Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3738426
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 16
Found at i:821840 original size:3 final size:3
Alignment explanation
Indices: 821828--821858 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
821818 TTTTTTTACC
821828 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
821859 GTTGTAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:825520 original size:2 final size:2
Alignment explanation
Indices: 825515--825570 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
825505 TATAAGAATA
825515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
825557 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
825571 GCGCATAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:826029 original size:32 final size:33
Alignment explanation
Indices: 825958--826165 Score: 129
Period size: 32 Copynumber: 5.9 Consensus size: 33
825948 ATTAGTAAGT
* * * *
825958 TAGTAAGAACAATAAAAATAGAAAAGTCAGTATG-T
1 TAGTATGAACAAT-AAAAT--AAAAGTTAGAATGAG
825993 TAGTATGAACAATAAAATAAAAGTTA-AATTGATAG
1 TAGTATGAACAATAAAATAAAAGTTAGAA-TG--AG
*
826028 TAAGTTAGTAAGAACAATAAAAATAAAAAGTTAGAAT-AT
1 T-AG-TA-T--GAACAAT-AAAAT-AAAAGTTAGAATGAG
*
826067 TAGTATGAACAATAAAATAAAAGTTAGAATG-T
1 TAGTATGAACAATAAAATAAAAGTTAGAATGAG
* * * *
826099 TAGTAAGAACAATAAAAATAAAAAAGGTCAGTATG-T
1 TAGTATGAACAAT-AAAAT--AAAA-GTTAGAATGAG
*
826135 TAGTAGGAACAATAAAATAAAAGTTAGAATG
1 TAGTATGAACAATAAAATAAAAGTTAGAATG
826166 TTAGCGGTTA
Statistics
Matches: 145, Mismatches: 11, Indels: 37
0.75 0.06 0.19
Matches are distributed among these distances:
31 1 0.01
32 41 0.28
33 14 0.10
34 12 0.08
35 22 0.15
36 23 0.16
37 4 0.03
38 3 0.02
39 2 0.01
40 7 0.05
41 5 0.03
42 9 0.06
43 2 0.01
ACGTcount: A:0.55, C:0.04, G:0.16, T:0.25
Consensus pattern (33 bp):
TAGTATGAACAATAAAATAAAAGTTAGAATGAG
Found at i:826071 original size:42 final size:39
Alignment explanation
Indices: 825941--826105 Score: 113
Period size: 35 Copynumber: 4.4 Consensus size: 39
825931 GTGTAATAAA
* *
825941 TTAAAATATTAGTAAGTTAGTAAGAACAAT-AAA-AATAG
1 TTAAATTA-TAGTAAGTTAGTAAGAACAATAAAATAAAAG
* * * * *
825979 -AAAAGT-CAGTATGTTAGTATGAACAATAAAATAAAAG
1 TTAAATTATAGTAAGTTAGTAAGAACAATAAAATAAAAG
826016 TTAAATTGATAGTAAGTTAGTAAGAACAATAAAAATAAAAAG
1 TTAAATT-ATAGTAAGTTAGTAAGAACAAT-AAAAT-AAAAG
826058 TTAGAA-TAT--T-AG-TA-T--GAACAATAAAATAAAAG
1 TTA-AATTATAGTAAGTTAGTAAGAACAATAAAATAAAAG
826090 TTAGAATGT-TAGTAAG
1 TTA-AAT-TATAGTAAG
826106 AACAATAAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 28
0.73 0.08 0.20
Matches are distributed among these distances:
32 11 0.11
33 6 0.06
34 8 0.08
35 19 0.18
36 6 0.06
37 10 0.10
38 6 0.06
39 1 0.01
40 18 0.17
41 7 0.07
42 9 0.09
43 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.15, T:0.28
Consensus pattern (39 bp):
TTAAATTATAGTAAGTTAGTAAGAACAATAAAATAAAAG
Found at i:826092 original size:74 final size:71
Alignment explanation
Indices: 825950--826160 Score: 297
Period size: 74 Copynumber: 3.0 Consensus size: 71
825940 ATTAAAATAT
825950 TAGTAAGTTAGTAAGAACAATAAAAATAGAAAAGTCAGTATGTTAGTATGAACAATAAAATAAAA
1 TAGTAAGTTAGTAAGAACAATAAAAATA-AAAAGTCAGTATGTTAGTATGAACAATAAAATAAAA
826015 GTTAAATTGA
65 GTT-AA--GA
* * *
826025 TAGTAAGTTAGTAAGAACAATAAAAATAAAAAGTTAGAATATTAGTATGAACAATAAAATAAAAG
1 TAGTAAGTTAGTAAGAACAATAAAAATAAAAAGTCAGTATGTTAGTATGAACAATAAAATAAAAG
826090 TT-AGA
66 TTAAGA
*
826095 -A-T--GTTAGTAAGAACAATAAAAATAAAAAAGGTCAGTATGTTAGTAGGAACAATAAAATAAA
1 TAGTAAGTTAGTAAGAACAATAAAAAT-AAAAA-GTCAGTATGTTAGTATGAACAATAAAATAAA
826156 AGTTA
64 AGTTA
826161 GAATGTTAGC
Statistics
Matches: 126, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
66 21 0.17
67 5 0.04
68 32 0.25
69 1 0.01
70 2 0.02
72 1 0.01
74 36 0.29
75 28 0.22
ACGTcount: A:0.55, C:0.04, G:0.16, T:0.26
Consensus pattern (71 bp):
TAGTAAGTTAGTAAGAACAATAAAAATAAAAAGTCAGTATGTTAGTATGAACAATAAAATAAAAG
TTAAGA
Found at i:826160 original size:68 final size:67
Alignment explanation
Indices: 825956--826169 Score: 295
Period size: 68 Copynumber: 3.1 Consensus size: 67
825946 ATATTAGTAA
*
825956 GTTAGTAAGAACAATAAAAATAGAAAAGTCAGTATGTTAGTATGAACAATAAAATAAAAGTTAAA
1 GTTAGTAAGAACAATAAAAATAAAAAAGTCAGTATGTTAGTATGAACAATAAAATAAAAGTT--A
826021 TTGATAGT
64 --GA-A-T
* * *
826029 AAGTTAGTAAGAACAATAAAAAT-AAAAAGTTAGAATATTAGTATGAACAATAAAATAAAAGTTA
1 --GTTAGTAAGAACAATAAAAATAAAAAAGTCAGTATGTTAGTATGAACAATAAAATAAAAGTTA
826093 GAAT
64 GAAT
*
826097 GTTAGTAAGAACAATAAAAATAAAAAAGGTCAGTATGTTAGTAGGAACAATAAAATAAAAGTTAG
1 GTTAGTAAGAACAATAAAAATAAAAAA-GTCAGTATGTTAGTATGAACAATAAAATAAAAGTTAG
826162 AAT
65 AAT
826165 GTTAG
1 GTTAG
826170 CGGTTAGGGG
Statistics
Matches: 129, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
66 21 0.16
67 5 0.04
68 42 0.33
69 1 0.01
70 2 0.02
72 1 0.01
74 36 0.28
75 21 0.16
ACGTcount: A:0.54, C:0.04, G:0.16, T:0.26
Consensus pattern (67 bp):
GTTAGTAAGAACAATAAAAATAAAAAAGTCAGTATGTTAGTATGAACAATAAAATAAAAGTTAGA
AT
Found at i:827809 original size:134 final size:134
Alignment explanation
Indices: 827569--827937 Score: 434
Period size: 134 Copynumber: 2.8 Consensus size: 134
827559 GATGTTCCTT
* * * * * * * * * * *
827569 TTATCTAAGGGTGACACGACACCTATGTCATGAGGAGATCAGGTCGGTGGATGACATGGTTCCTA
1 TTATCTAAGGTTGACACGGCTCCTACGTGATAAGAAGATCTGGTCAGTGGAAGACATGATTCCTA
* * * * * * *
827634 CGGGATAAGCACGA-TTGACTATCTTTAGGGATGATGATAACATGGTTCCTACGTGATGAGGACG
66 CGTGATGAGGACGACTAG-CCATATTTAGGGATGATGATAACATGGTTCCTACATGATGAGGACG
827698 ATTGG
130 ATTGG
* * * * *
827703 TTATCTAAGGTTGACATGGCTCCTACGTGATGAGAAGATCTGGTCGGTGGATGACATGATTCCTT
1 TTATCTAAGGTTGACACGGCTCCTACGTGATAAGAAGATCTGGTCAGTGGAAGACATGATTCCTA
* * *
827768 TGTGATGAGGATGACTAGCCATATTTAGGGATGATGATAACATGGTTCCTACATGATGAGGACGG
66 CGTGATGAGGACGACTAGCCATATTTAGGGATGATGATAACATGGTTCCTACATGATGAGGACGA
827833 TTGG
131 TTGG
* * *
827837 TTATCTAAGGTTGACGCGGCTCCTACGTGATAAGGAGATCTGGTCAGTGGAAGACATGGTTCCTA
1 TTATCTAAGGTTGACACGGCTCCTACGTGATAAGAAGATCTGGTCAGTGGAAGACATGATTCCTA
* * *
827902 CGTGATGAGGACGACTGGCCATCTTCAGGGATGATG
66 CGTGATGAGGACGACTAGCCATATTTAGGGATGATG
827938 GTTTCAAGAG
Statistics
Matches: 201, Mismatches: 33, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
134 199 0.99
135 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (134 bp):
TTATCTAAGGTTGACACGGCTCCTACGTGATAAGAAGATCTGGTCAGTGGAAGACATGATTCCTA
CGTGATGAGGACGACTAGCCATATTTAGGGATGATGATAACATGGTTCCTACATGATGAGGACGA
TTGG
Found at i:828131 original size:37 final size:36
Alignment explanation
Indices: 828027--828204 Score: 108
Period size: 37 Copynumber: 5.2 Consensus size: 36
828017 TGTCTCAAGC
*
828027 GAGAC-AAAACTTTGTTTCAATGGAAACAAACTCAA
1 GAGACTAAAACTTTGTTTCAAGGGAAACAAACTCAA
**** ** ***
828062 -AGA--ATTTTTTTGTTTCAAGAAAAACTGTCTCAA
1 GAGACTAAAACTTTGTTTCAAGGGAAACAAACTCAA
828095 GAGAGCTAAAACTTTGTTTCAAGGGAAACAAACTC-A
1 GAGA-CTAAAACTTTGTTTCAAGGGAAACAAACTCAA
** * * * *
828131 -A-A-T--ATTTTTATTTCAAGAGAAACTATCTCAA
1 GAGACTAAAACTTTGTTTCAAGGGAAACAAACTCAA
*
828162 GAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAA
1 GAGAC-TAAAACTTTGTTTCAAGGGAAACAAACTCAA
828199 -AGACTA
1 GAGACTA
828205 TGTCTTAAGG
Statistics
Matches: 99, Mismatches: 33, Indels: 22
0.64 0.21 0.14
Matches are distributed among these distances:
30 20 0.20
31 1 0.01
32 2 0.02
33 21 0.21
34 7 0.07
35 2 0.02
36 5 0.05
37 41 0.41
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (36 bp):
GAGACTAAAACTTTGTTTCAAGGGAAACAAACTCAA
Found at i:828173 original size:67 final size:66
Alignment explanation
Indices: 827939--828199 Score: 294
Period size: 67 Copynumber: 3.9 Consensus size: 66
827929 GGGATGATGG
* * * ** * * * *
827939 TTTCAAGAGAAA-TCGTCTCAAGCGAGACAAAAC-ATGTTTCAAACGTAACAGACTCAAAGACTT
1 TTTCAAGAGAAACT-GTCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAAATATTT
828002 TT
65 TT
* * * *
828004 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTTTCAATGGAAACAAACTCAAAGAATTT
1 TTTCAAGAGAAACTGTCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTC--A-AATAT
828069 TTTT
63 TTTT
* *
828073 GTTTCAAGAAAAACTGTCTCAAGAGAGC-TAAAACTTTGTTTCAAGGGAAACAAACTCAAATATT
1 -TTTCAAGAGAAACTGTCTCAAGAGA-CACAAAACTTTGTTTCAAGGGAAACAAACTCAAATATT
828137 TTT
64 TTT
*
828140 ATTTCAAGAGAAACTATCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAAA
1 -TTTCAAGAGAAACTGTCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAAA
828200 GACTATGTCT
Statistics
Matches: 170, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
65 31 0.18
66 19 0.11
67 62 0.36
68 2 0.01
69 6 0.04
70 50 0.29
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (66 bp):
TTTCAAGAGAAACTGTCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAAATATTTT
T
Found at i:828182 original size:137 final size:135
Alignment explanation
Indices: 827938--828201 Score: 361
Period size: 137 Copynumber: 1.9 Consensus size: 135
827928 AGGGATGATG
* * * *
827938 GTTTCAAGAGAAATCGTCTCAAGCGAGACAAAACATGTTTCAAACGTAACAGACTCAAAGACTTT
1 GTTTCAAGAAAAATCGTCTCAAGAGAGACAAAACATGTTTCAAACGAAACAAACTCAAAGACTTT
* * * *
828003 TTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTTTCAATGGAAACAAACTCAAAGAATT
66 TTTTCAAGAGAAACTATCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGAATT
828068 TTTTT
131 TTTTT
* ** * *
828073 GTTTCAAGAAAAA-CTGTCTCAAGAGAG-CTAAAACTTTGTTTCAAGGGAAACAAACTCAAATAT
1 GTTTCAAGAAAAATC-GTCTCAAGAGAGAC-AAAAC-ATGTTTCAAACGAAACAAACTCAAAGAC
828136 TTTTATTTCAAGAGAAACTATCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAAAG
63 TTTT-TTTCAAGAGAAACTATCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAAAG
828201 A
127 A
828202 CTATGTCTTA
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
134 2 0.02
135 28 0.25
136 25 0.22
137 57 0.51
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (135 bp):
GTTTCAAGAAAAATCGTCTCAAGAGAGACAAAACATGTTTCAAACGAAACAAACTCAAAGACTTT
TTTTCAAGAGAAACTATCTCAAGAGACACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGAATT
TTTTT
Found at i:828655 original size:38 final size:37
Alignment explanation
Indices: 828547--828655 Score: 139
Period size: 37 Copynumber: 2.9 Consensus size: 37
828537 AAGTATGACG
*
828547 AAATTTGTTTTGAG-AAAAATTGTCTCAAGCGAGACA
1 AAATTTGTTTTTAGAAAAAATTGTCTCAAGCGAGACA
* * * * *
828583 AATTTTGTTTTTAGAGAAAACTATCTCAAACGAGACA
1 AAATTTGTTTTTAGAAAAAATTGTCTCAAGCGAGACA
*
828620 AAATTTGTTTTTAAGAAAAAATTGTCTCTAGCGAGA
1 AAATTTGTTTTT-AGAAAAAATTGTCTCAAGCGAGA
828656 GGACACTTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 12 0.20
37 29 0.49
38 18 0.31
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (37 bp):
AAATTTGTTTTTAGAAAAAATTGTCTCAAGCGAGACA
Found at i:828696 original size:75 final size:73
Alignment explanation
Indices: 828547--828687 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 73
828537 AAGTATGACG
* * ** *
828547 AAATTTGTTTTGAGAAAAATTGTCTCAAGCGAGACAAATTTTGTTTTTAGAGAAAACTATCTCAA
1 AAATTTGTTTTAAGAAAAATTGTCTCAAGCGAGACAAACTTTGTTTCGAGAGAAAACAATCTCAA
828612 ACGAGACA
66 ACGAGACA
* * *
828620 AAATTTGTTTTTAAGAAAAAATTGTCTCTAGCGAGAGGACACTTTGTTTCGAGAG-AAACAATCT
1 AAATTTG-TTTTAAG-AAAAATTGTCTCAAGCGAGA-CAAACTTTGTTTCGAGAGAAAACAATCT
828684 CAAA
63 CAAA
828688 GCCGACAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
73 7 0.12
74 6 0.11
75 31 0.54
76 13 0.23
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (73 bp):
AAATTTGTTTTAAGAAAAATTGTCTCAAGCGAGACAAACTTTGTTTCGAGAGAAAACAATCTCAA
ACGAGACA
Found at i:830256 original size:24 final size:23
Alignment explanation
Indices: 830203--830264 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
830193 TTTTATTTTC
830203 AAAATTTTGAAAATATCGATTAAA
1 AAAATTTTGAAAA-ATCGATTAAA
* *
830227 ATAATTTTGAAAAAT-GTTTAATCA
1 AAAATTTTGAAAAATCGATTAA--A
830251 AAAA-TTTGAAAAAT
1 AAAATTTTGAAAAAT
830265 ATTGCCCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 5 0.15
23 12 0.36
24 16 0.48
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.35
Consensus pattern (23 bp):
AAAATTTTGAAAAATCGATTAAA
Found at i:831119 original size:13 final size:13
Alignment explanation
Indices: 831101--831125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
831091 TTTTTCTCTT
831101 TTTTTCTTTGCTC
1 TTTTTCTTTGCTC
831114 TTTTTCTTTGCT
1 TTTTTCTTTGCT
831126 TTTATCCTCA
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:0.00, C:0.20, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTTTCTTTGCTC
Found at i:833377 original size:14 final size:16
Alignment explanation
Indices: 833358--833390 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
833348 ATGCAATGCC
833358 AAACAAT-AAACA-AT
1 AAACAATCAAACATAT
833372 AAACAATCAAACATAT
1 AAACAATCAAACATAT
833388 AAA
1 AAA
833391 ATGTGTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 5 0.29
16 5 0.29
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (16 bp):
AAACAATCAAACATAT
Found at i:834763 original size:158 final size:158
Alignment explanation
Indices: 834475--834791 Score: 634
Period size: 158 Copynumber: 2.0 Consensus size: 158
834465 CAAAAAATCA
834475 TTTTTAAGAGTTTGAGAGTCGATTATGTGTGGGGAAGGGTGAACAACCCCACAACGCCCAAATTT
1 TTTTTAAGAGTTTGAGAGTCGATTATGTGTGGGGAAGGGTGAACAACCCCACAACGCCCAAATTT
834540 TGATACCTAAACGATTATATGATGTTTAAATATTGAGAATTACAAACTTGAAAATATATTTAAAT
66 TGATACCTAAACGATTATATGATGTTTAAATATTGAGAATTACAAACTTGAAAATATATTTAAAT
834605 TACGATCCTTCTATTTATTTGATTTTAT
131 TACGATCCTTCTATTTATTTGATTTTAT
834633 TTTTTAAGAGTTTGAGAGTCGATTATGTGTGGGGAAGGGTGAACAACCCCACAACGCCCAAATTT
1 TTTTTAAGAGTTTGAGAGTCGATTATGTGTGGGGAAGGGTGAACAACCCCACAACGCCCAAATTT
834698 TGATACCTAAACGATTATATGATGTTTAAATATTGAGAATTACAAACTTGAAAATATATTTAAAT
66 TGATACCTAAACGATTATATGATGTTTAAATATTGAGAATTACAAACTTGAAAATATATTTAAAT
834763 TACGATCCTTCTATTTATTTGATTTTAT
131 TACGATCCTTCTATTTATTTGATTTTAT
834791 T
1 T
834792 AAAAGATGTT
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 159 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (158 bp):
TTTTTAAGAGTTTGAGAGTCGATTATGTGTGGGGAAGGGTGAACAACCCCACAACGCCCAAATTT
TGATACCTAAACGATTATATGATGTTTAAATATTGAGAATTACAAACTTGAAAATATATTTAAAT
TACGATCCTTCTATTTATTTGATTTTAT
Found at i:835312 original size:2 final size:2
Alignment explanation
Indices: 835305--835334 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
835295 TGTGTAAATA
835305 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
835335 GCACATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:835599 original size:16 final size:15
Alignment explanation
Indices: 835580--835631 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
835570 AAAATGCAGC
*
835580 AAAATTAAAGGGCTG
1 AAAATTAAAGTGCTG
* *
835595 AAAAAATAAAATGCTG
1 -AAAATTAAAGTGCTG
*
835611 AAATTTAAAGTGCTGG
1 AAAATTAAAGTGCT-G
835627 AAAAT
1 AAAAT
835632 AAATAAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.52, C:0.06, G:0.19, T:0.23
Consensus pattern (15 bp):
AAAATTAAAGTGCTG
Found at i:835743 original size:31 final size:32
Alignment explanation
Indices: 835707--835954 Score: 210
Period size: 32 Copynumber: 7.2 Consensus size: 32
835697 AATAAAATAA
*
835707 AATGTTTGTAAGAACAATAAAA-AAAAGTTAG
1 AATGTTAGTAAGAACAATAAAATAAAAGTTAG
* * *
835738 TATGTTAGCATGAACAATAAAATAAAAGTTAG
1 AATGTTAGTAAGAACAATAAAATAAAAGTTAG
835770 AATGTTAGTAAATTAGTATGAACAATAAAAATAAAAAAGTTAG
1 AATGTTAG-----TA--A-GAACAAT-AAAAT--AAAAGTTAG
* *
835813 AATATTAGTATGAACAATAAAAATAAAAAAGTTAG
1 AATGTTAGTAAGAACAAT-AAAAT--AAAAGTTAG
* * *
835848 AATGTTAGTATGAACAACAAAATAAAAGTTAT
1 AATGTTAGTAAGAACAATAAAATAAAAGTTAG
*
835880 AATGTTAGTAAGAACAATAAAAATAAAAAAGGTCAG
1 AATGTTAGTAAGAACAAT-AAAAT--AAAA-GTTAG
* **
835916 TATGTTAGTGTGAACAATAAAATAAAAGTTAG
1 AATGTTAGTAAGAACAATAAAATAAAAGTTAG
835948 AATGTTA
1 AATGTTA
835955 ACGGTTAGGG
Statistics
Matches: 180, Mismatches: 21, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
31 18 0.10
32 50 0.28
33 9 0.05
34 5 0.03
35 49 0.27
36 18 0.10
37 1 0.01
38 2 0.01
40 7 0.04
41 5 0.03
43 16 0.09
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.27
Consensus pattern (32 bp):
AATGTTAGTAAGAACAATAAAATAAAAGTTAG
Found at i:835812 original size:35 final size:36
Alignment explanation
Indices: 835727--835954 Score: 232
Period size: 35 Copynumber: 6.5 Consensus size: 36
835717 AGAACAATAA
*
835727 AAAAAAGTTAGT-ATGTTAGCATGAACAAT-AAAAT
1 AAAAAAGTTAGTAATGTTAGTATGAACAATAAAAAT
*
835761 AAAAGTTAGAATGTTAGTAA-ATTAGTATGAACAATAAAAAT
1 -AAA---A-AA-GTTAGTAATGTTAGTATGAACAATAAAAAT
*
835802 AAAAAAGTTAG-AATATTAGTATGAACAATAAAAAT
1 AAAAAAGTTAGTAATGTTAGTATGAACAATAAAAAT
*
835837 AAAAAAGTTAG-AATGTTAGTATGAACAA-CAAAAT
1 AAAAAAGTTAGTAATGTTAGTATGAACAATAAAAAT
*
835871 --AAAAGTTA-TAATGTTAGTAAGAACAATAAAAAT
1 AAAAAAGTTAGTAATGTTAGTATGAACAATAAAAAT
* *
835904 AAAAAAGGTCAGT-ATGTTAGTGTGAACAAT-AAAAT
1 AAAAAA-GTTAGTAATGTTAGTATGAACAATAAAAAT
835939 --AAAAGTTAG-AATGTTA
1 AAAAAAGTTAGTAATGTTA
835955 ACGGTTAGGG
Statistics
Matches: 168, Mismatches: 10, Indels: 33
0.80 0.05 0.16
Matches are distributed among these distances:
32 34 0.20
33 9 0.05
34 7 0.04
35 65 0.39
36 20 0.12
37 2 0.01
38 1 0.01
39 2 0.01
40 22 0.13
41 6 0.04
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.27
Consensus pattern (36 bp):
AAAAAAGTTAGTAATGTTAGTATGAACAATAAAAAT
Found at i:835945 original size:68 final size:67
Alignment explanation
Indices: 835707--835954 Score: 250
Period size: 68 Copynumber: 3.6 Consensus size: 67
835697 AATAAAATAA
* * * * *
835707 AATGTTTGTAAGAACAATAAAA-AAAAGTTAGTATGTTAGCATGAACAAT-AAAATAAAAGTTAG
1 AATGTTAGTATGAACAATAAAATAAAAGTTAGAATGTTAGTAAGAACAATAAAAAT-AAA---A-
*
835770 AATGTTAG
61 AA-GTCAG
* * *
835778 TAA-ATTAGTATGAACAATAAAAATAAAAAAGTTAGAATATTAGTATGAACAATAAAAATAAAAA
1 -AATGTTAGTATGAACAAT-AAAAT--AAAAGTTAGAATGTTAGTAAGAACAATAAAAATAAAAA
*
835842 AGTTAG
62 AGTCAG
* *
835848 AATGTTAGTATGAACAACAAAATAAAAGTTATAATGTTAGTAAGAACAATAAAAATAAAAAAGGT
1 AATGTTAGTATGAACAATAAAATAAAAGTTAGAATGTTAGTAAGAACAATAAAAATAAAAAA-GT
835913 CAG
65 CAG
* *
835916 TATGTTAGTGTGAACAATAAAATAAAAGTTAGAATGTTA
1 AATGTTAGTATGAACAATAAAATAAAAGTTAGAATGTTA
835955 ACGGTTAGGG
Statistics
Matches: 153, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
67 36 0.24
68 39 0.25
69 7 0.05
70 18 0.12
71 14 0.09
72 7 0.05
75 27 0.18
76 5 0.03
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.27
Consensus pattern (67 bp):
AATGTTAGTATGAACAATAAAATAAAAGTTAGAATGTTAGTAAGAACAATAAAAATAAAAAAGTC
AG
Found at i:838837 original size:7 final size:7
Alignment explanation
Indices: 838825--838897 Score: 78
Period size: 7 Copynumber: 10.6 Consensus size: 7
838815 CATAATTAGA
838825 TTTAGGG
1 TTTAGGG
838832 TTTA-GG
1 TTTAGGG
838838 TTTAGTGG
1 TTTAG-GG
*
838846 -TTAGGA
1 TTTAGGG
*
838852 ATTAGGG
1 TTTAGGG
838859 TTTAGGG
1 TTTAGGG
**
838866 TTTAGTA
1 TTTAGGG
838873 TTTAGGG
1 TTTAGGG
838880 TTTAGGG
1 TTTAGGG
*
838887 TTTAGGT
1 TTTAGGG
838894 TTTA
1 TTTA
838898 AGATTCATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
6 7 0.13
7 46 0.84
8 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:839416 original size:11 final size:11
Alignment explanation
Indices: 839400--839462 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
839390 ATATTATAGA
839400 ATTTTTAATAT
1 ATTTTTAATAT
839411 ATTTTTTAA-A-
1 A-TTTTTAATAT
*
839421 ATTTATAAT-T
1 ATTTTTAATAT
*** *
839431 ATCAATAATGT
1 ATTTTTAATAT
839442 ATTTTTAATAT
1 ATTTTTAATAT
839453 ATTTTTAATA
1 ATTTTTAATA
839463 ATGTAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 6 0.15
10 8 0.20
11 20 0.49
12 7 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:839737 original size:14 final size:14
Alignment explanation
Indices: 839718--839744 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
839708 ATATATATAT
839718 AAATAAAATAAAAC
1 AAATAAAATAAAAC
839732 AAATAAAATAAAA
1 AAATAAAATAAAA
839745 AAGTTAGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAAAC
Found at i:839856 original size:9 final size:9
Alignment explanation
Indices: 839842--839867 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
839832 CAAATATATA
839842 AAAATAAAT
1 AAAATAAAT
839851 AAAATAAAT
1 AAAATAAAT
839860 AAAATAAA
1 AAAATAAA
839868 AAAGTTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:839900 original size:124 final size:127
Alignment explanation
Indices: 839677--839940 Score: 399
Period size: 124 Copynumber: 2.1 Consensus size: 127
839667 TACAGCCCTA
839677 ACCACAAGGTCGAATCGAATAATGCAAACAAATATATATATAAATAAAATAAAACAAATAAAATA
1 ACCACAAGGTCGAATCGAATAATGCAAACAAATATATATATAAATAAAATAAAACAAATAAAATA
* * * * * *
839742 AAAAAGTTAGTGGTTAGTAGAGTCTGAACCATAATAATGTGGATCTTATCTCGAATCGGGTC
66 AAAAAGTTAGTGATTAATAGAGCCCGAACCATAATAATGTGGATCTTACCCCGAATCGGGTC
* *
839804 ACCACAAGGTCGAATCGAATAATGTAAACAAATATATA-A-AAAT-AAATAAAATAAATAAAATA
1 ACCACAAGGTCGAATCGAATAATGCAAACAAATATATATATAAATAAAATAAAACAAATAAAATA
* *
839866 AAAAAGTTAGTGATTAATAGAGCCCGAATCATAATAATGTGGATCTTACCCCGGATCGGGTC
66 AAAAAGTTAGTGATTAATAGAGCCCGAACCATAATAATGTGGATCTTACCCCGAATCGGGTC
* *
839928 ACCATAAGATCGA
1 ACCACAAGGTCGA
839941 GTAATAAGAG
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
124 83 0.66
125 4 0.03
126 1 0.01
127 37 0.30
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (127 bp):
ACCACAAGGTCGAATCGAATAATGCAAACAAATATATATATAAATAAAATAAAACAAATAAAATA
AAAAAGTTAGTGATTAATAGAGCCCGAACCATAATAATGTGGATCTTACCCCGAATCGGGTC
Found at i:839998 original size:22 final size:20
Alignment explanation
Indices: 839959--839999 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
839949 AGAAACAATA
*
839959 AATAAATAAATAATAGTTAT
1 AATAAATAAATAAAAGTTAT
839979 AATAAATGAAAATAAAAGTTA
1 AATAAAT--AAATAAAAGTTA
840000 GTGGTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
AATAAATAAATAAAAGTTAT
Found at i:841773 original size:28 final size:28
Alignment explanation
Indices: 841740--841810 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
841730 TGTCCTAACT
*
841740 ATATCAGCTAT-AACCATAAAACCTAATA
1 ATATCAGCTATCAA-CACAAAACCTAATA
841768 ATATCAGCTATCAACACAAAACCTAATA
1 ATATCAGCTATCAACACAAAACCTAATA
841796 ATATCAGCTGATCAA
1 ATATCAGCT-ATCAA
841811 AGCACTATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 33 0.82
29 7 0.17
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.24
Consensus pattern (28 bp):
ATATCAGCTATCAACACAAAACCTAATA
Found at i:842275 original size:16 final size:16
Alignment explanation
Indices: 842249--842293 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
842239 TAAGCTCCAA
*
842249 TCAATCTAAAACAAA-
1 TCAAGCTAAAACAAAG
842264 TGCAAGCTAAAACAAAG
1 T-CAAGCTAAAACAAAG
*
842281 TCAATCTAAAACA
1 TCAAGCTAAAACA
842294 TATTGGCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.56, C:0.20, G:0.07, T:0.18
Consensus pattern (16 bp):
TCAAGCTAAAACAAAG
Found at i:842989 original size:13 final size:13
Alignment explanation
Indices: 842965--843036 Score: 83
Period size: 13 Copynumber: 5.5 Consensus size: 13
842955 TCAATTATTC
842965 CAATATGCAATAA
1 CAATATGCAATAA
* *
842978 CAGTATGTAATAA
1 CAATATGCAATAA
*
842991 CATTATGC-ATGAA
1 CAATATGCAAT-AA
843004 CAATATGCAATAA
1 CAATATGCAATAA
* *
843017 CATTATGCAGTAA
1 CAATATGCAATAA
843030 CAATATG
1 CAATATG
843037 TAATTACGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.04
13 45 0.92
14 2 0.04
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (13 bp):
CAATATGCAATAA
Found at i:843005 original size:26 final size:26
Alignment explanation
Indices: 842968--843064 Score: 99
Period size: 26 Copynumber: 3.7 Consensus size: 26
842958 ATTATTCCAA
*
842968 TATGCAAT-AACAGTATGTAATAACAT
1 TATGC-ATGAACAATATGTAATAACAT
*
842994 TATGCATGAACAATATGCAATAACAT
1 TATGCATGAACAATATGTAATAACAT
* **
843020 TATGCA-GTAACAATATGTAATTACGG
1 TATGCATG-AACAATATGTAATAACAT
* *
843046 TATGAATGAAGAATATGTA
1 TATGCATGAACAATATGTA
843065 TTAGCAAGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.05
26 56 0.93
27 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.30
Consensus pattern (26 bp):
TATGCATGAACAATATGTAATAACAT
Found at i:845006 original size:47 final size:45
Alignment explanation
Indices: 844936--845047 Score: 152
Period size: 47 Copynumber: 2.4 Consensus size: 45
844926 CACGTCAGCA
* ** *
844936 GGTTCTGGTTCATCAATTTCAGGTTGTTTAATGTCTGGCTCAGATG
1 GGTTCTGGTTCATTAATTTCAGGTTCATTAATGTATGGCTCAG-TG
* *
844982 GTGTTCTGGTTCATTAATTTCAGGTTCATTAATTTATGGCTCAGTT
1 G-GTTCTGGTTCATTAATTTCAGGTTCATTAATGTATGGCTCAGTG
845028 GGTTCTGGTTCATTAATTTC
1 GGTTCTGGTTCATTAATTTC
845048 GGGCTCACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 19 0.32
46 3 0.05
47 37 0.63
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (45 bp):
GGTTCTGGTTCATTAATTTCAGGTTCATTAATGTATGGCTCAGTG
Found at i:845009 original size:15 final size:15
Alignment explanation
Indices: 844989--845069 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
844979 ATGGTGTTCT
844989 GGTTCATTAATTTCA
1 GGTTCATTAATTTCA
845004 GGTTCATTAATTT-A
1 GGTTCATTAATTTCA
* ** *
845018 TGGCTCAGTT-GGTTCT
1 -GGTTCA-TTAATTTCA
*
845034 GGTTCATTAATTTCG
1 GGTTCATTAATTTCA
* * *
845049 GGCTCACTAATTTCT
1 GGTTCATTAATTTCA
845064 GGTTCA
1 GGTTCA
845070 ACTGGTTATG
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
14 3 0.06
15 45 0.90
16 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (15 bp):
GGTTCATTAATTTCA
Found at i:845064 original size:30 final size:30
Alignment explanation
Indices: 844996--845069 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
844986 TCTGGTTCAT
* * *
844996 TAATTTCAGGTTCATTAATTTATGGCTCAG
1 TAATTTCTGGTTCATTAATTTAGGGCTCAC
*** *
845026 TTGGTTCTGGTTCATTAATTTCGGGCTCAC
1 TAATTTCTGGTTCATTAATTTAGGGCTCAC
845056 TAATTTCTGGTTCA
1 TAATTTCTGGTTCA
845070 ACTGGTTATG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (30 bp):
TAATTTCTGGTTCATTAATTTAGGGCTCAC
Found at i:845076 original size:45 final size:45
Alignment explanation
Indices: 844984--845092 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
844974 CTCAGATGGT
* * **
844984 GTTCTGGTTCATTAATTTCAGGTTCATTAATTTATGGCTCAGTTG
1 GTTCTGGTTCATTAATTTCAGGCTCACTAATTTATGGCTCAACTG
* * *
845029 GTTCTGGTTCATTAATTTCGGGCTCACTAATTTCTGGTTCAACTG
1 GTTCTGGTTCATTAATTTCAGGCTCACTAATTTATGGCTCAACTG
* * *
845074 GTTATGCTTCATCAATTTC
1 GTTCTGGTTCATTAATTTC
845093 TGGTTCATTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.45
Consensus pattern (45 bp):
GTTCTGGTTCATTAATTTCAGGCTCACTAATTTATGGCTCAACTG
Found at i:846117 original size:56 final size:56
Alignment explanation
Indices: 846031--846141 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 56
846021 AAACCCACAA
*
846031 AACTCATATAAACTCTCTAACATATATACTAACAATAAACCCACAAAACTCATATG
1 AACTCATATAAACTCCCTAACATATATACTAACAATAAACCCACAAAACTCATATG
* *
846087 AACTCATATAAACTCCCTAACATATATACTAACAGTAAACCCACTAAACTCATAT
1 AACTCATATAAACTCCCTAACATATATACTAACAATAAACCCACAAAACTCATAT
846142 AATCTCAGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.25
Consensus pattern (56 bp):
AACTCATATAAACTCCCTAACATATATACTAACAATAAACCCACAAAACTCATATG
Found at i:857402 original size:15 final size:16
Alignment explanation
Indices: 857384--857441 Score: 66
Period size: 15 Copynumber: 3.6 Consensus size: 16
857374 TATTTAACTT
857384 TTATTTTTTTTTATT-
1 TTATTTTTTTTTATTA
857399 TTATGTTGCTTTTTTATTA
1 TTAT-TT--TTTTTTATTA
*
857418 TT-TTTATTTTTATTA
1 TTATTTTTTTTTATTA
857433 TTATTTTTT
1 TTATTTTTT
857442 GTTTTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 15 0.42
16 7 0.19
17 2 0.06
18 10 0.28
19 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (16 bp):
TTATTTTTTTTTATTA
Found at i:861054 original size:24 final size:24
Alignment explanation
Indices: 861027--861079 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
861017 GAAATAACAC
*
861027 AAAAAAAAGAGAAAAAAGAGGAAA
1 AAAAAAAAGAGAAAAAAGAAGAAA
* *
861051 AAAATATAGAGAAAAAAGAAGAAA
1 AAAAAAAAGAGAAAAAAGAAGAAA
*
861075 CAAAA
1 AAAAA
861080 CCAATAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (24 bp):
AAAAAAAAGAGAAAAAAGAAGAAA
Found at i:863205 original size:22 final size:22
Alignment explanation
Indices: 862614--863196 Score: 816
Period size: 22 Copynumber: 26.5 Consensus size: 22
862604 ATTTTAAAAT
* *
862614 TTTATTTTAAAATATGAAATGA
1 TTTATTTTAAAATATGGATTGA
862636 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
*
862658 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGGATTGA
***
862680 TTTATTTTAAAATAT-GAAACA
1 TTTATTTTAAAATATGGATTGA
*
862701 TTTATTTTAAAATATGGATTGC
1 TTTATTTTAAAATATGGATTGA
*
862723 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGGATTGA
862745 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
862767 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
***
862789 TTTATTTTAAAATATGGAAAAA
1 TTTATTTTAAAATATGGATTGA
*
862811 ATTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
***
862833 TTTATTTTAAAATATGGAAAAA
1 TTTATTTTAAAATATGGATTGA
862855 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
* **
862877 TTTATTTTAAAATATAGA-AAA
1 TTTATTTTAAAATATGGATTGA
862898 TTTTATTTTAAAATATGGATTGA
1 -TTTATTTTAAAATATGGATTGA
862921 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
***
862943 TTTATTTTAAAATATGGAAAAA
1 TTTATTTTAAAATATGGATTGA
*
862965 TTTATTTTATAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
**
862987 TTTATTTT-AAATATGGA-AAA
1 TTTATTTTAAAATATGGATTGA
*
863007 TTTTATTTTGAAATATGGATTGA
1 -TTTATTTTAAAATATGGATTGA
*
863030 TTTATTTTAAAATATGGATAGA
1 TTTATTTTAAAATATGGATTGA
*
863052 TTTATTTTAAAATATGGATAGA
1 TTTATTTTAAAATATGGATTGA
*
863074 TTTATTTTTAAAATATGGATAGA
1 TTTA-TTTTAAAATATGGATTGA
863097 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
863119 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
**
863141 TTTATTTTAAAATATGGA-AAA
1 TTTATTTTAAAATATGGATTGA
*
863162 TTTTATTTTAAAATATGGATTAA
1 -TTTATTTTAAAATATGGATTGA
863185 TTTATTTTAAAA
1 TTTATTTTAAAA
863197 AATTTATTAT
Statistics
Matches: 500, Mismatches: 52, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
20 1 0.00
21 35 0.07
22 438 0.88
23 26 0.05
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
TTTATTTTAAAATATGGATTGA
Found at i:863277 original size:31 final size:31
Alignment explanation
Indices: 863220--863278 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
863210 AGTTTTATGG
*
863220 ATTATTTAAATTTCAGAATTATAAAACTAAA
1 ATTATTTAAATTTCAGAATTACAAAACTAAA
* * *
863251 ATTATTTAAATTTTAGTATTGCAAAACT
1 ATTATTTAAATTTCAGAATTACAAAACT
863279 CTTTTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGAATTACAAAACTAAA
Found at i:863807 original size:58 final size:56
Alignment explanation
Indices: 863731--863934 Score: 170
Period size: 58 Copynumber: 3.6 Consensus size: 56
863721 ATGAGTTTTT
* * *
863731 AGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAATAATTTTTAA
1 AGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATCT-AAAATAATTTTTAA
* * * * *
863788 AGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGA-CAACTGAAAACGAAAGATTTTTAT
1 A-GAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATCT--AAA--ATA-ATTTTTAA
* * *
863849 A-AA-CTAAGCCTAATTTTTATGGGTTTCTTAATG-TT-T-TTAAATGAATTTTTGAA
1 AGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATCTAAAAT-AATTTTT-AA
*
863902 AGAAGCTAAGCCTAA-TTTTAGGGGATTCTTGAT
1 AGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGAT
863935 AAGTGTAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 23
0.73 0.12 0.14
Matches are distributed among these distances:
52 7 0.06
53 3 0.03
54 19 0.16
55 10 0.09
56 1 0.01
57 4 0.03
58 61 0.52
59 2 0.02
60 2 0.02
61 8 0.07
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (56 bp):
AGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATCTAAAATAATTTTTAA
Found at i:865181 original size:273 final size:273
Alignment explanation
Indices: 864694--865321 Score: 1184
Period size: 273 Copynumber: 2.3 Consensus size: 273
864684 ACATTTCCAG
* * * *
864694 TGGAGAGTTCATAATAAGAAGAACTCAACCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
864759 GTTCAACCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGTGA
66 GTTCAACCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGTGA
864824 GAAGAATTTCATAATGAGAAGAACTTGTTCAACATTGGCTCAGCATTTCTAGTTGAGAGTTCATA
131 GAAGAATTTCATAATGAGAAGAACTTGTTCAACATTGGCTCAGCATTTCTAGTTGAGAGTTCATA
*
864889 ATGAGAAGAACTGATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCATGGC
196 ATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCATGGC
864954 TCAATATTTTCGA
261 TCAATATTTTCGA
864967 TGGAGAGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
865032 GTTCAACCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGTGA
66 GTTCAACCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGTGA
*
865097 GAAGAATTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCAGCATTTCTAGTTGAGAGTTCATA
131 GAAGAATTTCATAATGAGAAGAACTTGTTCAACATTGGCTCAGCATTTCTAGTTGAGAGTTCATA
*
865162 ATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGC
196 ATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCATGGC
865227 TCAATATTTTCGA
261 TCAATATTTTCGA
865240 TGGAGAGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
*
865305 GTTCAACCTTAGCTCAA
66 GTTCAACCTTGGCTCAA
865322 TTCATCACAT
Statistics
Matches: 347, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
273 347 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (273 bp):
TGGAGAGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
GTTCAACCTTGGCTCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGTGA
GAAGAATTTCATAATGAGAAGAACTTGTTCAACATTGGCTCAGCATTTCTAGTTGAGAGTTCATA
ATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCATGGC
TCAATATTTTCGA
Found at i:865322 original size:91 final size:91
Alignment explanation
Indices: 864681--865321 Score: 1025
Period size: 91 Copynumber: 7.0 Consensus size: 91
864671 GATAAACCGA
* * *
864681 TCAACATTTCCAGTGGAGAGTTCATAATAAGAAGAACTCAACCAACGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
864746 ATGAGAAGAACTTGTTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
864772 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGTGAGAAGAATTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
*
864837 ATGAGAAGAACTTGTTCAACATTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * * *
864863 TCAGCATTTCTAGTTGAGAGTTCATAATGAGAAGAACTGATCCGACGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
*
864928 ATGAGAAGAACTTGTTCAACCATGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
864954 TCAATATTTTC-GATGGAGAGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCAT
1 TCAACATTTCCAG-TGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
865018 AATGAGAAGAACTTGTTCAACCTTGGC
65 AATGAGAAGAACTTGTTCAACCTTGGC
* * *
865045 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGTGAGAAGAATTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
865110 ATGAGAAGAACTTGTTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
865136 TCAGCATTTCTAGTTGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
865201 ATGAGAAGAACTTGTTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
865227 TCAATATTTTC-GATGGAGAGTTCATAATGAGAATAACTCATCCGACGAGGGAGAAGAAGTTCAT
1 TCAACATTTCCAG-TGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
*
865291 AATGAGAAGAACTTGTTCAACCTTAGC
65 AATGAGAAGAACTTGTTCAACCTTGGC
865318 TCAA
1 TCAA
865322 TTCATCACAT
Statistics
Matches: 506, Mismatches: 41, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
90 2 0.00
91 503 0.99
92 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (91 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTGGC
Found at i:866771 original size:8 final size:9
Alignment explanation
Indices: 866750--866774 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
866740 TTATGTTCTT
866750 TTTTTATGG
1 TTTTTATGG
866759 TTTTTATGG
1 TTTTTATGG
866768 TTTTTAT
1 TTTTTAT
866775 TATTATTTGT
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:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (9 bp):
TTTTTATGG
Found at i:869226 original size:105 final size:105
Alignment explanation
Indices: 869044--869251 Score: 389
Period size: 105 Copynumber: 2.0 Consensus size: 105
869034 ATTTGATCCT
*
869044 TTAATGATAGTGTTCATCAAGGCAAGAAAAATAATTTTTGCAATATTTGGACGTTCCTTGGTACA
1 TTAATGATAGTGTTCATCAAGGCAAGAAAAATAATTTTTGCAATATTTGAACGTTCCTTGGTACA
869109 AAAATGATGAAGTCACCAAAAATCCAAGTAACATATACAC
66 AAAATGATGAAGTCACCAAAAATCCAAGTAACATATACAC
* *
869149 TTAATGATAGTGTTCATCAAGGCAAGAAAAATAATTTTTTCAATATTTGAACGTTCCTTGGTACG
1 TTAATGATAGTGTTCATCAAGGCAAGAAAAATAATTTTTGCAATATTTGAACGTTCCTTGGTACA
869214 AAAATGATGAAGTCACCAAAAATCCAAGTAACATATAC
66 AAAATGATGAAGTCACCAAAAATCCAAGTAACATATAC
869252 GAGTGGTGTG
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (105 bp):
TTAATGATAGTGTTCATCAAGGCAAGAAAAATAATTTTTGCAATATTTGAACGTTCCTTGGTACA
AAAATGATGAAGTCACCAAAAATCCAAGTAACATATACAC
Found at i:870419 original size:22 final size:22
Alignment explanation
Indices: 870391--870445 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
870381 TTGTCTGACT
870391 GGTTTCAAAACCACAAATAGGG
1 GGTTTCAAAACCACAAATAGGG
870413 GGTTTCAAAACCACAAATAGGG
1 GGTTTCAAAACCACAAATAGGG
870435 GGTTTCAAAAC
1 GGTTTCAAAAC
870446 ATACAGCCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (22 bp):
GGTTTCAAAACCACAAATAGGG
Found at i:883710 original size:26 final size:26
Alignment explanation
Indices: 883675--883731 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
883665 GAAAATGAAC
883675 TTTT-AAAATTTTAAAAATAAACGAA
1 TTTTCAAAATTTTAAAAATAAACGAA
*
883700 TTTTCAAAATTTTAAAAATAAATGAA
1 TTTTCAAAATTTTAAAAATAAACGAA
*
883726 CTTTCA
1 TTTTCA
883732 GTTGTCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.39
Consensus pattern (26 bp):
TTTTCAAAATTTTAAAAATAAACGAA
Found at i:883876 original size:14 final size:14
Alignment explanation
Indices: 883865--883904 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
883855 AAAGAAAACA
*
883865 AATAAGATAAAAAG
1 AATAAAATAAAAAG
*
883879 AATAAAATAAAAGG
1 AATAAAATAAAAAG
*
883893 AAAAAAATAAAA
1 AATAAAATAAAA
883905 TAAATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (14 bp):
AATAAAATAAAAAG
Found at i:883888 original size:19 final size:18
Alignment explanation
Indices: 883864--883917 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
883854 TAAAGAAAAC
883864 AAATAAGATAAAAAGAATA
1 AAATAA-ATAAAAAGAATA
*
883883 AAATAAA-AGGAAAAAAATA
1 AAATAAATA--AAAAGAATA
883902 AAATAAATAAATAAGA
1 AAATAAATAAA-AAGA
883918 TAAGGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.03
18 3 0.10
19 24 0.83
20 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (18 bp):
AAATAAATAAAAAGAATA
Found at i:884145 original size:41 final size:39
Alignment explanation
Indices: 884069--884145 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 39
884059 TCACTTCACC
* * *
884069 GAAAGTGGGGGGCTTTAGTCAGAAATAAGACAAAAAGAG
1 GAAAGTGGGGGACTTTAGTCAGAAAAAAAACAAAAAGAG
* *
884108 GAAAGTGGGAGAGACTTTAGTTAGAAAAAAAATAAAAA
1 GAAAGTGGG-G-GACTTTAGTCAGAAAAAAAACAAAAA
884146 AATGGGCCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 9 0.29
40 1 0.03
41 21 0.68
ACGTcount: A:0.49, C:0.05, G:0.29, T:0.17
Consensus pattern (39 bp):
GAAAGTGGGGGACTTTAGTCAGAAAAAAAACAAAAAGAG
Found at i:884461 original size:28 final size:26
Alignment explanation
Indices: 884422--884486 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
884412 TACAATATAT
*
884422 ATAGT-AATAATAGACT-TATAAGTAAA
1 ATAGTAAAAAATAGA-TATATAA-TAAA
* *
884448 ATATTAAATAAATATATATATAATAAA
1 ATAGTAAA-AAATAGATATATAATAAA
884475 ATAGTAAAAAAT
1 ATAGTAAAAAAT
884487 CAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 8 0.25
27 14 0.44
28 10 0.31
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (26 bp):
ATAGTAAAAAATAGATATATAATAAA
Found at i:884553 original size:17 final size:18
Alignment explanation
Indices: 884520--884555 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
884510 ATATATACGT
*
884520 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
884538 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
884555 A
1 A
884556 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:884973 original size:35 final size:35
Alignment explanation
Indices: 884934--885040 Score: 196
Period size: 35 Copynumber: 3.1 Consensus size: 35
884924 CTAAAAAACC
* *
884934 CTATTTTGGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGATTAGTATTTGAGTCCTAATCCAACT
884969 CTATTTTAGATTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGATTAGTATTTGAGTCCTAATCCAACT
885004 CTATTTTAGATTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGATTAGTATTTGAGTCCTAATCCAACT
885039 CT
1 CT
885041 TCTTTTTTGG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (35 bp):
CTATTTTAGATTAGTATTTGAGTCCTAATCCAACT
Found at i:885710 original size:106 final size:105
Alignment explanation
Indices: 885524--886071 Score: 625
Period size: 106 Copynumber: 5.3 Consensus size: 105
885514 TGTATTGTTC
* ** * * * * * *
885524 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTGTTTATTCACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
* * * * * *
885589 GCCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTAT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG-TGTCT
* * *
885630 TGAGTCTAATATCCTTCGATGTGAAGTTGAAATTGACCCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
* *
885695 ACCAGCCATCTCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGT-GTCT
* * *
885736 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
* * *
885801 ACCAGTCATTCCTTCGTTGTGAAGTTGAACTTGTG-GTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTGTCT
* * * * * *
885840 CAAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACCCTGAAATTGAGAAATTATTTGTTCATA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
*
885905 ACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGT-GTCT
* * *
885946 CGAGTCCAATATCCTTCG--CT--A-TTG-----G-CTCTGAAATTGTGAGATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
*
886000 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG-TGTCT
* *
886041 TGAGTCCAATATCCTTCGCTGTGAAGTTGAA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAA
886072 CTTGTGTTGT
Statistics
Matches: 379, Mismatches: 52, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
95 77 0.20
96 2 0.01
97 1 0.00
99 1 0.00
100 3 0.01
101 3 0.01
102 1 0.00
104 94 0.25
105 1 0.00
106 196 0.52
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTGTCT
Found at i:885910 original size:210 final size:209
Alignment explanation
Indices: 885524--886071 Score: 702
Period size: 210 Copynumber: 2.6 Consensus size: 209
885514 TGTATTGTTC
* * * * * *
885524 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTGTTTATTCACA
1 CGAGTCCAATATCCTTCG--GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* ** * * * * *
885589 GCCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTATTGAGTCTAATATCCTTCGATGTGA
64 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTG-TGTCTTGAGTCCAATATCCTTCGATGTGA
* * * * *
885654 AGTTGAAATTGACCCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCATCTCTTCGTTGTGAAG
128 AGTTGAAATTGACCCTGAAATTGAGAAATTATTTGTTCACAACCAGCCATCCCTTCATTGTGAAG
885719 TTGAACTTGTGTCGTCT
193 TTGAACTTGTGTCGTCT
*
885736 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCG--GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * **
885801 ACCAGTCATTCCTTCGTTGTGAAGTTGAACTTGTG-GTCTCAAGTCCAATATCCTTCGATGTGAA
64 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTGTCTTGAGTCCAATATCCTTCGATGTGAA
* *
885865 GTTGAAATTGACCCTGAAATTGAGAAATTATTTGTTCATAACCAGCCGTCCCTTCATTGTGAAGT
129 GTTGAAATTGACCCTGAAATTGAGAAATTATTTGTTCACAACCAGCCATCCCTTCATTGTGAAGT
885930 TGAACTTGTGTCGTCT
194 TGAACTTGTGTCGTCT
* * *
885946 CGAGTCCAATATCCTTC------GCT---ATTGGCTCTGAAATTGTGAGATTGTTTGTTGACAAC
1 CGAGTCCAATATCCTTCGGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
886002 CAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAG
66 CAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTG-TGTCTTGAGTCCAATATCCTTCGATGTGAAG
886067 TTGAA
130 TTGAA
886072 CTTGTGTTGT
Statistics
Matches: 297, Mismatches: 37, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
199 64 0.22
201 32 0.11
202 2 0.01
210 116 0.39
212 83 0.28
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (209 bp):
CGAGTCCAATATCCTTCGGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
CAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTGTCTTGAGTCCAATATCCTTCGATGTGAAGT
TGAAATTGACCCTGAAATTGAGAAATTATTTGTTCACAACCAGCCATCCCTTCATTGTGAAGTTG
AACTTGTGTCGTCT
Found at i:886046 original size:95 final size:95
Alignment explanation
Indices: 885878--886060 Score: 285
Period size: 95 Copynumber: 1.9 Consensus size: 95
885868 GAAATTGACC
*
885878 CTGAAATTGAGAAATTATTTGTTCATAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTCG
1 CTGAAATTGAGAAATTATTTGTTCACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTCG
885943 TCTCGAGTCCAATATCCTTCGCTATTGGCT
66 TCTCGAGTCCAATATCCTTCGCTATTGGCT
* * * * * * *
885973 CTGAAATTGTGAGATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
1 CTGAAATTGAGAAATTATTTGTTCACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTCG
*
886038 TCTTGAGTCCAATATCCTTCGCT
66 TCTCGAGTCCAATATCCTTCGCT
886061 GTGAAGTTGA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (95 bp):
CTGAAATTGAGAAATTATTTGTTCACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTCG
TCTCGAGTCCAATATCCTTCGCTATTGGCT
Found at i:886058 original size:43 final size:43
Alignment explanation
Indices: 886010--886114 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
886000 ACCAGTCGTC
* ** *
886010 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
1 CCTTCGATGTGAAGTTGAACTTGTGTTGTCCCGAGTCCAACAT
*
886053 CCTTCGCTGTGAAGTTGAACTTGTGTTGTCCCGAGTCCAACAT
1 CCTTCGATGTGAAGTTGAACTTGTGTTGTCCCGAGTCCAACAT
*
886096 CCTTCGATATGAAGTTGAA
1 CCTTCGATGTGAAGTTGAA
886115 ATTAGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (43 bp):
CCTTCGATGTGAAGTTGAACTTGTGTTGTCCCGAGTCCAACAT
Found at i:894182 original size:4 final size:4
Alignment explanation
Indices: 894168--894213 Score: 56
Period size: 4 Copynumber: 10.5 Consensus size: 4
894158 ATAAAAGGGA
894168 AAAT AAAAT AAAT AAAAT AAAT AAAT AAGAT AAAT AAAT AAGAT AA
1 AAAT -AAAT AAAT -AAAT AAAT AAAT AA-AT AAAT AAAT AA-AT AA
894214 GGAAAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 22 0.58
5 16 0.42
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:894182 original size:9 final size:9
Alignment explanation
Indices: 894168--894213 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
894158 ATAAAAGGGA
894168 AAATAAAAT
1 AAATAAAAT
894177 AAATAAAAT
1 AAATAAAAT
894186 AAAT-AAAT
1 AAATAAAAT
894194 AAGAT-AAAT
1 AA-ATAAAAT
*
894203 AAATAAGAT
1 AAATAAAAT
894212 AA
1 AA
894214 GGAAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
8 8 0.24
9 26 0.76
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:894191 original size:13 final size:13
Alignment explanation
Indices: 894167--894213 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
894157 AATAAAAGGG
894167 AAAATAAAATAAAT
1 AAAAT-AAATAAAT
894181 AAAATAAATAAAT
1 AAAATAAATAAAT
*
894194 AAGATAAATAAAT
1 AAAATAAATAAAT
*
894207 AAGATAA
1 AAAATAA
894214 GGAAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 27 0.84
14 5 0.16
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:894558 original size:24 final size:23
Alignment explanation
Indices: 894510--894559 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
894500 ACAAGATTTT
* **
894510 TAAAAAAATAATATAATAATGAA
1 TAAAAAAATAAAATAATAAAAAA
894533 TAAAAAAATGAAAATAATAAAAAA
1 TAAAAAAAT-AAAATAATAAAAAA
894557 TAA
1 TAA
894560 TATATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (23 bp):
TAAAAAAATAAAATAATAAAAAA
Found at i:894757 original size:2 final size:2
Alignment explanation
Indices: 894750--894783 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
894740 TATTAAAGAA
894750 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
894784 GTAAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:894860 original size:17 final size:18
Alignment explanation
Indices: 894827--894862 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
894817 ATATATACGT
*
894827 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
894845 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
894862 A
1 A
894863 AATATTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:895280 original size:35 final size:35
Alignment explanation
Indices: 895241--895312 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
895231 CTAAAAAACC
*
895241 CTATTTTGGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
* *
895276 CTATTTTAGATTAGTATTTTAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
895311 CT
1 CT
895313 TCTTTTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.43
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:897089 original size:2 final size:2
Alignment explanation
Indices: 897082--897135 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
897072 TTCAAAACAA
897082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
897124 AT AT AT AT AT AT
1 AT AT AT AT AT AT
897136 TGATTTATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:901503 original size:31 final size:32
Alignment explanation
Indices: 901465--901542 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
901455 TAAGACAACC
* *
901465 CTTGGGTAGGCTCT-GCGGCTCCGAGATCTTT
1 CTTGGGTAGGCTCTCGCGGCCCCGAGAACTTT
*
901496 CTTGGGTAGGC-CTTCGTGGCCCCGAGAACTTT
1 CTTGGGTAGGCTC-TCGCGGCCCCGAGAACTTT
901528 CTTGGGTAGGCTCTC
1 CTTGGGTAGGCTCTC
901543 ATGCCCCCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.02
31 12 0.29
32 27 0.66
33 1 0.02
ACGTcount: A:0.10, C:0.27, G:0.32, T:0.31
Consensus pattern (32 bp):
CTTGGGTAGGCTCTCGCGGCCCCGAGAACTTT
Found at i:902333 original size:21 final size:23
Alignment explanation
Indices: 902304--902346 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
902294 TTTTATGAAA
902304 AATGATATAAGA-TTTAAAGTCC
1 AATGATATAAGACTTTAAAGTCC
*
902326 AATG-TATAAGACTTTAGAGTC
1 AATGATATAAGACTTTAAAGTC
902347 AGTGGTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (23 bp):
AATGATATAAGACTTTAAAGTCC
Found at i:902895 original size:17 final size:17
Alignment explanation
Indices: 902869--902913 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
902859 CAAGAATCAG
902869 TAAAAGAAATAGTACAA
1 TAAAAGAAATAGTACAA
* **
902886 TAAGAGAAATAGTATGA
1 TAAAAGAAATAGTACAA
902903 TAAAAGAAATA
1 TAAAAGAAATA
902914 ATAAGGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.62, C:0.02, G:0.16, T:0.20
Consensus pattern (17 bp):
TAAAAGAAATAGTACAA
Found at i:902972 original size:19 final size:16
Alignment explanation
Indices: 902962--903004 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
902952 CAGAAAATTT
902962 GAAACAATACA-AGAAA
1 GAAACAATACAGA-AAA
902978 GAAACAATACAGAAAA
1 GAAACAATACAGAAAA
*
902994 AAAGACAATAC
1 GAA-ACAATAC
903005 TAGTTTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.67, C:0.14, G:0.12, T:0.07
Consensus pattern (16 bp):
GAAACAATACAGAAAA
Found at i:902983 original size:16 final size:15
Alignment explanation
Indices: 902962--902992 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
902952 CAGAAAATTT
902962 GAAACAATACAAGAAA
1 GAAACAATAC-AGAAA
902978 GAAACAATACAGAAA
1 GAAACAATACAGAAA
902993 AAAAGACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.68, C:0.13, G:0.13, T:0.06
Consensus pattern (15 bp):
GAAACAATACAGAAA
Found at i:904464 original size:20 final size:20
Alignment explanation
Indices: 904439--904484 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
904429 GTTTATTATG
904439 ATCCAATTATATATTAAATA
1 ATCCAATTATATATTAAATA
904459 ATCCAATTATATATTAAATA
1 ATCCAATTATATATTAAATA
904479 ATCCAA
1 ATCCAA
904485 AGTTTACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (20 bp):
ATCCAATTATATATTAAATA
Found at i:908017 original size:63 final size:61
Alignment explanation
Indices: 907826--908027 Score: 230
Period size: 63 Copynumber: 3.2 Consensus size: 61
907816 CCCACTTAGG
* *
907826 CTGTTTAAAAATTAATTATATTACAAT--AAAAATTAGTTTTTTTATTTAGGTCCCACGCGAA
1 CTGTTTAAAAATTAATTATATTACAATAAAAAAATTAG-TTTTTTATTT-GGGCCCACCCGAA
* * * * ** *
907887 CGGTTTAAAAATTAACTATATTAGAATAAAAATATTAGTTTTTTGGCTTGGTGCCCACCC-AGG
1 CTGTTTAAAAATTAATTATATTACAATAAAAAAATTAGTTTTTT-ATTTGG-GCCCACCCGA-A
*
907950 CTGTTTAAAAATTAATTATATTACAATAAAAAAAATTAGTTTCTTATTTGGGCCCTACCCGAA
1 CTGTTTAAAAATTAATTATATTACAAT-AAAAAAATTAGTTTTTTATTTGGGCCC-ACCCGAA
908013 CTGTTTAAAAATTAA
1 CTGTTTAAAAATTAA
908028 GGGTAAATTA
Statistics
Matches: 116, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
61 24 0.21
62 13 0.11
63 63 0.54
64 16 0.14
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (61 bp):
CTGTTTAAAAATTAATTATATTACAATAAAAAAATTAGTTTTTTATTTGGGCCCACCCGAA
Found at i:908757 original size:21 final size:21
Alignment explanation
Indices: 908727--908784 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
908717 TATTTTAGTT
908727 TAAAAA-TAATTATAAAAATA
1 TAAAAACTAATTATAAAAATA
* **
908747 TAAAAACTAATT-TATGATTTA
1 TAAAAACTAATTATA-AAAATA
908768 TAAAAACTAATTA-AAAA
1 TAAAAACTAATTATAAAA
908785 CAATTTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 9 0.30
21 21 0.70
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAAACTAATTATAAAAATA
Found at i:909173 original size:15 final size:15
Alignment explanation
Indices: 909149--909178 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
909139 AAAATATCTT
*
909149 TAAAATAATTTTAAA
1 TAAAACAATTTTAAA
909164 TAAAACAATTTTAAA
1 TAAAACAATTTTAAA
909179 AGAGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAACAATTTTAAA
Found at i:911128 original size:82 final size:82
Alignment explanation
Indices: 910991--911243 Score: 294
Period size: 82 Copynumber: 3.1 Consensus size: 82
910981 TCATTTTTCT
* * * * *
910991 TTCAGGGGAGATCATACTTGATATGTGA-CTCTTTCTCGGGTAGTCAGATCAATTTTGGAAGACA
1 TTCAGGGGAGATCAGAATTGATATGT-ACCTTTTTTTCAGGTAGTCAGATCAATTTTGGAAGA-A
* *
911055 G-GTTTGCTCTACTATTCA
64 GTGTCTGCTCCACTATTCA
* * * * *
911073 TTCAGGGGATATCAGAATTGATTTGTGCCTTTTTTTTAGGTAGTCAGATCAATTTTGGAAGATGT
1 TTCAGGGGAGATCAGAATTGATATGTACCTTTTTTTCAGGTAGTCAGATCAATTTTGGAAGAAGT
* **
911138 GTCTGCTCCACTCTTTT
66 GTCTGCTCCACTATTCA
* * *
911155 TTCAGGGGAGATCAGACTTGATATGTACCTTTTTTTCGGGTAGTCAGATCAATTTTGGAAGATGT
1 TTCAGGGGAGATCAGAATTGATATGTACCTTTTTTTCAGGTAGTCAGATCAATTTTGGAAGAAGT
* *
911220 GTCTGCTCCACTTTTCT
66 GTCTGCTCCACTATTCA
911237 TTCAGGG
1 TTCAGGG
911244 ATATAAGACT
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
81 1 0.01
82 145 0.99
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (82 bp):
TTCAGGGGAGATCAGAATTGATATGTACCTTTTTTTCAGGTAGTCAGATCAATTTTGGAAGAAGT
GTCTGCTCCACTATTCA
Found at i:911478 original size:36 final size:37
Alignment explanation
Indices: 911389--911504 Score: 153
Period size: 37 Copynumber: 3.2 Consensus size: 37
911379 GATCAGACTC
** *
911389 AAGATTGATTTATTTCACTACTCATCTGTGAAGACTT
1 AAGATTGATTTGCTTCACTACTCATCTGTGAAGGCTT
* **
911426 AAGATTGATTTGCTTCACTACTCCTCCATGAAGGCTT
1 AAGATTGATTTGCTTCACTACTCATCTGTGAAGGCTT
* *
911463 AGGA-TGATTTGCTTCACTACTCTTCTGTGAAGGCTT
1 AAGATTGATTTGCTTCACTACTCATCTGTGAAGGCTT
911499 AAGATT
1 AAGATT
911505 TTCCGTGAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
36 32 0.48
37 35 0.52
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (37 bp):
AAGATTGATTTGCTTCACTACTCATCTGTGAAGGCTT
Found at i:911541 original size:57 final size:56
Alignment explanation
Indices: 911454--911561 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 56
911444 TACTCCTCCA
*
911454 TGAAGGCTTAGGATGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATTTTCCG
1 TGAAGGCTTAGGATGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTTTCCG
* *
911510 TGAAGGCTTAGTATTGATTTGCTTCACTACTCTTCCGTGAAGGCTTAGGATT
1 TGAAGGCTTAGGA-TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATT
911562 GATTTACTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 12 0.25
57 36 0.75
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (56 bp):
TGAAGGCTTAGGATGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATTTTCCG
Found at i:911555 original size:37 final size:36
Alignment explanation
Indices: 911505--911886 Score: 520
Period size: 37 Copynumber: 10.5 Consensus size: 36
911495 GCTTAAGATT
911505 TTCCGTGAAGGCTTAGTATTGATTTGCTTCACTACTC
1 TTCCGTGAAGGCTTAG-ATTGATTTGCTTCACTACTC
*
911542 TTCCGTGAAGGCTTAGGATTGATTTACTTCACTACTC
1 TTCCGTGAAGGCTTA-GATTGATTTGCTTCACTACTC
* *
911579 TTCCATGAAGG-TGTA-A--GATTTACTTCACTACTC
1 TTCCGTGAAGGCT-TAGATTGATTTGCTTCACTACTC
* *
911612 TTCCGTGTAGGCTTAAGATTTATTTGCTTCACTACTC
1 TTCCGTGAAGGCTT-AGATTGATTTGCTTCACTACTC
*
911649 TTCCGTGAAGGCTTAAGATTGATTTGCTTTACTACTC
1 TTCCGTGAAGGCTT-AGATTGATTTGCTTCACTACTC
* * *
911686 TTCAGTGAAGTCTTAGGATTGATTTGCTTCACTAATC
1 TTCCGTGAAGGCTTA-GATTGATTTGCTTCACTACTC
* * *
911723 TTCCGTGAAGGCTTAAGATTAATTTGTTTCATTACTC
1 TTCCGTGAAGGCTT-AGATTGATTTGCTTCACTACTC
*
911760 TTCCGTGAAGGCTTAGGATTGATTTTCTTCACTACTC
1 TTCCGTGAAGGCTTA-GATTGATTTGCTTCACTACTC
911797 TTCCGTGAAGGCTTAGGATTGATTTGCTTCACTACTC
1 TTCCGTGAAGGCTTA-GATTGATTTGCTTCACTACTC
*
911834 TTCCATGAAGGCTTAGATTGATTTGCTTCACTACTC
1 TTCCGTGAAGGCTTAGATTGATTTGCTTCACTACTC
*
911870 TTCTGTGAAGGCTTAGA
1 TTCCGTGAAGGCTTAGA
911887 CTCGAGGTTG
Statistics
Matches: 308, Mismatches: 27, Indels: 21
0.87 0.08 0.06
Matches are distributed among these distances:
33 27 0.09
34 2 0.01
35 2 0.01
36 39 0.13
37 236 0.77
38 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.40
Consensus pattern (36 bp):
TTCCGTGAAGGCTTAGATTGATTTGCTTCACTACTC
Found at i:912137 original size:62 final size:62
Alignment explanation
Indices: 912030--912159 Score: 174
Period size: 62 Copynumber: 2.1 Consensus size: 62
912020 TGGGATAGTC
*
912030 AAGGATTGACTCTACTGGGGACTCAGAAATAACAAAGGTTGACTTCTCTGT-ATAAGGAAGTA
1 AAGGATTGACTCTACTGGGGACTCAGAAATAAAAAAGGTTGACTTCTCT-TCATAAGGAAGTA
* * * * *
912092 AAGGGTTGACTCTAC-GGAGGAGTCAGAAATAAAAAAGGTTTACTTCTCTTCATGAGGAAGTC
1 AAGGATTGACTCTACTGG-GGACTCAGAAATAAAAAAGGTTGACTTCTCTTCATAAGGAAGTA
912154 AAGGAT
1 AAGGAT
912160 AACAAATATT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 3 0.05
62 56 0.95
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (62 bp):
AAGGATTGACTCTACTGGGGACTCAGAAATAAAAAAGGTTGACTTCTCTTCATAAGGAAGTA
Found at i:912154 original size:38 final size:37
Alignment explanation
Indices: 912108--912231 Score: 124
Period size: 38 Copynumber: 3.3 Consensus size: 37
912098 TGACTCTACG
** *
912108 GAGG-AGTCAGAAATAAAAAAGGTTTACTTCTCTTCAT
1 GAGGAAGTCA-AAATAAAAAATATTGACTTCTCTTCAT
* * * *
912145 GAGGAAGTCAAGGATAACAAATATTGAATTCTCTTTAT
1 GAGGAAGTCAA-AATAAAAAATATTGACTTCTCTTCAT
* * *
912183 GAGGAAGTTAAAGATTAAAAATATTGACTTCTCTTCAC
1 GAGGAAGTCAAA-ATAAAAAATATTGACTTCTCTTCAT
912221 GAGGAAGTCAA
1 GAGGAAGTCAA
912232 TAATTGACTC
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
37 5 0.07
38 64 0.93
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (37 bp):
GAGGAAGTCAAAATAAAAAATATTGACTTCTCTTCAT
Found at i:913429 original size:39 final size:40
Alignment explanation
Indices: 913349--913442 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 40
913339 ACGAGAGTTC
* *
913349 AAAATGCCCCAACA-TTATTTCATAATGGTACGGGCCTTT
1 AAAATGCCCCAACATTTATTTCATAATGATACGAGCCTTT
* ** *
913388 AAAATGCCCCAACATTTATTTCTTGCTGATATGAGCC-TT
1 AAAATGCCCCAACATTTATTTCATAATGATACGAGCCTTT
*
913427 AAAATGCCTCAACATT
1 AAAATGCCCCAACATT
913443 CCAAGTTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 31 0.66
40 16 0.34
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (40 bp):
AAAATGCCCCAACATTTATTTCATAATGATACGAGCCTTT
Found at i:914606 original size:99 final size:99
Alignment explanation
Indices: 914435--914624 Score: 310
Period size: 99 Copynumber: 1.9 Consensus size: 99
914425 TTGTAATTTG
* *
914435 CCTTTACCGGGCTAGTTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGACGGA
1 CCTTTACCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGACGGA
* *
914500 AAGCTCAAGCTTTATTGTATATATATTATAATCA
66 AAGCTCAAACTTTATTGTATACATATTATAATCA
* *
914534 CCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGA
1 CCTTTACCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGACGGA
914599 CAA-CTCAAACTTTATTGTATACATAT
66 -AAGCTCAAACTTTATTGTATACATAT
914625 AATATTATAG
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 82 0.98
100 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (99 bp):
CCTTTACCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGACGGA
AAGCTCAAACTTTATTGTATACATATTATAATCA
Found at i:916262 original size:20 final size:20
Alignment explanation
Indices: 916239--916278 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
916229 TGGAAGTATA
916239 CCAAATTTTTGGAGTTGAAT
1 CCAAATTTTTGGAGTTGAAT
916259 CCAAATTTTTGGAGTTGAAT
1 CCAAATTTTTGGAGTTGAAT
916279 TAGATTACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (20 bp):
CCAAATTTTTGGAGTTGAAT
Found at i:916374 original size:10 final size:10
Alignment explanation
Indices: 916351--916404 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
916341 TAGACACTAG
*
916351 TTTTTTATCCA
1 TTTTTTAT-TA
916362 TTTTTTATTA
1 TTTTTTATTA
916372 TTTATTTA-TA
1 TTT-TTTATTA
*
916382 TTTTTTTATTT
1 -TTTTTTATTA
916393 TTTTTTATTA
1 TTTTTTATTA
916403 TT
1 TT
916405 GTTAAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 21 0.57
11 16 0.43
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:916404 original size:21 final size:21
Alignment explanation
Indices: 916362--916400 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
916352 TTTTTATCCA
916362 TTTTTTATTATTTATTTATAT
1 TTTTTTATTATTTATTTATAT
*
916383 TTTTTTATT-TTTTTTTAT
1 TTTTTTATTATTTATTTAT
916401 TATTGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTATTATTTATTTATAT
Found at i:918033 original size:2 final size:2
Alignment explanation
Indices: 918021--918080 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
918011 TTCCATTACT
*
918021 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
918063 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
918081 CTTTAGTTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:918616 original size:11 final size:11
Alignment explanation
Indices: 918600--918639 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
918590 TTTCTTTCAA
918600 TTATTTATTCT
1 TTATTTATTCT
918611 TTATTTATTCT
1 TTATTTATTCT
918622 TTA-TTATT-T
1 TTATTTATTCT
*
918631 TTATATATT
1 TTATTTATT
918640 AATGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 4 0.15
10 9 0.33
11 14 0.52
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTATTCT
Found at i:923892 original size:21 final size:21
Alignment explanation
Indices: 923821--923898 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
923811 ACTATAAAAC
* * *
923821 CTGCTGAAAATCCTACAGCCA
1 CTGCTGAAAATCCTATAACTA
*
923842 CTGTTGAAAATCCTATAACTA
1 CTGCTGAAAATCCTATAACTA
* * * *
923863 CTACAGAAATTCCTATATCTA
1 CTGCTGAAAATCCTATAACTA
*
923884 CTGCTGAAATTCCTA
1 CTGCTGAAAATCCTA
923899 CAGTAATTGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (21 bp):
CTGCTGAAAATCCTATAACTA
Found at i:927487 original size:72 final size:72
Alignment explanation
Indices: 927394--927537 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 72
927384 AACAATAAAG
* *
927394 CTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAGCC
1 CTTGAGTTATCCACCTAAAGCAATTCGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAGCC
*
927459 TGTTATA
66 TGATATA
* *
927466 CTTGAGTTGTCCACCTAAAGCAATTCGTTAATCGCCCCGGCTTTATGGATAATATTCAGCTAGCC
1 CTTGAGTTATCCACCTAAAGCAATTCGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAGCC
927531 TGATATA
66 TGATATA
927538 ATATTATATG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (72 bp):
CTTGAGTTATCCACCTAAAGCAATTCGTTAATAGCCCCGGCTTTATGGATAATATTCAGCTAGCC
TGATATA
Found at i:928796 original size:41 final size:41
Alignment explanation
Indices: 928734--928816 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 41
928724 CTTTATAGTT
928734 TAGAATATTGGGACATCTTGAAGGCCCATTTCA-ACCAGAAA
1 TAGAATATTGGGACATCTTGAAGGCCCATTTCAGA-CAGAAA
* *
928775 TAGAATGTT-GGAGCATTTTGAAGGCCCATTTCAGACAGAAA
1 TAGAATATTGGGA-CATCTTGAAGGCCCATTTCAGACAGAAA
928816 T
1 T
928817 GGTCCATGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 3 0.08
41 34 0.89
42 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (41 bp):
TAGAATATTGGGACATCTTGAAGGCCCATTTCAGACAGAAA
Found at i:930342 original size:123 final size:123
Alignment explanation
Indices: 930121--930990 Score: 1162
Period size: 123 Copynumber: 7.1 Consensus size: 123
930111 TCGAGGGATC
* * * *
930121 AACATTTCCAGACAGAGTTCGTAATATGAAGAACTCCTCTGAAGAGGAAGAAGAAGTTCATAGTC
1 AACATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
* * * *
930186 TGAAGAACTTATTCAACTTTTTGCTTGACTCTATCGCAGAAGGAGATAGAGCAACA-G
66 TGAAGAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAAGGAGATAGAGTAACATG
* * * * *
930243 AACCATTTCCAGACAGAGTTCGTAATAAGAATAACTCCTCTAAAGAGGAAGAAGAAGTTCATAGT
1 AA-CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * * * *
930308 CTGAAGAACTTATTCAACCTTTTTCTTGACTCTATCGCAGAAGGATATAGAGTAGCA-G
65 CTGAAGAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAAGGAGATAGAGTAACATG
*
930366 AACCATTTCCAGAAAGAGTTTGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
1 AA-CATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * * * *
930431 CTGAAGAACTTATTCAACCTTTTGCTCGATTCTATCACAAAAGAAGATAGAATAGCATG
65 CTGAAGAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAAGGAGATAGAGTAACATG
* * * *
930490 AATATTTCCA-AAAGGAGTTCATAATAAGAAGAACTCATCTGAATAGGAAGAACAAGTTCATAAT
1 AACATTTCCAGAAA-GAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * * *
930554 CTGAAGAATTTATTCAACCTTTTGCTCGATTTTATCGCAGAAAGAGATAGAGTAGCA-G
65 CTGAAGAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAAGGAGATAGAGTAACATG
*
930612 AACCATTTCCA-AACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGAAAGAAGAAGTTCATAA
1 AA-CATTTCCAGAA-AGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * ** *
930676 TCTGAAGAACTTATTCAACCTTTTGCTCAATTCTATCACAGAAGGAGATAGAACAACATT
64 TCTGAAGAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAAGGAGATAGAGTAACATG
* * *
930736 AACGTTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGAAACAAGAAGTTCATAATC
1 AACATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
* * *
930801 TGAAGAACTTATTCAACTTTTTGCTCGATTCTATCGCAGAATGAGATAGAG-AAGCATC
66 TGAAGAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAAGGAGATAGAGTAA-CATG
* *
930859 AACATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATTTGAAGAGGAAGAAGAAATTCATAATC
1 AACATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
* ** * *
930924 TGAAGAACTTATTTAACCTTTTGCTCGATTC-ATCGCAGAAAAAGATAGA-TCAGCATC
66 TGAAGAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAAGGAGATAGAGT-AACATG
930981 AACATTTCCA
1 AACATTTCCA
930991 TCTTAATCAA
Statistics
Matches: 672, Mismatches: 66, Indels: 20
0.89 0.09 0.03
Matches are distributed among these distances:
122 40 0.06
123 624 0.93
124 8 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (123 bp):
AACATTTCCAGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
TGAAGAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAAGGAGATAGAGTAACATG
Found at i:935330 original size:31 final size:34
Alignment explanation
Indices: 935267--935331 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 34
935257 ATAAACAAGT
*
935267 TAATACAAATAACAGAATATATAAATTGATAAAA
1 TAATACAAATAACAGAATATATAAATAGATAAAA
* *
935301 TAATGCAAAT-ACA-AATA-ATAGATAGATAAAA
1 TAATACAAATAACAGAATATATAAATAGATAAAA
935332 CAAGATAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 12 0.43
32 4 0.14
33 3 0.11
34 9 0.32
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (34 bp):
TAATACAAATAACAGAATATATAAATAGATAAAA
Found at i:936738 original size:20 final size:21
Alignment explanation
Indices: 936714--936783 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
936704 ATATCTAGAG
936714 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATGTTTTAA
* * *
936735 -TAATCCTAAATATTTAATTTCAA
1 TTAAT--TAAATATAT-GTTTTAA
*
936758 TTAATTAAATATA-GATTTAA
1 TTAATTAAATATATGTTTTAA
936778 TTAATT
1 TTAATT
936784 TGAAATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 14 0.37
22 15 0.39
23 5 0.13
24 4 0.11
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (21 bp):
TTAATTAAATATATGTTTTAA
Found at i:936861 original size:90 final size:89
Alignment explanation
Indices: 936755--936917 Score: 281
Period size: 90 Copynumber: 1.8 Consensus size: 89
936745 TATTTAATTT
*
936755 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAACATGATCAGGGTAACT
1 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAACATGATCAAGGTAACT
936820 TGGATATAAGAGGATTATTAAATCC
65 TGGATATAAGAGGATTATTAAATCC
* *
936845 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAAGGTAACTT
1 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAACATGATCAAGGTAACTT
*
936910 GGCTATAA
66 GGATATAA
936918 AAGGGTGTGT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 27 0.39
90 42 0.61
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (89 bp):
CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAACATGATCAAGGTAACTT
GGATATAAGAGGATTATTAAATCC
Found at i:943642 original size:20 final size:21
Alignment explanation
Indices: 943618--943687 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
943608 ATATCTAGAG
943618 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATGTTTTAA
* * *
943639 -TAATCCTAAATATTTAATTTCAA
1 TTAAT--TAAATATAT-GTTTTAA
*
943662 TTAATTAAATATA-GATTTAA
1 TTAATTAAATATATGTTTTAA
943682 TTAATT
1 TTAATT
943688 TGGAATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 14 0.37
22 15 0.39
23 5 0.13
24 4 0.11
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (21 bp):
TTAATTAAATATATGTTTTAA
Found at i:944667 original size:15 final size:15
Alignment explanation
Indices: 944643--944672 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
944633 AAATATCTTT
*
944643 TAAAATAATTTTAAA
1 TAAAACAATTTTAAA
944658 TAAAACAATTTTAAA
1 TAAAACAATTTTAAA
944673 AGCGAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAACAATTTTAAA
Found at i:947026 original size:60 final size:63
Alignment explanation
Indices: 946935--947075 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 63
946925 ACCCAAATAT
** * ** *
946935 TAAATATA-TAAGTTTTTTGGTTTGGGGCCCACCCAGGCTATTTAAAAATTAATTATATTACAA
1 TAAATATATTAA-TTTTTTTATATGGGGCCCACCCAAACTATTTAAAAATCAATTATATTACAA
* * * *
946998 TAAA-A-A-TAATTTTTTTATATGGGTCCCACCCAAATTGTTTAAAAATCAATTATATTAGAA
1 TAAATATATTAATTTTTTTATATGGGGCCCACCCAAACTATTTAAAAATCAATTATATTACAA
947058 TAAATATATTAATTTTTT
1 TAAATATATTAATTTTTT
947076 GGTTTGGGGC
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
60 45 0.69
61 5 0.08
62 2 0.03
63 13 0.20
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (63 bp):
TAAATATATTAATTTTTTTATATGGGGCCCACCCAAACTATTTAAAAATCAATTATATTACAA
Found at i:948662 original size:15 final size:16
Alignment explanation
Indices: 948644--948677 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
948634 TATGAACATC
948644 AAATAAAATAACAA-A
1 AAATAAAATAACAATA
*
948659 AAATAGAATAACAATA
1 AAATAAAATAACAATA
948675 AAA
1 AAA
948678 ATAATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATAAAATAACAATA
Found at i:949202 original size:17 final size:17
Alignment explanation
Indices: 949180--949235 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
949170 ACAAATAAAG
949180 GTAATTACACATATATA
1 GTAATTACACATATATA
*
949197 GTAATTA-A-A-ATAAA
1 GTAATTACACATATATA
949211 GGTAATTACACATATATA
1 -GTAATTACACATATATA
949229 GTAATTA
1 GTAATTA
949236 AGAGGGCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 4 0.12
15 8 0.24
16 2 0.06
17 15 0.45
18 4 0.12
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (17 bp):
GTAATTACACATATATA
Found at i:949213 original size:32 final size:32
Alignment explanation
Indices: 949172--949236 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
949162 ACGAGACCAC
949172 AAATAAAGGTAATTACACATATATAGTAATTA
1 AAATAAAGGTAATTACACATATATAGTAATTA
949204 AAATAAAGGTAATTACACATATATAGTAATTA
1 AAATAAAGGTAATTACACATATATAGTAATTA
949236 A
1 A
949237 GAGGGCTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (32 bp):
AAATAAAGGTAATTACACATATATAGTAATTA
Found at i:950397 original size:3 final size:3
Alignment explanation
Indices: 950389--950459 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
950379 GTATATTGTA
950389 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
950435 AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
950460 ATATAAAAGA
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 6 0.09
3 59 0.91
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:950465 original size:6 final size:5
Alignment explanation
Indices: 950388--950467 Score: 56
Period size: 6 Copynumber: 14.6 Consensus size: 5
950378 TGTATATTGT
*
950388 AAATA ATAATA ATAATA ATAATA ATAATA AAAT- -AATA TAATA ATAATA
1 AAATA A-AATA A-AATA A-AATA A-AATA AAATA AAATA AAATA A-AATA
950436 ATAATA ATAATA ATAATA AAATA AATATA AAA
1 A-AATA A-AATA A-AATA AAATA AA-ATA AAA
950468 GACCCGGACA
Statistics
Matches: 69, Mismatches: 1, Indels: 10
0.86 0.01 0.12
Matches are distributed among these distances:
3 3 0.04
5 15 0.22
6 51 0.74
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (5 bp):
AAATA
Found at i:950676 original size:43 final size:44
Alignment explanation
Indices: 950620--950732 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 44
950610 GACGATACTG
* *
950620 CTCATACATGATGAAGAGGTCTGGTCATCTAAGGGA-GACACGA
1 CTCATACGTGATGAAGAGATCTGGTCATCTAAGGGATGACACGA
* * * * *
950663 TTCCTACGTGATGAGGAAATCTGG---TC-AAGGGATGACACGG
1 CTCATACGTGATGAAGAGATCTGGTCATCTAAGGGATGACACGA
* *
950703 CTCATACGCGATGAAGAGTTCTGGTCATCT
1 CTCATACGTGATGAAGAGATCTGGTCATCT
950733 TTAAGAAGGG
Statistics
Matches: 52, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
39 6 0.12
40 26 0.50
43 20 0.38
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
CTCATACGTGATGAAGAGATCTGGTCATCTAAGGGATGACACGA
Found at i:950890 original size:134 final size:134
Alignment explanation
Indices: 950646--950958 Score: 473
Period size: 134 Copynumber: 2.3 Consensus size: 134
950636 AGGTCTGGTC
** ** *
950646 ATCTAAGGGAGACACGATTCCTACGTGATGAGGAAATCTGGTCAAGGGATGACACGGCTCATACG
1 ATCTAAGGTTGACACGGCTCCTACGTGATGAGGAAGTCTGGTCAAGGGATGACACGGCTCATACG
* * *
950711 CGATGAAGAGTTCTGGTCATCTTTAAGAAGGGTGATAACTAGGTTCCTACGTAATGAGGACGGCT
66 CGATGAAGAGCTCTGGCCACCTTTAAGAAGGGTGATAACTAGGTTCCTACGTAATGAGGACGGCT
950776 GATT
131 GATT
* *
950780 ATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGAGGGATGACACGGCTCATACG
1 ATCTAAGGTTGACACGGCTCCTACGTGATGAGGAAGTCTGGTCAAGGGATGACACGGCTCATACG
* * *
950845 CGATGAAGAGCTCTGGCCACCTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCT
66 CGATGAAGAGCTCTGGCCACCTTTAAGAAGGGTGATAACTAGGTTCCTACGTAATGAGGACGGCT
*
950910 GGTT
131 GATT
* *
950914 ATCCTAATGTTGACACGGGTCCTACGTGATGAGGAAGTCTGGTCA
1 AT-CTAAGGTTGACACGGCTCCTACGTGATGAGGAAGTCTGGTCA
950959 GTTGATGTTG
Statistics
Matches: 160, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
134 122 0.76
135 38 0.24
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (134 bp):
ATCTAAGGTTGACACGGCTCCTACGTGATGAGGAAGTCTGGTCAAGGGATGACACGGCTCATACG
CGATGAAGAGCTCTGGCCACCTTTAAGAAGGGTGATAACTAGGTTCCTACGTAATGAGGACGGCT
GATT
Found at i:951926 original size:16 final size:15
Alignment explanation
Indices: 951905--951965 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
951895 CTTTATTTAT
951905 TTTTTCTTCTTTTTCA
1 TTTTTCTT-TTTTTCA
951921 TTTTTCATTTTTTTCA
1 TTTTTC-TTTTTTTCA
**
951937 TTTCCCTTTTTTTCA
1 TTTTTCTTTTTTTCA
*
951952 TTTCCTCTTTTTTT
1 TTT-TTCTTTTTTT
951966 TTTTTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.30
16 26 0.65
17 2 0.05
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTCTTTTTTTCA
Found at i:951962 original size:14 final size:14
Alignment explanation
Indices: 951907--951963 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
951897 TTATTTATTT
*
951907 TTTCTTCTTTTTCA
1 TTTCCTCTTTTTCA
* *
951921 TTTTTCATTTTTTTCA
1 --TTTCCTCTTTTTCA
*
951937 TTTCCCTTTTTTTCA
1 TTT-CCTCTTTTTCA
951952 TTTCCTCTTTTT
1 TTTCCTCTTTTT
951964 TTTTTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 11 0.31
15 13 0.36
16 12 0.33
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTCCTCTTTTTCA
Found at i:963651 original size:15 final size:16
Alignment explanation
Indices: 963633--963666 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
963623 TATGAACATC
963633 AAATAAAATAACAA-A
1 AAATAAAATAACAATA
*
963648 AAATAGAATAACAATA
1 AAATAAAATAACAATA
963664 AAA
1 AAA
963667 ATAATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATAAAATAACAATA
Found at i:965350 original size:3 final size:3
Alignment explanation
Indices: 965342--965407 Score: 107
Period size: 3 Copynumber: 21.7 Consensus size: 3
965332 GTATATTGTA
965342 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
965388 AAAT AAT AAT AAT AA- AAT AA
1 -AAT AAT AAT AAT AAT AAT AA
965408 ATATAAAAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.03
3 52 0.87
4 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:965378 original size:16 final size:16
Alignment explanation
Indices: 965340--965402 Score: 119
Period size: 16 Copynumber: 4.0 Consensus size: 16
965330 ATGTATATTG
965340 TAAATAATAATAATAA
1 TAAATAATAATAATAA
965356 T-AATAATAATAATAA
1 TAAATAATAATAATAA
965371 TAAATAATAATAATAA
1 TAAATAATAATAATAA
965387 TAAATAATAATAATAA
1 TAAATAATAATAATAA
965403 AATAAATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.33
16 31 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATAATAATAATAA
Found at i:968404 original size:20 final size:23
Alignment explanation
Indices: 968367--968425 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 23
968357 ATTATATTAT
968367 ATTATAT-TTCAATTATAAAAA-A
1 ATTATATATT-AATTATAAAAATA
968389 ATTAT-TA-TAATTATAAAAATA
1 ATTATATATTAATTATAAAAATA
968410 ATTATATATTAATTAT
1 ATTATATATTAATTAT
968426 TTATCTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
20 11 0.33
21 8 0.24
22 7 0.21
23 7 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTATATATTAATTATAAAAATA
Found at i:968453 original size:19 final size:19
Alignment explanation
Indices: 968411--968455 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
968401 ATAAAAATAA
*
968411 TTATATATTAATTATTTAT
1 TTATATATTAATAATTTAT
*
968430 CTATATATTAGATAATTT-T
1 TTATATATTA-ATAATTTAT
968449 TTATATA
1 TTATATA
968456 AAGAAGGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTATATATTAATAATTTAT
Found at i:985867 original size:16 final size:16
Alignment explanation
Indices: 985842--985883 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
985832 CTAAAAGAGG
*
985842 ATGCATTTTTTAAACT
1 ATGCAGTTTTTAAACT
985858 ATGCAGTTTTTAAACT
1 ATGCAGTTTTTAAACT
*
985874 A-GAAGTTTTT
1 ATGCAGTTTTT
985884 CGAGCAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (16 bp):
ATGCAGTTTTTAAACT
Found at i:990130 original size:14 final size:14
Alignment explanation
Indices: 990111--990143 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
990101 TAAATAAGAT
990111 TTAAAATAATAA-AA
1 TTAAAATAA-AATAA
990125 TTAAAATAAAATAA
1 TTAAAATAAAATAA
990139 TTAAA
1 TTAAA
990144 CTCTAATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TTAAAATAAAATAA
Found at i:993022 original size:2 final size:2
Alignment explanation
Indices: 993015--993046 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
993005 AATAATACCC
993015 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
993047 CAATTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:993847 original size:16 final size:16
Alignment explanation
Indices: 993826--993865 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
993816 TTCTATGAAG
993826 GAAATCAATGATATTT
1 GAAATCAATGATATTT
993842 GAAATCAATGATATTT
1 GAAATCAATGATATTT
993858 GAAATCAA
1 GAAATCAA
993866 AGTTTTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (16 bp):
GAAATCAATGATATTT
Found at i:994265 original size:3 final size:3
Alignment explanation
Indices: 994259--994284 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
994249 TATAATAATA
994259 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
994285 ATTTTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1007291 original size:36 final size:35
Alignment explanation
Indices: 1007211--1007414 Score: 162
Period size: 36 Copynumber: 5.7 Consensus size: 35
1007201 AGAAATCCAG
* * * * * *
1007211 CCTTCACGAAAGAATAATGAAGCAATGCAATCCAA
1 CCTTCACAAAAGAGTAGTAAAGCAAAGCAATTCAA
*
1007246 CCTTTACAAAAGAGTAGTAAAGCAAAGCAAATTCAA
1 CCTTCACAAAAGAGTAGTAAAGCAAAGC-AATTCAA
* * * * *
1007282 CCTTCACAAAAGAGTA-AAGAAGAAAATCAATATTAG
1 CCTTCACAAAAGAGTAGTA-AAGCAAAGCAAT-TCAA
* * *
1007318 CCTTCACATAGGAGTAGTGAAGCAAAGCAA-TCAAA
1 CCTTCACAAAAGAGTAGTAAAGCAAAGCAATTC-AA
* * *
1007353 GCCTTTACAAAATAGTAGTAAAGCAAAGTAA-TCAA
1 -CCTTCACAAAAGAGTAGTAAAGCAAAGCAATTCAA
*
1007388 TCCTTCACAAAAGAGTAGTGAAGCAAA
1 -CCTTCACAAAAGAGTAGTAAAGCAAA
1007415 ATGAGATCAA
Statistics
Matches: 132, Mismatches: 31, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
34 1 0.01
35 52 0.39
36 79 0.60
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.19
Consensus pattern (35 bp):
CCTTCACAAAAGAGTAGTAAAGCAAAGCAATTCAA
Found at i:1009113 original size:14 final size:14
Alignment explanation
Indices: 1009094--1009121 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1009084 GACTCTTTTT
1009094 GTGTTATTTTAATA
1 GTGTTATTTTAATA
1009108 GTGTTATTTTAATA
1 GTGTTATTTTAATA
1009122 CTATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (14 bp):
GTGTTATTTTAATA
Found at i:1009714 original size:13 final size:13
Alignment explanation
Indices: 1009696--1009720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1009686 CACAACTATT
1009696 AATTTAAAATAAG
1 AATTTAAAATAAG
1009709 AATTTAAAATAA
1 AATTTAAAATAA
1009721 CTCCTTACAG
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATTTAAAATAAG
Found at i:1011148 original size:2 final size:2
Alignment explanation
Indices: 1011141--1011179 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1011131 AATCATGATA
1011141 AT AT AT AT 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 AT AT AT AT A
1011180 ATGTAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.