Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 441 of 444
Found at i:127980896 original size:132 final size:132
Alignment explanation
Indices: 127980659--127980898 Score: 356
Period size: 132 Copynumber: 1.8 Consensus size: 132
127980649 TCTCGCTTTG
* * * * * *
127980659 GAAAACGTGAATGAAATTTCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTTCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* * *
127980724 GCACGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTCGTTTTAAAAGGTTTT
66 ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAGGTTTT
127980789 TA
131 TA
**
127980791 GAAAACATGAACGAAA-TTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCC
1 GAAAACATGAACGAAATTTC-AAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCC
*
127980855 AACACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
65 AACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
127980899 CGTCTCCGTT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
131 3 0.03
132 92 0.97
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (132 bp):
GAAAACATGAACGAAATTTCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAGGTTTT
TA
Found at i:127981209 original size:3 final size:3
Alignment explanation
Indices: 127981201--127981296 Score: 183
Period size: 3 Copynumber: 32.0 Consensus size: 3
127981191 ACAAACAATG
*
127981201 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
127981249 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
127981297 TAGAAATAAA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:127981627 original size:3 final size:3
Alignment explanation
Indices: 127981614--127981706 Score: 56
Period size: 3 Copynumber: 31.3 Consensus size: 3
127981604 GAGGGCATAT
127981614 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* * *
127981658 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATG ATA A-A ATA A-A ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
127981701 A-A ATA A
1 ATA ATA A
127981707 AACAAAGCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
2 13 0.18
3 47 0.66
4 9 0.13
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:127981706 original size:42 final size:41
Alignment explanation
Indices: 127981614--127981706 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 41
127981604 GAGGGCATAT
* * *
127981614 ATAATATAATAATATAAATAATAATATATACATGAGAAATA
1 ATAAAATAATAATATAAATAATAATATATAAATGAAAAATA
*
127981655 ATAATAATAATAATATAAATAATAGTA-A-AAATGATAAAATAAA
1 ATAA-AATAATAATATAAATAATAATATATAAATGA-AAAAT--A
127981698 ATAAAATAA
1 ATAAAATAA
127981707 AACAAAGCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
40 5 0.11
41 9 0.20
42 25 0.57
43 5 0.11
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (41 bp):
ATAAAATAATAATATAAATAATAATATATAAATGAAAAATA
Found at i:127982059 original size:25 final size:24
Alignment explanation
Indices: 127982017--127982118 Score: 115
Period size: 25 Copynumber: 4.3 Consensus size: 24
127982007 TAGCCTTTCC
*
127982017 AAAAC-AAAAACAACCCTCCTCCAA
1 AAAACAAAAAACAAACC-CCTCCAA
127982041 AAAACAAAAAACAAACCTCCTCCAA
1 AAAACAAAAAACAAACC-CCTCCAA
*
127982066 AAAACAAAAAA-ACA-CCCTCCAA
1 AAAACAAAAAACAAACCCCTCCAA
*
127982088 AAAACAAAAAAAAAAACCCC-CC-A
1 AAAAC-AAAAAACAAACCCCTCCAA
127982111 AAAACAAA
1 AAAACAAA
127982119 GTCTTGAATG
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.21
23 13 0.18
24 11 0.15
25 32 0.45
ACGTcount: A:0.64, C:0.31, G:0.00, T:0.05
Consensus pattern (24 bp):
AAAACAAAAAACAAACCCCTCCAA
Found at i:127982113 original size:22 final size:22
Alignment explanation
Indices: 127982041--127982118 Score: 61
Period size: 24 Copynumber: 3.4 Consensus size: 22
127982031 CCTCCTCCAA
*
127982041 AAAAC-AAAAAACAAACCTCCTCC
1 AAAACAAAAAAAAAAACC-CC-CC
* *
127982064 AAAA-AACAAAAAAACACCCTCCAA
1 AAAACAA-AAAAAAAAACCC-CC-C
127982088 AAAACAAAAAAAAAAACCCCCC
1 AAAACAAAAAAAAAAACCCCCC
127982110 AAAAACAAA
1 -AAAACAAA
127982119 GTCTTGAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
23 17 0.39
24 25 0.57
25 2 0.05
ACGTcount: A:0.67, C:0.29, G:0.00, T:0.04
Consensus pattern (22 bp):
AAAACAAAAAAAAAAACCCCCC
Found at i:127982944 original size:7 final size:7
Alignment explanation
Indices: 127982932--127982957 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
127982922 GATACCAACT
127982932 AATGTTC
1 AATGTTC
127982939 AATGTTC
1 AATGTTC
127982946 AATGTTC
1 AATGTTC
127982953 AATGT
1 AATGT
127982958 ACTTGATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (7 bp):
AATGTTC
Found at i:127998848 original size:9 final size:9
Alignment explanation
Indices: 127998830--127998868 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
127998820 TGTCAGTTTC
127998830 TTTT-CTTT
1 TTTTACTTT
127998838 TTTTACTTT
1 TTTTACTTT
*
127998847 TTTGACTTT
1 TTTTACTTT
*
127998856 TTTGACTTT
1 TTTTACTTT
127998865 TTTT
1 TTTT
127998869 TTATGTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.08, C:0.10, G:0.05, T:0.77
Consensus pattern (9 bp):
TTTTACTTT
Found at i:127998897 original size:4 final size:4
Alignment explanation
Indices: 127998888--127998918 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
127998878 GTCTTTTATG
127998888 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TT
127998919 ATTATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:127998952 original size:23 final size:22
Alignment explanation
Indices: 127998926--127999002 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 22
127998916 ATTATTATTA
127998926 ATTTTAAAAATTTTGAAATATAT
1 ATTTTAAAAATTTT-AAATATAT
* *
127998949 ATTTGAAATATTTTATTAATATATAT
1 ATTTTAAA-A-ATT-TTAA-ATATAT
**
127998975 ATTTTTCTAAATTTTAAATATAT
1 A-TTTTAAAAATTTTAAATATAT
127998998 ATTTT
1 ATTTT
127999003 GAAATTACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
22 4 0.09
23 14 0.33
24 5 0.12
25 6 0.14
26 10 0.23
27 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (22 bp):
ATTTTAAAAATTTTAAATATAT
Found at i:127999120 original size:21 final size:23
Alignment explanation
Indices: 127999095--127999154 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 23
127999085 GTTTTATAAT
127999095 ATTTTAAATATTATTTAATT-TG
1 ATTTTAAATATTATTTAATTATG
*
127999117 -TTTTATAATATT-TTAAATTATG
1 ATTTTA-AATATTATTTAATTATG
127999139 ATTTTAAA-A-TATTTAA
1 ATTTTAAATATTATTTAA
127999155 ATATTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 1 0.03
21 16 0.50
22 10 0.31
23 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (23 bp):
ATTTTAAATATTATTTAATTATG
Found at i:127999130 original size:10 final size:10
Alignment explanation
Indices: 127999086--127999169 Score: 50
Period size: 10 Copynumber: 8.2 Consensus size: 10
127999076 TTATTATTAG
127999086 TTTTATAATA
1 TTTTATAATA
127999096 TTTTA-AATA
1 TTTTATAATA
*
127999105 TTATT-TAATTTG
1 TT-TTATAA--TA
127999117 TTTTATAATA
1 TTTTATAATA
*
127999127 TTTTAAATTATGA
1 TTTT--ATAAT-A
*
127999140 TTTTAAAATA
1 TTTTATAATA
127999150 -TTTA-AATA
1 TTTTATAATA
*
127999158 TTTTATATTA
1 TTTTATAATA
127999168 TT
1 TT
127999170 AAAAAATATA
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.07
9 14 0.24
10 20 0.34
11 5 0.09
12 10 0.17
13 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTATAATA
Found at i:127999149 original size:23 final size:22
Alignment explanation
Indices: 127999095--127999156 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
127999085 GTTTTATAAT
*
127999095 ATTTT-AAATATTATTTAATTTG
1 ATTTTAAAATATT-TTAAATTTG
*
127999117 -TTTTATAATATTTTAAATTATG
1 ATTTTAAAATATTTTAAATT-TG
127999139 ATTTTAAAATA-TTTAAAT
1 ATTTTAAAATATTTTAAAT
127999157 ATTTTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 10 0.29
22 15 0.44
23 9 0.26
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (22 bp):
ATTTTAAAATATTTTAAATTTG
Found at i:127999198 original size:13 final size:13
Alignment explanation
Indices: 127999182--127999206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127999172 AAAATATATT
127999182 TAATATTTAAAAA
1 TAATATTTAAAAA
127999195 TAATATTTAAAA
1 TAATATTTAAAA
127999207 TTTAAAAAAG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:127999199 original size:22 final size:19
Alignment explanation
Indices: 127999153--127999215 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 19
127999143 TAAAATATTT
*
127999153 AAATATTTTATATTATTAAAA
1 AAATATTTAATA-T-TTAAAA
127999174 AATATATTTAATATTTAAAA
1 AA-ATATTTAATATTTAAAA
*
127999194 ATAATATTTAAAATTTAAAA
1 A-AATATTTAATATTTAAAA
127999214 AA
1 AA
127999216 GTAATTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.03
20 24 0.63
21 4 0.11
22 9 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATTTAATATTTAAAA
Found at i:127999220 original size:22 final size:21
Alignment explanation
Indices: 127999168--127999228 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
127999158 TTTTATATTA
*
127999168 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAATATTTAAAAT
127999188 TT-AAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
*
127999208 TTAAAAAAGTAAT-TTCAAAAT
1 TTAAAAAA-TAATATTTAAAAT
127999229 ATATATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 6 0.17
20 14 0.39
21 12 0.33
22 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:127999239 original size:34 final size:34
Alignment explanation
Indices: 127999186--127999250 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
127999176 TATATTTAAT
127999186 ATTTAAAAATAATATTTAAAATTTA-AAAAAGTA
1 ATTTAAAAATAATATTTAAAATTTAGAAAAAGTA
*
127999219 ATTTCAAAATATATATTTAAAATTTAGAAAAA
1 ATTTAAAAATA-ATATTTAAAATTTAGAAAAA
127999251 TATATATACT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 10 0.34
34 14 0.48
35 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (34 bp):
ATTTAAAAATAATATTTAAAATTTAGAAAAAGTA
Found at i:127999281 original size:13 final size:13
Alignment explanation
Indices: 127999265--127999290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
127999255 TATACTAATA
127999265 AAATATTTCAAAT
1 AAATATTTCAAAT
127999278 AAATATTTCAAAT
1 AAATATTTCAAAT
127999291 TTTTAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATATTTCAAAT
Found at i:127999350 original size:20 final size:20
Alignment explanation
Indices: 127999327--127999365 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
127999317 ATAAACATAA
*
127999327 ATAAAAATAAAAGACAAAAC
1 ATAAAAAAAAAAGACAAAAC
*
127999347 ATAAAAAAAAAAGTCAAAA
1 ATAAAAAAAAAAGACAAAA
127999366 AAATCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.08, G:0.05, T:0.10
Consensus pattern (20 bp):
ATAAAAAAAAAAGACAAAAC
Found at i:128001041 original size:89 final size:89
Alignment explanation
Indices: 128000890--128001067 Score: 329
Period size: 89 Copynumber: 2.0 Consensus size: 89
128000880 CTTTTAGGAG
* *
128000890 AAGTTTTCAAAGTGTTGTCTGATAGGTAGACAGTCGATCCCCCAACAACTTTAAAGTATTGTCCT
1 AAGTTTTCAAAGTGTTGTCTGATAGGTAGACAGTCGAACCCCCAACAACTTTAAAGTATTGTCCC
*
128000955 TATGTCGGGATTTTGTTTCTCTCC
66 TATGTCAGGATTTTGTTTCTCTCC
128000979 AAGTTTTCAAAGTGTTGTCTGATAGGTAGACAGTCGAACCCCCAACAACTTTAAAGTATTGTCCC
1 AAGTTTTCAAAGTGTTGTCTGATAGGTAGACAGTCGAACCCCCAACAACTTTAAAGTATTGTCCC
128001044 TATGTCAGGATTTTGTTTCTCTCC
66 TATGTCAGGATTTTGTTTCTCTCC
128001068 TCTGTCAAGA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (89 bp):
AAGTTTTCAAAGTGTTGTCTGATAGGTAGACAGTCGAACCCCCAACAACTTTAAAGTATTGTCCC
TATGTCAGGATTTTGTTTCTCTCC
Found at i:128016770 original size:31 final size:28
Alignment explanation
Indices: 128016735--128016791 Score: 87
Period size: 31 Copynumber: 1.9 Consensus size: 28
128016725 AGAATTAAAA
128016735 ATAAATTTTAATTTAATGTGTAATTTAATGT
1 ATAAATTTTAATTT-A-GTGT-ATTTAATGT
128016766 ATAAATTTTAATTTAGTGTATTTAAT
1 ATAAATTTTAATTTAGTGTATTTAAT
128016792 CTACAGGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 7 0.27
29 4 0.15
30 1 0.04
31 14 0.54
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.53
Consensus pattern (28 bp):
ATAAATTTTAATTTAGTGTATTTAATGT
Found at i:128025711 original size:55 final size:55
Alignment explanation
Indices: 128025630--128025742 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
128025620 GTTTGTATCA
128025630 TCATTTCTAGAGGTTCTGCTTTAACCTCCCTACTGCTAATCTGTATTCCTAGATT
1 TCATTTCTAGAGGTTCTGCTTTAACCTCCCTACTGCTAATCTGTATTCCTAGATT
128025685 TCATTTCTAGAGGTTCTGCTTTAACCTCCCTACTGCTAATCTGTATTCCTAGATT
1 TCATTTCTAGAGGTTCTGCTTTAACCTCCCTACTGCTAATCTGTATTCCTAGATT
128025740 TCA
1 TCA
128025743 AATGTGTTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (55 bp):
TCATTTCTAGAGGTTCTGCTTTAACCTCCCTACTGCTAATCTGTATTCCTAGATT
Found at i:128028643 original size:23 final size:23
Alignment explanation
Indices: 128028593--128028645 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
128028583 AATTTAGTTA
* *
128028593 TTAAATTATTTGAAAGTTTTTAT
1 TTAAGTTATTTAAAAGTTTTTAT
128028616 TTAAGTTATTTAAAAGTTTTTAT
1 TTAAGTTATTTAAAAGTTTTTAT
128028639 TTAAGTT
1 TTAAGTT
128028646 GTTGGTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (23 bp):
TTAAGTTATTTAAAAGTTTTTAT
Found at i:128029766 original size:13 final size:13
Alignment explanation
Indices: 128029748--128029795 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
128029738 TGGTTAAATT
128029748 ATATAAAAATTAA
1 ATATAAAAATTAA
128029761 ATATAAAAATTAA
1 ATATAAAAATTAA
* *
128029774 ATGAGAGAAATTAA
1 AT-ATAAAAATTAA
128029788 A-ATAAAAA
1 ATATAAAAA
128029796 CTTTACCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 5 0.17
13 15 0.50
14 10 0.33
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (13 bp):
ATATAAAAATTAA
Found at i:128032375 original size:104 final size:105
Alignment explanation
Indices: 128032250--128032780 Score: 598
Period size: 104 Copynumber: 5.1 Consensus size: 105
128032240 TTTTTTTTTT
* *
128032250 GTGCTGGCCTGTCAATTGCCGGCACCAAGTATAAAAAAAAATTC-AA-TTTTTTAAAAATTTTTT
1 GTGCTGGCCTGTCAATGGCCGGCACCCAGTA-AAAAAAAAATTCAAATTTTTTTAAAAATTTTTT
*
128032313 TTACTCTTCGAAAATACGAG-TTTAAAAAAAAAAATTTTTGA
65 TTACTCTCCGAAAATACGAGTTTTAAAAAAAAAAA-TTTTGA
128032354 GTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAAAAAAAATTTCAAATTTTTATTTAAAAATTT
1 GTGCTGGCCTGTCAATGGCCGGCACCCAGTA-AAAAAAAAA-TTCAAA-TTTT-TTTAAAAATTT
* *
128032419 TTTTTGCTCTCTGAAAATACGAGTTTTAAAAAAAAAAATTTTG-
62 TTTTTACTCTCCGAAAATACGAGTTTTAAAAAAAAAAATTTTGA
** * * * *
128032462 GTATTGGCCTGTCAATTGCCGGCACCCAGTACAAAAAAAATTCAAAATTTTTTT-CAATTTTTTT
1 GTGCTGGCCTGTCAATGGCCGGCACCCAGTAAAAAAAAAATTC-AAATTTTTTTAAAAATTTTTT
* *
128032526 TTACTCTCCGAAAGTACGAGTTTTAAAAAAAAAAA-TTTAA
65 TTACTCTCCGAAAATACGAGTTTTAAAAAAAAAAATTTTGA
** * * **
128032566 GTGCTGATCTGTCAATGGCTGGCACCCAGTACAAAAAAAA-TCAAATTTTTTTTCAAATTTTTTT
1 GTGCTGGCCTGTCAATGGCCGGCACCCAGTAAAAAAAAAATTCAAATTTTTTTAAAAATTTTTTT
* ***
128032630 TATTCTCCGAAAATACGAGTTTTTTTAAAAAAAATTTTGA
66 TACTCTCCGAAAATACGAGTTTTAAAAAAAAAAATTTTGA
* * * ****
128032670 ATGCTGGCCTGTCAATGGCCGGCACCC---AATAAAAAAATT-TAATTTTTTTAAAAAAAAATTT
1 GTGCTGGCCTGTCAATGGCCGGCACCCAGTAAAAAAAAAATTCAAATTTTTTTAAAAATTTTTTT
* * * * *
128032731 TGCTATCCGAAAATACAAGATTTTTAAAAAAAAAATTTTGG
66 TACTCTCCGAAAATACGAG-TTTTAAAAAAAAAAATTTTGA
128032772 GTGCTGGCC
1 GTGCTGGCC
128032781 AGTACAAAAA
Statistics
Matches: 365, Mismatches: 50, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
101 38 0.10
102 37 0.10
103 44 0.12
104 139 0.38
105 6 0.02
106 9 0.02
107 11 0.03
108 31 0.08
109 36 0.10
110 14 0.04
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (105 bp):
GTGCTGGCCTGTCAATGGCCGGCACCCAGTAAAAAAAAAATTCAAATTTTTTTAAAAATTTTTTT
TACTCTCCGAAAATACGAGTTTTAAAAAAAAAAATTTTGA
Found at i:128032629 original size:13 final size:12
Alignment explanation
Indices: 128032606--128032630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128032596 ACAAAAAAAA
128032606 TCAAATTTTTTT
1 TCAAATTTTTTT
128032618 TCAAATTTTTTT
1 TCAAATTTTTTT
128032630 T
1 T
128032631 ATTCTCCGAA
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TCAAATTTTTTT
Found at i:128032805 original size:90 final size:90
Alignment explanation
Indices: 128032700--128032869 Score: 270
Period size: 90 Copynumber: 1.9 Consensus size: 90
128032690 GGCACCCAAT
*
128032700 AAAAAAATTTAATTTTTTTAAAAAAAAATTTTGCTATCCGAAAATACAAGATTTTTAAAAAAAAA
1 AAAAAAATTGAATTTTTTTAAAAAAAAATTTTGCTATCCGAAAATACAAGATTTTTAAAAAAAAA
128032765 -ATTTTGGGTGCTGGCCAGTACAAA
66 TATTTTGGGTGCTGGCCAGTACAAA
* * * *
128032789 AAAAAAATTCGAATTTTTTTAAAAATAATTTTTGCTATCCGAAAATACGAGTTTTTTAAAAAAAA
1 AAAAAAATT-GAATTTTTTTAAAAAAAAATTTTGCTATCCGAAAATACAAGATTTTTAAAAAAAA
*
128032854 ATTTTTTGGGTGCTGG
65 ATATTTTGGGTGCTGG
128032870 TCTGTCAATG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 9 0.12
90 51 0.70
91 13 0.18
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (90 bp):
AAAAAAATTGAATTTTTTTAAAAAAAAATTTTGCTATCCGAAAATACAAGATTTTTAAAAAAAAA
TATTTTGGGTGCTGGCCAGTACAAA
Found at i:128034227 original size:26 final size:27
Alignment explanation
Indices: 128034176--128034227 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
128034166 TTGAAAAATT
*
128034176 AAAATATTAATAAAATCTAAACATATAA
1 AAAATATT-ATAAAATCTAAAAATATAA
128034204 AAAATATT-TAAAAT-TATAAAATAT
1 AAAATATTATAAAATCTA-AAAATAT
128034228 CTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 2 0.09
26 12 0.55
28 8 0.36
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAATATTATAAAATCTAAAAATATAA
Found at i:128035267 original size:57 final size:57
Alignment explanation
Indices: 128035152--128035267 Score: 124
Period size: 57 Copynumber: 2.0 Consensus size: 57
128035142 TCTATTCAAT
* * * * ** * * *
128035152 TTGGTACTTAAATTTTTTTGTTCAATTTGGTGCTTGAACTTGACACTTTTTCTTAAA
1 TTGGTACTTAAATTTTTTTGTCCAATTTAGTACCTGAACTTGACAAATGTTATAAAA
* **
128035209 TTGGTACTTAATTTTTTTTGTCCAATTTAGTACCTGAACTTGTTAAATGTTATAAAA
1 TTGGTACTTAAATTTTTTTGTCCAATTTAGTACCTGAACTTGACAAATGTTATAAAA
128035266 TT
1 TT
128035268 ACTCCAATAT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (57 bp):
TTGGTACTTAAATTTTTTTGTCCAATTTAGTACCTGAACTTGACAAATGTTATAAAA
Found at i:128054225 original size:21 final size:21
Alignment explanation
Indices: 128054199--128054239 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
128054189 ATCTGCTCAA
* *
128054199 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
128054220 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
128054240 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:128059201 original size:17 final size:17
Alignment explanation
Indices: 128059179--128059215 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
128059169 CGGAAAAGAT
128059179 GTATTGATCCGAGTATC
1 GTATTGATCCGAGTATC
128059196 GTATTGATCCGAGTATC
1 GTATTGATCCGAGTATC
128059213 GTA
1 GTA
128059216 GGAGACACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (17 bp):
GTATTGATCCGAGTATC
Found at i:128060198 original size:31 final size:31
Alignment explanation
Indices: 128060158--128060217 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
128060148 GTTTAGGGTT
128060158 AGGAATAAAATTT-CAAAATTTGAAAAGTAAA
1 AGGAATAAAATTTAC-AAATTTGAAAAGTAAA
* *
128060189 AGGACTAAAATTTACCAATTTGAAAAGTA
1 AGGAATAAAATTTACAAATTTGAAAAGTA
128060218 TAAATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (31 bp):
AGGAATAAAATTTACAAATTTGAAAAGTAAA
Found at i:128061530 original size:20 final size:19
Alignment explanation
Indices: 128061505--128061542 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
128061495 GACAAATTTT
128061505 TAATGCATTATTTT-AGTTTC
1 TAATGC-TT-TTTTCAGTTTC
128061525 TAATGCTTTTTTCAGTTT
1 TAATGCTTTTTTCAGTTT
128061543 ATTTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (19 bp):
TAATGCTTTTTTCAGTTTC
Found at i:128062606 original size:12 final size:11
Alignment explanation
Indices: 128062590--128062721 Score: 72
Period size: 13 Copynumber: 11.1 Consensus size: 11
128062580 TATGGGCAAG
128062590 AATAAAAAATA
1 AATAAAAAATA
128062601 AGATAAATAAATA
1 A-ATAAA-AAATA
128062614 AATAAAAAAGGCTA
1 AATAAAAAA---TA
*
128062628 ACTAAAAACCATA
1 AATAAAAA--ATA
*
128062641 AGTAAATAAATA
1 AATAAA-AAATA
*
128062653 AATAAAAACT-
1 AATAAAAAATA
* *
128062663 ATTAAAAAGTTTA
1 AATAAAAA--ATA
128062676 AATAAATAAA-A
1 AATAAA-AAATA
128062687 AATAATAAAATGA
1 AATAA-AAAAT-A
*
128062700 AATAAAATA-A
1 AATAAAAAATA
128062710 AATAAAAAATA
1 AATAAAAAATA
128062721 A
1 A
128062722 GAAATGAAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 32
0.69 0.07 0.23
Matches are distributed among these distances:
10 16 0.17
11 18 0.19
12 23 0.24
13 24 0.25
14 13 0.14
16 1 0.01
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:128062704 original size:20 final size:19
Alignment explanation
Indices: 128062675--128062716 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
128062665 TAAAAAGTTT
128062675 AAATAAATAAAA-AATAATA
1 AAATAAATAAAATAA-AATA
128062694 AAATGAAATAAAATAAAATA
1 AAAT-AAATAAAATAAAATA
128062714 AAA
1 AAA
128062717 AATAAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATAAATAAAATAAAATA
Found at i:128062731 original size:5 final size:5
Alignment explanation
Indices: 128062675--128062716 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
128062665 TAAAAAGTTT
*
128062675 AAAT- AAATA AAA-A ATAATA AAATG AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA A-AATA AAATA AAATA AAATA AAATA AAA
128062717 AATAAGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
4 6 0.18
5 25 0.76
6 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:128062740 original size:29 final size:30
Alignment explanation
Indices: 128062675--128062732 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
128062665 TAAAAAGTTT
128062675 AAAT-AAATAAAAAATAATAAAATGAAATA
1 AAATAAAATAAAAAATAATAAAATGAAATA
*
128062704 AAATAAAATAAAAAATAA-GAAATGAAATA
1 AAATAAAATAAAAAATAATAAAATGAAATA
128062733 GGCAAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (30 bp):
AAATAAAATAAAAAATAATAAAATGAAATA
Found at i:128062960 original size:14 final size:14
Alignment explanation
Indices: 128062943--128062982 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
128062933 ATAATAACAG
*
128062943 AAATATAAATAGAT
1 AAATAAAAATAGAT
*
128062957 AAATAAAAATTGGAT
1 AAATAAAAA-TAGAT
128062972 AAATAAAAATA
1 AAATAAAAATA
128062983 AACACAGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (14 bp):
AAATAAAAATAGAT
Found at i:128063012 original size:3 final size:3
Alignment explanation
Indices: 128062998--128063139 Score: 94
Period size: 3 Copynumber: 47.3 Consensus size: 3
128062988 AGATGAGAAT
* * * * *
128062998 ATA ATA ACA ATA ATA AT- ACA ATA GTA ATA ATA ATA ATA ACA A-A AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
128063044 ATA ATA GTA TGTG A-A ATA ATA ATA GTA A-A AAA ATA ATA GTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
128063088 ATA ATA TTG ATA ATA GATA ATA ATA ATAA ATA ATA ATA ATAA ATA ATG
1 ATA ATA ATA ATA ATA -ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA
128063136 ATA A
1 ATA A
128063140 AGCAACAAAA
Statistics
Matches: 108, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
2 6 0.06
3 91 0.84
4 11 0.10
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:128063036 original size:32 final size:31
Alignment explanation
Indices: 128062998--128063134 Score: 98
Period size: 32 Copynumber: 4.2 Consensus size: 31
128062988 AGATGAGAAT
*
128062998 ATAATAACAATAATAATACAATAGTAATAATA
1 ATAATAACAATAATAATA-AATAATAATAATA
* *
128063030 ATAATAACAA-AAAAATAATAGTATGTGAAATAATA
1 ATAATAACAATAATAATAA-A-TA-AT--AATAATA
* * * *
128063065 ATAGTAA-AAAAATAATAGTAATAATAATATTG
1 ATAATAACAATAATAATA--AATAATAATAATA
*
128063097 ATAATAGATAATAATAATAAATAATAATAATAA
1 ATAATA-ACAATAATAATAAATAATAATAAT-A
128063130 ATAAT
1 ATAAT
128063135 GATAAAGCAA
Statistics
Matches: 84, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
30 1 0.01
31 7 0.08
32 33 0.39
33 8 0.10
34 12 0.14
35 21 0.25
36 1 0.01
37 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (31 bp):
ATAATAACAATAATAATAAATAATAATAATA
Found at i:128063088 original size:41 final size:41
Alignment explanation
Indices: 128062998--128063134 Score: 113
Period size: 41 Copynumber: 3.3 Consensus size: 41
128062988 AGATGAGAAT
* * * *
128062998 ATAATAACAATAATAAT-ACAATAG-TAATAATAATAATAACA
1 ATAATAATAATAATATTGATAATAGATAATAATAA-AA-AATA
* * *
128063039 A-AAAAATAATAGTATGTGA-AATA-ATAATAGTAAAAAAATA
1 ATAATAATAATAATAT-TGATAATAGATAATAAT-AAAAAATA
* *
128063079 ATAGTAATAATAATATTGATAATAGATAATAATAATAAATA
1 ATAATAATAATAATATTGATAATAGATAATAATAAAAAATA
128063120 ATAATAATAAATAAT
1 ATAATAAT-AATAAT
128063135 GATAAAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
40 17 0.22
41 43 0.57
42 16 0.21
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (41 bp):
ATAATAATAATAATATTGATAATAGATAATAATAAAAAATA
Found at i:128067003 original size:14 final size:14
Alignment explanation
Indices: 128066966--128067006 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
128066956 CCATATAAAT
*
128066966 TTTAAAATTATTAA
1 TTTAAAATTAATAA
*
128066980 -TTAAATTTAATAA
1 TTTAAAATTAATAA
128066993 TTTAAAATTAATAA
1 TTTAAAATTAATAA
128067007 ATATCGTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTAAAATTAATAA
Found at i:128068539 original size:1 final size:1
Alignment explanation
Indices: 128068533--128068560 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
128068523 TCTGCATTTC
128068533 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
128068561 GCTTTACCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:128071632 original size:19 final size:20
Alignment explanation
Indices: 128071608--128071652 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
128071598 TAAAGTTCGA
* *
128071608 AATTTTTATAAA-TGTTTTG
1 AATTTTTAAAAATTATTTTG
128071627 AA-TTTTAAAAATTATTTTG
1 AATTTTTAAAAATTATTTTG
128071646 AATTTTT
1 AATTTTT
128071653 TGTAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:128074492 original size:16 final size:15
Alignment explanation
Indices: 128074454--128074483 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
128074444 GAAAGATACT
128074454 TTTGAAAAGGGATAA
1 TTTGAAAAGGGATAA
128074469 TTTGAAAAGGGATAA
1 TTTGAAAAGGGATAA
128074484 ATTCTAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (15 bp):
TTTGAAAAGGGATAA
Found at i:128090900 original size:15 final size:15
Alignment explanation
Indices: 128090869--128090897 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
128090859 ATTTTATGTG
128090869 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
128090884 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
128090898 ATTCTCGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:128091097 original size:31 final size:30
Alignment explanation
Indices: 128091062--128091128 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
128091052 GAGGTAGACG
128091062 TTTATAGCCATTAAATATAATGGTTTTATAT
1 TTTATA-CCATTAAATATAATGGTTTTATAT
* *
128091093 TTTATTATCATTAAATATAATGGTTTTATGT
1 TTTA-TACCATTAAATATAATGGTTTTATAT
128091124 TTTAT
1 TTTAT
128091129 TATAAAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 1 0.03
31 30 0.91
32 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (30 bp):
TTTATACCATTAAATATAATGGTTTTATAT
Found at i:128091129 original size:31 final size:31
Alignment explanation
Indices: 128091070--128091131 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
128091060 CGTTTATAGC
128091070 CATTAAATATAATGGTTTTATATTTTATTAT
1 CATTAAATATAATGGTTTTATATTTTATTAT
*
128091101 CATTAAATATAATGGTTTTATGTTTTATTAT
1 CATTAAATATAATGGTTTTATATTTTATTAT
128091132 AAAGGTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
CATTAAATATAATGGTTTTATATTTTATTAT
Found at i:128092117 original size:45 final size:44
Alignment explanation
Indices: 128092068--128092220 Score: 131
Period size: 45 Copynumber: 3.5 Consensus size: 44
128092058 TGTGTTCTCA
*
128092068 TGTAAGAACACGTCTAGGACGTTGGCATCGATATATGTGATTACG
1 TGTAAGAACACGTCTGGGACGTTGGCATCG-TATATGTGATTACG
* * * *
128092113 TGTAAGACCATGTCTGGGACATCGGCATCGTAT-T-TGATTA-G
1 TGTAAGAACACGTCTGGGACGTTGGCATCGTATATGTGATTACG
* * * * *
128092154 TATAAG-ACTCTATCTGGGACAG-TGGCATCG-ATATGTGAGTACA
1 TGTAAGAACAC-GTCTGGGAC-GTTGGCATCGTATATGTGATTACG
128092197 TGTAA-AACCACGTCTGGGACGTTG
1 TGTAAGAA-CACGTCTGGGACGTTG
128092221 TCATTGTACA
Statistics
Matches: 83, Mismatches: 17, Indels: 18
0.70 0.14 0.15
Matches are distributed among these distances:
40 3 0.04
41 22 0.27
42 12 0.14
43 16 0.19
44 5 0.06
45 25 0.30
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
TGTAAGAACACGTCTGGGACGTTGGCATCGTATATGTGATTACG
Found at i:128101748 original size:19 final size:21
Alignment explanation
Indices: 128101707--128101754 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
128101697 TTAAAATTTT
128101707 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
128101728 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
128101747 AACTAAAA
1 AACTAAAA
128101755 TAAGTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:128105970 original size:16 final size:16
Alignment explanation
Indices: 128105949--128105982 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
128105939 ATTTTATCAG
128105949 TAACAAAGGAATTTAT
1 TAACAAAGGAATTTAT
*
128105965 TAACAAATGAATTTAT
1 TAACAAAGGAATTTAT
128105981 TA
1 TA
128105983 CTTTTAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (16 bp):
TAACAAAGGAATTTAT
Found at i:128109859 original size:7 final size:7
Alignment explanation
Indices: 128109847--128109930 Score: 55
Period size: 7 Copynumber: 11.7 Consensus size: 7
128109837 ACTAATTAAT
128109847 CTAAACC
1 CTAAACC
128109854 CTAAACC
1 CTAAACC
*
128109861 TCTTAACC
1 -CTAAACC
***
128109869 CTTGTCC
1 CTAAACC
128109876 CATAAACC
1 C-TAAACC
128109884 CTAAACC
1 CTAAACC
*
128109891 CTTACACC
1 C-TAAACC
*
128109899 TTAAACTC
1 CTAAAC-C
128109907 C--AACC
1 CTAAACC
*
128109912 CTAACCC
1 CTAAACC
128109919 CTAAACC
1 CTAAACC
128109926 CTAAA
1 CTAAA
128109931 TCATAATCCC
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
7 38 0.64
8 16 0.27
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:128110018 original size:14 final size:14
Alignment explanation
Indices: 128109981--128110051 Score: 61
Period size: 14 Copynumber: 4.8 Consensus size: 14
128109971 ACTAGTTAAC
*
128109981 TCCTAAACCTTAAA
1 TCCTAAACCATAAA
*
128109995 TCCTAAACCATATA
1 TCCTAAACCATAAA
*
128110009 TCTTAAACCATAGTTAA
1 TCCTAAACCATA---AA
*
128110026 CTCATAAACCATAAA
1 -TCCTAAACCATAAA
*
128110041 CCCTAAACCAT
1 TCCTAAACCAT
128110052 CTTAAACCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
14 32 0.70
15 2 0.04
17 1 0.02
18 11 0.24
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (14 bp):
TCCTAAACCATAAA
Found at i:128110069 original size:14 final size:14
Alignment explanation
Indices: 128109984--128110077 Score: 54
Period size: 14 Copynumber: 6.7 Consensus size: 14
128109974 AGTTAACTCC
*
128109984 TAAACCTTAAATCC-
1 TAAACCATAAA-CCT
* *
128109998 TAAACCATATATCT
1 TAAACCATAAACCT
*
128110012 TAAACCATAGTTAACTCA
1 TAAACCATA---AAC-CT
*
128110030 TAAACCATAAACCC
1 TAAACCATAAACCT
128110044 TAAACCAT----CT
1 TAAACCATAAACCT
128110054 TAAACCATAAACCT
1 TAAACCATAAACCT
*
128110068 TAAACTATAA
1 TAAACCATAA
128110078 TGATAATTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
10 9 0.15
13 1 0.02
14 38 0.61
15 3 0.05
17 1 0.02
18 10 0.16
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:128110346 original size:41 final size:41
Alignment explanation
Indices: 128110234--128110330 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
128110224 GTTATATGAC
* *
128110234 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGTTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
* *
128110275 TTTTAGCTGTGTTTTACCAAAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
128110315 TTTTAGCGGCGTTTTA
1 TTTTAGCGGCGTTTTA
128110331 GTAAAAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 15 0.30
41 35 0.70
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
Found at i:128120934 original size:5 final size:5
Alignment explanation
Indices: 128120924--128120968 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
128120914 CTATATCCTA
128120924 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
128120969 TCTAGCTAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:128123174 original size:46 final size:46
Alignment explanation
Indices: 128123107--128123280 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
128123097 TGTAACCCGC
*
128123107 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
128123153 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
128123203 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
128123245 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
128123281 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
45 26 0.24
46 36 0.33
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:128123272 original size:92 final size:93
Alignment explanation
Indices: 128123114--128123284 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
128123104 CGCCCATAAG
* *
128123114 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128123179 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
128123207 CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128123271 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
128123285 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 49 0.65
93 26 0.35
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:128130332 original size:93 final size:93
Alignment explanation
Indices: 128130220--128130391 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
128130210 CGCCCATAAG
* *
128130220 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128130285 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
128130313 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128130378 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
128130392 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:128130388 original size:46 final size:46
Alignment explanation
Indices: 128130213--128130388 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
128130203 TGTAACCCGC
* * *
128130213 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
128130259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
128130309 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
128130352 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
128130389 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:128137388 original size:93 final size:93
Alignment explanation
Indices: 128137276--128137447 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
128137266 CGCCCATAAG
* *
128137276 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128137341 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
128137369 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
128137434 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
128137448 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:128137444 original size:46 final size:46
Alignment explanation
Indices: 128137269--128137444 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
128137259 TGTAACCCGC
* * *
128137269 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
128137315 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
128137365 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
128137408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
128137445 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:128144403 original size:46 final size:46
Alignment explanation
Indices: 128144336--128144464 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
128144326 TGTAACCCGC
* * * *
128144336 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
128144382 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
128144428 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
128144465 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:128144483 original size:46 final size:45
Alignment explanation
Indices: 128144344--128144483 Score: 133
Period size: 46 Copynumber: 3.0 Consensus size: 45
128144334 GCCCATAAGC
* ** * *
128144344 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC--AAGT
* *
128144390 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCA-CCATCCAAGT
*
128144436 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCAAGT
128144482 GA
1 GA
128144484 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
44 8 0.10
45 1 0.01
46 64 0.83
48 1 0.01
50 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCAAGT
Found at i:128151115 original size:12 final size:12
Alignment explanation
Indices: 128151094--128151127 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
128151084 AATTGATGAA
*
128151094 TTTAGGGTTTTT
1 TTTAGAGTTTTT
128151106 TTTAGAGTTTTT
1 TTTAGAGTTTTT
128151118 TTTAGAGTTT
1 TTTAGAGTTT
128151128 GATTTTCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.65
Consensus pattern (12 bp):
TTTAGAGTTTTT
Found at i:128153423 original size:9 final size:9
Alignment explanation
Indices: 128153409--128153441 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
128153399 GTTAAACGAA
128153409 TCGAGTTAT
1 TCGAGTTAT
*
128153418 TCGAGTTAA
1 TCGAGTTAT
128153427 TCGAGTTAT
1 TCGAGTTAT
128153436 TCGAGT
1 TCGAGT
128153442 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:128153430 original size:18 final size:18
Alignment explanation
Indices: 128153407--128153441 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
128153397 GAGTTAAACG
128153407 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
128153425 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
128153442 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:128153510 original size:9 final size:9
Alignment explanation
Indices: 128153496--128153529 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
128153486 GTTTTCGAAT
*
128153496 TCGAATAAC
1 TCGAATAAA
128153505 TCGAATAAA
1 TCGAATAAA
*
128153514 TCGAATAAT
1 TCGAATAAA
128153523 TCGAATA
1 TCGAATA
128153530 TCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:128158972 original size:21 final size:21
Alignment explanation
Indices: 128158943--128158984 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
128158933 GTTTTAAAAA
*
128158943 TTGTTTTAATATTAT-TTTTAT
1 TTGTCTTAATATT-TGTTTTAT
128158964 TTGTCTTAATATTTGTTTTAT
1 TTGTCTTAATATTTGTTTTAT
128158985 GTTTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
TTGTCTTAATATTTGTTTTAT
Found at i:128161960 original size:60 final size:61
Alignment explanation
Indices: 128161799--128161961 Score: 190
Period size: 59 Copynumber: 2.7 Consensus size: 61
128161789 TTAATATAGC
* * * * **
128161799 ATTTGGTATTTGAACTTGGCATTTTTT--TAATTTGGTATCTAAACTTTTTTTTTAGCCCA
1 ATTTGGTACTTGAACTTGGCATTTTTTCCTAATTTGGTACCTAAACTCTTTGTGGAGCCCA
* * *
128161858 ATTTGGTACTTGAACTTGACA-CTTTTCCTAATTGGGTACCTAAACTCTTTGTGGA-CCCA
1 ATTTGGTACTTGAACTTGGCATTTTTTCCTAATTTGGTACCTAAACTCTTTGTGGAGCCCA
* * *
128161917 ATTTGGTACATGAACTTGGCATTTTTTCCTAATTTAGTGCCTAAA
1 ATTTGGTACTTGAACTTGGCATTTTTTCCTAATTTGGTACCTAAA
128161962 TTTTATACCT
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
58 4 0.05
59 42 0.49
60 40 0.47
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (61 bp):
ATTTGGTACTTGAACTTGGCATTTTTTCCTAATTTGGTACCTAAACTCTTTGTGGAGCCCA
Found at i:128162468 original size:30 final size:31
Alignment explanation
Indices: 128162411--128162473 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
128162401 GGACCTCAAA
* * *
128162411 AAGATTAAGTATTAATTTAAGAGAAAGTGTC
1 AAGATTAAGTACTAAATTAAGAAAAAGTGTC
128162442 AAGATT-AGTACTAAATTAAGAAAAAGTGTC
1 AAGATTAAGTACTAAATTAAGAAAAAGTGTC
128162472 AA
1 AA
128162474 AATTTTTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.29
Consensus pattern (31 bp):
AAGATTAAGTACTAAATTAAGAAAAAGTGTC
Found at i:128166634 original size:2 final size:2
Alignment explanation
Indices: 128166629--128166654 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
128166619 GGGAGAGAGA
128166629 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
128166655 CATCCTCTCC
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:128167144 original size:9 final size:9
Alignment explanation
Indices: 128167130--128167154 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
128167120 ATATAAGGAC
128167130 TAAAATGAA
1 TAAAATGAA
128167139 TAAAATGAA
1 TAAAATGAA
128167148 TAAAATG
1 TAAAATG
128167155 TAAACTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
TAAAATGAA
Found at i:128167796 original size:12 final size:12
Alignment explanation
Indices: 128167779--128167803 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128167769 CTGTGTGTTC
128167779 TTTATTTTATTT
1 TTTATTTTATTT
128167791 TTTATTTTATTT
1 TTTATTTTATTT
128167803 T
1 T
128167804 ATTTTCACAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:128171135 original size:3 final size:3
Alignment explanation
Indices: 128171127--128171397 Score: 182
Period size: 3 Copynumber: 90.3 Consensus size: 3
128171117 TGCCATTAAC
128171127 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
128171175 ATT ATT ATT ATT ATT ATT ATTT AGTT A-T ATT ACT ATT ATT GTT A-T
1 ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
128171220 ATT ATC ATT ATT ATT CTT ACT ATT ATT ATT ACT ATT ACT GTT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** ** * * *
128171268 ATT AAC A-T ATT ATT -TT -TT ACC A-T ATT ATT ATT -TC CTT -TT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * *
128171310 ATAT ATT ATT ATT GTT ATT AAC ATAT ACT ATT ATT ATT AATGT ACT ATT
1 AT-T ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT -AT-T ATT ATT
* * *
128171359 ATT TTCT ATTT ATT ACT ATT A-T ACTT ATT ACT ATT ATT A
1 ATT AT-T A-TT ATT ATT ATT ATT A-TT ATT ATT ATT ATT A
128171398 ATACTTTTTT
Statistics
Matches: 208, Mismatches: 44, Indels: 32
0.73 0.15 0.11
Matches are distributed among these distances:
2 15 0.07
3 173 0.83
4 18 0.09
5 2 0.01
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:128171490 original size:3 final size:3
Alignment explanation
Indices: 128171475--128171528 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
128171465 CCCACTTAGC
* * * * *
128171475 TAT TAT TAC TAT TAT TAT TTT TAC TAT TAT AAT TAT TAT TAA TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
128171522 TAT TAT T
1 TAT TAT T
128171529 CTTTTATATT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:128179123 original size:11 final size:12
Alignment explanation
Indices: 128179100--128179132 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
128179090 TAATATCAAA
128179100 ATATTTATAAAT
1 ATATTTATAAAT
128179112 ATATTT-TAAAT
1 ATATTTATAAAT
128179123 ATATTCTATA
1 ATATT-TATA
128179133 TAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 7 0.37
13 2 0.11
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATTTATAAAT
Found at i:128181261 original size:27 final size:26
Alignment explanation
Indices: 128181201--128181262 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
128181191 ATTTTATTTT
128181201 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
128181227 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
128181255 ATTTTATT
1 ATTTTATT
128181263 TTAATTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:128181287 original size:20 final size:20
Alignment explanation
Indices: 128181257--128181304 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
128181247 AATTTAGGAT
* * *
128181257 TTTAT-TTTAATTATATTTG
1 TTTATCTTTAATTAAATGTA
128181276 TTTATCTTTAATTAAATGTA
1 TTTATCTTTAATTAAATGTA
128181296 TTTATCTTT
1 TTTATCTTT
128181305 TTAGAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTATCTTTAATTAAATGTA
Found at i:128184788 original size:7 final size:7
Alignment explanation
Indices: 128184773--128184815 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
128184763 TACACTTATC
*
128184773 TGATCAG
1 TGATAAG
128184780 TGATAAG
1 TGATAAG
*
128184787 TGACAAG
1 TGATAAG
* *
128184794 CGACAAG
1 TGATAAG
128184801 TGATAAG
1 TGATAAG
128184808 TGATAAG
1 TGATAAG
128184815 T
1 T
128184816 AGTAGTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (7 bp):
TGATAAG
Found at i:128187186 original size:31 final size:31
Alignment explanation
Indices: 128187148--128187224 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
128187138 AACCTAAAAA
128187148 ATAAATTAACTAAATTTCTAAAAATAAAAGT
1 ATAAATTAACTAAATTTCTAAAAATAAAAGT
128187179 ATAAATTAACTAAATTTCTAAAAATAAAAGT
1 ATAAATTAACTAAATTTCTAAAAATAAAAGT
*
128187210 ATATA-T-ACTAAATTT
1 ATAAATTAACTAAATTT
128187225 AAATTTTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 9 0.20
30 1 0.02
31 35 0.78
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (31 bp):
ATAAATTAACTAAATTTCTAAAAATAAAAGT
Found at i:128187369 original size:2 final size:2
Alignment explanation
Indices: 128187362--128187392 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
128187352 TTGACTTGGA
128187362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
128187393 AAAGTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:128194005 original size:447 final size:446
Alignment explanation
Indices: 128193155--128194401 Score: 2016
Period size: 447 Copynumber: 2.8 Consensus size: 446
128193145 CATCTGCCAC
128193155 CATTGCATCAGTTGTATTCCCTCAAAGTTATTCAGCTTTCAAGATTAGAAGCTTTGGAGAATGTT
1 CATTGCATCAGTTGTATTCCCTCAAAGTTATT-AGCTTTCAAGATTAGAAGCTTTGGAGAATGTT
* *
128193220 TC-AGAGACTGAAATGCAAGAAGAGTTGGTTTCGGGGAAATCAACAACAATATTTTTTCCATCCT
65 TCGA-AGACTGAAATGCAAGAGGAGTTGGTTTCAGGGAAATCAACAACAATATTTTTTCCATCCT
*
128193284 TGGAAGAACTACAGATAGATGATTGCCCAAATTTTAAAGGATGGTGGAAGGGTGATGTTGGTGAA
129 TGGAAGAACTACAGATAGATGATTGCCCAAATCTTAAAGGATGGTGGAAGGGTGATGTTGGTGAA
*
128193349 GCTTCAAATCCACACTTGCCGTGCTTTCCTTGCCTTTCACATTTAACTATCAATCATTGCCCTAA
194 GCTTCAAATCCACACTTGCAGTGCTTTCCTTGCCTTTCACATTTAACTATCAATCATTGCCCTAA
* *
128193414 TCTAACCACTATGCCATTGTTTCCATCTGTTACGGAGTTGGAGTTGAAAAATACCAGCTCAAAGC
259 TCTAACCACTATGCCATTGTTTCCATCTGTTACAGAGTTGGAGTTGAAGAATACCAGCTCAAAGC
* *
128193479 CATTCCAAGAGACAATGAAGTTGAAGCTGACAAAAATAGAAGCACCATCATCAATTCTAGATCCT
324 CATTCCAAGAGACAATGAAGTTGAAGATGACAAAAATAGAACCACCATCATCAATTCTAGATCCT
* * * *
128193544 CGCTCCAGACTGGAATATCTGTACATTGATGAGGTCAAAGATCTTGGTTCTATGTCAT
389 CGCTCCAAACTGGAATATCTGGAAATTGATGAGGTCAAAGATCTTGATTCTATGTCAT
*
128193602 CATTGCATCAGTTGTATTCCCTAAAAGTTATTAGGCTTTCAAGATTAGAAGCTTTGGAGAATGTT
1 CATTGCATCAGTTGTATTCCCTCAAAGTTATTA-GCTTTCAAGATTAGAAGCTTTGGAGAATGTT
*
128193667 TCGAAGATTGAAATGCAAGAGGAGTTGGTTTCAGGGAAATCAACAACAATATTTTTTCCATCCTT
65 TCGAAGACTGAAATGCAAGAGGAGTTGGTTTCAGGGAAATCAACAACAATATTTTTTCCATCCTT
*
128193732 GGAAGAACTACAGATAGATGATTGCCCAAATCTTAAAGGATAGTGGAAGGGTGATGTTGGTGAAG
130 GGAAGAACTACAGATAGATGATTGCCCAAATCTTAAAGGATGGTGGAAGGGTGATGTTGGTGAAG
** * *
128193797 CTTCAAATCCACACTTGCTTTGCTTTCCTTGCCTTTCACATTTAACTATCAATCATTGTCATAAT
195 CTTCAAATCCACACTTGCAGTGCTTTCCTTGCCTTTCACATTTAACTATCAATCATTGCCCTAAT
128193862 CTAACCACTATGCCATTGTTTCCATCTGTTACAGAGTTGGAGTTGAAGAATACCAGCTCAAAGCC
260 CTAACCACTATGCCATTGTTTCCATCTGTTACAGAGTTGGAGTTGAAGAATACCAGCTCAAAGCC
* *
128193927 ATTCCAAGAGACAATGAAGTTGAAGATGACAAAAATAGAACCATCATCATCAATTCTATATCCTC
325 ATTCCAAGAGACAATGAAGTTGAAGATGACAAAAATAGAACCACCATCATCAATTCTAGATCCTC
* * *
128193992 TCTCCAAACTGGAATCTCTGGAAATTGATGAGGTCAAAGATCTTGATTCTCTGTCAT
390 GCTCCAAACTGGAATATCTGGAAATTGATGAGGTCAAAGATCTTGATTCTATGTCAT
* *
128194049 CATTGCATTAGTTGTATTCCCTCAAAGTTATTTTGCTTTCAAGATTAGAAGCTTTGGAGAATGTT
1 CATTGCATCAGTTGTATTCCCTCAAAGTTA-TTAGCTTTCAAGATTAGAAGCTTTGGAGAATGTT
* * * * * *
128194114 TCGGAGACTGAAATGCAAGAGGGGTTGGTTTCAGGGAAATCAACAATAATGTTTCTTCCATCATT
65 TCGAAGACTGAAATGCAAGAGGAGTTGGTTTCAGGGAAATCAACAACAATATTTTTTCCATCCTT
* * *
128194179 AGAA-ACACTATATATA-ATAGATTGCCCAAATCTTAAAGGATGGTGGAAGGGTGATGTTGGTGA
130 GGAAGA-ACTACAGATAGAT-GATTGCCCAAATCTTAAAGGATGGTGGAAGGGTGATGTTGGTGA
* * * *
128194242 AGCTTCAAATCCACACTTGCAGTGCTTTTCTTGCCTTTCACATTTAGCTATCGAGCATTGCCCTA
193 AGCTTCAAATCCACACTTGCAGTGCTTTCCTTGCCTTTCACATTTAACTATCAATCATTGCCCTA
* * *
128194307 ATCTAACCACTATGCCATTGCTTCCATCTGTTA-AAACGTTGAAGTTGAAGAATACCAGCTCAAA
258 ATCTAACCACTATGCCATTGTTTCCATCTGTTACAGA-GTTGGAGTTGAAGAATACCAGCTCAAA
*
128194371 GCCATTTCAAGAGACAATGAAGTTGAAGATG
322 GCCATTCCAAGAGACAATGAAGTTGAAGATG
128194402 TTGCGCGGAA
Statistics
Matches: 745, Mismatches: 49, Indels: 12
0.92 0.06 0.01
Matches are distributed among these distances:
446 6 0.01
447 736 0.99
448 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (446 bp):
CATTGCATCAGTTGTATTCCCTCAAAGTTATTAGCTTTCAAGATTAGAAGCTTTGGAGAATGTTT
CGAAGACTGAAATGCAAGAGGAGTTGGTTTCAGGGAAATCAACAACAATATTTTTTCCATCCTTG
GAAGAACTACAGATAGATGATTGCCCAAATCTTAAAGGATGGTGGAAGGGTGATGTTGGTGAAGC
TTCAAATCCACACTTGCAGTGCTTTCCTTGCCTTTCACATTTAACTATCAATCATTGCCCTAATC
TAACCACTATGCCATTGTTTCCATCTGTTACAGAGTTGGAGTTGAAGAATACCAGCTCAAAGCCA
TTCCAAGAGACAATGAAGTTGAAGATGACAAAAATAGAACCACCATCATCAATTCTAGATCCTCG
CTCCAAACTGGAATATCTGGAAATTGATGAGGTCAAAGATCTTGATTCTATGTCAT
Found at i:128201997 original size:18 final size:18
Alignment explanation
Indices: 128201960--128202038 Score: 88
Period size: 18 Copynumber: 4.4 Consensus size: 18
128201950 CAATCCCAAC
* *
128201960 TACTGTATACGTGAACAG
1 TACTGTATACGTAAATAG
128201978 TACTGTATACGTAAATAG
1 TACTGTATACGTAAATAG
*
128201996 TA-TCGTATATGTAAATAG
1 TACT-GTATACGTAAATAG
**
128202014 TGTTGTATACGTAAATAG
1 TACTGTATACGTAAATAG
*
128202032 TGCTGTA
1 TACTGTA
128202039 AATGGTCGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
17 1 0.02
18 51 0.96
19 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.35
Consensus pattern (18 bp):
TACTGTATACGTAAATAG
Found at i:128204514 original size:19 final size:18
Alignment explanation
Indices: 128204490--128204537 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
128204480 ACGTAAAAAG
128204490 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
128204509 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
128204528 TAAAAATAAA
1 TAAAAATAAA
128204538 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:128205457 original size:16 final size:16
Alignment explanation
Indices: 128205427--128205474 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
128205417 GAAAATTAAT
128205427 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
128205442 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
128205459 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
128205474 A
1 A
128205475 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:128205473 original size:11 final size:11
Alignment explanation
Indices: 128205418--128205488 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
128205408 ATAACTTAAG
*
128205418 AAAATTAATAT
1 AAAATTAAAAT
128205429 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
128205441 AATAA-T-AATT
1 AA-AATTAAAAT
*
128205451 AAAAAT-AAAT
1 AAAATTAAAAT
128205461 AAAATTAAAAT
1 AAAATTAAAAT
*
128205472 AAACTTAAAAT
1 AAAATTAAAAT
*
128205483 AGAATT
1 AAAATT
128205489 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:128212740 original size:17 final size:17
Alignment explanation
Indices: 128212718--128212753 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
128212708 ACATTATTTA
*
128212718 AAATTTGTTAAAATTAT
1 AAATTTGTAAAAATTAT
128212735 AAATTTGTAAAAATTAT
1 AAATTTGTAAAAATTAT
128212752 AA
1 AA
128212754 CCAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATTTGTAAAAATTAT
Found at i:128213898 original size:23 final size:23
Alignment explanation
Indices: 128213872--128213916 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
128213862 GTTTCATACC
128213872 TTAAT-GGAACATAAAATTATATG
1 TTAATAGGAA-ATAAAATTATATG
*
128213895 TTAATATGAAATAAAATTATAT
1 TTAATAGGAAATAAAATTATAT
128213917 TTTTATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (23 bp):
TTAATAGGAAATAAAATTATATG
Found at i:128216004 original size:21 final size:20
Alignment explanation
Indices: 128215978--128216021 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
128215968 AATTAAACTT
128215978 AAAATTTAAAAATAAAAAATA
1 AAAATTTAAAAAT-AAAAATA
*
128215999 AAAATTTTAAAATAAAAATA
1 AAAATTTAAAAATAAAAATA
128216019 AAA
1 AAA
128216022 TGATTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATTTAAAAATAAAAATA
Found at i:128216028 original size:20 final size:21
Alignment explanation
Indices: 128215983--128216029 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
128215973 AACTTAAAAT
*
128215983 TTAAAAATAAAAAATAAAAATT
1 TTAAA-ATAAAAAATAAAAATA
128216005 TTAAAAT-AAAAAT-AAAATGA
1 TTAAAATAAAAAATAAAAAT-A
128216025 TTAAA
1 TTAAA
128216030 TTTCAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 11 0.48
21 2 0.09
22 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
TTAAAATAAAAAATAAAAATA
Found at i:128216956 original size:16 final size:16
Alignment explanation
Indices: 128216935--128216970 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
128216925 TTACAAATTT
128216935 AAAT-AATTAAAACTCA
1 AAATAAATT-AAACTCA
128216951 AAATAAATTAAACTCA
1 AAATAAATTAAACTCA
128216967 AAAT
1 AAAT
128216971 TAACGTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAAATTAAACTCA
Found at i:128217973 original size:16 final size:16
Alignment explanation
Indices: 128217954--128217986 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
128217944 AGTAGCGCTT
*
128217954 TTTTGTTTTTTTTTTG
1 TTTTGTTTTGTTTTTG
128217970 TTTTGTTTTGTTTTTG
1 TTTTGTTTTGTTTTTG
128217986 T
1 T
128217987 GTGTGTGTGT
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:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTTTGTTTTGTTTTTG
Found at i:128217985 original size:11 final size:11
Alignment explanation
Indices: 128217954--128217986 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
128217944 AGTAGCGCTT
*
128217954 TTTTGTTTTTT
1 TTTTGTTTTTG
128217965 TTTTG-TTTTG
1 TTTTGTTTTTG
128217975 TTTTGTTTTTG
1 TTTTGTTTTTG
128217986 T
1 T
128217987 GTGTGTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:128218594 original size:5 final size:5
Alignment explanation
Indices: 128218584--128218612 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
128218574 TTTAATTGAT
128218584 TTATA TTATA TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTAT
128218613 CTCCATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:128220235 original size:1 final size:1
Alignment explanation
Indices: 128220229--128220254 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
128220219 ACAAGAGTTG
128220229 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
128220255 GTCTTCGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:128220292 original size:8 final size:8
Alignment explanation
Indices: 128220279--128220303 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
128220269 GGTTTGGTTG
128220279 ATTCATAT
1 ATTCATAT
128220287 ATTCATAT
1 ATTCATAT
128220295 ATTCATAT
1 ATTCATAT
128220303 A
1 A
128220304 CATATACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTCATAT
Found at i:128221158 original size:28 final size:28
Alignment explanation
Indices: 128221126--128221182 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
128221116 CTTATAGTGG
128221126 TTTAATTTTCTCTATCTGTATTGAATAT
1 TTTAATTTTCTCTATCTGTATTGAATAT
128221154 TTTAATTTTCTCTATCTGTATTGAATAT
1 TTTAATTTTCTCTATCTGTATTGAATAT
128221182 T
1 T
128221183 GGTCCGTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTAATTTTCTCTATCTGTATTGAATAT
Found at i:128225054 original size:29 final size:31
Alignment explanation
Indices: 128224992--128225057 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 31
128224982 GGATAATTAG
128224992 ACTAAA-TTTTAAAACATAATAAATAAATAA
1 ACTAAATTTTTAAAACATAATAAATAAATAA
128225022 ACTAAATTTTTAAAA-ATAA-AAATATAA-AA
1 ACTAAATTTTTAAAACATAATAAATA-AATAA
128225051 ACTAAAT
1 ACTAAAT
128225058 ATTCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 14 0.41
30 12 0.35
31 8 0.24
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (31 bp):
ACTAAATTTTTAAAACATAATAAATAAATAA
Found at i:128225597 original size:51 final size:51
Alignment explanation
Indices: 128225542--128225646 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
128225532 CTTAACTATG
128225542 TTACTAGTTGAACCTAAATTTTGAAATCTGAAAAATAAATGAACTAAATTC
1 TTACTAGTTGAACCTAAATTTTGAAATCTGAAAAATAAATGAACTAAATTC
128225593 TTACTAGTTGAACCTAAATTTTGAAATCTGAAAAATAAATGAACTAAATTC
1 TTACTAGTTGAACCTAAATTTTGAAATCTGAAAAATAAATGAACTAAATTC
128225644 TTA
1 TTA
128225647 AAAATAAAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (51 bp):
TTACTAGTTGAACCTAAATTTTGAAATCTGAAAAATAAATGAACTAAATTC
Found at i:128226134 original size:29 final size:31
Alignment explanation
Indices: 128226102--128226159 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
128226092 AGTGAAGATC
*
128226102 AAATCTTTT-AAA-ATGATCAAATAAGGATT
1 AAATATTTTCAAATATGATCAAATAAGGATT
* *
128226131 AAATATTTTCAAATGTGCTCAAATAAGGA
1 AAATATTTTCAAATATGATCAAATAAGGA
128226160 CTTCTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.33
30 3 0.12
31 13 0.54
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.33
Consensus pattern (31 bp):
AAATATTTTCAAATATGATCAAATAAGGATT
Found at i:128228212 original size:18 final size:18
Alignment explanation
Indices: 128228191--128228260 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
128228181 TAATATCTGT
128228191 TATATAAAAAATAAAAAA
1 TATATAAAAAATAAAAAA
****
128228209 TATATACAAAATATAATTTGT
1 TATATA-AAAA-ATAA-AAAA
128228230 TATATAAAAAATAAAAAA
1 TATATAAAAAATAAAAAA
*
128228248 TATATACAAAATA
1 TATATAAAAAATA
128228261 TAATTTGAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 18 0.45
19 8 0.20
20 8 0.20
21 6 0.15
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (18 bp):
TATATAAAAAATAAAAAA
Found at i:128228233 original size:39 final size:39
Alignment explanation
Indices: 128228188--128228267 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
128228178 ATTTAATATC
128228188 TGTTATATAAAAAATAAAAAATATATACAAAATATAATT
1 TGTTATATAAAAAATAAAAAATATATACAAAATATAATT
128228227 TGTTATATAAAAAATAAAAAATATATACAAAATATAATT
1 TGTTATATAAAAAATAAAAAATATATACAAAATATAATT
128228266 TG
1 TG
128228268 AACGCATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (39 bp):
TGTTATATAAAAAATAAAAAATATATACAAAATATAATT
Found at i:128232104 original size:13 final size:13
Alignment explanation
Indices: 128232088--128232113 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
128232078 GAAAAAATTA
128232088 ATTATGAAAATGG
1 ATTATGAAAATGG
128232101 ATTATGAAAATGG
1 ATTATGAAAATGG
128232114 GTTGTTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
ATTATGAAAATGG
Found at i:128232548 original size:29 final size:31
Alignment explanation
Indices: 128232493--128232553 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 31
128232483 TGTGCGTGTC
* **
128232493 TTTAGTGTTGAAATTTTGGGAGGAAGT-TTA
1 TTTAGTGTTGAAATTTTAGGAAAAAGTGTTA
*
128232523 TTTA-TGTTGGAATTTTAGGAAAAAGTGTTA
1 TTTAGTGTTGAAATTTTAGGAAAAAGTGTTA
128232553 T
1 T
128232554 AATTATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (31 bp):
TTTAGTGTTGAAATTTTAGGAAAAAGTGTTA
Found at i:128238413 original size:35 final size:35
Alignment explanation
Indices: 128238367--128238456 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
128238357 ACTCTGGTGT
* *
128238367 TGTGGCTTTGTTTACATTAGGCATATATACCGT-A
1 TGTGGTTTTGTTTACATTAAGCATATATACCGTGA
* **
128238401 GTGTGGTTTTGTTTACATTAATCATATATAGGGTGA
1 -TGTGGTTTTGTTTACATTAAGCATATATACCGTGA
*
128238437 TGTGGTTCTGTTTACATTAA
1 TGTGGTTTTGTTTACATTAA
128238457 AAACACATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
35 47 0.98
36 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.44
Consensus pattern (35 bp):
TGTGGTTTTGTTTACATTAAGCATATATACCGTGA
Found at i:128250041 original size:46 final size:46
Alignment explanation
Indices: 128249974--128250155 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
128249964 AGTGTGCTCT
*
128249974 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
128250020 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
128250066 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
128250112 ATGACA-GAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
128250156 TCATGTCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:128251963 original size:228 final size:228
Alignment explanation
Indices: 128251554--128252361 Score: 1001
Period size: 228 Copynumber: 3.5 Consensus size: 228
128251544 AGCCAAAAAA
* * *
128251554 GATGCAGATCTTCGTTAAGA-CTCTAACCGGCAAGACGATCACTCTCGAGGTCGAGAGCTCCGAC
1 GATGCAAATCTTCGTCAAGACCT-TGACCGGCAAGACGATCACTCTCGAGGTCGAGAGCTCCGAC
* * * *
128251618 ACGATCGACAACGTGAAGGCCAAAATCCAAGATAAGGAAGGCATCCCTCCAGACCAGCAGCGTCT
65 ACGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCT
* * * *
128251683 GATCTTCGCCGGAAAACAGCTTGAGGACGGCCGGACCTTGGCCGATTACAACATCCAAAAGGAGT
130 CATCTTCGCCGGAAAACAACTCGAGGACGGCCGGACCTTGGCCGATTACAACATCCAGAAGGAGT
*
128251748 CAACTCTCCACCTCGTCCTCCGTTTGCGCGGTGG
195 CAACTCTCCACCTCGTCCTCCGTTTGCGAGGTGG
* * *
128251782 GATGCAAATCTTCGTGAAAACCTTGACCGGCAAGACAATCACTCTCGAGGTCGAGAGCTCCGACA
1 GATGCAAATCTTCGTCAAGACCTTGACCGGCAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
* * * * *
128251847 CGATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGCATCCCCCCAGACCAGCAACGTCTC
66 CGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * *
128251912 ATCTTCGCCGGAAAACAACTCGAAGACGGCCGTACCTTGGCCGACTACAACATCCAGAAGGAGTC
131 ATCTTCGCCGGAAAACAACTCGAGGACGGCCGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
* * * * *
128251977 AACGCTCCACCTTGTCCTTCGTTTGCGTGGCGG
196 AACTCTCCACCTCGTCCTCCGTTTGCGAGGTGG
* * *
128252010 GATGCAAATCTTCGTTAAGACGCTT-ACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCTGAC
1 GATGCAAATCTTCGTCAAGAC-CTTGACCGGCAAGACGATCACTCTCGAGGTCGAGAGCTCCGAC
*
128252074 ACGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCGCCAGACCAGCAACGTCT
65 ACGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCT
* * * * * *
128252139 CATCTTCGCCGGAAAGCAACTCGAGGACGGGCGGACTTTAGCCGATTACAATATCCAGAAGGAAT
130 CATCTTCGCCGGAAAACAACTCGAGGACGGCCGGACCTTGGCCGATTACAACATCCAGAAGGAGT
* * * * *
128252204 CGACTCTTCATCTGGTCCTGCGTCTT-CGAGGTGG
195 CAACTCTCCACCTCGTCCTCCGT-TTGCGAGGTGG
* * * * * * * * * *
128252238 GATGCAGATCTTCGTCAAGACTTTGACCGGTAAGACGATTACTTTAGAAGTGGAGAGCTCGGATA
1 GATGCAAATCTTCGTCAAGACCTTGACCGGCAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
* * * * * * * * * *
128252303 CGATTGATAACGTGAAAGCGAAGATTCAGGACAAAGAAGGAATTCCACCAGATCAGCAA
66 CGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAA
128252362 AGGTTGATTT
Statistics
Matches: 504, Mismatches: 72, Indels: 8
0.86 0.12 0.01
Matches are distributed among these distances:
227 2 0.00
228 495 0.98
229 7 0.01
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.18
Consensus pattern (228 bp):
GATGCAAATCTTCGTCAAGACCTTGACCGGCAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
CGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
ATCTTCGCCGGAAAACAACTCGAGGACGGCCGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
AACTCTCCACCTCGTCCTCCGTTTGCGAGGTGG
Found at i:128252416 original size:228 final size:227
Alignment explanation
Indices: 128251554--128252466 Score: 963
Period size: 228 Copynumber: 4.0 Consensus size: 227
128251544 AGCCAAAAAA
* * * *
128251554 GATGCAGATCTTCGTTAAGA-CTCTAACCGGCAAGACGATCACTCTCGAGGTCGAGAGCTCCGAC
1 GATGCAAATCTTCGTCAAGACCT-TGACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCCGAC
* * * * * *
128251618 ACGATCGACAACGTGAAGGCCAAAATCCAAGATAAGGAAGGCATCCCTCCAGACCAGCAGCGTCT
65 ACGATCGACAACGTGAAAGCGAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCT
* * * * * *
128251683 GATCTTCGCCGGAAAACAGCTTGAGGACGGCCGGACCTTGGCCGATTACAACATCCAAAAGGAGT
130 CATCTTCG-CGGGAAACAACTCGAAGACGGACGGACCTTGGCCGATTACAACATCCAAAAGGAGT
* * *
128251748 CAACTCTCCACCTCGTCCTCCGTTTGCGCGGTGG
194 CAACTCTCCACCTTGTCCTTCGTTTGCGTGGTGG
* * * *
128251782 GATGCAAATCTTCGTGAAAACCTTGACCGGCAAGACAATCACTCTCGAGGTCGAGAGCTCCGACA
1 GATGCAAATCTTCGTCAAGACCTTGACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
* * *
128251847 CGATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGCATCCCCCCAGACCAGCAACGTCTC
66 CGATCGACAACGTGAAAGCGAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * *
128251912 ATCTTCGCCGGAAAACAACTCGAAGACGGCCGTACCTTGGCCGACTACAACATCCAGAAGGAGTC
131 ATCTTCG-CGGGAAACAACTCGAAGACGGACGGACCTTGGCCGATTACAACATCCAAAAGGAGTC
* *
128251977 AACGCTCCACCTTGTCCTTCGTTTGCGTGGCGG
195 AACTCTCCACCTTGTCCTTCGTTTGCGTGGTGG
* *
128252010 GATGCAAATCTTCGTTAAGACGCTT-ACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCTGAC
1 GATGCAAATCTTCGTCAAGAC-CTTGACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCCGAC
* * *
128252074 ACGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCGCCAGACCAGCAACGTCT
65 ACGATCGACAACGTGAAAGCGAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCT
* * * * * * * *
128252139 CATCTTCGCCGGAAAGCAACTCGAGGACGGGCGGACTTTAGCCGATTACAATATCCAGAAGGAAT
130 CATCTTCGCGGGAAA-CAACTCGAAGACGGACGGACCTTGGCCGATTACAACATCCAAAAGGAGT
* * * * * *
128252204 CGACTCTTCATCTGGTCCTGCGTCTT-CGAGGTGG
194 CAACTCTCCACCTTGTCCTTCGT-TTGCGTGGTGG
* * * * * * * * * *
128252238 GATGCAGATCTTCGTCAAGACTTTGACCGGTAAGACGATTACTTTAGAAGTGGAGAGCTCGGATA
1 GATGCAAATCTTCGTCAAGACCTTGACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
* * * * * * * * *
128252303 CGATTGATAACGTGAAAGCGAAGATTCAGGACAAAGAAGGAATTCCACCAGATCAGCAAAGGT-T
66 CGATCGACAACGTGAAAGCGAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGC-AACGTCT
* * * * * * * * *
128252367 GATTTTTGCTGGGAAACAACTGGAAGACGGAAGGACTTTGGCTGATTACAATATTCAAAAGGAGT
130 CATCTTCGC-GGGAAACAACTCGAAGACGGACGGACCTTGGCCGATTACAACATCCAAAAGGAGT
* * *
128252432 CCACTCTTCACCTTGTTCTTCGTCTT-CGTGGTGG
194 CAACTCTCCACCTTGTCCTTCGT-TTGCGTGGTGG
128252466 G
1 G
128252467 TTCTAAGCCT
Statistics
Matches: 585, Mismatches: 93, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
227 7 0.01
228 562 0.96
229 16 0.03
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (227 bp):
GATGCAAATCTTCGTCAAGACCTTGACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
CGATCGACAACGTGAAAGCGAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
ATCTTCGCGGGAAACAACTCGAAGACGGACGGACCTTGGCCGATTACAACATCCAAAAGGAGTCA
ACTCTCCACCTTGTCCTTCGTTTGCGTGGTGG
Found at i:128252431 original size:456 final size:456
Alignment explanation
Indices: 128251554--128252462 Score: 1149
Period size: 456 Copynumber: 2.0 Consensus size: 456
128251544 AGCCAAAAAA
* * *
128251554 GATGCAGATCTTCGTTAAGACTCTAACCGGCAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
1 GATGCAAATCTTCGTTAAGACGCTAACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
* * * * *
128251619 CGATCGACAACGTGAAGGCCAAAATCCAAGATAAGGAAGGCATCCCTCCAGACCAGCAGCGTCTG
66 CGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCGCCAGACCAGCAACGTCTC
* * * *
128251684 ATCTTCGCCGGAAAACAGCTTGAGGACGGCCGGACCTTGGCCGATTACAACATCCAAAAGGAGTC
131 ATCTTCGCCGGAAAACAACTCGAGGACGGCCGGACCTTAGCCGATTACAACATCCAAAAGGAATC
* *
128251749 AACTCTCCACCTCGTCCTCCGTTTGCGCGGTGGGATGCAAATCTTCGTGAAAACCTTGACCGGCA
196 AACTCTCCACCTCGTCCTCCGTTTGCGAGGTGGGATGCAAATCTTCGTCAAAACCTTGACCGGCA
* * * *
128251814 AGACAATCACTCTCGAGGTCGAGAGCTCCGACACGATCGACAACGTTAAGGCGAAGATCCAAGAC
261 AGACAATCACTCTAGAAGTCGAGAGCTCCGACACGATCGACAACGTGAAAGCGAAGATCCAAGAC
* * * **
128251879 AAGGAAGGCATCCCCCCAGACCAGCAACGTCTCATCTTCGCCGGAAAACAACTCGAAGACGGCCG
326 AAAGAAGGAATCCCACCAGACCAGCAACGTCTCATCTTCGCCGGAAAACAACTCGAAGACGGAAG
* *
128251944 TACCTTGGCCGACTACAACATCCAGAAGGAGTCAACGCTCCACCTTGTCCTTCGT-TTGCGTGGC
391 GACCTTGGCCGACTACAACATCCAAAAGGAGTCAACGCTCCACCTTGTCCTTCGTCTT-CGTGGC
128252008 GG
455 GG
* *
128252010 GATGCAAATCTTCGTTAAGACGCTTACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCTGACA
1 GATGCAAATCTTCGTTAAGACGCTAACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
128252075 CGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCGCCAGACCAGCAACGTCTC
66 CGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCGCCAGACCAGCAACGTCTC
* * * * *
128252140 ATCTTCGCCGGAAAGCAACTCGAGGACGGGCGGACTTTAGCCGATTACAATATCCAGAAGGAATC
131 ATCTTCGCCGGAAAACAACTCGAGGACGGCCGGACCTTAGCCGATTACAACATCCAAAAGGAATC
* * * * * * * * *
128252205 GACTCTTCATCTGGTCCTGCGTCTT-CGAGGTGGGATGCAGATCTTCGTCAAGACTTTGACCGGT
196 AACTCTCCACCTCGTCCTCCGT-TTGCGAGGTGGGATGCAAATCTTCGTCAAAACCTTGACCGGC
* * * * * * * * * *
128252269 AAGACGATTACTTTAGAAGTGGAGAGCTCGGATACGATTGATAACGTGAAAGCGAAGATTCAGGA
260 AAGACAATCACTCTAGAAGTCGAGAGCTCCGACACGATCGACAACGTGAAAGCGAAGATCCAAGA
* * * * * * * * *
128252334 CAAAGAAGGAATTCCACCAGATCAGCAAAGGT-TGATTTTTGCTGGGAAACAACTGGAAGACGGA
325 CAAAGAAGGAATCCCACCAGACCAGC-AACGTCTCATCTTCGCCGGAAAACAACTCGAAGACGGA
* * * * * * * * *
128252398 AGGACTTTGGCTGATTACAATATTCAAAAGGAGTCCACTCTTCACCTTGTTCTTCGTCTTCGTGG
389 AGGACCTTGGCCGACTACAACATCCAAAAGGAGTCAACGCTCCACCTTGTCCTTCGTCTTCGTGG
128252463 TGGGTTCTAA
Statistics
Matches: 381, Mismatches: 69, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
456 373 0.98
457 8 0.02
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.20
Consensus pattern (456 bp):
GATGCAAATCTTCGTTAAGACGCTAACCGGAAAGACGATCACTCTCGAGGTCGAGAGCTCCGACA
CGATCGACAACGTGAAAGCCAAAATCCAAGACAAGGAAGGCATCCCGCCAGACCAGCAACGTCTC
ATCTTCGCCGGAAAACAACTCGAGGACGGCCGGACCTTAGCCGATTACAACATCCAAAAGGAATC
AACTCTCCACCTCGTCCTCCGTTTGCGAGGTGGGATGCAAATCTTCGTCAAAACCTTGACCGGCA
AGACAATCACTCTAGAAGTCGAGAGCTCCGACACGATCGACAACGTGAAAGCGAAGATCCAAGAC
AAAGAAGGAATCCCACCAGACCAGCAACGTCTCATCTTCGCCGGAAAACAACTCGAAGACGGAAG
GACCTTGGCCGACTACAACATCCAAAAGGAGTCAACGCTCCACCTTGTCCTTCGTCTTCGTGGCG
G
Found at i:128255725 original size:29 final size:29
Alignment explanation
Indices: 128255683--128255769 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 29
128255673 TTTAATTTTC
128255683 AAATTAAACAAATAAAGGAATTAAATCTCTA
1 AAATT-AA-AAATAAAGGAATTAAATCTCTA
* *
128255714 AAATTAAAAATAAA-GAGACTAAATTTCTA
1 AAATTAAAAATAAAGGA-ATTAAATCTCTA
*
128255743 AAATTTAAAGAATACAAGGAATGAAAT
1 AAA-TTAAA-AATA-AAGGAATTAAAT
128255770 TATAATTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
28 2 0.04
29 20 0.43
30 7 0.15
31 9 0.19
32 7 0.15
33 2 0.04
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.25
Consensus pattern (29 bp):
AAATTAAAAATAAAGGAATTAAATCTCTA
Found at i:128258797 original size:17 final size:18
Alignment explanation
Indices: 128258772--128258805 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
128258762 AAAGTAAAAA
128258772 AAACTTGAACCTAAAATT
1 AAACTTGAACCTAAAATT
*
128258790 AAAC-TGAATCTAAAAT
1 AAACTTGAACCTAAAAT
128258806 GACTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (18 bp):
AAACTTGAACCTAAAATT
Found at i:128260364 original size:34 final size:34
Alignment explanation
Indices: 128260263--128260364 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 34
128260253 AAATTATAAG
** *
128260263 ATATTTAAATAATTTAATATAATTGTACATAAAAT
1 ATATTTAAA-AATTTAATATAATAATACATAAATT
** *
128260298 AT-TTTAAAAGCTTAA-AT-ATAATA-TTAAATT
1 ATATTTAAAAATTTAATATAATAATACATAAATT
*
128260328 ATATTTAAAATTTTAATATAATAATACATAAATT
1 ATATTTAAAAATTTAATATAATAATACATAAATT
128260362 ATA
1 ATA
128260365 AATTAATCTG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
30 7 0.13
31 15 0.28
32 4 0.07
33 11 0.20
34 15 0.28
35 2 0.04
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (34 bp):
ATATTTAAAAATTTAATATAATAATACATAAATT
Found at i:128261794 original size:2 final size:2
Alignment explanation
Indices: 128261787--128261813 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
128261777 TGATGAAAAT
128261787 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 T
128261814 GTTAATTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:128265866 original size:18 final size:19
Alignment explanation
Indices: 128265843--128265878 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
128265833 ATAATTTAAT
*
128265843 TTTTTTG-AGTTTTTATTA
1 TTTTTTGAAATTTTTATTA
128265861 TTTTTTGAAATTTTTATT
1 TTTTTTGAAATTTTTATT
128265879 TTTGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTTTGAAATTTTTATTA
Found at i:128265890 original size:16 final size:17
Alignment explanation
Indices: 128265843--128265892 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
128265833 ATAATTTAAT
*
128265843 TTTTTTGAGTTTTTATTA
1 TTTTTTGA-TTTTTTTTA
**
128265861 TTTTTTGA-AATTTTTA
1 TTTTTTGATTTTTTTTA
128265877 -TTTTTGATTTTTTTTA
1 TTTTTTGATTTTTTTTA
128265893 AATGGATCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 7 0.27
16 11 0.42
18 8 0.31
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTTTGATTTTTTTTA
Found at i:128269009 original size:8 final size:8
Alignment explanation
Indices: 128268996--128269038 Score: 59
Period size: 8 Copynumber: 5.0 Consensus size: 8
128268986 TTAAATAGAA
128268996 TTTTTAAT
1 TTTTTAAT
128269004 TTTTTAAT
1 TTTTTAAT
128269012 TTTTTAAT
1 TTTTTAAT
128269020 TTTTAATAAT
1 TTTT--TAAT
128269030 TTATTTAAT
1 TT-TTTAAT
128269039 CCAATAAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 20 0.62
9 4 0.12
10 6 0.19
11 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTTAAT
Found at i:128270907 original size:21 final size:21
Alignment explanation
Indices: 128270840--128270900 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
128270830 TAGGAGAGTA
*
128270840 TGGTGGTCCTGGTGGTGCTGC
1 TGGTGGTCCTGGTGGTGGTGC
* *
128270861 TGGTGGCCCTGGTGTTGGTGC
1 TGGTGGTCCTGGTGGTGGTGC
128270882 TGGTGGTCCTGGTGGTGGT
1 TGGTGGTCCTGGTGGTGGT
128270901 CTTGGTGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.34
Consensus pattern (21 bp):
TGGTGGTCCTGGTGGTGGTGC
Found at i:128271644 original size:100 final size:100
Alignment explanation
Indices: 128271469--128271704 Score: 258
Period size: 100 Copynumber: 2.4 Consensus size: 100
128271459 TTCTCGTGTC
* * ** * * *
128271469 GTGTCGTGTCGTGACATAAAATGATTAATCAATTGATTTTTGTTCTACAGGCATTCATTTGTGCG
1 GTGTCGTGTTGTGACATAAAATGATTAATCAATTAACGTTTATTCTACAGGCATTAATTTATGCG
* * * * *
128271534 CGACAACATAAGTCTTCACATATATCGATCTTGTT
66 CAACAACATAAATCTTCACATATATCGACCCTGAT
* *
128271569 GTGTCGTGTTGTGACATAAAATGATTAATCAATTAACGTTTATTCTAC-GTGTATTAATTTATGT
1 GTGTCGTGTTGTGACATAAAATGATTAATCAATTAACGTTTATTCTACAG-GCATTAATTTATGC
* **
128271633 GTAACGGCATAAATCTTCACATATATCGACCCTGAT
65 GCAACAACATAAATCTTCACATATATCGACCCTGAT
* * * * *
128271669 GTGTCTTGTTGTAACTTAAAATAATTAGTCAATTAA
1 GTGTCGTGTTGTGACATAAAATGATTAATCAATTAA
128271705 TATTTACTCT
Statistics
Matches: 113, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
99 1 0.01
100 112 0.99
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (100 bp):
GTGTCGTGTTGTGACATAAAATGATTAATCAATTAACGTTTATTCTACAGGCATTAATTTATGCG
CAACAACATAAATCTTCACATATATCGACCCTGAT
Found at i:128274321 original size:17 final size:15
Alignment explanation
Indices: 128274291--128274325 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
128274281 TAAATTTATT
128274291 AATTTAAAATTTTAA
1 AATTTAAAATTTTAA
128274306 AATTGTAAATATTTTAA
1 AATT-TAAA-ATTTTAA
128274323 AAT
1 AAT
128274326 ATATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 4 0.22
17 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
AATTTAAAATTTTAA
Done.