Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008252.1 Hibiscus syriacus cultivar Beakdansim tig00110904_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: 2928487
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 13
Found at i:2616131 original size:3 final size:3
Alignment explanation
Indices: 2616123--2616183 Score: 104
Period size: 3 Copynumber: 20.0 Consensus size: 3
2616113 TCTACTTTCG
*
2616123 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2616171 TTTA TTA TTA TTA
1 -TTA TTA TTA TTA
2616184 CTTACATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2618359 original size:18 final size:18
Alignment explanation
Indices: 2618326--2618360 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2618316 ATCCGCAAAC
*
2618326 CAATTTTTGTCTTAAAAA
1 CAATTTTTGTCATAAAAA
*
2618344 CAATTTTTTTCATAAAA
1 CAATTTTTGTCATAAAA
2618361 TTGTTTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (18 bp):
CAATTTTTGTCATAAAAA
Found at i:2619868 original size:2 final size:2
Alignment explanation
Indices: 2619856--2619886 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2619846 AATTGATTAA
*
2619856 AT AT CT 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
2619887 GCTTAAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2627505 original size:15 final size:16
Alignment explanation
Indices: 2627485--2627514 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2627475 AATTTGCAAA
2627485 CTCACAA-GAAAATAC
1 CTCACAAGGAAAATAC
2627500 CTCACAAGGAAAATA
1 CTCACAAGGAAAATA
2627515 TGTTTGCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.23, G:0.10, T:0.13
Consensus pattern (16 bp):
CTCACAAGGAAAATAC
Found at i:2631634 original size:23 final size:24
Alignment explanation
Indices: 2631608--2631662 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 24
2631598 AGATCAAAGA
*
2631608 TGGGGCAAATGAAGCCAAAT-TTT
1 TGGGGCAAAGGAAGCCAAATGTTT
2631631 TGGGGCAAAGGAAGCCAAATGTTT
1 TGGGGCAAAGGAAGCCAAATGTTT
2631655 T-GGGCAAA
1 TGGGGCAAA
2631663 ATTTGATGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.22
Consensus pattern (24 bp):
TGGGGCAAAGGAAGCCAAATGTTT
Found at i:2632120 original size:37 final size:36
Alignment explanation
Indices: 2632057--2632243 Score: 239
Period size: 36 Copynumber: 5.1 Consensus size: 36
2632047 CATCCATAGA
* * * *
2632057 ATTTTGTCTAAAAACAAACTTCGTCTCACTTGAGAC
1 ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
* *
2632093 AGTTTTCTCTAAAATCAAATTTTGTCTCGCTTGAAATC
1 A-TTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGA-C
* *
2632131 GTTTTCTCTAAAAACAAATCTTGTCTCGCTTGAGAC
1 ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
* * * *
2632167 AATATCTGTAAAAACAAATCTTGTCTCGCTTGAGAC
1 ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
*
2632203 AATTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
1 ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
2632239 ATTTT
1 ATTTT
2632244 TCCTTTCAGT
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
36 71 0.54
37 59 0.45
38 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (36 bp):
ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
Found at i:2632686 original size:117 final size:114
Alignment explanation
Indices: 2632512--2632734 Score: 322
Period size: 117 Copynumber: 1.9 Consensus size: 114
2632502 ATTGTTTCAA
* * * *
2632512 TTGAGATTGTTTCCCTTGAAACAATTTTTGTCTCTCTTGATACAGTTTCTCTTGAAACATAAGAA
1 TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA-AAAAA
* *
2632577 -CATTGAGATTGTTTCCCTTGAATCAAAATTTTGTCTCTCTTGAAAAAAACC
65 TCATTGAG--TCTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAAAAAAACC
*
2632628 TTGAGATTTTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAAAA
1 TTGAGATTGTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAAAA
* *
2632693 TCTTTGAGTCTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGA
65 TCATTGAGTCTTTCCCTTGAAACAAAATTTTGTCTCTCTTGA
2632735 GATAGTTTCT
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
115 31 0.32
116 25 0.26
117 40 0.42
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (114 bp):
TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAAAAT
CATTGAGTCTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAAAAAAACC
Found at i:2632691 original size:66 final size:66
Alignment explanation
Indices: 2632612--2632809 Score: 264
Period size: 66 Copynumber: 3.0 Consensus size: 66
2632602 AAATTTTGTC
* * *
2632612 TCTCTTG-AA-AAAAA-CCTTGAGATTTTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
1 TCTCTTGAAACAAAAATCTTTGAG-TTCTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
2632674 TT
65 TT
*
2632676 TCTCTTGAAACAAAAAATCTTTGAG-TCTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGATAG
1 TCTCTTGAAAC-AAAAATCTTTGAGTTCTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
2632740 TT
65 TT
* *
2632742 TCTCTTTAAACAAAAATCTTTGAG-TCAGTTTCCCTTGAAACATA-TTTTGTCTCTCTTGAGACA
1 TCTCTTGAAACAAAAATCTTTGAGTTC--TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
2632805 GTT
64 GTT
2632808 TC
1 TC
2632810 CATTTAAACA
Statistics
Matches: 121, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
64 7 0.06
65 17 0.14
66 71 0.59
67 20 0.17
68 6 0.05
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (66 bp):
TCTCTTGAAACAAAAATCTTTGAGTTCTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGT
T
Found at i:2632816 original size:66 final size:67
Alignment explanation
Indices: 2632637--2632886 Score: 285
Period size: 66 Copynumber: 3.7 Consensus size: 67
2632627 CTTGAGATTT
* *
2632637 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAAAATCTTTGAGT
1 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTAAAC-AAAAATCTTTGAGT
2632702 C--
65 CAG
*
2632703 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTTAAACAAAAATCTTTGAGTC
1 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTAAACAAAAATCTTTGAGTC
2632768 AG
66 AG
* ***
2632770 TTTCCCTTGAAACATA-TTTTGTCTCTCTTGAGACAGTTTC-CATTTAAACATATTTTGCCTCTC
1 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC-TTTAAACA-A----AAATCT-
*
2632833 TTGAGACAG
59 TTGAGTCAG
* * *
2632842 TTTCCCTTGAAACATATTTTTGTCTCGCTTGAGATC-GTTTCTCTT
1 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGA-CAGTTTCTCTT
2632887 GAAATAAATC
Statistics
Matches: 162, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
65 16 0.10
66 78 0.48
67 16 0.10
71 3 0.02
72 24 0.15
73 23 0.14
74 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (67 bp):
TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTTAAACAAAAATCTTTGAGTC
AG
Found at i:2632873 original size:37 final size:36
Alignment explanation
Indices: 2632703--2632890 Score: 183
Period size: 36 Copynumber: 5.3 Consensus size: 36
2632693 TCTTTGAGTC
* *
2632703 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACATA-TTTTGTCTCTCTTGAGACAG
* * *** *
2632740 TTTCTCTTTAAACA-A----AAATCT-TTGAGTCAG
1 TTTCCCTTGAAACATATTTTGTCTCTCTTGAGACAG
2632770 TTTCCCTTGAAACATATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACATATTTTGTCTCTCTTGAGACAG
* * *
2632806 TTTCCATTTAAACATATTTTGCCTCTCTTGAGACAG
1 TTTCCCTTGAAACATATTTTGTCTCTCTTGAGACAG
*
2632842 TTTCCCTTGAAACATATTTTTGTCTCGCTTGAGATC-G
1 TTTCCCTTGAAACATA-TTTTGTCTCTCTTGAGA-CAG
*
2632879 TTTCTCTTGAAA
1 TTTCCCTTGAAA
2632891 TAAATCATCC
Statistics
Matches: 122, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
30 19 0.16
31 4 0.03
35 3 0.02
36 56 0.46
37 39 0.32
38 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAACATATTTTGTCTCTCTTGAGACAG
Found at i:2633230 original size:134 final size:135
Alignment explanation
Indices: 2632893--2633298 Score: 460
Period size: 134 Copynumber: 3.0 Consensus size: 135
2632883 TCTTGAAATA
* * * * * * *
2632893 AATCATCCCTAAATATGGCCAGCTATCATCATTACGTAGGAA-CTGTTTCATCCACTAACCTGAT
1 AATCATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAATC-GTGTCATCCACCAACCAGAT
* ** * ** *
2632957 CTCCTCATCACGTAGGAGT-CGTGTCAACCTTAGATAACCAGTT-GTTGTCATCACGTAGGAACT
65 CTCCTCATCACGTA-GAATCCACGTCAACCTTAGATAACCA-TTCATCCTCATCACGTAGGAACC
2633020 GTGTTATC
128 GTGTTATC
* * * * *
2633028 ACCATTATCCCTAAAGATGGTCAGCCATCCTCATCTCTTAGGAATCGTGTCATCCACCAACTAGA
1 A--ATCATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAATCGTGTCATCCACCAACCAGA
* *
2633093 TCTCCTCATCACGTAGAATCCACATCAACCTTAGATAACCATTCATCCTCATCACGTAAGAACCG
64 TCTCCTCATCACGTAGAATCCACGTCAACCTTAGATAACCATTCATCCTCATCACGTAGGAACCG
2633158 TGTTAT-
129 TGTTATC
* *
2633164 AATCATCCCTAAAGATGGCCAACCATCCTCATCACGTAGGAATCGTGTCATCCACCGACCAGATC
1 AATCATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAATCGTGTCATCCACCAACCAGATC
* * * * ** * *
2633229 TCCTCATCACGTAGGAGCCACGTCACCCTTAGATAACAAGACTTCCTCATCACATAGGAACCGTG
66 TCCTCATCACGTAGAATCCACGTCAACCTTAGATAACCATTCATCCTCATCACGTAGGAACCGTG
2633294 TTATC
131 TTATC
2633299 TCCAAATTTA
Statistics
Matches: 227, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
134 116 0.51
135 1 0.00
136 6 0.03
137 103 0.45
138 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (135 bp):
AATCATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAATCGTGTCATCCACCAACCAGATC
TCCTCATCACGTAGAATCCACGTCAACCTTAGATAACCATTCATCCTCATCACGTAGGAACCGTG
TTATC
Found at i:2642202 original size:22 final size:22
Alignment explanation
Indices: 2642174--2642229 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
2642164 TACGCTGTCC
*
2642174 TTCGGGACTTATACAAAGGTCT
1 TTCGGGACATATACAAAGGTCT
* *
2642196 TTCGGGACATATACATAGGTCC
1 TTCGGGACATATACAAAGGTCT
2642218 TT-GAGGACATAT
1 TTCG-GGACATAT
2642230 TTCACATGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (22 bp):
TTCGGGACATATACAAAGGTCT
Found at i:2645360 original size:27 final size:26
Alignment explanation
Indices: 2645320--2645370 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
2645310 GGATCAATTT
*
2645320 TTTTGCATATGCATTTGCATATTTACA
1 TTTTGCATACGCATTT-CATATTTACA
* *
2645347 TTTTGCATCCGCATTTCATTTTTA
1 TTTTGCATACGCATTTCATATTTA
2645371 AGCATTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.51
Consensus pattern (26 bp):
TTTTGCATACGCATTTCATATTTACA
Found at i:2647159 original size:23 final size:22
Alignment explanation
Indices: 2647133--2647205 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 22
2647123 AAAGATGGGC
2647133 CAAAGGAAGCCAAATTTTTTGG
1 CAAAGGAAGCCAAATTTTTTGG
*
2647155 ACAAATGAAGCCAAATTTTTTAGG
1 -CAAAGGAAGCCAAATTTTTT-GG
2647179 CAAAGGAAGCCAAATTTTTTGGG
1 CAAAGGAAGCCAAATTTTTT-GG
2647202 CAAA
1 CAAA
2647206 ATTTGATGGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 44 0.96
24 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (22 bp):
CAAAGGAAGCCAAATTTTTTGG
Found at i:2647677 original size:37 final size:36
Alignment explanation
Indices: 2647600--2647823 Score: 232
Period size: 37 Copynumber: 6.1 Consensus size: 36
2647590 CATCCATAGA
* * * * * *
2647600 ATTTTGTCTAGAAACAAACTTCGTCTCACTTGAGAT
1 ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
* **
2647636 AGTTTTTTCTAAAATTAAATTTTGTCTCGCTTGAGAC
1 A-TTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
* *
2647673 AGTTTTCTCTAAAATCAAATTTTGTCTCGCTTGAAACC
1 A-TTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGA-C
* * *
2647711 GTTTTCTCTAAAAACAAATCTTGTGTCGCTTGAGAC
1 ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
* * * *
2647747 AATATCTGTAAAAACAAATCTTGTCTCGCTTGAGAC
1 ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
* * *
2647783 AATATCTCTAAAAACAAATTTTGTCTCACTTGAGAC
1 ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
2647819 ATTTT
1 ATTTT
2647824 TCCTTTCAGT
Statistics
Matches: 160, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
36 69 0.43
37 90 0.56
38 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (36 bp):
ATTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAC
Found at i:2647766 original size:36 final size:36
Alignment explanation
Indices: 2647643--2647819 Score: 201
Period size: 36 Copynumber: 4.9 Consensus size: 36
2647633 GATAGTTTTT
** * * *
2647643 TCTAAAATTAAATTTTGTCTCGCTTGAGACAGTTTTC
1 TCTAAAAACAAATCTTGTCTCGCTTGAGACA-ATATC
* * * ** *
2647680 TCTAAAATCAAATTTTGTCTCGCTTGAAACCGTTTTC
1 TCTAAAAACAAATCTTGTCTCGCTTGAGA-CAATATC
*
2647717 TCTAAAAACAAATCTTGTGTCGCTTGAGACAATATC
1 TCTAAAAACAAATCTTGTCTCGCTTGAGACAATATC
*
2647753 TGTAAAAACAAATCTTGTCTCGCTTGAGACAATATC
1 TCTAAAAACAAATCTTGTCTCGCTTGAGACAATATC
* *
2647789 TCTAAAAACAAATTTTGTCTCACTTGAGACA
1 TCTAAAAACAAATCTTGTCTCGCTTGAGACA
2647820 TTTTTCCTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
36 66 0.53
37 57 0.46
38 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTAAAAACAAATCTTGTCTCGCTTGAGACAATATC
Found at i:2648063 original size:99 final size:97
Alignment explanation
Indices: 2647836--2648068 Score: 222
Period size: 99 Copynumber: 2.3 Consensus size: 97
2647826 CTTTCAGTTG
* * * *
2647836 AAAATTTTGAATTTGTTTCACTTGAAACTAAATTGATCTCACTTGAGATTATTTCTCTTAAAGAA
1 AAAAATTTGAAATTGTTTCAC-TGAAACAAAATTAATCTCACTTGAGATTATTTCTC-TAAAGAA
* * *
2647901 AATTTCATCTAGCTTGAGATAATTCCCTCAGAAC
64 AATTTCATCTAGATTGAGACAATTCCCTCAAAAC
* *
2647935 AAAAATTTCAAAGTTGTTTTACTGGAAACAAAATTAATCTCACTTGAGATT-TTTCTC-AAA-AT
1 AAAAATTTGAAA-TTGTTTCACT-GAAACAAAATTAATCTCACTTGAGATTATTTCTCTAAAGA-
* * * *
2647997 AAATTTCGTCTA-ATTGGAGACAATTTTTCGTTAAAAC
63 AAATTTCATCTAGATT-GAGACAA--TTCCCTCAAAAC
*
2648034 ACAAATTCTGAAATTGTTTCACATGAAACAAAATT
1 AAAAATT-TGAAATTGTTTCAC-TGAAACAAAATT
2648069 GATGATCTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
96 3 0.03
97 20 0.18
99 49 0.45
100 38 0.35
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (97 bp):
AAAAATTTGAAATTGTTTCACTGAAACAAAATTAATCTCACTTGAGATTATTTCTCTAAAGAAAA
TTTCATCTAGATTGAGACAATTCCCTCAAAAC
Found at i:2648312 original size:132 final size:133
Alignment explanation
Indices: 2648077--2648400 Score: 374
Period size: 133 Copynumber: 2.4 Consensus size: 133
2648067 TTGATGATCT
* * *
2648077 TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACACTTTCTCTTGAAACGTAAGAA
1 TTGAGATTGTTTCCCTTGAAACAA--TATGTCTCTCTTGAGACAATTTCTCTTGAAACG-AAAAA
* * * *
2648142 CATTGAGATTGTTTCCCTTGAATCAAAATTTTGTCTCTCTTGATACCGTTTCTCTTGAAACAAAA
63 CATTGAGATTGTTTCCCTTGAAACAAAATTTTGCCTCTCTTGAGACAGTTTCTCTTGAAACAAAA
2648207 CAAATC
128 CAAATC
* * *
2648213 TTGAGATTTTTTCCCTTGAAACAA-ATGTCTCTCTTTAGACAATTTCTCTTGAAAC-AAAAATCT
1 TTGAGATTGTTTCCCTTGAAACAATATGTCTCTCTTGAGACAATTTCTCTTGAAACGAAAAA-CA
*
2648276 TTGAG-TATGTTTCCCTTGAAACAAAGTTTTGCCTCTCTTGAGACAGTTTCTCTTGAAAC--AA-
65 TTGAGAT-TGTTTCCCTTGAAACAAAATTTTGCCTCTCTTGAGACAGTTTCTCTTGAAACAAAAC
2648337 AAATC
129 AAATC
* * * * *
2648342 TTTGAG-TCAGTTTCCCTTGAAACATATTTTGTCTCTATTGAGACAGTTTCCCTTGAAAC
1 -TTGAGAT-TGTTTCCCTTGAAACA-A-TATGTCTCTCTTGAGACAATTTCTCTTGAAAC
2648401 ATATTTTGTC
Statistics
Matches: 163, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
129 6 0.04
130 21 0.13
131 6 0.04
132 53 0.33
133 54 0.33
136 23 0.14
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (133 bp):
TTGAGATTGTTTCCCTTGAAACAATATGTCTCTCTTGAGACAATTTCTCTTGAAACGAAAAACAT
TGAGATTGTTTCCCTTGAAACAAAATTTTGCCTCTCTTGAGACAGTTTCTCTTGAAACAAAACAA
ATC
Found at i:2648330 original size:67 final size:66
Alignment explanation
Indices: 2648073--2648475 Score: 406
Period size: 67 Copynumber: 6.0 Consensus size: 66
2648063 AAAATTGATG
* *
2648073 ATCTTTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACACTTTCTCTTGAAACGTA
1 ATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC--A
*
2648138 AGA
64 AAA
* * * *
2648141 A-CATTGAGATTGTTTCCCTTGAATCAAAATTTTGTCTCTCTTGATACCGTTTCTCTTGAAACAA
1 ATCTTTGAGATTGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC--
2648205 AACAA
63 AA-AA
* * *
2648210 ATC-TTGAGATTTTTTCCCTTGAAACAAA---TGTCTCTCTTTAGACAATTTCTCTTGAAACAAA
1 ATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
2648271 A
66 A
*
2648272 ATCTTTGAG-TATGTTTCCCTTGAAACAAAGTTTTGCCTCTCTTGAGACAGTTTCTCTTGAAACA
1 ATCTTTGAGAT-TGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
2648336 AAA
64 AAA
* * * *
2648339 ATCTTTGAG-TCAGTTTCCCTTGAAACATATTTTGTCTCTATTGAGACAGTTTCCCTTGAAACAT
1 ATCTTTGAGAT-TGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-
**
2648403 ATTTTGT
64 A----AA
* * * * * * *
2648410 CTCTCTTGAGACTGTTTCCCTTCAAACATATTTTGTCTCGCTTGGGACCGTTTCTCTTGAAACAA
1 ATCT-TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
2648475 A
65 A
2648476 TCATCCCTAA
Statistics
Matches: 282, Mismatches: 37, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
62 6 0.02
63 24 0.09
65 26 0.09
66 31 0.11
67 80 0.28
68 38 0.13
69 22 0.08
70 1 0.00
71 4 0.01
72 50 0.18
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (66 bp):
ATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
A
Found at i:2648390 original size:36 final size:36
Alignment explanation
Indices: 2648284--2648473 Score: 203
Period size: 36 Copynumber: 5.4 Consensus size: 36
2648274 CTTTGAGTAT
* *
2648284 GTTTCCCTTGAAACAAAGTTTTGCCTCTCTTGAGACA
1 GTTTCCCTTGAAACATA-TTTTGTCTCTCTTGAGACA
* *** *
2648321 GTTTCTCTTGAAACA-A----AAATCT-TTGAGTCA
1 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
*
2648351 GTTTCCCTTGAAACATATTTTGTCTCTATTGAGACA
1 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
*
2648387 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACT
1 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
* * * *
2648423 GTTTCCCTTCAAACATATTTTGTCTCGCTTGGGACC
1 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
*
2648459 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
2648474 AATCATCCCT
Statistics
Matches: 129, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
30 21 0.16
31 4 0.03
35 3 0.02
36 87 0.67
37 14 0.11
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (36 bp):
GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
Found at i:2648815 original size:134 final size:135
Alignment explanation
Indices: 2648474--2648879 Score: 530
Period size: 134 Copynumber: 3.0 Consensus size: 135
2648464 TCTTGAAACA
** * **
2648474 AATCATCCCTAAAGATGGCCAACCATCCTCATCACGTAGGAACCGTGTCATCCACTAACCAAATC
1 AATCATCCCTAAAGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAAATC
* * * * * * **
2648539 TCCTCATCAAGTAGGAGTCATGTCAACCTTAGATAACCAGTCGTCGTCATCGCGTAGGAATTGTG
66 TCCTCATCACGTAGGAGCCACGTCAACCTTAGATAACCAGTCATCCTCATCACGTAGGAACCGTG
2648604 TTATC
131 TTATC
*
2648609 ACCATTATCCCTAAAGATGGCCAGTCGTCCTCAAT-ACGTAGGAACCGTGTCATCCACCGACCAA
1 A--ATCATCCCTAAAGATGGCCAGTCGTCCTC-ATCACGTAGGAACCGTGTCATCCACCGACCAA
* *
2648673 ATCTCCTCATCACGTATGAGCCACGTCAACCTTAGATAACCAGTCATCCTCATCATGTAGGAACC
63 ATCTCCTCATCACGTAGGAGCCACGTCAACCTTAGATAACCAGTCATCCTCATCACGTAGGAACC
2648738 GTGTTAT-
128 GTGTTATC
* * * *
2648745 AATCATCCTTAAAGATGGTCAGTCGTCCTCATCACGTAGGAATCGTGTCATCCACCGACCAGATC
1 AATCATCCCTAAAGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAAATC
* * * * *
2648810 TCCTCATCACATAGGACCCACGTCACCCTTAGA-AAGCCAGACTTCCTCATCACGTAGGAACCGT
66 TCCTCATCACGTAGGAGCCACGTCAACCTTAGATAA-CCAGTCATCCTCATCACGTAGGAACCGT
2648874 GTTATC
130 GTTATC
2648880 TCAAAATTTA
Statistics
Matches: 237, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
133 4 0.02
134 115 0.49
135 1 0.00
136 1 0.00
137 114 0.48
138 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (135 bp):
AATCATCCCTAAAGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAAATC
TCCTCATCACGTAGGAGCCACGTCAACCTTAGATAACCAGTCATCCTCATCACGTAGGAACCGTG
TTATC
Found at i:2651870 original size:32 final size:32
Alignment explanation
Indices: 2651834--2651897 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
2651824 ATCAATAACT
2651834 TACCCTAAAAATGTTTACTGCACTTTCTAGTG
1 TACCCTAAAAATGTTTACTGCACTTTCTAGTG
2651866 TACCCTAAAAATGTTTACTGCACTTTCTAGTG
1 TACCCTAAAAATGTTTACTGCACTTTCTAGTG
2651898 ATAGCAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (32 bp):
TACCCTAAAAATGTTTACTGCACTTTCTAGTG
Found at i:2654303 original size:31 final size:31
Alignment explanation
Indices: 2654261--2654358 Score: 169
Period size: 31 Copynumber: 3.2 Consensus size: 31
2654251 CCGATCGCCG
*
2654261 CTAAACACGATCGAGGAAGACCAAATGGCCC
1 CTAAACGCGATCGAGGAAGACCAAATGGCCC
2654292 CTAAACGCGATCGAGGAAGACCAAATGGCCC
1 CTAAACGCGATCGAGGAAGACCAAATGGCCC
* *
2654323 CTAAACGCGATTGAGGAAGACCAAATGACCC
1 CTAAACGCGATCGAGGAAGACCAAATGGCCC
2654354 CTAAA
1 CTAAA
2654359 TGAACCGAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.39, C:0.28, G:0.22, T:0.11
Consensus pattern (31 bp):
CTAAACGCGATCGAGGAAGACCAAATGGCCC
Found at i:2671873 original size:13 final size:13
Alignment explanation
Indices: 2671852--2671883 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2671842 CAAGACCAAG
2671852 CATCATAAATCAA
1 CATCATAAATCAA
*
2671865 CATCGTAAATCAA
1 CATCATAAATCAA
2671878 CATCAT
1 CATCAT
2671884 TCACTATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (13 bp):
CATCATAAATCAA
Found at i:2672009 original size:3 final size:3
Alignment explanation
Indices: 2671994--2672055 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
2671984 AGGGTAAAAA
*
2671994 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2672041 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
2672056 CATCATCATC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 1 0.02
3 55 0.98
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2678030 original size:2 final size:2
Alignment explanation
Indices: 2678023--2678055 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2678013 TACCCAACAA
2678023 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 A
2678056 ATAAAGCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2679205 original size:34 final size:34
Alignment explanation
Indices: 2679160--2679227 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
2679150 TGATGGTGTT
* *
2679160 ATTTCTAAAAACAAATTTTGTCTCACTTGAGACA
1 ATTTCTAAAAACAAATCTCGTCTCACTTGAGACA
* *
2679194 ATTTCTCAAAACAAATCTCGTCTCGCTTGAGACA
1 ATTTCTAAAAACAAATCTCGTCTCACTTGAGACA
2679228 TCTTTCCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (34 bp):
ATTTCTAAAAACAAATCTCGTCTCACTTGAGACA
Found at i:2679554 original size:33 final size:34
Alignment explanation
Indices: 2679517--2679600 Score: 109
Period size: 33 Copynumber: 2.5 Consensus size: 34
2679507 ATTCTAAAAT
* *
2679517 TGTTTCACTTGAAATAAAAATCATCTTTGAG-TC
1 TGTTTCACTTGAAACAAAAATCATATTTGAGATC
* *
2679550 TGTTTCACTGGAAACAACAATCATATTTGAGATC
1 TGTTTCACTTGAAACAAAAATCATATTTGAGATC
*
2679584 -GTTTCTCTTGAAACAAA
1 TGTTTCACTTGAAACAAA
2679601 TCTTATTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 41 0.95
34 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (34 bp):
TGTTTCACTTGAAACAAAAATCATATTTGAGATC
Found at i:2679835 original size:63 final size:66
Alignment explanation
Indices: 2679707--2679835 Score: 165
Period size: 68 Copynumber: 2.0 Consensus size: 66
2679697 TTAAATACCT
* * *
2679707 ATCTTTGAGTTTGTTTCCCTTGAAACAAAACAAACATCTTTGAGATTATTTCCCATGAAACGAAT
1 ATCTTTGAGTCTGTTTCCCTTGAAACAAAAC--ACATCTTTGAGATCATTTCCCATGAAAAGAAT
2679772 TAA
64 TAA
* * *
2679775 ATCTTTTAGTCTGTTTCTCTTGAAACAAAAC-CATCTTTGAG-TCA-TTCCCTTGAAAAGAATT
1 ATCTTTGAGTCTGTTTCCCTTGAAACAAAACACATCTTTGAGATCATTTCCCATGAAAAGAATT
2679836 TTGTCTCTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
63 15 0.27
64 2 0.04
65 10 0.18
68 28 0.51
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (66 bp):
ATCTTTGAGTCTGTTTCCCTTGAAACAAAACACATCTTTGAGATCATTTCCCATGAAAAGAATTA
A
Found at i:2680230 original size:78 final size:78
Alignment explanation
Indices: 2680142--2680285 Score: 193
Period size: 78 Copynumber: 1.8 Consensus size: 78
2680132 GATGACCAAG
* *
2680142 AACTCTTCATCACGTATGAGTAGAGTCAT-CCTCTGACCACACCA-CCTCATCACGTAGGAGCTG
1 AACTCTTCATCACGTATGAGCAGAGTCATCCCT-TGACCACA-CATCCTCATCACGTAGGAGCCG
2680205 TGTTCCTCTGACCAT
64 TGTTCCTCTGACCAT
* * * * *
2680220 AACTCTTCATCACGTGTGAGCCGTGTCATCCCTTGACCAGATATCCTCATCACGTAGGAGCCGTG
1 AACTCTTCATCACGTATGAGCAGAGTCATCCCTTGACCACACATCCTCATCACGTAGGAGCCGTG
2680285 T
66 T
2680286 CACCCATAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.02
78 53 0.93
79 3 0.05
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (78 bp):
AACTCTTCATCACGTATGAGCAGAGTCATCCCTTGACCACACATCCTCATCACGTAGGAGCCGTG
TTCCTCTGACCAT
Found at i:2680329 original size:43 final size:40
Alignment explanation
Indices: 2680135--2680334 Score: 119
Period size: 40 Copynumber: 5.0 Consensus size: 40
2680125 TCCTAAAGAT
* ** *
2680135 GACCAAGAACTCTTCATCACGTATGAGTAGAGTCATCCTCT-
1 GACC-AGAACTCTTCATCACGTGTGAGCCGTGTCATCC-CTA
* * * * *
2680176 GACCACACCACCTCATCACGTAG-GAGCTGTGT--TCCTCT-
1 GACCAGAACTCTTCATCACGT-GTGAGCCGTGTCATCC-CTA
* *
2680214 GACCATAACTCTTCATCACGTGTGAGCCGTGTCATCCCTT
1 GACCAGAACTCTTCATCACGTGTGAGCCGTGTCATCCCTA
*
2680254 GACCAGATA-TCCTCATCACGTAG-GAGCCGTGTCA-CCCATAGAA
1 GACCAGA-ACTCTTCATCACGT-GTGAGCCGTGTCATCCC-T---A
* * *
2680297 GACCCGAACTCTTCATCACGTGTGAGCAGTGTCGTCCC
1 GACCAGAACTCTTCATCACGTGTGAGCCGTGTCATCCC
2680335 CAATAACAAG
Statistics
Matches: 125, Mismatches: 20, Indels: 25
0.74 0.12 0.15
Matches are distributed among these distances:
37 1 0.01
38 31 0.25
39 5 0.04
40 51 0.41
41 6 0.05
42 2 0.02
43 26 0.21
44 3 0.02
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (40 bp):
GACCAGAACTCTTCATCACGTGTGAGCCGTGTCATCCCTA
Found at i:2680489 original size:3 final size:3
Alignment explanation
Indices: 2680474--2680514 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
2680464 GGGTCAAAAA
*
2680474 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2680515 CTTACATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2687108 original size:47 final size:47
Alignment explanation
Indices: 2687036--2687128 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
2687026 TACAGGAAAG
* *
2687036 GTAAATACAACATTGTAGCCGATGCTCTCTCCAGAAGTTATGTATTA
1 GTAAATACAACATTGTAGCCAATGCTCTCTCCAGAAGGTATGTATTA
*
2687083 GTAAATACAACATTGTAGCCAATGCTCTCTCTAGAAGGTATGTATT
1 GTAAATACAACATTGTAGCCAATGCTCTCTCCAGAAGGTATGTATT
2687129 CCTTAGCACT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (47 bp):
GTAAATACAACATTGTAGCCAATGCTCTCTCCAGAAGGTATGTATTA
Found at i:2693125 original size:102 final size:100
Alignment explanation
Indices: 2692834--2693207 Score: 370
Period size: 102 Copynumber: 3.7 Consensus size: 100
2692824 TTAAAGCTTG
* * * * *
2692834 TGTTTCAA-GGGATACTGTCTCGAGTGAGATAAAATTTGTTTCAAGAGAAACAATCTCAAGTGAG
1 TGTTTCAAGGGGA-ATTGTCTCAAGTGAGATGAAATTTGTTTTAAGA-AAACAATCTTAAGTGAG
* *
2692898 ATAAAAA--AATTCGAATGAAACAATTTCAAAATTTGA
64 ATAAAAATTATTTCGAGTGAAACAATTTCAAAATTT-A
** * * *
2692934 -GTTTCAAGGGGAATTGTCTCAAACGAGA-CATAA-TTGTTTTAAGAAAACAATCTGACGTGAGA
1 TGTTTCAAGGGGAATTGTCTCAAGTGAGATGA-AATTTGTTTTAAGAAAACAATCTTAAGTGAGA
* *
2692996 TAAAAAAATTATCTCAAGTGAAACAATTTCAAAATTTA
65 T--AAAAATTATTTCGAGTGAAACAATTTCAAAATTTA
* *
2693034 TGTTTCTAGGGGAACTTG-CTCAAGTGAGATGAAATTTGTTTTAAGAAAACAATCTTAATTGAGA
1 TGTTTCAAGGGGAA-TTGTCTCAAGTGAGATGAAATTTGTTTTAAGAAAACAATCTTAAGTGAGA
* *
2693098 TAAAAATTTTATTTTGAGTGAACCAATTTCAAAATTTA
65 TAAAAA--TTATTTCGAGTGAAACAATTTCAAAATTTA
* * *
2693136 TGTTTCAAGGGAAAATTGTCTCATA-AGAGATGAAATTTGTTTTTAAGAAAA-AGATTCTTAATT
1 TGTTTCAAGGG-GAATTGTCTCA-AGTGAGATGAAATTTG-TTTTAAGAAAACA-A-TCTTAAGT
2693199 GAGATAAAA
61 GAGATAAAA
2693208 TTTGTTTTTA
Statistics
Matches: 230, Mismatches: 26, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
97 17 0.07
98 11 0.05
99 26 0.11
100 10 0.04
101 46 0.20
102 70 0.30
103 20 0.09
104 13 0.06
105 17 0.07
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (100 bp):
TGTTTCAAGGGGAATTGTCTCAAGTGAGATGAAATTTGTTTTAAGAAAACAATCTTAAGTGAGAT
AAAAATTATTTCGAGTGAAACAATTTCAAAATTTA
Found at i:2693249 original size:38 final size:37
Alignment explanation
Indices: 2693162--2693284 Score: 147
Period size: 38 Copynumber: 3.3 Consensus size: 37
2693152 TGTCTCATAA
* * * *
2693162 GAGATGAAATTTGTTTTTAAGAAAAAGATTCTTAATT
1 GAGATGAAATTTGTTTTTAAGAAAAATAATCTCAAGT
*
2693199 GAGATAAAATTTGTTTTTAAGTAAAAATAATCTCAAGT
1 GAGATGAAATTTGTTTTTAAG-AAAAATAATCTCAAGT
* * *
2693237 AAGATGATATTTGTTTTTTAAGAAAAATAATTTCAAGT
1 GAGATGAAATTTG-TTTTTAAGAAAAATAATCTCAAGT
*
2693275 GAGATAAAAT
1 GAGATGAAAT
2693285 CTTGATTGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
37 20 0.28
38 44 0.61
39 8 0.11
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (37 bp):
GAGATGAAATTTGTTTTTAAGAAAAATAATCTCAAGT
Found at i:2693569 original size:116 final size:116
Alignment explanation
Indices: 2693361--2693677 Score: 379
Period size: 116 Copynumber: 2.7 Consensus size: 116
2693351 CAACTCCTTA
* * * * * * *
2693361 GTGATGGACGACCCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTTTCTCTCATCGGATGA
1 GTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAAGAACTTATTCTCCCTCATTGGAAGA
* * * *
2693426 GTTCTTCTTATTATGAACCCTTCCACTAGAAATGTTGATTCACCT-CATTCC
66 TTTCTTCTAATTATGAACCCTTCCACTAAAAATGTTAATTCACCTGC-TTCC
* * * *
2693477 GTGATGGATAAGCCAAGGTTGAACAAGTTCTTCTTATTAGGAACTTATTCTCCCTCATTAGAAGA
1 GTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAAGAACTTATTCTCCCTCATTGGAAGA
* * *
2693542 TTTCTTCTCATTATGAACCCTTTCACTAAAAATGTTAATTCACCTGCTTCT
66 TTTCTTCTAATTATGAACCCTTCCACTAAAAATGTTAATTCACCTGCTTCC
* * * * *
2693593 GTGATGGACGAGTCAAGCTTGAACAAGCTCTTCTCATTAAGAACTTATTCTCCCT-ATTTGGACG
1 GTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAAGAACTTATTCTCCCTCA-TTGGAAG
2693657 -TGTTCTTCTAATTATGAACCC
65 AT-TTCTTCTAATTATGAACCC
2693678 AATGCTTGGT
Statistics
Matches: 172, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
115 2 0.01
116 169 0.98
117 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (116 bp):
GTGATGGACAAGCCAAGGTTGAACAAGTTCTTCTCATTAAGAACTTATTCTCCCTCATTGGAAGA
TTTCTTCTAATTATGAACCCTTCCACTAAAAATGTTAATTCACCTGCTTCC
Found at i:2696358 original size:24 final size:23
Alignment explanation
Indices: 2696308--2696361 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
2696298 GTTCTATGCG
*
2696308 GTCCTTCAGGATAACTCTAAGTG
1 GTCCTTCAGGATAACTCTAAGTA
* *
2696331 GTCCTTCAGGATAAATTCTACGTA
1 GTCCTTCAGGAT-AACTCTAAGTA
2696355 GTCCTTC
1 GTCCTTC
2696362 GAGACAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (23 bp):
GTCCTTCAGGATAACTCTAAGTA
Found at i:2707669 original size:15 final size:15
Alignment explanation
Indices: 2707634--2707684 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
2707624 ATGTTTTATA
*
2707634 TGAAAATGTTCTATG
1 TGAAAATGTTCTAAG
*
2707649 TG-AAATGTACTAAG
1 TGAAAATGTTCTAAG
* *
2707663 TGAAAATATTCTACG
1 TGAAAATGTTCTAAG
2707678 TGAAAAT
1 TGAAAAT
2707685 ACCCTATGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (15 bp):
TGAAAATGTTCTAAG
Found at i:2707866 original size:24 final size:24
Alignment explanation
Indices: 2707834--2707892 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
2707824 CCTTCGGGAT
2707834 AATTCTACGTGGTCATTCAGGACA
1 AATTCTACGTGGTCATTCAGGACA
* *
2707858 AATTCTACGTGGTCCTTCGGGACA
1 AATTCTACGTGGTCATTCAGGACA
*
2707882 AA-TCTATGTGG
1 AATTCTACGTGG
2707893 CACTTCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 8 0.25
24 24 0.75
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (24 bp):
AATTCTACGTGGTCATTCAGGACA
Found at i:2707892 original size:23 final size:23
Alignment explanation
Indices: 2707823--2707900 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
2707813 GGTTCTATGC
* *
2707823 TCCTTCGGGATAATTCTACGTGG
1 TCCTTCGGGACAAATCTACGTGG
* *
2707846 TCATTCAGGACAAATTCTACGTGG
1 TCCTTCGGGACAAA-TCTACGTGG
*
2707870 TCCTTCGGGACAAATCTATGTGG
1 TCCTTCGGGACAAATCTACGTGG
2707893 -CACTTCGG
1 TC-CTTCGG
2707901 TGCAAATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.02
23 24 0.52
24 21 0.46
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (23 bp):
TCCTTCGGGACAAATCTACGTGG
Found at i:2710295 original size:13 final size:13
Alignment explanation
Indices: 2710277--2710320 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
2710267 GTCATAAATC
*
2710277 TATGACGCGCATT
1 TATGACGCACATT
*
2710290 TATGACACACATT
1 TATGACGCACATT
*
2710303 TATGACGCTCATT
1 TATGACGCACATT
*
2710316 AATGA
1 TATGA
2710321 TGTTCATTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:2716846 original size:28 final size:28
Alignment explanation
Indices: 2716814--2716874 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
2716804 GGAAAAATAA
2716814 ATTTCTCATATAAGGCATCCACCATATT
1 ATTTCTCATATAAGGCATCCACCATATT
*
2716842 ATTTCTCATATAAGGCATCCATCATATT
1 ATTTCTCATATAAGGCATCCACCATATT
2716870 ATTTC
1 ATTTC
2716875 CTAAAGTAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (28 bp):
ATTTCTCATATAAGGCATCCACCATATT
Found at i:2716961 original size:39 final size:39
Alignment explanation
Indices: 2716899--2717005 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
2716889 CTTATTGGTT
* * * *
2716899 TGAAGACGCCGTGCACTCCTGGGGTATTCTCCATTTTCC
1 TGAAGACGCCATGCAATCGTGGGGTATTCTCCATTTGCC
* * * *
2716938 TGAAGATGCCATGCAGTCGTGGGGTCTTCTTCATTTGCC
1 TGAAGACGCCATGCAATCGTGGGGTATTCTCCATTTGCC
* *
2716977 TGAAGACGCCATGCAATCGTCGAGTATTC
1 TGAAGACGCCATGCAATCGTGGGGTATTC
2717006 ATATTTAACT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (39 bp):
TGAAGACGCCATGCAATCGTGGGGTATTCTCCATTTGCC
Found at i:2719997 original size:16 final size:17
Alignment explanation
Indices: 2719967--2719999 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2719957 TTCAGTATCT
*
2719967 ATTTTTGTACACTTTAC
1 ATTTTAGTACACTTTAC
2719984 ATTTTAGTAC-CTTTAC
1 ATTTTAGTACACTTTAC
2720000 TTTACACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (17 bp):
ATTTTAGTACACTTTAC
Found at i:2722453 original size:23 final size:23
Alignment explanation
Indices: 2722423--2722499 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
2722413 TCGAGGGTTC
*
2722423 TATGTGGTTCTTCGGGACAAATT
1 TATGTGGTTCTTCAGGACAAATT
* *
2722446 TATGTGGTACTTCAAGACAAATT
1 TATGTGGTTCTTCAGGACAAATT
* *
2722469 TATGTGGTTATTCAGGACAAATC
1 TATGTGGTTCTTCAGGACAAATT
2722492 TATGTGGT
1 TATGTGGT
2722500 CCGCCGGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (23 bp):
TATGTGGTTCTTCAGGACAAATT
Found at i:2722511 original size:46 final size:47
Alignment explanation
Indices: 2722420--2722520 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 47
2722410 GAGTCGAGGG
* * * **
2722420 TTCTATGTGGTTCTTCGGGACAAATTTATGTGGTACTTCAAGACAAA
1 TTCTATGTGGTTATTCAGGACAAATCTATGTGGTACGCCAAGACAAA
* **
2722467 TT-TATGTGGTTATTCAGGACAAATCTATGTGGTCCGCCGGGACAAA
1 TTCTATGTGGTTATTCAGGACAAATCTATGTGGTACGCCAAGACAAA
2722513 TTCTATGT
1 TTCTATGT
2722521 AGCACTTCGG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
46 38 0.84
47 7 0.16
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (47 bp):
TTCTATGTGGTTATTCAGGACAAATCTATGTGGTACGCCAAGACAAA
Found at i:2722725 original size:23 final size:23
Alignment explanation
Indices: 2722672--2722726 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
2722662 CCTTCTTTTA
*
2722672 ATGAAATATAAATTTAATTCATT
1 ATGAAATGTAAATTTAATTCATT
2722695 ATGAAATGTAAATTTAATTC-TAT
1 ATGAAATGTAAATTTAATTCAT-T
2722718 ATGAAATGT
1 ATGAAATGT
2722727 TTTCTACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 1 0.03
23 29 0.97
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (23 bp):
ATGAAATGTAAATTTAATTCATT
Found at i:2726247 original size:17 final size:16
Alignment explanation
Indices: 2726216--2726249 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2726206 CACGTGAGGA
2726216 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
2726232 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
2726249 T
1 T
2726250 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:2729622 original size:29 final size:29
Alignment explanation
Indices: 2729562--2729623 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
2729552 AAATGTGAGG
*
2729562 ATTTAAAATTTAAGGGATAAATTTGATCA
1 ATTTAAAATTTAAGGGATAAATTTGATAA
*
2729591 ATTTAAAATTTCAA-GGACTAATTTTG-TAA
1 ATTTAAAATTT-AAGGGA-TAAATTTGATAA
2729620 ATTT
1 ATTT
2729624 GTGTTTAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (29 bp):
ATTTAAAATTTAAGGGATAAATTTGATAA
Found at i:2730343 original size:21 final size:21
Alignment explanation
Indices: 2730314--2730384 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
2730304 GGATAAACAA
*
2730314 TATCGATACTGATTGAAGAAG
1 TATCAATACTGATTGAAGAAG
*
2730335 TATCAATACTGATTGAAAAAG
1 TATCAATACTGATTGAAGAAG
** *
2730356 TATTGATACTGATGTG--GAGG
1 TATCAATACTGAT-TGAAGAAG
2730376 TATCAATAC
1 TATCAATAC
2730385 CAAGAGGAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 9 0.22
21 30 0.73
22 2 0.05
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (21 bp):
TATCAATACTGATTGAAGAAG
Found at i:2736381 original size:81 final size:81
Alignment explanation
Indices: 2736263--2737197 Score: 1278
Period size: 81 Copynumber: 11.5 Consensus size: 81
2736253 CTTGCATTAA
** *
2736263 TGACACCTTTCTGTCAAATGCACAGTTAGGCATTTAATCTTTTACTCAAAGGTATTCAACCTTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2736328 ATCTAGCTGGCATGAT
66 ATCTAACTGGCATGAT
** * * *
2736344 TGACACCTTTCTGTCAAATGCACCTCTAAGCATTTAATCTTTTACTCAAAGGTAATCAACCTTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2736409 ATCTAGCTGGCATGAT
66 ATCTAACTGGCATGAT
* * * * * * *
2736425 TGACAACTTTCTGTCAAATTCACAGCTAGGCATTTAAACATTTACTTAATGGTATTTAACCTTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
2736490 ATCTAACTGGCATGAT
66 ATCTAACTGGCATGAT
* * * * * *
2736506 T-AAAACTATTCTGCCAAATACACAGCTAGGCATTTAATCTTTTACTCAATGGTATTTAACCTTT
1 TGACACCT-TTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTT
**
2736570 CATCTAACTATCATGAT
65 CATCTAACTGGCATGAT
* * * * *
2736587 TAAAACCTTTCTATTAAATGCACAACTAGGCATTTAATCTTTTACCCAAAGGTATTTAACCTTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2736652 ATCTAACTAGCATGAT
66 ATCTAACTGGCATGAT
* * * *
2736668 TGACACCTTTCTGTCAAATGCACAGCTAGGCACTTAATCTTTTACTCTAAGGTATTTAACCATTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2736733 ATCTAACTGGAATGAT
66 ATCTAACTGGCATGAT
* *
2736749 TGACACCTTTCTGTCAAATGCCCAACTAGGAATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
**
2736814 ATCTAACTCCCATGAT
66 ATCTAACTGGCATGAT
* * *
2736830 TGACACATTTCTGTCAAATGCACAGCTAGACATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2736895 ATCTAACTGGCATGAA
66 ATCTAACTGGCATGAT
* * * *
2736911 TGACACCTTTCTGTCTAATTCACATCTAGGCATTTAACCTTTTACTCAAAGGTATTTAACCTTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
2736976 ATCTAACTGGCATGAT
66 ATCTAACTGGCATGAT
* ** * * *
2736992 TGACACATTTCTGTCAAATGCACAGTTAGGCATTTATTGTTTTACTCAAAGGTATTTAACATTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
2737057 ATCTAACTGGCATGAT
66 ATCTAACTGGCATGAT
** * ** * * * *
2737073 TGACATATTTCTGTTAAAAACACAAATAGGCATTTAATCATTCACTCAAAGGTATTTATCCTTTC
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2737138 ATCAAACTGGCATGAT
66 ATCTAACTGGCATGAT
2737154 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTA
1 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTA
2737198 TTTTAAAACA
Statistics
Matches: 753, Mismatches: 99, Indels: 4
0.88 0.12 0.00
Matches are distributed among these distances:
80 5 0.01
81 743 0.99
82 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
TGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
ATCTAACTGGCATGAT
Found at i:2737729 original size:94 final size:95
Alignment explanation
Indices: 2737548--2737746 Score: 224
Period size: 94 Copynumber: 2.1 Consensus size: 95
2737538 AGTACCATGA
* * * * *
2737548 TATCGAGACTTCTATAATGTGGTATCGATACTCCCTTTCAATATCGATACCATTTCTACATTCTG
1 TATCGATACTTCTATAATATGGTACCGATACTCCATTACAATATCGATACCATTTCTACATTCTG
*** * *
2737613 GATCCTTGGTATCGATACCTTT-CTCTTAG
66 GATCAACGGTATCAATACCTTTCCTCATAG
* * * * *
2737642 TA-CTGATACTTCTATATTATGGTACCGATACTCTATTACAATATCGATACCATTTTTGCATTTT
1 TATC-GATACTTCTATAATATGGTACCGATACTCCATTACAATATCGATACCATTTCTACATTCT
2737706 GGAATCAACGGTATCAATA-CTTTCCTCATAG
65 GG-ATCAACGGTATCAATACCTTTCCTCATAG
2737737 TATCGATACT
1 TATCGATACT
2737747 GCTCAGCTGA
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
93 1 0.01
94 58 0.67
95 26 0.30
96 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (95 bp):
TATCGATACTTCTATAATATGGTACCGATACTCCATTACAATATCGATACCATTTCTACATTCTG
GATCAACGGTATCAATACCTTTCCTCATAG
Found at i:2742187 original size:81 final size:81
Alignment explanation
Indices: 2742065--2742989 Score: 1249
Period size: 81 Copynumber: 11.5 Consensus size: 81
2742055 CTTACATTAA
* * * *
2742065 TGACACATTT-TTTCACATGCACTATTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2742129 ATCTAACTAGCATAAT
66 ATCTAACTAGCATGAT
* * * *
2742145 TGACACCTTTTTGTCAAAAGCACAGCTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2742210 ATCTAACTGGCATGAT
66 ATCTAACTAGCATGAT
* * *
2742226 TGACACATTTCTGTCAAATGCACAGCTAAGCATTTAATCTTTCACTCAAAGGTATTTAACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2742291 ATCTAACTGGCATGAT
66 ATCTAACTAGCATGAT
* * * **
2742307 TGACACATTTCTATCAAATGTACAGCTTTGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2742372 ATCTAACTGGCATGAT
66 ATCTAACTAGCATGAT
* * * * ** * * *
2742388 TAAAACATTTCTGTCAAATGCACAAATAGACACATAATCTTTTACTCAAAGGCATTTAACATTTA
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2742453 ATCTAACTTGCATGAT
66 ATCTAACTAGCATGAT
*
2742469 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATATTTTACTC-AAGGTATTTAACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2742533 ATCTAACTGGCATGAT
66 ATCTAACTAGCATGAT
* * * * *
2742549 TGAAACATTTCTATAAAATGCACAACTAGGCATTTAATCTTTTACTCAAATGTATTTAACGTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* *
2742614 ATCTAGCTAGTATGAT
66 ATCTAACTAGCATGAT
* * * *
2742630 TGACACCTTTCTGTCAAATGCACAACTAGACATTTAATCTTTTATTC-AAGGTATTTAACCTTTT
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
2742694 ATCTAACTAGCATGAT
66 ATCTAACTAGCATGAT
* * * *
2742710 TGGCACATTTCTGTCAAATGCACAACTAGACATTTAATCTTTTACTCAAAGGTTTTTTACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* *
2742775 ATCTAACTAGAAAGAT
66 ATCTAACTAGCATGAT
* *
2742791 TGACACCTTTCTGTCAAATGCACAACTAGACATTTAATCTTTTACTCAAAGG----T-A--TTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
*
2742849 ATCTAACTAGAATGAT
66 ATCTAACTAGCATGAT
* * *
2742865 TGACACCTTTCTGTCAAATGCACAACTAGGTATTTAATCTTTTACTCAAAGGTATTTATCCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* *
2742930 ATCAAACTGGCATGAT
66 ATCTAACTAGCATGAT
* *
2742946 TGACACCTTTCTGTCAAATGCACAACTAGGCATTTATTCTTTTA
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTA
2742990 TTTTAAAACA
Statistics
Matches: 751, Mismatches: 84, Indels: 19
0.88 0.10 0.02
Matches are distributed among these distances:
74 69 0.09
76 1 0.00
77 1 0.00
78 1 0.00
80 153 0.20
81 526 0.70
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (81 bp):
TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
ATCTAACTAGCATGAT
Found at i:2742597 original size:161 final size:162
Alignment explanation
Indices: 2742065--2742989 Score: 1276
Period size: 161 Copynumber: 5.8 Consensus size: 162
2742055 CTTACATTAA
* * * *
2742065 TGACACATTT-TTTCACATGCACTATTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* * * *
2742129 ATCTAACTAGCATAATTGACACCTTTTTGTCAAAAGCACAGCTAGGCATTTAATCTTTTACTCAA
66 ATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAA
2742194 AGGTATTTAACCTTTCATCTAACTGGCATGAT
131 AGGTATTTAACCTTTCATCTAACTGGCATGAT
* * *
2742226 TGACACATTTCTGTCAAATGCACAGCTAAGCATTTAATCTTTCACTCAAAGGTATTTAACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* * * * * **
2742291 ATCTAACTGGCATGATTGACACATTTCTATCAAATGTACAGCTTTGCATTTAATCTTTTACTCAA
66 ATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAA
2742356 AGGTATTTAACCTTTCATCTAACTGGCATGAT
131 AGGTATTTAACCTTTCATCTAACTGGCATGAT
* * * * ** * * *
2742388 TAAAACATTTCTGTCAAATGCACAAATAGACACATAATCTTTTACTCAAAGGCATTTAACATTTA
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* * *
2742453 ATCTAACTTGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAATATTTTACTC-A
66 ATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAA
2742517 AGGTATTTAACCTTTCATCTAACTGGCATGAT
131 AGGTATTTAACCTTTCATCTAACTGGCATGAT
* * * * *
2742549 TGAAACATTTCTATAAAATGCACAACTAGGCATTTAATCTTTTACTCAAATGTATTTAACGTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* * * *
2742614 ATCTAGCTAGTATGATTGACACCTTTCTGTCAAATGCACAACTAGACATTTAATCTTTTATTC-A
66 ATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAA
* *
2742678 AGGTATTTAACCTTTTATCTAACTAGCATGAT
131 AGGTATTTAACCTTTCATCTAACTGGCATGAT
* * * *
2742710 TGGCACATTTCTGTCAAATGCACAACTAGACATTTAATCTTTTACTCAAAGGTTTTTTACCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* * *
2742775 ATCTAACTAGAAAGATTGACACCTTTCTGTCAAATGCACAACTAGACATTTAATCTTTTACTCAA
66 ATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAA
* *
2742840 AGG----T-A--TTTCATCTAACTAGAATGAT
131 AGGTATTTAACCTTTCATCTAACTGGCATGAT
* * *
2742865 TGACACCTTTCTGTCAAATGCACAACTAGGTATTTAATCTTTTACTCAAAGGTATTTATCCTTTC
1 TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
* * *
2742930 ATCAAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTATTCTTTTA
66 ATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTA
2742990 TTTTAAAACA
Statistics
Matches: 679, Mismatches: 83, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
155 130 0.19
157 1 0.00
158 1 0.00
161 299 0.44
162 248 0.37
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (162 bp):
TGACACATTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTC
ATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTAATCTTTTACTCAA
AGGTATTTAACCTTTCATCTAACTGGCATGAT
Found at i:2743577 original size:94 final size:93
Alignment explanation
Indices: 2743409--2743604 Score: 218
Period size: 94 Copynumber: 2.1 Consensus size: 93
2743399 CCTACCATGA
* * * * * *
2743409 TATCGATACTTTATAATGTGGTATCGATACTCCCTTTCATTATCGATACCATTTCTACATTATGG
1 TATCGATACTTTATAATATGGTACCGATACTCCATTACAGTATCGATACCATTTCTACATTATGA
*
2743474 ATCCTTGGTATCGATACCTTT-CTCT-TAG
66 ATCCATGGTATCGATA-CTTTCCT-TATAG
* * * * *
2743502 TATCGATACTTCTATACTATGGTACCGATACTCTATTACAGTATCGATATCATTT-TGCATTCTA
1 TATCGATACTT-TATAATATGGTACCGATACTCCATTACAGTATCGATACCATTTCTACATTAT-
*
2743566 GAATCGATGGTATCGATACTTTCCTTATAG
64 GAATCCATGGTATCGATACTTTCCTTATAG
2743596 TATCGATAC
1 TATCGATAC
2743605 CCACCTCAGT
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
93 22 0.26
94 64 0.74
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.40
Consensus pattern (93 bp):
TATCGATACTTTATAATATGGTACCGATACTCCATTACAGTATCGATACCATTTCTACATTATGA
ATCCATGGTATCGATACTTTCCTTATAG
Found at i:2747742 original size:36 final size:36
Alignment explanation
Indices: 2747702--2747786 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 36
2747692 TGCACTTTCC
* * * * *
2747702 TAAATCTCATAAAGGAAGGGATTGTGTCTACAAAGT
1 TAAATCCCACAAAGCAAGGGATTATGTCTACAAAAT
*
2747738 TAAATCCCACAAATCAAGGGATTATGTCTACAAAAT
1 TAAATCCCACAAAGCAAGGGATTATGTCTACAAAAT
*
2747774 TAAATCCTACAAA
1 TAAATCCCACAAA
2747787 TTAAGAGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (36 bp):
TAAATCCCACAAAGCAAGGGATTATGTCTACAAAAT
Found at i:2747787 original size:36 final size:36
Alignment explanation
Indices: 2747717--2747799 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
2747707 CTCATAAAGG
* *
2747717 AAGGGATTGTGTCTACAAAGTTAAATCCCACAAATC
1 AAGGGATTATGTCTACAAAATTAAATCCCACAAATC
* *
2747753 AAGGGATTATGTCTACAAAATTAAATCCTACAAATT
1 AAGGGATTATGTCTACAAAATTAAATCCCACAAATC
*
2747789 AAGAGATTATG
1 AAGGGATTATG
2747800 ATTATAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (36 bp):
AAGGGATTATGTCTACAAAATTAAATCCCACAAATC
Found at i:2748105 original size:36 final size:36
Alignment explanation
Indices: 2748010--2748107 Score: 124
Period size: 36 Copynumber: 2.7 Consensus size: 36
2748000 AATTTATAAT
*
2748010 CACAATCCCTTGATTTGTGGGATTTAATTTTGTAGA
1 CACAATCCCTTGATTTGTGGGATTTAACTTTGTAGA
* * *
2748046 CATAATTCCTTGATTTGTTGGATTTAACTTTGTAGA
1 CACAATCCCTTGATTTGTGGGATTTAACTTTGTAGA
* * * *
2748082 GACGATCCCTTTATTTATGGGATTTA
1 CACAATCCCTTGATTTGTGGGATTTA
2748108 GGAAAGTGTA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.44
Consensus pattern (36 bp):
CACAATCCCTTGATTTGTGGGATTTAACTTTGTAGA
Found at i:2753002 original size:36 final size:36
Alignment explanation
Indices: 2752961--2753056 Score: 138
Period size: 36 Copynumber: 2.7 Consensus size: 36
2752951 TTTATAATCT
* * *
2752961 CAATCCCTTGATTTGTGGGATTTAATTTTGTAGACA
1 CAATCCCTTGATTTATGGGATTTAACTTTGAAGACA
*
2752997 TAATCCCTTGATTTATGGGATTTAACTTTGAAGACA
1 CAATCCCTTGATTTATGGGATTTAACTTTGAAGACA
**
2753033 CAATCATTTGATTTATGGGATTTA
1 CAATCCCTTGATTTATGGGATTTA
2753057 GGAAAGCGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (36 bp):
CAATCCCTTGATTTATGGGATTTAACTTTGAAGACA
Found at i:2753712 original size:36 final size:36
Alignment explanation
Indices: 2753672--2753766 Score: 145
Period size: 36 Copynumber: 2.6 Consensus size: 36
2753662 TTATAATCAC
* * *
2753672 AATCCCTTGGTTTGTGAGATTTAATTTTGTAAACAT
1 AATCCCTTGATTTGTGGGATTTAACTTTGTAAACAT
*
2753708 AATCCCTTGATTTGTGGGATTTAACTTTGTAGACAT
1 AATCCCTTGATTTGTGGGATTTAACTTTGTAAACAT
*
2753744 AATCCCTTGATTTATGGGATTTA
1 AATCCCTTGATTTGTGGGATTTA
2753767 GAAAAGTGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (36 bp):
AATCCCTTGATTTGTGGGATTTAACTTTGTAAACAT
Found at i:2760105 original size:14 final size:14
Alignment explanation
Indices: 2760086--2760124 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
2760076 TTCTTTATTC
2760086 AAGTTATGTTTCTA
1 AAGTTATGTTTCTA
2760100 AAGTTATGTTTCTA
1 AAGTTATGTTTCTA
*
2760114 AAGCTATGTTT
1 AAGTTATGTTT
2760125 TGATTGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (14 bp):
AAGTTATGTTTCTA
Found at i:2760360 original size:23 final size:23
Alignment explanation
Indices: 2760330--2760419 Score: 135
Period size: 23 Copynumber: 3.9 Consensus size: 23
2760320 TCGAGGGTTG
*
2760330 TATGTGGTCCTTCGGAACAAACC
1 TATGTGGTCCTTCGGGACAAACC
*
2760353 TATGTGGTTCTTCGGGACAAACC
1 TATGTGGTCCTTCGGGACAAACC
2760376 TATGTGGTCCTTCGGGACAAACC
1 TATGTGGTCCTTCGGGACAAACC
* * *
2760399 TATCTAGTCCTTCAGGACAAA
1 TATGTGGTCCTTCGGGACAAA
2760420 TATATGACAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGACAAACC
Found at i:2765042 original size:44 final size:44
Alignment explanation
Indices: 2764993--2765220 Score: 280
Period size: 44 Copynumber: 5.4 Consensus size: 44
2764983 TTACTCTAAA
* * * *
2764993 ATAAATGAAAATACATAACTGTGCATTATTGGCAGAAATATGCT
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
* * *
2765037 ATAAATGAAAATGCGTAACGGTACATTATTGACAGAATATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAA-ATGTGCC
2765082 ATAAATG---A---A-AA--GTG--TTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
*
2765115 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
* *
2765159 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGAC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
2765203 ATAAATGAAAATGCATAA
1 ATAAATGAAAATGCATAA
2765221 TTGTACATTA
Statistics
Matches: 160, Mismatches: 12, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
33 14 0.09
34 11 0.07
36 3 0.02
38 2 0.01
39 1 0.01
40 2 0.01
42 4 0.03
44 111 0.69
45 12 0.08
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
Found at i:2765117 original size:33 final size:34
Alignment explanation
Indices: 2765062--2765125 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 34
2765052 TAACGGTACA
2765062 TTATTGACAGAATATGTGCCATAAATGAAAAGTG
1 TTATTGACAGAATATGTGCCATAAATGAAAAGTG
*
2765096 TTATTGGCAGAA-ATGTGCCATAAATGAAAA
1 TTATTGACAGAATATGTGCCATAAATGAAAA
2765126 TGCATAACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (34 bp):
TTATTGACAGAATATGTGCCATAAATGAAAAGTG
Found at i:2765151 original size:78 final size:77
Alignment explanation
Indices: 2765018--2765169 Score: 241
Period size: 78 Copynumber: 2.0 Consensus size: 77
2765008 TAACTGTGCA
* * *
2765018 TTATTGGCAGAAATATGCTATAAATGAAAATGCGTAACGGTACATTATTGACAGAATATGTGCCA
1 TTATTGGCAGAAATATGCCATAAATGAAAATGCATAACGGTACATTATTGACAGAA-AGGTGCCA
2765083 TAAATGAAAAGTG
65 TAAATGAAAAGTG
* * *
2765096 TTATTGGCAGAAATGTGCCATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCAT
1 TTATTGGCAGAAATATGCCATAAATGAAAATGCATAACGGTACATTATTGACAGAAAGGTGCCAT
2765161 AAATGAAAA
66 AAATGAAAA
2765170 TGCATAACGG
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 17 0.25
78 51 0.75
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (77 bp):
TTATTGGCAGAAATATGCCATAAATGAAAATGCATAACGGTACATTATTGACAGAAAGGTGCCAT
AAATGAAAAGTG
Found at i:2765230 original size:44 final size:44
Alignment explanation
Indices: 2765096--2765245 Score: 237
Period size: 44 Copynumber: 3.4 Consensus size: 44
2765086 ATGAAAAGTG
*
2765096 TTATTGGCAGAAATGTGCCATAAATGAAAATGCATAACGGTGCA
1 TTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCA
2765140 TTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCA
1 TTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCA
* ** *
2765184 TTATTGGCAGAAAGGTGACATAAATGAAAATGCATAATTGTACA
1 TTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCA
* *
2765228 TTAGTGGCAAAAAGGTGC
1 TTATTGGCAGAAAGGTGC
2765246 AACTCATGAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 98 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (44 bp):
TTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCA
Found at i:2770723 original size:44 final size:44
Alignment explanation
Indices: 2770660--2770745 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
2770650 CTGCTGTAAA
* * * *
2770660 ATAAATTAAAATGCATAACGGTGCTTTATTAGCAGAAAGGTGAC
1 ATAAATGAAAATGCATAACGGTACATTATTAGCAAAAAGGTGAC
*
2770704 ATAAATGAAAATGCATAACGGTACATTATTGGCAAAAAGGTG
1 ATAAATGAAAATGCATAACGGTACATTATTAGCAAAAAGGTG
2770746 CCACTCATGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTACATTATTAGCAAAAAGGTGAC
Found at i:2774931 original size:23 final size:23
Alignment explanation
Indices: 2774894--2774945 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2774884 AAGGTTTCTT
*
2774894 TGTGGTTCTTTGGGATAAACCTA
1 TGTGGTTCTTTGGGACAAACCTA
2774917 TGTGGTT-TTTCGGGACAAACCTA
1 TGTGGTTCTTT-GGGACAAACCTA
2774940 TGTGGT
1 TGTGGT
2774946 CCTTCAGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.38
Consensus pattern (23 bp):
TGTGGTTCTTTGGGACAAACCTA
Found at i:2774957 original size:23 final size:23
Alignment explanation
Indices: 2774910--2774958 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2774900 TCTTTGGGAT
** * *
2774910 AAACCTATGTGGTTTTTCGGGAC
1 AAACCTATGTGGTCCTTCAGAAC
2774933 AAACCTATGTGGTCCTTCAGAAC
1 AAACCTATGTGGTCCTTCAGAAC
2774956 AAA
1 AAA
2774959 TATATGGCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (23 bp):
AAACCTATGTGGTCCTTCAGAAC
Found at i:2778472 original size:24 final size:24
Alignment explanation
Indices: 2778425--2778472 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2778415 CACGTAGAAA
* * *
2778425 TGTCCCTAAGGACCACGTATAATT
1 TGTCCCTAAAGACCACATAAAATT
2778449 TGTCCCTAAAGACCACATAAAATT
1 TGTCCCTAAAGACCACATAAAATT
2778473 ATCCCAAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (24 bp):
TGTCCCTAAAGACCACATAAAATT
Found at i:2778492 original size:20 final size:20
Alignment explanation
Indices: 2778463--2778504 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2778453 CCTAAAGACC
2778463 ACATAAAATTATCCCAAAGG
1 ACATAAAATTATCCCAAAGG
* * *
2778483 ACATAGAATTGTCCGAAAGG
1 ACATAAAATTATCCCAAAGG
2778503 AC
1 AC
2778505 TACATAGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (20 bp):
ACATAAAATTATCCCAAAGG
Found at i:2778778 original size:16 final size:16
Alignment explanation
Indices: 2778757--2778787 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2778747 TAAAATAAAT
2778757 GAACATAAACGAACAC
1 GAACATAAACGAACAC
2778773 GAACATAAACGAACA
1 GAACATAAACGAACA
2778788 AAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:2778909 original size:16 final size:16
Alignment explanation
Indices: 2778846--2778902 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
2778836 TTAATAAATA
2778846 AAACGAACACGAACAT
1 AAACGAACACGAACAT
2778862 AAACGAACACGAACAT
1 AAACGAACACGAACAT
* *
2778878 AAATGAACATGAACAT
1 AAACGAACACGAACAT
2778894 AAACGAACA
1 AAACGAACA
2778903 TAAACATTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
AAACGAACACGAACAT
Found at i:2786364 original size:23 final size:24
Alignment explanation
Indices: 2786338--2786410 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
2786328 CATCAAAGTG
*
2786338 CCACATAGAA-ATGTCCCGATGGA
1 CCACATAGAATATGTCCCGAAGGA
* * *
2786361 CCACGTAGAATTTTTCCCGAAGGA
1 CCACATAGAATATGTCCCGAAGGA
*
2786385 CCACATAGAATTTGTCCCTG-AGGA
1 CCACATAGAATATGTCCC-GAAGGA
2786409 CC
1 CC
2786411 GCGTAGAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 9 0.21
24 32 0.76
25 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (24 bp):
CCACATAGAATATGTCCCGAAGGA
Found at i:2786385 original size:24 final size:24
Alignment explanation
Indices: 2786349--2786418 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
2786339 CACATAGAAA
*
2786349 TGTCCCGATGGACCACGTAGAATT
1 TGTCCCGAAGGACCACGTAGAATT
* *
2786373 TTTCCCGAAGGACCACATAGAATT
1 TGTCCCGAAGGACCACGTAGAATT
*
2786397 TGTCCCTG-AGGACCGCGTAGAA
1 TGTCCC-GAAGGACCACGTAGAA
2786419 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 38 0.97
25 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (24 bp):
TGTCCCGAAGGACCACGTAGAATT
Found at i:2787072 original size:15 final size:15
Alignment explanation
Indices: 2787052--2787090 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
2787042 CTTGTCCATT
2787052 AGTATCGATACTCTC
1 AGTATCGATACTCTC
2787067 AGTATCGATACTCTC
1 AGTATCGATACTCTC
*
2787082 AATATCGAT
1 AGTATCGAT
2787091 GCTACTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (15 bp):
AGTATCGATACTCTC
Found at i:2788686 original size:19 final size:20
Alignment explanation
Indices: 2788655--2788692 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2788645 ATTTGAATTA
*
2788655 TTTTATGTTAAATTTTATTG
1 TTTTATGTTAAATTGTATTG
2788675 TTTTAT-TTAAATTGTATT
1 TTTTATGTTAAATTGTATT
2788693 TCATAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (20 bp):
TTTTATGTTAAATTGTATTG
Found at i:2788948 original size:24 final size:24
Alignment explanation
Indices: 2788904--2788969 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
2788894 CTACGCGATC
*
2788904 CTTCGG-GACAAA-TCTATGTGGCA
1 CTTCGGTG-CAAATTCTACGTGGCA
* * *
2788927 CTTTGGTTCATATTCTACGTGGCA
1 CTTCGGTGCAAATTCTACGTGGCA
2788951 CTTCGGTGCAAATTCTACG
1 CTTCGGTGCAAATTCTACG
2788970 CGACAGTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 8 0.24
24 26 0.76
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (24 bp):
CTTCGGTGCAAATTCTACGTGGCA
Found at i:2790252 original size:31 final size:31
Alignment explanation
Indices: 2790204--2790276 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
2790194 TTTAATAAAT
*
2790204 TGAGTAGATTTGCAGCTTAAATGATGCCGAC
1 TGAGAAGATTTGCAGCTTAAATGATGCCGAC
* *
2790235 TGAGAAGATTTGTAGCTTAAATGGTGCCGAC
1 TGAGAAGATTTGCAGCTTAAATGATGCCGAC
2790266 TGAGAAAGATT
1 TGAG-AAGATT
2790277 CATGTGATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 32 0.84
32 6 0.16
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (31 bp):
TGAGAAGATTTGCAGCTTAAATGATGCCGAC
Found at i:2794532 original size:18 final size:19
Alignment explanation
Indices: 2794487--2794533 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2794477 ATTTTTAAAG
* *
2794487 TTGGTTGTTTCTTGAATTT
1 TTGGTTGGTTCTTGAATCT
2794506 TTGGGTTGGTT-TTGAATCT
1 TT-GGTTGGTTCTTGAATCT
2794525 TTGGTTGGT
1 TTGGTTGGT
2794534 ATAAAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.28
19 11 0.44
20 7 0.28
ACGTcount: A:0.09, C:0.04, G:0.30, T:0.57
Consensus pattern (19 bp):
TTGGTTGGTTCTTGAATCT
Found at i:2795470 original size:19 final size:20
Alignment explanation
Indices: 2795439--2795476 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2795429 ATTTGAATTA
*
2795439 TTTTATGTTAAATTTTATTG
1 TTTTATGTTAAATTGTATTG
2795459 TTTTAT-TTAAATTGTATT
1 TTTTATGTTAAATTGTATT
2795477 TCATAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (20 bp):
TTTTATGTTAAATTGTATTG
Found at i:2803866 original size:14 final size:14
Alignment explanation
Indices: 2803831--2803866 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2803821 GTTTTCTCAC
*
2803831 ATATATACACAAAT
1 ATATATATACAAAT
*
2803845 ATATATATACAATT
1 ATATATATACAAAT
2803859 ATATATAT
1 ATATATAT
2803867 TGAGTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATATATACAAAT
Found at i:2806117 original size:20 final size:20
Alignment explanation
Indices: 2806075--2806126 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2806065 CCAATCTCTT
*
2806075 GTATGGATACCAGCCCTTCG
1 GTATGGATACCAGCCCCTCG
*
2806095 GTATGGATACTAGCCCACT-G
1 GTATGGATACCAGCCC-CTCG
*
2806115 GTATCGATACCA
1 GTATGGATACCA
2806127 AGCTTCTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (20 bp):
GTATGGATACCAGCCCCTCG
Found at i:2806138 original size:20 final size:20
Alignment explanation
Indices: 2806115--2806165 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
2806105 TAGCCCACTG
*
2806115 GTATCGATAC-CAAGCTTCTA
1 GTATCGATACACAACCTT-TA
*
2806135 GTATTGATACTACAACCTTTA
1 GTATCGATAC-ACAACCTTTA
2806156 GTATCGATAC
1 GTATCGATAC
2806166 TAAAGGACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 9 0.35
21 11 0.42
22 6 0.23
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (20 bp):
GTATCGATACACAACCTTTA
Found at i:2806936 original size:12 final size:12
Alignment explanation
Indices: 2806915--2806948 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2806905 TTGAGTGGAG
*
2806915 AGAAAGAGAAGA
1 AGAAAAAGAAGA
2806927 AGAAAAAGAAGA
1 AGAAAAAGAAGA
*
2806939 AGAAGAAGAA
1 AGAAAAAGAA
2806949 AGAGATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAGA
Found at i:2809662 original size:18 final size:18
Alignment explanation
Indices: 2809639--2809678 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
2809629 GAAGAAGAAT
*
2809639 AAGGAAAAAGATTTGAAA
1 AAGGAAAAAGATTCGAAA
2809657 AAGGAAAAAGATTCGAAA
1 AAGGAAAAAGATTCGAAA
2809675 AAGG
1 AAGG
2809679 TGGTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.03, G:0.25, T:0.12
Consensus pattern (18 bp):
AAGGAAAAAGATTCGAAA
Found at i:2810553 original size:32 final size:32
Alignment explanation
Indices: 2810517--2810578 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
2810507 AACGTTCTTG
* *
2810517 TGCATTATCTGAATGAAATATTAACTCTGTTA
1 TGCATTATCTAAATGAAATACTAACTCTGTTA
*
2810549 TGCATTATCTAAATGCAATACTAACTCTGT
1 TGCATTATCTAAATGAAATACTAACTCTGT
2810579 CGTGCCTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (32 bp):
TGCATTATCTAAATGAAATACTAACTCTGTTA
Found at i:2815295 original size:50 final size:49
Alignment explanation
Indices: 2815204--2815445 Score: 243
Period size: 49 Copynumber: 4.9 Consensus size: 49
2815194 TAACGTGTGG
* * * * * *
2815204 TTCAATCTAATCCAAAATTTTTAAACTTTCGATTTATCATAACATACGA
1 TTCAATCTCATTCAAAACTTGTAAACTTTCAATTTACCATAACATACGA
*
2815253 TTCAATCTCATTCAAAAACTTGTAAACTTTCAATTTACCATAACATGCGA
1 TTCAATCTCATTC-AAAACTTGTAAACTTTCAATTTACCATAACATACGA
* * * **
2815303 TTCAATCTCATTCAAAACTTGCAAA-ATTCTAATTTACCACAACATGTGA
1 TTCAATCTCATTCAAAACTTGTAAACTTTC-AATTTACCATAACATACGA
** *** * *
2815352 TTCAGGCTCATTCATACAAACTTGTAAACTTTTGGTTTGCCATAACATAGGA
1 TTCAATCTCATTC--A-AAACTTGTAAACTTTCAATTTACCATAACATACGA
* *
2815404 TTCAATCTCATTCAAAACTTATAAACTTTTAATTTACCATAA
1 TTCAATCTCATTCAAAACTTGTAAACTTTCAATTTACCATAA
2815446 TATGTAAACG
Statistics
Matches: 159, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
48 3 0.02
49 74 0.47
50 45 0.28
51 1 0.01
52 34 0.21
53 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (49 bp):
TTCAATCTCATTCAAAACTTGTAAACTTTCAATTTACCATAACATACGA
Found at i:2815409 original size:101 final size:99
Alignment explanation
Indices: 2815259--2815442 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 99
2815249 ACGATTCAAT
*
2815259 CTCATTCAAAAACTTGTAAACTTTCAATTTACCATAACATGCGATTCAATCTCATTCAAAACTTG
1 CTCATTCAAAAACTTGTAAACTTTCAATTTACCATAACATGCGATTCAATCTCATTCAAAACTTA
2815324 CAAAATTCTAATTTACCACAACATGTGATTCAGG
66 CAAAATTCTAATTTACCACAACATGTGATTCAGG
*** *
2815358 CTCATTCATACAAACTTGTAAACTTTTGGTTTGCCATAACATAG-GATTCAATCTCATTCAAAAC
1 CTCATTCA-A-AAACTTGTAAACTTTCAATTTACCATAACAT-GCGATTCAATCTCATTCAAAAC
* * *
2815422 TTATAAACTTTTAATTTACCA
63 TTACAAAATTCTAATTTACCA
2815443 TAATATGTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
99 8 0.11
100 1 0.01
101 64 0.86
102 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (99 bp):
CTCATTCAAAAACTTGTAAACTTTCAATTTACCATAACATGCGATTCAATCTCATTCAAAACTTA
CAAAATTCTAATTTACCACAACATGTGATTCAGG
Found at i:2818977 original size:27 final size:28
Alignment explanation
Indices: 2818947--2819012 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 28
2818937 GTTCATCGAT
2818947 GAAATCTTTG-AG-AAAGAAAGATCAAAG
1 GAAATC-TTGAAGAAAAGAAAGATCAAAG
2818974 GAAATC-TGAAGAAAAGAAAGATCAAAG
1 GAAATCTTGAAGAAAAGAAAGATCAAAG
2819001 GAAATC-TGAAGA
1 GAAATCTTGAAGA
2819013 TTACCCCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 33 0.89
ACGTcount: A:0.55, C:0.08, G:0.23, T:0.15
Consensus pattern (28 bp):
GAAATCTTGAAGAAAAGAAAGATCAAAG
Found at i:2820176 original size:226 final size:226
Alignment explanation
Indices: 2819779--2820387 Score: 857
Period size: 226 Copynumber: 2.7 Consensus size: 226
2819769 AATATAATCG
* * ** * *
2819779 GTTAATTACTGAAAACATTATCAACCATAATAACAT-ATAGGTAGCT-CTTATGTAACGTAATAG
1 GTTAATTACTGAAAATATTATCAACCATAATAACATAACAAATAG-TGCTTATTTAATGTAATAG
* * * * *
2819842 GTAGCGTCTTTTTAAAATTGATGGGGCCTTAAAAATCCGACAATAACAAAATCGGTTAATTACTT
65 GTAGCGTCTGTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTT
* * * *
2819907 GATTTGTTATTAATATTATCAACATATTAGGTAGCGCCTAAAATGTTATCAAAGTTTAAGCTGAT
130 GATTTGTTATCAGTATTATCAACATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAAGCTGAT
*
2819972 GGAGCCTTAGAAATCTA-ACGATAACAAAA-TAA
195 GGAGCCTTAAAAATC-ACACGATAA-AAAATTAA
* **
2820004 TTTAATTACTGAAAATATTATCAACCATAATAACATAACAAATAGTGCTTATTTAATGTAATCTG
1 GTTAATTACTGAAAATATTATCAACCATAATAACATAACAAATAGTGCTTATTTAATGTAATAGG
*** * * * *
2820069 TAGCAAATGTTTAAAGTTAATGGAGCCTTAGAAATCCTATGATAACAAAATAGGTTAATTACTTG
66 TAGCGTCTGTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTG
* * *
2820134 GTTTGTTATCAGTATTATCAACATATTAGGTAGCGTCTAAAATATTACCAAAGTTTAAGTTGATG
131 ATTTGTTATCAGTATTATCAACATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAAGCTGATG
*
2820199 GAGCCTTAAAAATCACACGATAAAAAATTAG
196 GAGCCTTAAAAATCACACGATAAAAAATTAA
* *
2820230 GTTAATTACTGAACATATTATCAACCATAATAACATAACAAATAATGCTTATTTAATGTAATAGG
1 GTTAATTACTGAAAATATTATCAACCATAATAACATAACAAATAGTGCTTATTTAATGTAATAGG
* *
2820295 CATCGTCTGTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTG
66 TAGCGTCTGTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTG
2820360 ATTTGTTATCAGTATTATCAACATATTA
131 ATTTGTTATCAGTATTATCAACATATTA
2820388 CCGTGAATAT
Statistics
Matches: 335, Mismatches: 45, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
225 40 0.12
226 295 0.88
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (226 bp):
GTTAATTACTGAAAATATTATCAACCATAATAACATAACAAATAGTGCTTATTTAATGTAATAGG
TAGCGTCTGTTTAAAGTTGATGGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTG
ATTTGTTATCAGTATTATCAACATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAAGCTGATG
GAGCCTTAAAAATCACACGATAAAAAATTAA
Found at i:2820644 original size:128 final size:128
Alignment explanation
Indices: 2820385--2820699 Score: 314
Period size: 128 Copynumber: 2.5 Consensus size: 128
2820375 TATCAACATA
* * * *
2820385 TTACCGTGAATATTGCTAATTTACCTATTACTTTAAAGTAATAGTTTTCGAAATTATAAGAATGA
1 TTACCGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGAATGA
*
2820450 ATACTTATATGACAATATAGATACTTGTACATTTACACCTATTTTCATTATACCAAGAAAAGT
66 ATACTTATATGACAATATAGATACTTGTACATTTACACCTATTATCATTATACCAAGAAAAGT
* * ***
2820513 TTACCGTGTACATTGTTAATTTACCTATAACTTTAAAGTAATAGGTTTCGAAATTCTATTTATCG
1 TTACCGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGAAT-G
* * ** * *** *
2820578 -ATACTT-TAT-ACATGTGTATCGATACTTG-ATGTTTACACCTATTATCATTATACCGATTGAC
65 AATACTTATATGACA---ATATAGATACTTGTACATTTACACCTATTATCATTATACCAAGAAAA
*
2820639 TT
127 GT
** * * * * * *
2820641 TTACAATTTTCATTGTAAATTAACATATTACTTTAAAGTAATAGGTTTCTAAATTATAA
1 TTACCGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAA
2820700 ATATAAAAAA
Statistics
Matches: 152, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
126 3 0.02
127 3 0.02
128 134 0.88
129 12 0.08
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41
Consensus pattern (128 bp):
TTACCGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGAATGA
ATACTTATATGACAATATAGATACTTGTACATTTACACCTATTATCATTATACCAAGAAAAGT
Found at i:2821024 original size:179 final size:178
Alignment explanation
Indices: 2820722--2821068 Score: 428
Period size: 179 Copynumber: 1.9 Consensus size: 178
2820712 TTATATATTT
* * * *
2820722 GTATCGATACATTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAAAAAAGTATCGATACCTATA
1 GTATCGATACATTTTGAGTGCAAATTATCTGAGAAGCACACTGGAAAAAAGTATCGATACCTATA
* * * * * ** * *
2820787 TTAAACGTATCGATACTTTATGTTTACGACTATTACCTTTAAATTGGTATATTTTTACCATTTAC
66 TTAAACGTATCGATACTTGATATATACGACTATGACCATTAAACCGGTAAACTTTTACCATTTAC
*
2820852 ATCGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCAAAATTCCGA
131 ATCGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCGA
* *
2820900 GTATCGATACATTTTGAGTTCAAATTATCTGAGATGCACACT-GAACTAAAAGTATCGATACCTA
1 GTATCGATACATTTTGAGTGCAAATTATCTGAGAAGCACACTGGAA--AAAAGTATCGATACCTA
* * * * * *
2820964 TATATAAA-GTATCGATACTTGGTATATATGCCTATGATCATTATACCGGTAAACTTTTACCCTT
64 TAT-TAAACGTATCGATACTTGATATATACGACTATGACCATTAAACCGGTAAACTTTTACCATT
* * *
2821028 TACATTGTTAATTTACCTATTACTTTATAGTAATAGGTTTC
128 TACATCGTAAATTTACCTATTACTTTAAAGTAATAGGTTTC
2821069 GGAATTAAAA
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
177 3 0.02
178 36 0.26
179 98 0.70
180 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (178 bp):
GTATCGATACATTTTGAGTGCAAATTATCTGAGAAGCACACTGGAAAAAAGTATCGATACCTATA
TTAAACGTATCGATACTTGATATATACGACTATGACCATTAAACCGGTAAACTTTTACCATTTAC
ATCGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCGA
Found at i:2821269 original size:378 final size:381
Alignment explanation
Indices: 2820593--2821432 Score: 959
Period size: 378 Copynumber: 2.2 Consensus size: 381
2820583 TTATACATGT
* ** * *
2820593 GTATCGATAC-TTGATGTTTACA-CCTATTATCATTATACCGATTGACTTTTACAATTTTCATTG
1 GTATCGATACGATG-TGTTTA-AGCCTATTATCATTATACCGATAAACTTTTACCATTTACATTG
* * * * *
2820656 TAAATTAACATATTACTTTAAAGTAATAGGTTTCTAAATTATAAATATAAAAAAATTTATATATT
64 TAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAATATAAAAAAATTTATACATG
* * *
2820721 TGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAAAAAAGTATCGATACCTAT
129 TGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAAAAAAGTACCAATACCTAT
* * * * * *** * *
2820786 ATTAAACGTATCGATACTTTATGTTTACGACTATTACCTTTAAATTGGTATATTTTTACCATTTA
194 ATAAAAAGTATCGATACGTTATATTTACGACTATTACCATTAAACAAGTAGATTTTTACCATTAA
* *
2820851 CATCGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCAAAATTCCGAG-TATCGATACATTTT
259 AATCGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCGAGATATCGATACATTTT
* * *
2820915 GAGTTCAAATTATCTGAGATGCACACT-GAACTAAAAGTATCGATACCTATAT-ATAAA
324 GAGTGCAAATTATCTGAGATGCACACTGGAA-TAAAAGTATCGATACCGATATAACAAA
* * * * *
2820972 GTATCGATAC-TTG-GTATATATGCCTATGATCATTATACCGGTAAACTTTTACCCTTTACATTG
1 GTATCGATACGATGTGT-T-TAAGCCTATTATCATTATACCGATAAACTTTTACCATTTACATTG
* * * ** * * *
2821035 TTAATTTACCTATTACTTTATAGTAATAGGTTTCGGAATTA-AAAGTAT-CGATACTTTGTACAT
64 TAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAA-TATAAAAAAATTTATACAT
* *
2821098 GTGTATCGATACTTTTTGCGTGCAAATTGTTTGAGAAACATAGTGGAATAAAAGTACCAATACCT
128 GTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAA-AAAAGTACCAATACCT
* * * *
2821163 ATA-AAAAAGTATCGATACGTTATATTTAC-ACCTGTTATCATTAAACAAGTAGATTTTTATCGT
192 ATATAAAAAGTATCGATACGTTATATTTACGA-CTATTACCATTAAACAAGTAGATTTTTACCAT
*
2821226 ATAAAAT-GTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCTGAGTATATCGATAC
256 -TAAAATCGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCGAG-ATATCGATAC
* * * * * * *
2821290 TTTTTGCGTGCAAATTGTTTGAGATGTATACTGGAATTAAAGTATCGATACCGATATAACAAA
319 ATTTTGAGTGCAAATTATCTGAGATGCACACTGGAATAAAAGTATCGATACCGATATAACAAA
* * * * *
2821353 GTATTGATACGATGTGTTTAAG-CTATTATCATTATACCGTTATACTTTTACCGTTTACATTATA
1 GTATCGATACGATGTGTTTAAGCCTATTATCATTATACCGATAAACTTTTACCATTTACATTGTA
2821417 AATTTACCTATTACTT
66 AATTTACCTATTACTT
2821433 CTACAATGCA
Statistics
Matches: 386, Mismatches: 62, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
377 3 0.01
378 146 0.38
379 108 0.28
380 105 0.27
381 19 0.05
382 3 0.01
383 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (381 bp):
GTATCGATACGATGTGTTTAAGCCTATTATCATTATACCGATAAACTTTTACCATTTACATTGTA
AATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAATATAAAAAAATTTATACATGTG
TATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAAAAAAGTACCAATACCTATAT
AAAAAGTATCGATACGTTATATTTACGACTATTACCATTAAACAAGTAGATTTTTACCATTAAAA
TCGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCGAGATATCGATACATTTTGA
GTGCAAATTATCTGAGATGCACACTGGAATAAAAGTATCGATACCGATATAACAAA
Found at i:2823536 original size:138 final size:137
Alignment explanation
Indices: 2823265--2823546 Score: 343
Period size: 138 Copynumber: 2.1 Consensus size: 137
2823255 GTCATAGGTG
* * ** **
2823265 CATTTTGACATAAATTGTATATAATGGTTACCGATCGATTTTGTGTAATGCATAATGGTGCATTT
1 CATTTCGACATAAATTATATATAAAAGTTACCGATCGATTTTGTGTAATGCATAAAAGTGCATTT
* * * * * *
2823330 TCGTATCAGTACTTTATGTATTTTCGGCATTAGATGTGCAACCATGGTATTCATAATGAGTTTTT
66 TCGTATCAATACTATATGTACTTTCGACACTAGATGTGCAACCATGGTATTCATAATGAGTTTGT
2823395 GAATTAC
131 GAATTAC
* * *
2823402 CATTTCGACATACAATTATGTATAAAAGTTATCGATCGATTTTGTTTAATGCATAAAAGTGCATT
1 CATTTCGACATA-AATTATATATAAAAGTTACCGATCGATTTTGTGTAATGCATAAAAGTGCATT
** * *
2823467 TTCGTATCAATACTATATGTACTTTCGACACTATG-TGTGCATTCATTG-AGTTCATCATGAGTT
65 TTCGTATCAATACTATATGTACTTTCGACACTA-GATGTGCAACCATGGTA-TTCATAATGAGTT
*
2823530 TGTGAATTTC
128 TGTGAATTAC
2823540 CATTTCG
1 CATTTCG
2823547 GCACGTAGGT
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
137 12 0.10
138 109 0.89
139 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (137 bp):
CATTTCGACATAAATTATATATAAAAGTTACCGATCGATTTTGTGTAATGCATAAAAGTGCATTT
TCGTATCAATACTATATGTACTTTCGACACTAGATGTGCAACCATGGTATTCATAATGAGTTTGT
GAATTAC
Found at i:2823625 original size:2 final size:2
Alignment explanation
Indices: 2823620--2823645 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2823610 AAATAAATAA
2823620 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
2823646 TGATTGATAG
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:2825332 original size:54 final size:54
Alignment explanation
Indices: 2825246--2825817 Score: 727
Period size: 54 Copynumber: 10.6 Consensus size: 54
2825236 TTACCAAATA
* * *
2825246 GGCACTAAGTGTGTAATTCACGG--TTCATCATATGTTGATGAATAGCCGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
2825298 GGCACTAAGTATGCAATTCATGGAATTCATCATATGTTAATGAATAACCATTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
2825352 GACACTAAGTGTGCAATTCACGGAATTCATCATATGTTAATGAATAATCATTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
2825406 GACACTAAGTGTGTAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
2825460 GGCACTAAGTATGTAATTCACGAAATTCATCATATGTTGATGAATAACAGTTTA
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
2825514 GGCACTAAGTATGCAATTCACGGAATTCATCGTATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
** * * *
2825568 AACACTAAGTGTGCAATTCATGGAATTCATCTTTTGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
** * * * *
2825622 GAAACTAAGTGTTCCATTCATGGAATTCATCGTATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
2825676 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * ** *
2825730 GACACTAAGTGTGTAATTCACATAATTCATCATATGTTGATGAATAACCG-TAC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
2825783 AGGCACGAAGTGTGCAAATCCATGGAATTCATCAT
1 -GGCACTAAGTGTGC-AATTCACGGAATTCATCAT
2825818 GAGTTGAAGA
Statistics
Matches: 456, Mismatches: 60, Indels: 5
0.88 0.12 0.01
Matches are distributed among these distances:
52 20 0.04
53 1 0.00
54 420 0.92
55 15 0.03
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (54 bp):
GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:2826218 original size:67 final size:68
Alignment explanation
Indices: 2826117--2826252 Score: 186
Period size: 67 Copynumber: 2.0 Consensus size: 68
2826107 AAAGATTAAT
* *
2826117 GGCCTAGCTATGCATTTAACAAAAAGGTGTCAATTATG-AAGTTAGATGAAGGGCTAAGTGCCTT
1 GGCCTAGCTATGCATTTAACAAAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAATGCCTT
2826181 TGA
66 TGA
* * * * *
2826184 GGCCTAGCTGTGTATTTGAA-AGAAAGTTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCT
1 GGCCTAGCTATGCATTT-AACAAAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAATGCCT
2826248 TTGA
65 TTGA
2826252 G
1 G
2826253 TAAAAGACTA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
67 31 0.52
68 29 0.48
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (68 bp):
GGCCTAGCTATGCATTTAACAAAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAATGCCTT
TGA
Found at i:2826351 original size:46 final size:46
Alignment explanation
Indices: 2826286--2826544 Score: 396
Period size: 46 Copynumber: 5.7 Consensus size: 46
2826276 GTCTAACGTT
* * * *
2826286 GTATAAAA-GGCATCAAAGGATGCAATAAATGAAATGCATAATAGT
1 GTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
2826331 GTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
1 GTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
*
2826377 GTATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGC
1 GTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
*
2826423 CT-TAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
1 GTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* ** *
2826468 ATATAAAAAAGCATGAAAGGATGCCATAAATGAAATATATAATAGC
1 GTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* *
2826514 GTATAAAAGAGCATGAAAGGGTGCCATAAAT
1 GTATAAAAGGGCATGAAAGGATGCCATAAAT
2826545 AAAAAGCATA
Statistics
Matches: 198, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
45 51 0.26
46 147 0.74
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (46 bp):
GTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
Found at i:2826441 original size:91 final size:91
Alignment explanation
Indices: 2826286--2826544 Score: 394
Period size: 91 Copynumber: 2.8 Consensus size: 91
2826276 GTCTAACGTT
* * * *
2826286 GTATAAAAGGCATCAAAGGATGCAATAAATGAAATGCATAATAGTGTATAAAAGGGCATGAAAGG
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGG
2826351 ATGCCATAAATGAAATGTATAATAGC
66 ATGCCATAAATGAAATGTATAATAGC
* *
2826377 GTATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGCCT-TAAAAGGGCATGAAAG
1 GTATAAAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAG
2826441 GATGCCATAAATGAAATGTATAATAGC
65 GATGCCATAAATGAAATGTATAATAGC
* * * *
2826468 ATATAAAAAAGCATGAAAGGATGCCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAG
1 GTAT-AAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAG
*
2826533 GGTGCCATAAAT
65 GATGCCATAAAT
2826545 AAAAAGCATA
Statistics
Matches: 152, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
91 89 0.59
92 63 0.41
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (91 bp):
GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGG
ATGCCATAAATGAAATGTATAATAGC
Found at i:2826454 original size:137 final size:136
Alignment explanation
Indices: 2826289--2826548 Score: 421
Period size: 137 Copynumber: 1.9 Consensus size: 136
2826279 TAACGTTGTA
** **
2826289 TAAAAGGCATCAAAGGATGCAATAAATGAAATGCATAATAGTGTATAAAAGGGCATGAAAGGATG
1 TAAAAGGCATCAAAGGATGCAATAAATGAAATGCATAATAGCATATAAAAAAGCATGAAAGGATG
* *
2826354 CCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAA
66 CCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGATGCCATAAATAAAATGTATAA
2826419 TAGCCT
131 TAGCCT
* * *
2826425 TAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCATATAAAAAAGCATGAAAGGAT
1 TAAAA-GGCATCAAAGGATGCAATAAATGAAATGCATAATAGCATATAAAAAAGCATGAAAGGAT
*
2826490 GCCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGGTGCCATAAATAAAA
65 GCCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGATGCCATAAATAAAA
2826549 AGCATATGGG
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
136 5 0.04
137 108 0.96
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (136 bp):
TAAAAGGCATCAAAGGATGCAATAAATGAAATGCATAATAGCATATAAAAAAGCATGAAAGGATG
CCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGATGCCATAAATAAAATGTATAA
TAGCCT
Found at i:2826572 original size:137 final size:136
Alignment explanation
Indices: 2826289--2826602 Score: 407
Period size: 137 Copynumber: 2.3 Consensus size: 136
2826279 TAACGTTGTA
* * * ** **
2826289 TAAAAGGCATCAAAGGATGCAATAAATGAAATGCATAATAGTGTATAAAAGGGCATGAAAGGATG
1 TAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAATAGCATATAAAAAAGCATGAAAGGATG
* * * *
2826354 CCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAA
66 CCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGATGCCATAAATAAAAAGCATAA
*
2826419 TAGCCT
131 TAGCAT
*
2826425 TAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCATATAAAAAAGCATGAAAGGAT
1 T-AAAGGGCATGAAAGGATGCCATAAATGAAATGCATAATAGCATATAAAAAAGCATGAAAGGAT
*
2826490 GCCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGGTGCCATAAATAAAAAGCAT-
65 GCCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGATGCCATAAATAAAAAGCATA
*
2826554 ATGGGTGCAT
130 AT---AGCAT
** *
2826564 T-ATTGGCATGAAAGAATGCCATAAATGAAAATGCATAAT
1 TAAAGGGCATGAAAGGATGCCATAAATG-AAATGCATAAT
2826603 GGTGCACTAT
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
136 3 0.02
137 137 0.89
138 10 0.06
139 4 0.03
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (136 bp):
TAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAATAGCATATAAAAAAGCATGAAAGGATG
CCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGATGCCATAAATAAAAAGCATAA
TAGCAT
Found at i:2826573 original size:91 final size:92
Alignment explanation
Indices: 2826291--2826602 Score: 348
Period size: 91 Copynumber: 3.4 Consensus size: 92
2826281 ACGTTGTATA
* * * *
2826291 AAAGGCATCAAAGGATGCAATAAATGAAATGCATAATAGTGTATAAAAGGGCATGAAAGGATGCC
1 AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCC
* * *
2826356 ATAAATGAAATGTATAATAGCGTATA-
66 ATAAATGAAATGTATAATGGTGCATAT
* *
2826382 AAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGCCT-TAAAAGGGCATGAAAGGATGC
1 AAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATGC
*
2826446 CATAAATGAAATGTATAAT--AGCATAT
65 CATAAATGAAATGTATAATGGTGCATAT
* * * *
2826472 AAAAAAGCATGAAAGGATGCCATAAATGAAATATATAATAGCGTATAAAAGAGCATGAAAGGGTG
1 --AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATG
* * *
2826537 CCATAAATAAAAAGCAT-ATGGGTGCAT-T
64 CCATAAATGAAATGTATAAT-GGTGCATAT
** * *
2826565 ATTGGCATGAAAGAATGCCATAAATGAAAATGCATAAT
1 AAAGGCATGAAAGGATGCCATAAATG-AAATGTATAAT
2826603 GGTGCACTAT
Statistics
Matches: 188, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
89 4 0.02
91 102 0.54
92 77 0.41
93 1 0.01
94 4 0.02
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (92 bp):
AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCC
ATAAATGAAATGTATAATGGTGCATAT
Found at i:2826620 original size:45 final size:45
Alignment explanation
Indices: 2826523--2826620 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
2826513 CGTATAAAAG
** * *
2826523 AGCATGAAAGGGTGCCATAAATAAAAAGCATATGGGTGCATTATT
1 AGCATGAAAGAATGCCATAAATAAAAAGCATATGGGTGCACTATA
* *
2826568 GGCATGAAAGAATGCCATAAATGAAAATGCATAAT-GGTGCACTATA
1 AGCATGAAAGAATGCCATAAAT-AAAAAGCAT-ATGGGTGCACTATA
2826614 AG-ATGAA
1 AGCATGAA
2826621 TGGATGCTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 24 0.55
46 18 0.41
47 2 0.05
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (45 bp):
AGCATGAAAGAATGCCATAAATAAAAAGCATATGGGTGCACTATA
Found at i:2828358 original size:2 final size:2
Alignment explanation
Indices: 2828351--2828377 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2828341 ATGATGTCAG
2828351 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 A
2828378 ACTTTTATGG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2830768 original size:54 final size:54
Alignment explanation
Indices: 2830702--2831181 Score: 737
Period size: 54 Copynumber: 8.9 Consensus size: 54
2830692 TTACCAAATA
* * *
2830702 GGCACTAAGTGTGTAATTCACGGAATTCATCATATGTTTATGAATAACCCTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
* * *
2830756 GGAACTAAGTGTGAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
* * * *
2830810 GGCACTAAGTGTGCAATTCATGTAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
*
2830864 GGCAC-AAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAACCATTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
* * *
2830917 GACACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACGATTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
* * *
2830971 GGCACTAAGTGTGCAATTCACTGAATTTATCATATGTTGATGAATAACTATTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
** * *
2831025 AACACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCATTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
*
2831079 GGCACTAAGTATGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
* *
2831133 GGCACTAAGTGTGCAATTCAAGGAATTTATCATATGTTGATGAATAACC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACC
2831182 GTACATGCAC
Statistics
Matches: 387, Mismatches: 38, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
53 47 0.12
54 340 0.88
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCATTTC
Found at i:2831609 original size:68 final size:68
Alignment explanation
Indices: 2831525--2831651 Score: 173
Period size: 68 Copynumber: 1.9 Consensus size: 68
2831515 ATGGCCTAGC
* * * *
2831525 TGTGCATTTGACAGAAAGGTATCAATTATGCCACTAAGATGAAAGGCTAAGTTCCTTTGTGACCT
1 TGTGCATTTGACAGAAAGGCATCAACTATGCCACTAAGATGAAAGGCTAAATGCCTTTGTGACCT
2831590 ATA
66 ATA
* * * * *
2831593 TGTGCATTTGACAGAAATGCGTCAACTATGCTAGTTAGATGAAAGGCTAAATGCCTTTG
1 TGTGCATTTGACAGAAAGGCATCAACTATGCCACTAAGATGAAAGGCTAAATGCCTTTG
2831652 AGTAAAAGAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (68 bp):
TGTGCATTTGACAGAAAGGCATCAACTATGCCACTAAGATGAAAGGCTAAATGCCTTTGTGACCT
ATA
Found at i:2831804 original size:46 final size:46
Alignment explanation
Indices: 2831688--2831950 Score: 379
Period size: 46 Copynumber: 5.8 Consensus size: 46
2831678 TATAACATTA
* * *
2831688 TATAAAA-GGCATGAAAGGATGCAATAAATGAAATGTATAATAGTG
1 TATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGCG
*
2831733 TAT-AAAGGGCATGAAAGGATACCATAAATAAAATGTATAATAGCG
1 TATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGCG
* * *
2831778 TATAAAAGGGCATAAAAGAATGCCATAAATGAAATGTATAATAGCG
1 TATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGCG
* * *
2831824 TATAAAAGGGAATGAAAGGATGTCATAAATGAAATGTATAATAGCG
1 TATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGCG
** *
2831870 TATAAAAGATCATGAAAGGATGCCATAAATAAAATGTATAATAGCA
1 TATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGCG
*
2831916 TATAAAA-GGCATGAAATGATGCCATAAATAAAATG
1 TATAAAAGGGCATGAAAGGATGCCATAAATAAAATG
2831951 CATATTGGTG
Statistics
Matches: 195, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
44 3 0.02
45 65 0.33
46 127 0.65
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (46 bp):
TATAAAAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAGCG
Found at i:2837137 original size:138 final size:137
Alignment explanation
Indices: 2836866--2837150 Score: 324
Period size: 138 Copynumber: 2.1 Consensus size: 137
2836856 GTCATAGGTG
* * ** **
2836866 CATTTTGTCATAAATTGTATATAATGGTTATCGATCGATTTTGCGTAATGTATAATGGTACATTT
1 CATTTTGACATAAATTATATATAAAAGTTATCGATCGATTTTGCGTAATGTATAACAGTACATTT
* * * * * *
2836931 TTGTATCAGTACTTTGTGTACTTTTGGCACTAGATGTGCAACCATGGTATTAATAATTAGTTTGT
66 TCGTATCAGTACTTTATGTACTTTCGACACTAGATGTGCAACCATGGTATTAATAATGAGTTTAT
2836996 GAATTAC
131 GAATTAC
* ** *
2837003 CATTTTGACATACAATTATGTATAAAAGTTATCGATCGATTTTGTTTAATGTATAACAGTGCATT
1 CATTTTGACATA-AATTATATATAAAAGTTATCGATCGATTTTGCGTAATGTATAACAGTACATT
** *
2837068 TTCGTATCAGTA-TTATATGTACTTTCGACACTATG-TGTGCATTCATGG-AGTTCATAATGAGT
65 TTCGTATCAGTACTT-TATGTACTTTCGACACTA-GATGTGCAACCATGGTA-TTAATAATGAGT
*
2837130 TTATGAATTTC
127 TTATGAATTAC
*
2837141 CATTTCGACA
1 CATTTTGACA
2837151 CTTATGTGCA
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
137 14 0.11
138 108 0.88
139 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (137 bp):
CATTTTGACATAAATTATATATAAAAGTTATCGATCGATTTTGCGTAATGTATAACAGTACATTT
TCGTATCAGTACTTTATGTACTTTCGACACTAGATGTGCAACCATGGTATTAATAATGAGTTTAT
GAATTAC
Found at i:2840252 original size:24 final size:24
Alignment explanation
Indices: 2840225--2840278 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2840215 CGTTTTAGGA
*
2840225 GTCACTCCTTACCATAGTAACTCC
1 GTCACTCCTTACCAAAGTAACTCC
2840249 GTCACTCCTTACCAAAGTAACTCC
1 GTCACTCCTTACCAAAGTAACTCC
*
2840273 ATCACT
1 GTCACT
2840279 GGCTCATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.37, G:0.07, T:0.28
Consensus pattern (24 bp):
GTCACTCCTTACCAAAGTAACTCC
Found at i:2848121 original size:70 final size:72
Alignment explanation
Indices: 2848020--2848161 Score: 193
Period size: 70 Copynumber: 2.0 Consensus size: 72
2848010 AAAAGAAAGG
* *
2848020 TCGGGGGGAAGACGAAGGGGGAGGTGGGAGTTGAGAGTGAAAGCA-GA-TTTTTTTGTTTCAAAC
1 TCGGGGGGAAGACGAAGGGGGAGGTGGGAGTTGAGAGTAAAAGCATAATTTTTTTTGTTTCAAAC
2848083 AATGAAA
66 AATGAAA
* *
2848090 TCGGGGGG-AGCAGGAAGGGGGAGG-GGAGAGTTGAGAGTAAAAGCATAATTTTTTTTGTTTCAG
1 TCGGGGGGAAG-ACGAAGGGGGAGGTGG-GAGTTGAGAGTAAAAGCATAATTTTTTTTGTTTCAA
*
2848153 ACATTGAAA
64 ACAATGAAA
2848162 GGTCGAGGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
69 4 0.06
70 37 0.59
71 1 0.02
72 21 0.33
ACGTcount: A:0.31, C:0.07, G:0.38, T:0.24
Consensus pattern (72 bp):
TCGGGGGGAAGACGAAGGGGGAGGTGGGAGTTGAGAGTAAAAGCATAATTTTTTTTGTTTCAAAC
AATGAAA
Found at i:2850057 original size:197 final size:194
Alignment explanation
Indices: 2849711--2850091 Score: 496
Period size: 197 Copynumber: 1.9 Consensus size: 194
2849701 GATGTTTTTC
* * * *
2849711 TTATTGCAATTCTTTTCAATTCCTAAAGTATCAATACTATGGAACATATACTTATAAACGTATTG
1 TTATTGCAATTCTTTTAAATTCCTAAAGTATCAATACTATAGAACATATACTTATAAAAGTATCG
* * * *
2849776 ATACTTTCAACAATTCCAGTATCTCTTTACCAGTTTTGTCAAATATAAACCAATTTTATCAAATT
66 ATACTGTCAACAATTCCAGTAACTCTTTACCAGTTTTATCAAATATAAACCAATTTTATCAAACT
* *
2849841 TCAACATGTTATATTGTCATGTATCGATATATGTGTCTAAGGTATCGATACTTTATAGGCGCTA
131 TCAACATGTTATATTGTCATGTATCGATACATATGTCTAAGGTATCGATACTTTATAGGCGCTA
* * * **
2849905 TTATTGCAATTCTTTTAAATTCCTAGAGTA-CTGATACTTTAGTGCATATACTTATAAAAGTATC
1 TTATTGCAATTCTTTTAAATTCCTAAAGTATC-AATACTATAGAACATATACTTATAAAAGTATC
* * * * * *
2849969 GATACAAATGTCAACCATTCCGGTAACTCTTTATCGGTTTTATCAAAT-TGAAACCGATTTTGTC
65 GATAC---TGTCAACAATTCCAGTAACTCTTTACCAGTTTTATCAAATAT-AAACCAATTTTATC
* *
2850033 AAACTTCAACCTGTTATATTGTCATGTATCGATACATATGTGTAAGGTATCGATACTTT
126 AAACTTCAACATGTTATATTGTCATGTATCGATACATATGTCTAAGGTATCGATACTTT
2850092 CGAGATATTT
Statistics
Matches: 159, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
193 1 0.01
194 58 0.36
196 1 0.01
197 99 0.62
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (194 bp):
TTATTGCAATTCTTTTAAATTCCTAAAGTATCAATACTATAGAACATATACTTATAAAAGTATCG
ATACTGTCAACAATTCCAGTAACTCTTTACCAGTTTTATCAAATATAAACCAATTTTATCAAACT
TCAACATGTTATATTGTCATGTATCGATACATATGTCTAAGGTATCGATACTTTATAGGCGCTA
Found at i:2850669 original size:199 final size:199
Alignment explanation
Indices: 2850314--2850893 Score: 736
Period size: 199 Copynumber: 2.9 Consensus size: 199
2850304 AGACAATATT
* * *
2850314 GATACTTGTAT-TTTA--CCTATTATCAATATACCAGTAGACTTTTACCGTGTACATTGTAAATT
1 GATACTTG-ATGTTTACGCCTATTATCATTAAACCAGTAGACTTTTACCGTTTACATTGTAAATT
*** * *
2850376 TACCTATAACTTTAAAGTAATAGGTTTCAAAATTTTGCGTATCGATACTTTATACATATGTATCT
65 TACCTATAACTTTAAAGTAATAGGTTTCAAAATTACACGTATCGATACTTTATACATGTGTATCG
* * *
2850441 ATACTTTGTGTGTGCAAATTGTTGAGAAGCATATCGGAATAAAAGTATCGATACCTATACAAAAC
130 ATACTTTGTGCGTGCAAATTGTTGAGAAGCATATCGGAATAAAAGTATCGATACATATACAAAAA
2850506 GTATC
195 GTATC
* * * *
2850511 GGTACTTGATGTTTACGCCTATTATCATTAAACCTGTAAACTTTTACCGTTTAAATTGTAAATTT
1 GATACTTGATGTTTACGCCTATTATCATTAAACCAGTAGACTTTTACCGTTTACATTGTAAATTT
* * * *
2850576 ACCTATAACTTTAAAGTAATCGGTTTCGAAATTCCACTTATCGATACTTTATACATGTGTATCGA
66 ACCTATAACTTTAAAGTAATAGGTTTCAAAATTACACGTATCGATACTTTATACATGTGTATCGA
* * *
2850641 TACTTTGTGCGTGCAAATTGTTGAGAAGCATATTGGACTAAAAGTATCGATACATGTACAAAAAG
131 TACTTTGTGCGTGCAAATTGTTGAGAAGCATATCGGAATAAAAGTATCGATACATATACAAAAAG
2850706 TATC
196 TATC
* * * * *
2850710 GATACTTGATGTTTACGCCTATTATAATTAAATCGGTAGATTTTTACCATTTACATTGTAAATTT
1 GATACTTGATGTTTACGCCTATTATCATTAAACCAGTAGACTTTTACCGTTTACATTGTAAATTT
* ** * * * * * *
2850775 ACGTATTGCTTTATAGTAATAGGTTTCAAAATTACAAGTATCGATATTTTTTATATGTATATCGA
66 ACCTATAACTTTAAAGTAATAGGTTTCAAAATTACACGTATCGATACTTTATACATGTGTATCGA
* * * *
2850840 TATTTTTTTGCGTGTAAATTGTTTGAGATGCATA-CTGGAATAAAAGTATCGATA
131 TA-CTTTGTGCGTGCAAATTG-TTGAGAAGCATATC-GGAATAAAAGTATCGATA
2850894 TGTTATCTTT
Statistics
Matches: 329, Mismatches: 48, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
196 2 0.01
197 11 0.03
199 273 0.83
200 15 0.05
201 28 0.09
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (199 bp):
GATACTTGATGTTTACGCCTATTATCATTAAACCAGTAGACTTTTACCGTTTACATTGTAAATTT
ACCTATAACTTTAAAGTAATAGGTTTCAAAATTACACGTATCGATACTTTATACATGTGTATCGA
TACTTTGTGCGTGCAAATTGTTGAGAAGCATATCGGAATAAAAGTATCGATACATATACAAAAAG
TATC
Found at i:2852924 original size:15 final size:15
Alignment explanation
Indices: 2852900--2852929 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2852890 TAAACCAAAC
2852900 ATACAAAACAATGTT
1 ATACAAAACAATGTT
*
2852915 ATACATAACAATGTT
1 ATACAAAACAATGTT
2852930 CTAGTAGTCT
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:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (15 bp):
ATACAAAACAATGTT
Found at i:2857124 original size:197 final size:197
Alignment explanation
Indices: 2856813--2857287 Score: 509
Period size: 197 Copynumber: 2.4 Consensus size: 197
2856803 ATTTTTTCAT
* * *
2856813 TTCTTTTCAATTCCTAAAGTA-CTGATACTATGATACATATACTTATAAAAGTATCGATAC---T
1 TTCTTTTAAATTCCTAAAGTACCT-ATACTTTGGTACATATACTTATAAAAGTATCGATACAAAT
* * * * * *
2856874 GTCAA-CATAATCGATAGCGTTTTACTGGTTTTGTCATATTGAAATCGGTTTTGTCAAATTTCAA
65 GTCAACCAT--TCGGTAGCGTTTTACTAGTTTTGTCAAACTAAAATCGGTTTTGTCAAACTTCAA
* ** * *
2856938 CATGTTATATTGTCATGTATCGATAGATGTTTCTAAGGTATCGATACTTTATAGGCACTAT-TAT
128 CATGTTATATTGTCATGTATCGATACATGTGACTAAGGTATCGATACTTTAGAGACACTATCTAT
2857002 TGTAA
193 TGTAA
* *
2857007 TTCTTTTAAATTCCTAAAGTACCTATACTTTGGTGCATATACTTATAAAAGTATCAATACAAATG
1 TTCTTTTAAATTCCTAAAGTACCTATACTTTGGTACATATACTTATAAAAGTATCGATACAAATG
*
2857072 TCAACCATTCCGGTATC-TCTTTACTAGTTTTGTCAAACTAAAA-CTGGTTTTGTCAAACTTCAA
66 TCAACCATT-CGGTAGCGT-TTTACTAGTTTTGTCAAACTAAAATC-GGTTTTGTCAAACTTCAA
* * * * * * *
2857135 CATGTTATATTGTTATGTATCGATACATGTGAGTAAGGTATTGATACTTTCGAGACATTTTCCTT
128 CATGTTATATTGTCATGTATCGATACATGTGACTAAGGTATCGATACTTTAGAGACACTAT-CTA
* *
2857200 TTTTCA
192 TTGTAA
* * * *
2857206 TTTTTGTTAAATTCCTACAGTACCGATACTTTGGTACATATACTTATAAACA-TATTGATACAAA
1 TTCTT-TTAAATTCCTAAAGTACCTATACTTTGGTACATATACTTATAAA-AGTATCGATACAAA
* *
2857270 TTTCAACAATTTCGGTAG
64 TGTCAACCA-TTCGGTAG
2857288 TTCTATACCG
Statistics
Matches: 233, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
194 52 0.22
195 2 0.01
196 3 0.01
197 98 0.42
198 3 0.01
199 9 0.04
200 63 0.27
201 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (197 bp):
TTCTTTTAAATTCCTAAAGTACCTATACTTTGGTACATATACTTATAAAAGTATCGATACAAATG
TCAACCATTCGGTAGCGTTTTACTAGTTTTGTCAAACTAAAATCGGTTTTGTCAAACTTCAACAT
GTTATATTGTCATGTATCGATACATGTGACTAAGGTATCGATACTTTAGAGACACTATCTATTGT
AA
Found at i:2862011 original size:25 final size:23
Alignment explanation
Indices: 2861983--2862035 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
2861973 TTCATCTAGG
*
2861983 TTTAGAACGCATATCATACGGACTA
1 TTTAGAA--CATATCATACGGACGA
*
2862008 TTTAG-ACATATCATATGGACGA
1 TTTAGAACATATCATACGGACGA
2862030 TTTAGA
1 TTTAGA
2862036 CACAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 19 0.76
24 1 0.04
25 5 0.20
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (23 bp):
TTTAGAACATATCATACGGACGA
Found at i:2862017 original size:22 final size:22
Alignment explanation
Indices: 2861992--2862037 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
2861982 GTTTAGAACG
*
2861992 CATATCATACGGACTATTTAGA
1 CATATCATACGGACGATTTAGA
*
2862014 CATATCATATGGACGATTTAGA
1 CATATCATACGGACGATTTAGA
2862036 CA
1 CA
2862038 CAAAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (22 bp):
CATATCATACGGACGATTTAGA
Found at i:2868434 original size:20 final size:20
Alignment explanation
Indices: 2868391--2868433 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2868381 ACACCCTGCA
**
2868391 TTTTGCATATGCATTTTTAT
1 TTTTGCATATGCATTTAAAT
2868411 TTTTGCA-ATGCATTTAAAT
1 TTTTGCATATGCATTTAAAT
2868430 TTTT
1 TTTT
2868434 TACACCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTTGCATATGCATTTAAAT
Found at i:2871998 original size:4 final size:4
Alignment explanation
Indices: 2871989--2872029 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
2871979 CATTCCTCGT
*
2871989 TGTA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
2872030 TATTTCTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:2886972 original size:165 final size:164
Alignment explanation
Indices: 2886729--2887478 Score: 738
Period size: 165 Copynumber: 4.5 Consensus size: 164
2886719 TCGTTTTTTT
* * ** ** * * *
2886729 GAAGGTTTTGCAAGTCCTATACTCCCTGAAAGAAGATAGAGGGGACACATTTGTCGACGATTGTT
1 GAAGATTTT-CAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCATTTTTCGAAGATTGTT
* * *
2886794 CGAGTCCTATACTCCTTGAAAGAAGAAGGAGCAAACCTATTTTCCAAAAATTATTCGAGTCCTAT
65 CAAGTCCTATACTCCTTGAAAGAAGAAGGAGCAGACCCATTTTCCAAAAATTATTCGAGTCCTAT
* *
2886859 ACTCCCTGAAATAAGAGGGAGTAGACACGTTTGCC
130 ACTCCCTGAAAGAAGAGGGAGCAGACACGTTTGCC
*
2886894 GAATATTGTTCAAGTCCTATACTCCTTGAAAGAAG-GAGGAGCAGACCCATTTTTCGAAGAATT-
1 GAAGATT-TTCAAGTCCTATACTCCTTGAAAGAAGAG-GGAGCAGACCCATTTTTCGAAG-ATTG
* * * * *** * *
2886957 TTAAAGTCATATACTCCCTAAAAGAA-AATGGAGCAGACCCATTTTATGAAGATTGTTCGAGTCC
63 TTCAAGTCCTATACTCCTTGAAAGAAGAA-GGAGCAGACCCATTTTCCAAAAATTATTCGAGTCC
* * * * * *
2887021 TATACTCCTTGATAGAAGAAGTAGCGGACCCGTTCT-CC
127 TATACTCCCTGAAAGAAGAGGGAGCAGACACGTT-TGCC
* * *
2887059 GAAGATTTTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAAACACATTTTCCGAAGATTGTT
1 GAAGA-TTTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCATTTTTCGAAGATTGTT
** * ** * *
2887124 TGAGTCCTATATTCCTTGAAAGAAGAAGGAGCAGACCTGTTTTTCAAAAATTGTTCGAGTCCTAT
65 CAAGTCCTATACTCCTTGAAAGAAGAAGGAGCAGACCCATTTTCCAAAAATTATTCGAGTCCTAT
* * * *
2887189 ACTCCCTAAAAGAAGAGGAAGCAGACACATTTGTC
130 ACTCCCTGAAAGAAGAGGGAGCAGACACGTTTGCC
* * * * *
2887224 GAGGAGTCTTCAAGTCCTATACTCCTTGAAGGAAGAAGGAGCAGACCCA-TTTTCTGAAGAGTGT
1 GAAGA-TTTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCATTTTTC-GAAGATTGT
* * * ** * *
2887288 TCAAGTCCTATACTCCTTGATAGAAGAAGAAGCGGACCCATTTTCTGAAGATTATTTGAGTCCTA
64 TCAAGTCCTATACTCCTTGAAAGAAGAAGGAGCAGACCCATTTTCCAAAAATTATTCGAGTCCTA
* * * ***
2887353 TACTCCTTGAAAGAAGAGGGAGTAGACCCGTTTTTT
129 TACTCCCTGAAAGAAGAGGGAGCAGACACGTTTGCC
* * * ** * *
2887389 GAAAAAATTTT-GAGTCTTATACTCCCCGAAAGAAAAGGGAGCGGACCCATTTTTCGAAGATTGT
1 G--AAGATTTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCATTTTTCGAAGATTGT
2887453 TCAAGTCCTATACTCCTTGAAAGAAG
64 TCAAGTCCTATACTCCTTGAAAGAAG
2887479 TGGGAATGGA
Statistics
Matches: 472, Mismatches: 99, Indels: 28
0.79 0.17 0.05
Matches are distributed among these distances:
164 10 0.02
165 441 0.93
166 19 0.04
167 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (164 bp):
GAAGATTTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCATTTTTCGAAGATTGTTC
AAGTCCTATACTCCTTGAAAGAAGAAGGAGCAGACCCATTTTCCAAAAATTATTCGAGTCCTATA
CTCCCTGAAAGAAGAGGGAGCAGACACGTTTGCC
Done.