignment explanation
Indices: 1012765--1012793 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1012755 AAAGCACTAT
1012765 AAATATATGAAAA
1 AAATATATGAAAA
1012778 AAATATA-GAAAA
1 AAATATATGAAAA
1012790 AAAT
1 AAAT
1012794 TGAATATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (13 bp):
AAATATATGAAAA
Found at i:1027673 original size:23 final size:25
Alignment explanation
Indices: 1027637--1027683 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
1027627 TTTGAGTATA
*
1027637 ACATTAAAAAAATAT-TATTATATG
1 ACATTAAAAAAATATATATAATATG
1027661 ACATT-AAAAAATATATATAATAT
1 ACATTAAAAAAATATATATAATAT
1027684 AAAATACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (25 bp):
ACATTAAAAAAATATATATAATATG
Found at i:1032661 original size:21 final size:21
Alignment explanation
Indices: 1032596--1032667 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
1032586 TCGATTAAAT
*
1032596 TATTTATTTATTTTATTTAAAAAA
1 TATTTATTTATTTTA--T-AATAA
* ** *
1032620 TATTT-TTAAAATTATATTAA
1 TATTTATTTATTTTATAATAA
1032640 TATTTATTTATTTTATAATAA
1 TATTTATTTATTTTATAATAA
1032661 TATTTAT
1 TATTTAT
1032668 ATAAAAATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
20 8 0.21
21 19 0.50
23 6 0.16
24 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTATTTATTTTATAATAA
Found at i:1032850 original size:17 final size:17
Alignment explanation
Indices: 1032821--1032876 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
1032811 AATATAAAAT
1032821 ATATATTT-A-TTTTAA
1 ATATATTTAATTTTTAA
1032836 ATATATTTAATTTTTAA
1 ATATATTTAATTTTTAA
* * *
1032853 AAAAATTTATATATTTAA
1 ATATATTTA-ATTTTTAA
1032871 A-ATATT
1 ATATATT
1032877 ATACTTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 8 0.24
16 1 0.03
17 17 0.50
18 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATTTAATTTTTAA
Found at i:1032991 original size:32 final size:34
Alignment explanation
Indices: 1032925--1032994 Score: 99
Period size: 32 Copynumber: 2.1 Consensus size: 34
1032915 CAAAACTCAA
*
1032925 TTATTTTTAAATATCTTCAAATTTTTATCAAAAT
1 TTATTTTTAAATATCTTAAAATTTTTATCAAAAT
* *
1032959 TTATTTTTTAA-AT-TTAAAATTTTTATCTAAAT
1 TTATTTTTAAATATCTTAAAATTTTTATCAAAAT
1032991 TTAT
1 TTAT
1032995 CTAAATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 21 0.64
33 2 0.06
34 10 0.30
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (34 bp):
TTATTTTTAAATATCTTAAAATTTTTATCAAAAT
Found at i:1033966 original size:9 final size:9
Alignment explanation
Indices: 1033954--1033991 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
1033944 TAACATTTAT
1033954 AATATATAA
1 AATATATAA
1033963 AATATATAA
1 AATATATAA
1033972 ATATCATATAA
1 A-AT-ATATAA
1033983 AATATATAA
1 AATATATAA
1033992 CTTTTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 16 0.59
10 4 0.15
11 7 0.26
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
AATATATAA
Found at i:1034204 original size:26 final size:26
Alignment explanation
Indices: 1034172--1034223 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
1034162 ATAAATAAAC
*
1034172 TAAAATTTATAT-AA-TATTATTATAT
1 TAAAAATTATATAAAGTA-TATTATAT
1034197 TAAAAATTATATAAAGTATATTATAT
1 TAAAAATTATATAAAGTATATTATAT
1034223 T
1 T
1034224 TTAATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 11 0.46
26 11 0.46
27 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAAAATTATATAAAGTATATTATAT
Found at i:1034437 original size:3 final size:3
Alignment explanation
Indices: 1034427--1034464 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
1034417 TAATAATATA
* *
1034427 ATT A-T ATT ATT ATT ATT ATT GTT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1034465 TGTATAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1034805 original size:13 final size:12
Alignment explanation
Indices: 1034779--1034803 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1034769 ATTTAAATAA
1034779 TAAAAATATTTT
1 TAAAAATATTTT
1034791 TAAAAATATTTT
1 TAAAAATATTTT
1034803 T
1 T
1034804 TATATATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAAATATTTT
Found at i:1035177 original size:19 final size:20
Alignment explanation
Indices: 1035149--1035210 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
1035139 TTAATATAAA
*
1035149 TTTTAATATATTCATA-CAT
1 TTTTATTATATTCATATCAT
* *
1035168 TTTTATTATATTCGTATTAT
1 TTTTATTATATTCATATCAT
1035188 TTTT-TTATATT-ATATCAT
1 TTTTATTATATTCATATCAT
1035206 ATTTT
1 -TTTT
1035211 TTTTTTTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.14
19 25 0.69
20 6 0.17
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATTATATTCATATCAT
Found at i:1035212 original size:22 final size:23
Alignment explanation
Indices: 1035167--1035217 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1035157 TATTCATACA
*
1035167 TTTTTATTATATTCGTATTATTT
1 TTTTTATTATATTCATATTATTT
*
1035190 TTTTATATTATA-TCATATTTTTT
1 TTTT-TATTATATTCATATTATTT
1035213 TTTTT
1 TTTTT
1035218 GTTTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 17 0.68
24 7 0.28
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTATTATATTCATATTATTT
Found at i:1036644 original size:14 final size:14
Alignment explanation
Indices: 1036625--1036671 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
1036615 ATATTTTATA
1036625 ATTATATAAATTTT
1 ATTATATAAATTTT
1036639 ATTATATTAATAATTTAT
1 ATTATA-T-A-AATTT-T
1036657 ATTATATAAATTTT
1 ATTATATAAATTTT
1036671 A
1 A
1036672 AAATATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 8 0.28
15 6 0.21
16 2 0.07
17 6 0.21
18 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATATAAATTTT
Found at i:1038813 original size:30 final size:30
Alignment explanation
Indices: 1038779--1038881 Score: 79
Period size: 30 Copynumber: 3.4 Consensus size: 30
1038769 CCTTTCAAAA
1038779 ATTTAATAAAAATATATTTATCTATTTAAT
1 ATTTAATAAAAATATATTTATCTATTTAAT
*
1038809 ATTT-A-AAAAAT-TATTTA-CTTACCTTTCAAAA
1 ATTTAATAAAAATATATTTATC-TA--TTT--AAT
* * * *
1038840 ATTTATTAAAAATACACTTATCTCTTTAAT
1 ATTTAATAAAAATATATTTATCTATTTAAT
*
1038870 ATTTAAAAAAAA
1 ATTTAATAAAAA
1038882 AAATCATTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
26 1 0.02
27 8 0.14
28 6 0.11
29 4 0.07
30 16 0.29
31 6 0.11
32 3 0.05
33 6 0.11
34 5 0.09
35 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.44
Consensus pattern (30 bp):
ATTTAATAAAAATATATTTATCTATTTAAT
Found at i:1038897 original size:32 final size:32
Alignment explanation
Indices: 1038847--1038934 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 32
1038837 AAAATTTATT
* *
1038847 AAAAATACACTTATCTCTTTAATA-TTTAAAAAA
1 AAAAAT-CATTTACCTCTTTAA-AGTTTAAAAAA
* *
1038880 AAAAATCATTTACCTC-TTAAAGTTTGATAAA
1 AAAAATCATTTACCTCTTTAAAGTTTAAAAAA
*
1038911 AAATAT-ATTTACCTC-TTAAAGTTT
1 AAAAATCATTTACCTCTTTAAAGTTT
1038935 TATTATTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
30 19 0.39
31 16 0.33
32 8 0.16
33 6 0.12
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (32 bp):
AAAAATCATTTACCTCTTTAAAGTTTAAAAAA
Found at i:1038921 original size:30 final size:31
Alignment explanation
Indices: 1038877--1038934 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
1038867 AATATTTAAA
1038877 AAAAAAAATCATTTACCTCTTAAAGTTTGAT
1 AAAAAAAATCATTTACCTCTTAAAGTTTGAT
*
1038908 AAAAAATAT-ATTTACCTCTTAAAGTTT
1 AAAAAAAATCATTTACCTCTTAAAGTTT
1038935 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (31 bp):
AAAAAAAATCATTTACCTCTTAAAGTTTGAT
Found at i:1038927 original size:62 final size:60
Alignment explanation
Indices: 1038766--1038927 Score: 157
Period size: 61 Copynumber: 2.6 Consensus size: 60
1038756 TAAAACACGT
* ** * *
1038766 TTACCTTTCAAAAATTTA-ATAAAAATATATTTATCTATTTAATATTTAAAAAATTATTTAC
1 TTACCTTT-AAAAATTTATA-AAAAATATATTTATCTCTTTAATATTTAAAAAAAAAATCAC
* * * *
1038827 TTACCTTTCAAAAATTTATTAAAAATACACTTATCTCTTTAATATTTAAAAAAAAAAATCAT
1 TTACCTTT-AAAAATTTATAAAAAATATATTTATCTCTTTAATATTT-AAAAAAAAAATCAC
* *
1038889 TTACCTCTT-AAAGTTTGATAAAAAATATATTTACCTCTT
1 TTACCT-TTAAAAATTT-ATAAAAAATATATTTATCTCTT
1038928 AAAGTTTTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
61 48 0.58
62 33 0.40
63 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (60 bp):
TTACCTTTAAAAATTTATAAAAAATATATTTATCTCTTTAATATTTAAAAAAAAAATCAC
Found at i:1039123 original size:37 final size:38
Alignment explanation
Indices: 1039081--1039162 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
1039071 TTACTATTAA
1039081 ATTAAATTATTATTAAA-ATATTTT-AATTCAAGTACAT
1 ATTAAATTATT-TTAAACATATTTTAAATTCAAGTACAT
* * * *
1039118 GTTAAA-AATTTTAAACTTATTTTAAATTCAATTACAT
1 ATTAAATTATTTTAAACATATTTTAAATTCAAGTACAT
1039155 ATTAAATT
1 ATTAAATT
1039163 GAAATGAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
35 5 0.14
36 9 0.25
37 22 0.61
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (38 bp):
ATTAAATTATTTTAAACATATTTTAAATTCAAGTACAT
Found at i:1039675 original size:20 final size:18
Alignment explanation
Indices: 1039627--1039687 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 18
1039617 ACTTGAACTC
*
1039627 TAAAAAAATATTTTATAG
1 TAAAAATATATTTTATAG
1039645 TAATTAAATATAATTTTATAG
1 TAA--AAATAT-ATTTTATAG
* *
1039666 TTAAAA-ATATTTT-GAG
1 TAAAAATATATTTTATAG
1039682 TAAAAA
1 TAAAAA
1039688 AATAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
16 7 0.19
17 5 0.14
18 5 0.14
19 3 0.08
20 5 0.14
21 11 0.31
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (18 bp):
TAAAAATATATTTTATAG
Found at i:1039886 original size:15 final size:16
Alignment explanation
Indices: 1039866--1039896 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1039856 AATCCAGATG
1039866 TAATTATAT-TTTTTC
1 TAATTATATATTTTTC
1039881 TAATTATATATTTTTC
1 TAATTATATATTTTTC
1039897 AATGAGAATT
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:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTATATATTTTTC
Found at i:1040332 original size:23 final size:22
Alignment explanation
Indices: 1040288--1040332 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1040278 GAATTAACTC
*
1040288 AAAAATTTATATTATTATTTAA
1 AAAAATTTAAATTATTATTTAA
1040310 AAAATATTTAAATT-TTATATTAA
1 AAAA-ATTTAAATTATTAT-TTAA
1040333 TATTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAAATTTAAATTATTATTTAA
Found at i:1041203 original size:24 final size:26
Alignment explanation
Indices: 1041162--1041216 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
1041152 TAAGTCAAAT
* *
1041162 TTAAATTTAAATTTTTTTTATGTTAA
1 TTAAATTTAAATTTTTTTAATATTAA
1041188 TTAAA-TT-AATTTTTTTAATATTAA
1 TTAAATTTAAATTTTTTTAATATTAA
1041212 TTAAA
1 TTAAA
1041217 AAACTCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 20 0.74
25 2 0.07
26 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TTAAATTTAAATTTTTTTAATATTAA
Found at i:1041294 original size:48 final size:47
Alignment explanation
Indices: 1041242--1041332 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 47
1041232 TAAAAATTAC
*
1041242 TTAAATTAAATATAATAAT-ATTTAAATTTAATTAAAAATTTTATTTAA
1 TTAAATTAAATATAATAATAATTT-AATTAAATT-AAAATTTTATTTAA
* *
1041290 TTAAATTAAATTTAATAATAATTTAATTAAATTCAAATTTTAT
1 TTAAATTAAATATAATAATAATTTAATTAAATTAAAATTTTAT
1041333 AAGTTTAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 9 0.23
48 26 0.67
49 4 0.10
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (47 bp):
TTAAATTAAATATAATAATAATTTAATTAAATTAAAATTTTATTTAA
Found at i:1041952 original size:2 final size:2
Alignment explanation
Indices: 1041945--1041977 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1041935 TGCTGTGAGT
1041945 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1041978 TTGGGTGTAA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1045001 original size:21 final size:21
Alignment explanation
Indices: 1044975--1045016 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1044965 GATGGATCCA
1044975 AATGAAATATATTATTTGAAT
1 AATGAAATATATTATTTGAAT
1044996 AATGAAATATATTATTTGAAT
1 AATGAAATATATTATTTGAAT
1045017 TCAAAGTGAA
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:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGAAATATATTATTTGAAT
Found at i:1045114 original size:13 final size:13
Alignment explanation
Indices: 1045096--1045120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1045086 ATATATTCAA
1045096 ATATTTATATTTT
1 ATATTTATATTTT
1045109 ATATTTATATTT
1 ATATTTATATTT
1045121 AAATATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTATATTTT
Found at i:1050766 original size:27 final size:25
Alignment explanation
Indices: 1050709--1050766 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
1050699 TTTTTTATTT
*
1050709 TATTTTAATTTTTAAAAAATATCTA
1 TATTTTAATTTTTAAAAAATATATA
*
1050734 TCTTTTAATTTATTAAAAAA-ATTAATA
1 TATTTTAATTT-TTAAAAAATA-T-ATA
1050761 TATTTT
1 TATTTT
1050767 TAAGTTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 11 0.41
26 9 0.33
27 7 0.26
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTTAATTTTTAAAAAATATATA
Found at i:1050949 original size:13 final size:14
Alignment explanation
Indices: 1050933--1050961 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1050923 ATAAAAAATA
1050933 TTTAAAAAT-ATTT
1 TTTAAAAATAATTT
1050946 TTTAAAAATAATTT
1 TTTAAAAATAATTT
1050960 TT
1 TT
1050962 CGTTGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAAAAATAATTT
Found at i:1054822 original size:40 final size:40
Alignment explanation
Indices: 1054770--1054847 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
1054760 CAGTGCCATG
1054770 CAAGAAAAGTTGCATATGATACAGAAACATAAGGAAATGC
1 CAAGAAAAGTTGCATATGATACAGAAACATAAGGAAATGC
1054810 CAAGAAAAGTTGCATATGATACAGAAACATAAGGAAAT
1 CAAGAAAAGTTGCATATGATACAGAAACATAAGGAAAT
1054848 ATGCACATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.18
Consensus pattern (40 bp):
CAAGAAAAGTTGCATATGATACAGAAACATAAGGAAATGC
Found at i:1054835 original size:20 final size:20
Alignment explanation
Indices: 1054772--1054836 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
1054762 GTGCCATGCA
1054772 AGAAAAGTTGCATATGATAC
1 AGAAAAGTTGCATATGATAC
* * * **
1054792 AGAAACA-TAAGGAAATGCCA-
1 AGAAA-AGT-TGCATATGATAC
1054812 AGAAAAGTTGCATATGATAC
1 AGAAAAGTTGCATATGATAC
1054832 AGAAA
1 AGAAA
1054837 CATAAGGAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
19 7 0.23
20 17 0.55
21 7 0.23
ACGTcount: A:0.51, C:0.11, G:0.20, T:0.18
Consensus pattern (20 bp):
AGAAAAGTTGCATATGATAC
Found at i:1060604 original size:16 final size:16
Alignment explanation
Indices: 1060561--1060614 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
1060551 CATTGCTCAG
1060561 TAATTTAAATTATAAAATAT
1 TAATTT-AATT-T-AAAT-T
*
1060581 TAAATTAATTTAAATT
1 TAATTTAATTTAAATT
*
1060597 TAATTTAATTTAATTT
1 TAATTTAATTTAAATT
1060613 TA
1 TA
1060615 TATAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 17 0.55
17 4 0.13
18 1 0.03
19 4 0.13
20 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTTAATTTAAATT
Found at i:1060673 original size:23 final size:24
Alignment explanation
Indices: 1060611--1060675 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
1060601 TTAATTTAAT
1060611 TTTATATAAAAATTAAA-TTATTTGA
1 TTTA-ATAAAAA-TAAATTTATTTGA
* ** *
1060636 TTTTATTGAATTAAATTTATTT-A
1 TTTAATAAAAATAAATTTATTTGA
1060659 TTTAATAAAAATAAATT
1 TTTAATAAAAATAAATT
1060676 AAATTATAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 18 0.58
24 10 0.32
25 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
TTTAATAAAAATAAATTTATTTGA
Found at i:1062001 original size:19 final size:21
Alignment explanation
Indices: 1061951--1062003 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
1061941 TTTTTATTTA
1061951 ATAAAAA-A-TTTAAAATATT
1 ATAAAAATATTTTAAAATATT
1061970 ATAAAAATATTTTAAAAT-TT
1 ATAAAAATATTTTAAAATATT
*
1061990 A-AAAAATCTTTTAA
1 ATAAAAATATTTTAA
1062004 TAAAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 19 0.61
20 4 0.13
21 8 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAAATATTTTAAAATATT
Found at i:1062676 original size:2 final size:2
Alignment explanation
Indices: 1062663--1062712 Score: 50
Period size: 2 Copynumber: 25.5 Consensus size: 2
1062653 ATTTAAAAAT
* *
1062663 TA TA TCA TA TA TA TA TA TA TA T- TA TA TT TA TA TA TA T- TA AA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1062704 TA TA AA TA T
1 TA TA TA TA T
1062713 TTAAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
1 2 0.05
2 35 0.90
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1062689 original size:17 final size:17
Alignment explanation
Indices: 1062663--1062712 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 17
1062653 ATTTAAAAAT
*
1062663 TATATCATATATATATA
1 TATATTATATATATATA
1062680 TATATTATAT-T-TATA
1 TATATTATATATATATA
* *
1062695 TATATTAAATATAAATA
1 TATATTATATATATATA
1062712 T
1 T
1062713 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 13 0.46
16 2 0.07
17 13 0.46
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATTATATATATATA
Found at i:1063486 original size:16 final size:16
Alignment explanation
Indices: 1063453--1063487 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1063443 TATATCAAAA
*
1063453 AAAATATATTAAATAT
1 AAAATATATTAAACAT
*
1063469 AAAATATATTGAACAT
1 AAAATATATTAAACAT
1063485 AAA
1 AAA
1063488 TATTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAATATATTAAACAT
Found at i:1064296 original size:28 final size:28
Alignment explanation
Indices: 1064237--1064316 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
1064227 TAAATAAAAT
* *
1064237 AAAAATATTAATTATTTATTTAATATTAA
1 AAAAATATTAATTATTAATAT-ATATTAA
1064266 AAAAAT-TTAATTATTAATATATATTACA
1 AAAAATATTAATTATTAATATATATTA-A
1064294 AAATAATATT-ATTAATTAATATA
1 AAA-AATATTAATT-ATTAATATA
1064317 ATAAAATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 6 0.13
28 16 0.36
29 12 0.27
30 11 0.24
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAAATATTAATTATTAATATATATTAA
Found at i:1064315 original size:26 final size:26
Alignment explanation
Indices: 1064275--1064324 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1064265 AAAAAATTTA
*
1064275 ATTATTAATATATATTACAAAATAAT
1 ATTATTAATATATATAACAAAATAAT
*
1064301 ATTATTAAT-TAATATAATAAAATA
1 ATTATTAATAT-ATATAACAAAATA
1064325 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTATTAATATATATAACAAAATAAT
Found at i:1064744 original size:5 final size:5
Alignment explanation
Indices: 1064723--1064766 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
1064713 TGCTATTTTT
* *
1064723 TTTAA TTTAA ATCAA TTTAA TTTAA TTTAA TTTATTA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA--A TTTAA TT
1064767 AATAATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 28 0.85
7 5 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TTTAA
Found at i:1071899 original size:10 final size:10
Alignment explanation
Indices: 1071879--1071907 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1071869 TTAATTATAA
1071879 ATTTTTT-AT
1 ATTTTTTAAT
1071888 ATTTTTTAAT
1 ATTTTTTAAT
1071898 ATTTTTTAAT
1 ATTTTTTAAT
1071908 GATAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:1075847 original size:18 final size:17
Alignment explanation
Indices: 1075808--1075849 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
1075798 ACTTTTATTA
*
1075808 AAAATATTAAAATCAAAT
1 AAAA-ATTAAAATAAAAT
1075826 -AAAATTACAAATAAAAT
1 AAAAATTA-AAATAAAAT
1075843 AAAAATT
1 AAAAATT
1075850 TTAATTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.19
17 11 0.52
18 6 0.29
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATTAAAATAAAAT
Found at i:1076192 original size:17 final size:15
Alignment explanation
Indices: 1076162--1076195 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
1076152 AAATTTTTTA
1076162 TTATTTTAATAAATT
1 TTATTTTAATAAATT
1076177 TTATTTATACATAAATT
1 TTATTT-TA-ATAAATT
1076194 TT
1 TT
1076196 TTATATTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 2 0.12
17 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTTTAATAAATT
Found at i:1076714 original size:21 final size:20
Alignment explanation
Indices: 1076661--1076714 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
1076651 TACCTTAATC
1076661 TAATTTAAATTATTATTTATT
1 TAATTTAAA-TATTATTTATT
* ** *
1076682 TGATAAAAATATTTTTTATT
1 TAATTTAAATATTATTTATT
1076702 TAAATTTAAATAT
1 T-AATTTAAATAT
1076715 AAAATATATT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TAATTTAAATATTATTTATT
Found at i:1076730 original size:15 final size:14
Alignment explanation
Indices: 1076710--1076756 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
1076700 TTTAAATTTA
1076710 AATATAAAATATATT
1 AATATAAAA-ATATT
1076725 AATATAAAAATATT
1 AATATAAAAATATT
* * *
1076739 -TTTTAAAAAAATT
1 AATATAAAAATATT
1076752 AATAT
1 AATAT
1076757 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 10 0.38
14 7 0.27
15 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:1076765 original size:17 final size:18
Alignment explanation
Indices: 1076733--1076771 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
1076723 TTAATATAAA
1076733 AATATTTTTTAAAAAAATT
1 AATATTTTTT-AAAAAATT
1076752 AATATTTTTT-AAAAATT
1 AATATTTTTTAAAAAATT
1076769 AAT
1 AAT
1076772 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTTTTAAAAAATT
Found at i:1083212 original size:15 final size:15
Alignment explanation
Indices: 1083176--1083208 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1083166 AGAAAGAAGG
*
1083176 GAAGAAGATGAAGAT
1 GAAGATGATGAAGAT
1083191 GAAGATGATGAAGA-
1 GAAGATGATGAAGAT
1083205 GAAG
1 GAAG
1083209 GATGTAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.52, C:0.00, G:0.36, T:0.12
Consensus pattern (15 bp):
GAAGATGATGAAGAT
Found at i:1083623 original size:21 final size:19
Alignment explanation
Indices: 1083581--1083624 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
1083571 AAATTTTTAA
1083581 TTAAAAAATAAATTAAAAT
1 TTAAAAAATAAATTAAAAT
* *
1083600 TTAAATAAATAGATTTAAAGT
1 TTAAA-AAATA-AATTAAAAT
1083621 TTAA
1 TTAA
1083625 TATTAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 5 0.24
21 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TTAAAAAATAAATTAAAAT
Found at i:1083662 original size:19 final size:20
Alignment explanation
Indices: 1083625--1083662 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1083615 TAAAGTTTAA
**
1083625 TATTAAAATAAATTTATTTT
1 TATTAAAATAAATAAATTTT
1083645 TATT-AAATAAATAAATTT
1 TATTAAAATAAATAAATTT
1083663 AAATAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTAAAATAAATAAATTTT
Found at i:1083935 original size:16 final size:16
Alignment explanation
Indices: 1083914--1083949 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1083904 TTTTATTTTG
1083914 ATATTAATATATATTA
1 ATATTAATATATATTA
*
1083930 ATATTAATATATTTTA
1 ATATTAATATATATTA
1083946 ATAT
1 ATAT
1083950 ATTATTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTAATATATATTA
Found at i:1083991 original size:20 final size:21
Alignment explanation
Indices: 1083921--1083991 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 21
1083911 TTGATATTAA
* *
1083921 TATATATTAATATTAATATATTT
1 TATATATT-AT-TTAAAATATAT
* *
1083944 TAATATATTATTTCAAATTTAT
1 T-ATATATTATTTAAAATATAT
*
1083966 TA-ATATTTTTTAAAATAT-T
1 TATATATTATTTAAAATATAT
1083985 TATATAT
1 TATATAT
1083992 ACATATAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 1 0.03
22 8 0.21
23 3 0.08
24 7 0.18
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATATTATTTAAAATATAT
Found at i:1084097 original size:15 final size:15
Alignment explanation
Indices: 1084077--1084133 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
1084067 AATAAAAATT
1084077 TTAAATTATAAATAA
1 TTAAATTATAAATAA
*
1084092 TTAAATCTA-AAATTA
1 TTAAAT-TATAAATAA
1084107 TT-AATTATCAAATAA
1 TTAAATTAT-AAATAA
* *
1084122 ATAAATTTTAAA
1 TTAAATTATAAA
1084134 ATATAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 22 0.65
16 7 0.21
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAATTATAAATAA
Found at i:1084155 original size:21 final size:21
Alignment explanation
Indices: 1084116--1084168 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
1084106 ATTAATTATC
**
1084116 AAATAAATAAATTTTAAAA-T
1 AAATAAATAAATTAAAAAACT
*
1084136 ATAATAAATTAATTAAAAAACT
1 A-AATAAATAAATTAAAAAACT
*
1084158 AAATAAGTAAA
1 AAATAAATAAA
1084169 AATAAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATAAATAAATTAAAAAACT
Found at i:1085407 original size:31 final size:32
Alignment explanation
Indices: 1085319--1085409 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 32
1085309 TCTCTGTTTA
*
1085319 TTTTATTATTTAAAATAATA-TTAAAAAATTAT
1 TTTTATTATTTAAAA-AATATTTAAATAATTAT
*
1085351 TTTTATATATTTATAATTAA-ATTTAAATAA-T-T
1 TTTTAT-TATTTA-AA-AAATATTTAAATAATTAT
1085383 TTTTATTATTTAAAAAATATTTTAAAT
1 TTTTATTATTTAAAAAATA-TTTAAAT
1085410 CGAATCAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
29 2 0.04
30 3 0.06
31 13 0.26
32 13 0.26
33 8 0.16
34 11 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TTTTATTATTTAAAAAATATTTAAATAATTAT
Found at i:1085713 original size:17 final size:17
Alignment explanation
Indices: 1085688--1085739 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
1085678 AGTATAAATC
* *
1085688 AATTAAATTAAATTTTA
1 AATTTAATTAAAATTTA
1085705 AATTTAATTAAAATTTA
1 AATTTAATTAAAATTTA
1085722 AA-TT-ATTAAAATTTA
1 AATTTAATTAAAATTTA
1085737 AAT
1 AAT
1085740 AAATAGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 13 0.41
16 2 0.06
17 17 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTAATTAAAATTTA
Found at i:1085749 original size:26 final size:25
Alignment explanation
Indices: 1085692--1085759 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 25
1085682 TAAATCAATT
*
1085692 AAAT-TAAATTTT-AAATTTAATTA
1 AAATGTAAATTTTAAAATTTAAATA
*
1085715 AAATTTAAATTATTAAAATTTAAAT-
1 AAATGTAAATT-TTAAAATTTAAATA
*
1085740 AAATAGTAAAATTTTTAAAT
1 AAAT-GT-AAATTTTAAAAT
1085760 AATTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.11
24 6 0.16
25 6 0.16
26 16 0.43
27 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
AAATGTAAATTTTAAAATTTAAATA
Found at i:1085835 original size:14 final size:15
Alignment explanation
Indices: 1085808--1085838 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1085798 TTATGAAAAA
1085808 AATAAAAATAATTAT
1 AATAAAAATAATTAT
1085823 AATAAAAAT-ATTAT
1 AATAAAAATAATTAT
1085837 AA
1 AA
1085839 ATTTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAAAATAATTAT
Found at i:1085838 original size:20 final size:20
Alignment explanation
Indices: 1085817--1085856 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1085807 AAATAAAAAT
*
1085817 AATTATAATAAAAATATTATA
1 AATT-TAATAAAAAAATTATA
*
1085838 AATTTATTAAAAAAATTAT
1 AATTTAATAAAAAAATTAT
1085857 GAAAAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTAATAAAAAAATTATA
Found at i:1085944 original size:16 final size:17
Alignment explanation
Indices: 1085925--1085960 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1085915 TATATTATAA
1085925 TTATATTTAAAAT-ATT
1 TTATATTTAAAATAATT
*
1085941 TTATATTTATAATAATT
1 TTATATTTAAAATAATT
1085958 TTA
1 TTA
1085961 AAGTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATTTAAAATAATT
Found at i:1085990 original size:32 final size:34
Alignment explanation
Indices: 1085940--1086016 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 34
1085930 TTTAAAATAT
*
1085940 TTTATATT-TATAATAATTTTAAAGTATTATTA-A
1 TTTATATTATATAATAATTTTAAAATATT-TTATA
1085973 TTTATATTATAT-A-AATTTTAAAATATTTTATA
1 TTTATATTATATAATAATTTTAAAATATTTTATA
1086005 TTTATATTATAT
1 TTTATATTATAT
1086017 TTTATATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
31 3 0.07
32 26 0.63
33 9 0.22
34 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (34 bp):
TTTATATTATATAATAATTTTAAAATATTTTATA
Found at i:1086031 original size:32 final size:30
Alignment explanation
Indices: 1085936--1086051 Score: 82
Period size: 32 Copynumber: 3.8 Consensus size: 30
1085926 TATATTTAAA
* *
1085936 ATATTTTATATTTATAATA-ATTTTAAAGT
1 ATATTTTATATTTATATTATATTTTAAATT
*
1085965 ATTATTAATT-TATATTATA-TAAATTTTAAA--
1 A-TATT--TTATAT-TTATATTATATTTTAAATT
1085995 ATATTTTATATTTATATTATATTTTATATATT
1 ATATTTTATATTTATATTATATTTTA-A-ATT
*
1086027 ATATTTTTTA-TTATTATTATTATTT
1 ATATTTTATATTTA-TATTA-TATTT
1086052 ACATTGTCTT
Statistics
Matches: 72, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
27 7 0.10
28 11 0.15
29 6 0.08
30 6 0.08
31 8 0.11
32 29 0.40
33 5 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
ATATTTTATATTTATATTATATTTTAAATT
Found at i:1086047 original size:16 final size:16
Alignment explanation
Indices: 1085996--1086052 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
1085986 AATTTTAAAA
*
1085996 TATTTTATATT-TATAT
1 TATTTTTTATTAT-TAT
*
1086012 TATATTTTATATATTA-
1 TATTTTTTAT-TATTAT
1086028 TATTTTTTATTATTAT
1 TATTTTTTATTATTAT
*
1086044 TATTATTTA
1 TATTTTTTA
1086053 CATTGTCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 5 0.15
16 25 0.74
17 3 0.09
18 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTTATTATTAT
Found at i:1086837 original size:17 final size:18
Alignment explanation
Indices: 1086812--1086849 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1086802 TTTTTTTTTT
*
1086812 TAATATTAATTATTTA-A
1 TAATATTAAATATTTATA
*
1086829 TAATCTTAAATATTTATA
1 TAATATTAAATATTTATA
1086847 TAA
1 TAA
1086850 ATATAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTAAATATTTATA
Found at i:1086886 original size:20 final size:20
Alignment explanation
Indices: 1086835--1086899 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
1086825 TTAATAATCT
*
1086835 TAAATATTTATATAAATATAA
1 TAAA-ATTTATATTAATATAA
*
1086856 TATAAA--T-TATTAATATAT
1 TA-AAATTTATATTAATATAA
1086874 TAAAATTTATATTAATATAA
1 TAAAATTTATATTAATATAA
1086894 TAAAAT
1 TAAAAT
1086900 AATAAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 3 0.08
18 11 0.30
19 2 0.05
20 16 0.43
21 3 0.08
22 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAATTTATATTAATATAA
Found at i:1086891 original size:38 final size:41
Alignment explanation
Indices: 1086812--1086899 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 41
1086802 TTTTTTTTTT
* *
1086812 TAATATTAATTATTTAATAATCTTAAATATTTATATAAATA
1 TAATATAAATTATTTAATAATATTAAATATTTATATAAATA
*
1086853 TAATATAAATTA-TTAAT-ATATTAAA-ATTTATATTAATA
1 TAATATAAATTATTTAATAATATTAAATATTTATATAAATA
1086891 TAATA-AAAT
1 TAATATAAAT
1086900 AATAAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 4 0.09
38 17 0.39
39 7 0.16
40 5 0.11
41 11 0.25
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (41 bp):
TAATATAAATTATTTAATAATATTAAATATTTATATAAATA
Found at i:1086909 original size:38 final size:39
Alignment explanation
Indices: 1086834--1086924 Score: 105
Period size: 38 Copynumber: 2.3 Consensus size: 39
1086824 TTTAATAATC
* *
1086834 TTAAATATTTATATAAATATAATATAAATTATTAATATA
1 TTAAATATTTATATAAATATAATATAAATAATAAATATA
*
1086873 TTAAA-ATTTATATTAATATAATA-AAATAATAAAATATA
1 TTAAATATTTATATAAATATAATATAAATAAT-AAATATA
*
1086911 CTTGAGATATTTAT
1 -TT-AAATATTTAT
1086925 TTACAGCTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
37 6 0.14
38 23 0.52
39 7 0.16
40 2 0.05
41 6 0.14
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (39 bp):
TTAAATATTTATATAAATATAATATAAATAATAAATATA
Found at i:1088237 original size:19 final size:21
Alignment explanation
Indices: 1088191--1088237 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
1088181 TTTATAAATT
*
1088191 AATATAAATTATAATATTTAA
1 AATATAAAATATAATATTTAA
*
1088212 TAT-TAAAAT-TAAT-TTTAA
1 AATATAAAATATAATATTTAA
1088230 AATATAAA
1 AATATAAA
1088238 CGATATGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 7 0.32
19 8 0.36
20 5 0.23
21 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATAAAATATAATATTTAA
Found at i:1088424 original size:16 final size:17
Alignment explanation
Indices: 1088375--1088428 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 17
1088365 TTTTATTTTG
1088375 TATAATATTTTATATGAAT
1 TATAATATTTTATA--AAT
* *
1088394 TATAAAATTTAATAAAT
1 TATAATATTTTATAAAT
1088411 TA-AATATTTTATAAAT
1 TATAATATTTTATAAAT
1088427 TA
1 TA
1088429 GCATGGATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 14 0.45
17 5 0.16
19 12 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TATAATATTTTATAAAT
Found at i:1088970 original size:23 final size:23
Alignment explanation
Indices: 1088943--1088999 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
1088933 TTTTTACTTG
1088943 ATTATTGAAAT-TTAAAATTTAAA
1 ATTATT-AAATATTAAAATTTAAA
**
1088966 ATTATTAAATATTAATCTTTAAAA
1 ATTATTAAATATTAAAATTT-AAA
*
1088990 ATAATTAAAT
1 ATTATTAAAT
1089000 TAAACTTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 13 0.45
24 12 0.41
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTATTAAATATTAAAATTTAAA
Found at i:1089381 original size:13 final size:13
Alignment explanation
Indices: 1089363--1089392 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1089353 ATTTAAATAT
1089363 ATATAAAATATAA
1 ATATAAAATATAA
1089376 ATATAAAATATAA
1 ATATAAAATATAA
1089389 ATAT
1 ATAT
1089393 TTTAAAAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATAAAATATAA
Found at i:1089405 original size:17 final size:17
Alignment explanation
Indices: 1089380--1089428 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
1089370 ATATAAATAT
1089380 AAAATATAAATATTTTA
1 AAAATATAAATATTTTA
* * *
1089397 AAAAAATAAAAAATTTA
1 AAAATATAAATATTTTA
1089414 AATAATATAAATATT
1 AA-AATATAAATATT
1089429 GAATAAGGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATATAAATATTTTA
Found at i:1089424 original size:26 final size:28
Alignment explanation
Indices: 1089353--1089427 Score: 82
Period size: 26 Copynumber: 2.7 Consensus size: 28
1089343 TTATATTTAT
*
1089353 ATTTAAATATATATAAAATATAAATATAAA
1 ATTTAAATA-ATAT-AAATATAAATAAAAA
* * *
1089383 ATATAAATATTTTAAA-A-AAATAAAAA
1 ATTTAAATAATATAAATATAAATAAAAA
1089409 ATTTAAATAATATAAATAT
1 ATTTAAATAATATAAATAT
1089428 TGAATAAGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
26 21 0.58
27 2 0.06
28 3 0.08
29 2 0.06
30 8 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
ATTTAAATAATATAAATATAAATAAAAA
Found at i:1090569 original size:16 final size:16
Alignment explanation
Indices: 1090550--1090582 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1090540 TAAATATTTT
1090550 TTAAAAAAATAAAAAA
1 TTAAAAAAATAAAAAA
*
1090566 TTAAAACAATAAAAAA
1 TTAAAAAAATAAAAAA
1090582 T
1 T
1090583 ATAATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
TTAAAAAAATAAAAAA
Found at i:1090829 original size:7 final size:7
Alignment explanation
Indices: 1090817--1090841 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1090807 ATATCAAAAG
1090817 GAAACTT
1 GAAACTT
1090824 GAAACTT
1 GAAACTT
1090831 GAAACTT
1 GAAACTT
1090838 GAAA
1 GAAA
1090842 GTGATAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (7 bp):
GAAACTT
Found at i:1093399 original size:31 final size:31
Alignment explanation
Indices: 1093364--1093468 Score: 92
Period size: 31 Copynumber: 3.4 Consensus size: 31
1093354 AATTATTATT
1093364 TTATAA-AAAATAATATTTTATTTAAATTTAA
1 TTATAATAAAATAATATTTTATTT-AATTTAA
* *
1093395 TTAT-A-AAAATAATTTTTTATTTTTAATATAA
1 TTATAATAAAATAATATTTTA--TTTAATTTAA
* *
1093426 TAAATAATAAAATAA-ATTTATAATTAATTTAA
1 T-TATAATAAAATAATATTT-TATTTAATTTAA
*
1093458 TTTTAATAAAA
1 TTATAATAAAA
1093469 ATTAAAATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
30 14 0.23
31 19 0.32
32 14 0.23
33 4 0.07
34 9 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TTATAATAAAATAATATTTTATTTAATTTAA
Found at i:1094258 original size:19 final size:19
Alignment explanation
Indices: 1094220--1094258 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1094210 ATAATTTGAT
**
1094220 ATTTTAAAATAAAATTTTA
1 ATTTTAAAATAAAAAATTA
*
1094239 ATTTTAAATTAAAAAATTA
1 ATTTTAAAATAAAAAATTA
1094258 A
1 A
1094259 GTTTGATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTAAAATAAAAAATTA
Found at i:1094322 original size:16 final size:15
Alignment explanation
Indices: 1094303--1094362 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 15
1094293 TTTATTATAA
1094303 TTATATTTAAAATATT
1 TTATATTTAAAA-ATT
1094319 TTATAATTTATAAAATT
1 TTAT-ATTTA-AAAATT
*
1094336 ATATATATATAAAAA-T
1 -T-TATATTTAAAAATT
*
1094352 TTATTTTTAAA
1 TTATATTTAAA
1094363 CATATATCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 8 0.22
15 1 0.03
16 5 0.14
17 12 0.32
18 8 0.22
19 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATATTTAAAAATT
Found at i:1095295 original size:2 final size:2
Alignment explanation
Indices: 1095288--1095323 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1095278 GATTTGAGTA
1095288 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
1095324 CTTAATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1095499 original size:20 final size:21
Alignment explanation
Indices: 1095448--1095501 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
1095438 TATTAAAGTT
* *
1095448 TATATAAT-ATTAATGATTAA
1 TATATAATAATTTATGATAAA
* *
1095468 TATGTAAAAATTTAT-ATAAA
1 TATATAATAATTTATGATAAA
1095488 TATATAATAATTTA
1 TATATAATAATTTA
1095502 AATACGATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
TATATAATAATTTATGATAAA
Found at i:1096307 original size:19 final size:19
Alignment explanation
Indices: 1096273--1096327 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1096263 AATATAAGAT
* *
1096273 ATAAAAATAAAGTAAATACG
1 ATAAAAATATA-TAAATACA
*
1096293 ATAAAAATATATAAATATA
1 ATAAAAATATATAAATACA
*
1096312 ATATAAATATATAAAT
1 ATAAAAATATATAAAT
1096328 TATTGATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAAAAATATATAAATACA
Found at i:1096714 original size:6 final size:5
Alignment explanation
Indices: 1096701--1096937 Score: 89
Period size: 5 Copynumber: 49.2 Consensus size: 5
1096691 ACGAATAATT
*
1096701 ATATA ATATGA ATA-A ATATA A-A-A ATAAA ATATA ATAT- ATATTAA
1 ATATA ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA ATA-T-A
* * * * * * *
1096745 AAATG ATATGA ATATA ATATA A-A-A ATAAA ATATG ATATA TATAAA AAATG
1 ATATA ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA -ATATA ATATA
* * * * *
1096795 ATATGA ATATA ATATA A-A-A ATAAA ATATG ATATA TATAAA AAATA ATAGAA
1 ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA -ATATA ATATA ATA-TA
* * * * *
1096846 ATATA ATATA A-A-A ATA-A ATAT- TTAAA ATTTT ATATA A-ATT ATA-A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1096890 ATATA ATTATA ATATA ATA-A AT-T- ATATAA ATATA ATATA A-AT- ATATA
1 ATATA A-TATA ATATA ATATA ATATA ATAT-A ATATA ATATA ATATA ATATA
1096937 A
1 A
1096938 CGTAGTTGAA
Statistics
Matches: 171, Mismatches: 33, Indels: 56
0.66 0.13 0.22
Matches are distributed among these distances:
3 11 0.06
4 35 0.20
5 89 0.52
6 34 0.20
7 2 0.01
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:1096764 original size:45 final size:45
Alignment explanation
Indices: 1096706--1096863 Score: 266
Period size: 45 Copynumber: 3.5 Consensus size: 45
1096696 TAATTATATA
* *
1096706 ATATGAATA-AATATAAAAATAAAATATAATATATATTAAAAATG
1 ATATGAATATAATATAAAAATAAAATATGATATATATAAAAAATG
1096750 ATATGAATATAATATAAAAATAAAATATGATATATATAAAAAATG
1 ATATGAATATAATATAAAAATAAAATATGATATATATAAAAAATG
*
1096795 ATATGAATATAATATAAAAATAAAATATGATATATATAAAAAATA
1 ATATGAATATAATATAAAAATAAAATATGATATATATAAAAAATG
1096840 ATA-GAAATATAATATAAAAATAAA
1 ATATG-AATATAATATAAAAATAAA
1096864 TATTTAAAAT
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
44 10 0.09
45 99 0.91
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (45 bp):
ATATGAATATAATATAAAAATAAAATATGATATATATAAAAAATG
Found at i:1096836 original size:23 final size:23
Alignment explanation
Indices: 1096705--1096863 Score: 172
Period size: 22 Copynumber: 7.0 Consensus size: 23
1096695 ATAATTATAT
*
1096705 AATATGAATAAATATAAAAATAA
1 AATATGAATATATATAAAAATAA
1096728 AATAT-AATATATATTAAAAAT--
1 AATATGAATATATA-TAAAAATAA
*
1096749 GATATGAATATAATATAAAAATAA
1 AATATGAATAT-ATATAAAAATAA
*
1096773 AATATG-ATATATATAAAAA-AT
1 AATATGAATATATATAAAAATAA
*
1096794 GATATGAATATAATATAAAAATAA
1 AATATGAATAT-ATATAAAAATAA
*
1096818 AATATG-ATATATATAAAAA-AT
1 AATATGAATATATATAAAAATAA
1096839 AATA-GAAATATAATATAAAAATAA
1 AATATG-AATAT-ATATAAAAATAA
1096863 A
1 A
1096864 TATTTAAAAT
Statistics
Matches: 115, Mismatches: 9, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
20 1 0.01
21 15 0.13
22 45 0.39
23 41 0.36
24 13 0.11
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (23 bp):
AATATGAATATATATAAAAATAA
Done.