Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold162
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: 1959167
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.30
Warning! 205334 characters in sequence are not A, C, G, or T
File 2 of 12
Found at i:176040 original size:32 final size:33
Alignment explanation
Indices: 175986--176144 Score: 172
Period size: 32 Copynumber: 5.0 Consensus size: 33
175976 CTTTTTCTTT
* *
175986 TCAAAGCCCACAGAAG-CTGGTGGCAACCCTTC
1 TCAAAGCCTACACAAGTCTGGTGGCAACCCTTC
*
176018 TCAAAGCCTACATAAGTC-GGTGGC-ACCCTTC
1 TCAAAGCCTACACAAGTCTGGTGGCAACCCTTC
*
176049 T-AAAGCCTATACAAG-CTGGTGGCAACCCTTC
1 TCAAAGCCTACACAAGTCTGGTGGCAACCCTTC
* *
176080 TCAAAGCTTACACAAGTCGGGTGGC-ACCCTT-
1 TCAAAGCCTACACAAGTCTGGTGGCAACCCTTC
* * *
176111 TCCAAAGCCCATACAAGT-TGGTCGCAACCCTTC
1 T-CAAAGCCTACACAAGTCTGGTGGCAACCCTTC
176144 T
1 T
176145 AAGCCCAATG
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.01
30 18 0.17
31 22 0.21
32 57 0.53
33 9 0.08
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.21
Consensus pattern (33 bp):
TCAAAGCCTACACAAGTCTGGTGGCAACCCTTC
Found at i:176065 original size:62 final size:64
Alignment explanation
Indices: 175982--176144 Score: 231
Period size: 62 Copynumber: 2.6 Consensus size: 64
175972 GCACCTTTTT
* * * *
175982 CTTTTCAAAGCCCACAGAAGCTGGTGGCAACCCTTCTCAAAGCCTACATAAGTC-GGTGGCACC
1 CTTTCCAAAGCCCATACAAGCTGGTGGCAACCCTTCTCAAAGCCTACACAAGTCGGGTGGCACC
* * *
176045 C-TTCTAAAGCCTATACAAGCTGGTGGCAACCCTTCTCAAAGCTTACACAAGTCGGGTGGCACC
1 CTTTCCAAAGCCCATACAAGCTGGTGGCAACCCTTCTCAAAGCCTACACAAGTCGGGTGGCACC
* *
176108 CTTTCCAAAGCCCATACAAGTTGGTCGCAACCCTTCT
1 CTTTCCAAAGCCCATACAAGCTGGTGGCAACCCTTCT
176145 AAGCCCAATG
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
62 45 0.52
63 11 0.13
64 31 0.36
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (64 bp):
CTTTCCAAAGCCCATACAAGCTGGTGGCAACCCTTCTCAAAGCCTACACAAGTCGGGTGGCACC
Found at i:176349 original size:104 final size:103
Alignment explanation
Indices: 176144--176662 Score: 505
Period size: 104 Copynumber: 5.0 Consensus size: 103
176134 GCAACCCTTC
* * * * *
176144 TAAGCCCAATGTCACTGGCCTTGAATCAGCATATTGGCACC--TT-TTT-TTAAGTCTAATATTG
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTCTTAAGTCCAATATCG
* * * * * * * *
176205 TTGGCCTTGAATTAGTATATTGGTACCTTTACCATATT
66 CTAGCCTTGAATCAGCATATTGGCATCTTTATCATCTT
* * *
176243 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCAATTTCTTTCTTAAGTCCAATGTC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTTTCTTTCTTAAGTCCAATATC
** *
176308 TTTAGCTTTGAATCAGCATATTGGCGA-CTTTATCATCTT
65 GCTAGCCTTGAATCAGCATATTGGC-ATCTTTATCATCTT
* * * * * * *
176347 TAAGTTCAATGTTGCTGGCCTTGAATCAGCAAATTGACACTTTTTTCTTTCTTAAGCCCTATATC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTTTTCTTTCTTAAGTCCAATATC
* *
176412 GATGGCCTTGAATCAGCATATTGGCATCTTTATCATTCTTCTCATCT
65 GCTAGCCTTGAATCAGCATATTGGCATCTTTATCA------TC-T-T
* * *
176459 TCAAGTCCAATATCGCTGGCCTTGAATTAGCACATTGGCACATTTTCCTTTCTTAAGTCCAATAT
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CTTTCTTAAGTCCAATAT
* *
176524 CGCTAGCCTTGAATCAGCATATTAGC-TCATTTATC-TTTT
64 CGCTAGCCTTGAATCAGCATATTGGCATC-TTTATCATCTT
* * * *
176563 TCAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTTTTTTCTTAA-ACCAATATC
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTCTTAAGTCCAATATC
*
176627 GCTAGCCTTGAATCAGCATATTAGCATCTTTATCAT
65 GCTAGCCTTGAATCAGCATATTGGCATCTTTATCAT
176663 TCTTCTCATC
Statistics
Matches: 350, Mismatches: 49, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
99 37 0.11
102 41 0.12
103 15 0.04
104 165 0.47
105 2 0.01
106 1 0.00
110 2 0.01
111 1 0.00
112 8 0.02
113 78 0.22
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (103 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTCTTAAGTCCAATATCG
CTAGCCTTGAATCAGCATATTGGCATCTTTATCATCTT
Found at i:176451 original size:52 final size:51
Alignment explanation
Indices: 176144--176666 Score: 339
Period size: 52 Copynumber: 10.0 Consensus size: 51
176134 GCAACCCTTC
* * * *
176144 TAAGCCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTT-T--TT-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCATTCT
* * * * * * *
176191 TAAGTCTAATATTGTTGGCCTTGAATTAGTATATTGGTACCTTTACCATAT-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCAT-TCT
* * * * *
176243 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCAATT-TCTTTCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C-TTTATCATTCT
* ** * *
176295 TAAGTCCAATGTCTTTAGCTTTGAATCAGCATATTGGCGACTTTATCA-TCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACTTTATCATTC-T
* * * * * * *
176347 TAAGTTCAATGTTGCTGGCCTTGAATCAGCAAATTGACACTTTTTTCTTTCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-TTTATCATTCT
* * *
176399 TAAGCCCTATATCGATGGCCTTGAATCAGCATATTGGCATCTTTATCATTCTTCTCATCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCA------T--TCT
* * *
176459 TCAAGTCCAATATCGCTGGCCTTGAATTAGCACATTGGCACATTT-TCCTTTCT
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-TTTAT-CATTCT
* * * *
176512 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCTCATTTATC-TTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-TTTATCATTCT
* * * * **
176563 TCAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTT-TTTTTCT
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCATTCT
* * *
176615 TAA-ACCAATATCGCTAGCCTTGAATCAGCATATTAGCATCTTTATCATTCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCATTCT
176666 T
1 T
176667 CTCATCTTCA
Statistics
Matches: 367, Mismatches: 80, Indels: 54
0.73 0.16 0.11
Matches are distributed among these distances:
47 30 0.08
48 3 0.01
50 32 0.09
51 21 0.06
52 224 0.61
53 12 0.03
55 1 0.00
58 1 0.00
60 6 0.02
61 37 0.10
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (51 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCATTCT
Found at i:176483 original size:61 final size:57
Alignment explanation
Indices: 176244--176779 Score: 264
Period size: 52 Copynumber: 9.8 Consensus size: 57
176234 TACCATATTT
* * * * ***
176244 AAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCA-CCAAT--TTC-TTTCTT-
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTTCATTCTTTTCTTC
* ** *
176296 AAGTCCAATGTCTTTAGCTTTGAATCAGCATATTGGCGA-CTTTATCA-TC---T-TT-
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGC-ATCTTT-TCATTCTTTTCTTC
* * * * * *
176348 AAGTTCAATGTTGCTGGCCTTGAATCAGCAAATTGACA-CTTTT--TTC-TTTCTT-
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTTCATTCTTTTCTTC
* * * *
176400 AAGCCCTATATCGATGGCCTTGAATCAGCATATTGGCATCTTTATCATTCTTCTCATCTTC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTT-TCATTCTT-T--TCTTC
* * *
176461 AAGTCCAATATCGCTGGCCTTGAATTAGCACATTGGCA-CATTTTC---C-TTTCTT-
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATC-TTTTCATTCTTTTCTTC
* *
176513 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGC-TCATTT-A-TC-TTT-TTC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTTCATTCTTTTCTTC
* * * * * *
176565 AAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCA-C-CTT--TT-TTTTCTT-
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTTCATTCTTTTCTTC
* *
176616 AA-ACCAATATCGCTAGCCTTGAATCAGCATATTAGCATCTTTATCATTCTTCTCATCTTC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTT-TCATTCTT-T--TCTTC
* * * * * * * * *
176676 AAGCCCAACATCGCTAGTCGTCAATTAGCATGTTGGCACCTTTATCATTCTTCGTATCTTT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTT-TCATTCTT--T-TCTTC
* * *
176737 AAGTCCAATGTCGTTA-CCTTGAATCAGCACATTGGCAT-TTTTC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTTC
176780 TCTTCTTAGC
Statistics
Matches: 374, Mismatches: 72, Indels: 70
0.72 0.14 0.14
Matches are distributed among these distances:
49 2 0.01
50 29 0.08
51 20 0.05
52 167 0.45
53 12 0.03
54 2 0.01
55 5 0.01
56 6 0.02
57 3 0.01
58 3 0.01
59 7 0.02
60 24 0.06
61 93 0.25
62 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (57 bp):
AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTTTCATTCTTTTCTTC
Found at i:176538 original size:113 final size:112
Alignment explanation
Indices: 176340--176690 Score: 416
Period size: 113 Copynumber: 3.2 Consensus size: 112
176330 GGCGACTTTA
* * * * * * * *
176340 TCATCTTTAAGTTCAATGTTGCTGGCCTTGAATCAGCAAATTGACACTTTTTTCTTTCTTAAGCC
1 TCATCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC-ATTTTCTTTCTTAAGAC
* * * *
176405 CTATATCGATGGCCTTGAATCAGCATATTGGCATCTTTATCATTCTTC
65 CAATATCGCTAGCCTTGAATCAGCATATTAGCATCTTTATCATTCTTC
* *
176453 TCATCTTCAAGTCCAATATCGCTGGCCTTGAATTAGCACATTGGCACATTTTCCTTTCTTAAGTC
1 TCATCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACATTTT-CTTTCTTAAGAC
*
176518 CAATATCGCTAGCCTTGAATCAGCATATTAGC-TCATT-T-A-TC-T-
65 CAATATCGCTAGCCTTGAATCAGCATATTAGCATCTTTATCATTCTTC
* * * * *
176560 T--T-TTCAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCACCTTTTTTTTCTTAA-ACC
1 TCATCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACATTTTCTTTCTTAAGACC
176621 AATATCGCTAGCCTTGAATCAGCATATTAGCATCTTTATCATTCTTC
66 AATATCGCTAGCCTTGAATCAGCATATTAGCATCTTTATCATTCTTC
* *
176668 TCATCTTCAAGCCCAACATCGCT
1 TCATCTTCAAGTCCAATATCGCT
176691 AGTCGTCAAT
Statistics
Matches: 202, Mismatches: 26, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
102 33 0.16
103 12 0.06
104 43 0.21
105 2 0.01
106 2 0.01
107 2 0.01
108 2 0.01
109 2 0.01
110 2 0.01
111 15 0.07
112 8 0.04
113 79 0.39
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (112 bp):
TCATCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACATTTTCTTTCTTAAGACC
AATATCGCTAGCCTTGAATCAGCATATTAGCATCTTTATCATTCTTC
Found at i:177141 original size:31 final size:30
Alignment explanation
Indices: 177098--177222 Score: 171
Period size: 31 Copynumber: 4.1 Consensus size: 30
177088 GTGTCTATTT
177098 ATCTTTGCTCAAAGTCCACGACTCAGTGGC
1 ATCTTTGCTCAAAGTCCACGACTCAGTGGC
*
177128 AATCTCTGCTCAAAGTCCACGACTCAGTGGC
1 -ATCTTTGCTCAAAGTCCACGACTCAGTGGC
* * *
177159 ATCTTTTTCTTTAAAGTCCACAACTCAGTGGC
1 ATC-TTTGC-TCAAAGTCCACGACTCAGTGGC
177191 AT-TTTGTCTCAAAGTCCACGACTCAGTGGC
1 ATCTTTG-CTCAAAGTCCACGACTCAGTGGC
177221 AT
1 AT
177223 TTTTTCTTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
30 28 0.34
31 33 0.40
32 22 0.27
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (30 bp):
ATCTTTGCTCAAAGTCCACGACTCAGTGGC
Found at i:177217 original size:62 final size:60
Alignment explanation
Indices: 177108--177257 Score: 210
Period size: 62 Copynumber: 2.4 Consensus size: 60
177098 ATCTTTGCTC
* *
177108 AAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACAACTCAGTGGC-AT-TTTGCTCAAAGTCCACGACTCAGTGGCAT-TTTTTCTTT
177171 AAAGTCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATTTTG-CTCAAAGTCCACGACTCAGTGGCATTTTTTCTTT
* * *
177232 AAAGCCCACAATTCCGTGGCACTTTT
1 AAAGTCCACAACTCAGTGGCA-TTTT
177258 TTCATCTTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
61 30 0.38
62 31 0.39
63 19 0.24
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (60 bp):
AAAGTCCACAACTCAGTGGCATTTTGCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTT
Found at i:177282 original size:34 final size:32
Alignment explanation
Indices: 177144--177864 Score: 483
Period size: 34 Copynumber: 21.7 Consensus size: 32
177134 TGCTCAAAGT
* * * *
177144 CCACGACTCAGTGGCA-TCTTTTTCTTTAAAGT
1 CCACAACTCCGTGGCACT-TTTTTCTTTTAAGC
* * ** *
177176 CCACAACTCAGTGGCA-TTTTGTC-TCAAAGT
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* * *
177206 CCACGACTCAGTGGCA-TTTTTTCTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
177237 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-T-TTTAAGC
*
177271 CCACAACTCCGTGGCAC-----CCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* *
177299 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-T-TTTAAGC
*
177333 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCT-TTT-AAGC
177367 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTT--CTTTT--AAGC
177404 CCACAACTCCGTGGCACTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
*
177437 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTT--CTTTTAAGC
**
177472 CCACAACTCCGTGGCATCTTTCTCCCTTCTTAAAGCC
1 CCACAACTCCGTGGCA-CTTT-TTTCTT-TT-AAG-C
* * * *
177509 CACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGC
1 C-CACAACTCCGTGGC-ACTTTTTTCTTTT--AAGC
* *
177545 CCACAACTCCGTGGCACCTTCTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
**
177578 CCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGC
1 CCACAACTCCGTGGCA--CTTTTTT-CTTTT--AAGC
*
177615 CCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* * ****
177648 CCACAACTCTGTGGCACCTACGACTTTGT--G-
1 CCACAACTCCGTGGCACTTTTTTCTTT-TAAGC
* * ** * *
177678 GCAC-TCT-C-TTTC-C---CTT-TTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
177702 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGC
1 CCACAACTCCGTGGCA-CTTTTTTC-TTTTAAGC
177736 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTT--CTTTT--AAGC
177773 CCACAACTCCGTGGCACTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
*
177806 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTT--CTTTTAAGC
177841 CCACAACTCCGTGGCATCTTTTTT
1 CCACAACTCCGTGGCA-CTTTTTT
177865 TCCTTCCCAA
Statistics
Matches: 569, Mismatches: 65, Indels: 107
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 2 0.00
24 3 0.01
25 2 0.00
26 2 0.00
27 7 0.01
28 20 0.04
29 4 0.01
30 30 0.05
31 24 0.04
32 24 0.04
33 100 0.18
34 135 0.24
35 81 0.14
36 41 0.07
37 74 0.13
38 15 0.03
39 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.34
Consensus pattern (32 bp):
CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
Found at i:177355 original size:96 final size:94
Alignment explanation
Indices: 177144--177863 Score: 428
Period size: 105 Copynumber: 7.2 Consensus size: 94
177134 TGCTCAAAGT
* * * * * ** *
177144 CCACGACTCAGTGGCATCTTTTTCT-TTAAAGTCCACAACTCAGTGGCA-TTTTGTCTCAAAGTC
1 CCACAACTCCGTGGCACCTTTTTCTCTTTAAGTCCACAACTCCGTGGCACCCTT-T-TCAAAGCC
* * *
177207 CACGACTCAGTGGCA-TTTTTTCTTTAAAGC
64 CACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
177237 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAAGCCC
1 CCACAACTCCGTGGCACCTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCTTTTCAAAGCCC
* *
177301 ACAATTCCGTGGCACTTTTTTCATCTTTAAGT
65 ACAACTCCGTGGCACTTTTTTC-T-TTTAAGC
* *
177333 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCTCTTT-AAGTCCACAACTCCGTGGCA--------CCCTTTT
177398 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGC
57 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
*
177437 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCT
1 CCACAACTCCGTGGCAC-CTTTTTCTC-TTTAAGTCCACAACTCCGTGGCA-------CCCTT-T
* * * *
177502 T-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGC
56 TCAAAG-CC-CACAACTCCGTGGC-ACTTTTTTCTTTT--AAGC
* * **
177545 CCACAACTCCGTGGCACCTTCTTCT-TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCTCTTT-AAGTCCACAACTCCGTGGCA--C------CCTTTT
*
177609 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
57 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* * * ** ** ** *
177648 CCACAACTCTGTGGCACC---TACGACTTT--GT-GGC-ACTCTC-T--TTCCCTTTTTTAAGTC
1 CCACAACTCCGTGGCACCTTTTTC-TCTTTAAGTCCACAACTC-CGTGGCACCCTTTTCAAAGCC
* *
177703 CACAACTCCGTGGCACCTTTTTCCGTTTAAAGC
64 CACAACTCCGTGGCA-CTTTTTTC-TTTTAAGC
* * **
177736 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 CCACAACTCCGTGGCAC-CTTTTTCTC-TTT--AAGTCCACAACTCCGTGGCACCCTTTTC----
*
177801 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
58 AAAGCCCACAACTCCGTGGCACT-TTTTT--CTTTTAAGC
*
177841 CCACAACTCCGTGGCATCTTTTT
1 CCACAACTCCGTGGCACCTTTTT
177864 TTCCTTCCCA
Statistics
Matches: 499, Mismatches: 70, Indels: 105
0.74 0.10 0.16
Matches are distributed among these distances:
87 25 0.05
88 26 0.05
89 4 0.01
91 1 0.00
92 5 0.01
93 37 0.07
94 9 0.02
95 27 0.05
96 49 0.10
97 6 0.01
98 6 0.01
99 1 0.00
100 7 0.01
101 3 0.01
102 3 0.01
103 27 0.05
104 84 0.17
105 95 0.19
106 37 0.07
107 25 0.05
108 22 0.04
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.34
Consensus pattern (94 bp):
CCACAACTCCGTGGCACCTTTTTCTCTTTAAGTCCACAACTCCGTGGCACCCTTTTCAAAGCCCA
CAACTCCGTGGCACTTTTTTCTTTTAAGC
Found at i:177440 original size:70 final size:70
Alignment explanation
Indices: 177199--177864 Score: 674
Period size: 70 Copynumber: 9.4 Consensus size: 70
177189 GCATTTTGTC
* * *
177199 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAATTCCGTGGCACT-TTTTT-
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
177260 CATCTT
66 CCT-TT
* *
177266 T--AAGTCCACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCCGTGGCACT-TTTTT-
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
177322 CATCTT
66 CCT-TT
*
177328 T--AAGTCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
177391 CCCTTT
65 CCCTTT
*
177397 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
177462 CCTTT
66 CCTTT
** * *
177467 T--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCTTAAAGCCCACACAAGTCGGTGGCAAC-C
1 TCAAAGTCCACAACTCCGTGGCA-CTTT-TTTCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTC
*
177529 TTCTT--CTTT
60 TTTTTCCCTTT
* * * ** *
177538 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
177603 CCTTT
66 CCTTT
* * *
177608 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACGACT
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCA-CT----CT
*
177673 TTGTGGCACTCTCTT
61 TT-T-TC-C-CT-TT
* * *
177688 TCCCTTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCAC
1 T--C-----AAAGTCCACAACTCCGTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
177753 TCTTTTTCCCTTT
58 TCTTTTTCCCTTT
*
177766 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
177831 CCTTT
66 CCTTT
177836 T--AAGTCCACAACTCCGTGGCATCTTTTTT
1 TCAAAGTCCACAACTCCGTGGCA-CTTTTTT
177865 TCCTTCCCAA
Statistics
Matches: 518, Mismatches: 39, Indels: 82
0.81 0.06 0.13
Matches are distributed among these distances:
61 1 0.00
62 59 0.11
65 18 0.03
67 5 0.01
68 79 0.15
69 21 0.04
70 155 0.30
71 62 0.12
72 5 0.01
73 36 0.07
74 2 0.00
75 4 0.01
76 2 0.00
78 4 0.01
79 4 0.01
80 4 0.01
81 1 0.00
82 2 0.00
83 4 0.01
87 21 0.04
88 29 0.06
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (70 bp):
TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CCTTT
Found at i:177909 original size:32 final size:32
Alignment explanation
Indices: 177871--177962 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 32
177861 TTTTTCCTTC
177871 CCAAAGCCCACACAAGTCGGTGGCAAC-TCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
177902 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAA-CTTCTT
177936 CCAAAGCCCACACAAGTCGGTGGCAAC
1 CCAAAGCCCACACAAGTCGGTGGCAAC
177963 CCCTCTAAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
31 2 0.03
32 25 0.43
33 25 0.43
34 6 0.10
ACGTcount: A:0.29, C:0.36, G:0.20, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
Found at i:177947 original size:33 final size:32
Alignment explanation
Indices: 177871--177963 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
177861 TTTTTCCTTC
177871 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
177902 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
177936 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
177964 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:178086 original size:49 final size:49
Alignment explanation
Indices: 177975--179019 Score: 1364
Period size: 49 Copynumber: 21.5 Consensus size: 49
177965 CTCTAAGCCA
*
177975 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* * *
178027 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
178076 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* *
178128 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
178177 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* *
178229 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * * *
178278 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
178327 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
178376 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
178425 AATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
178468 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
178517 AATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
178560 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* *
178612 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * * *
178661 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
178710 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
178759 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
178808 AATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
178851 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
178900 AATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
178943 AATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCC
*
178995 AATGTAGCTGGCCTTGAATCAGCAC
1 AATATAGCTGGCCTTGAATCAGCAC
179020 GTTGACATCC
Statistics
Matches: 874, Mismatches: 83, Indels: 72
0.85 0.08 0.07
Matches are distributed among these distances:
43 156 0.18
45 4 0.00
47 2 0.00
49 507 0.58
50 10 0.01
51 4 0.00
52 191 0.22
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
Found at i:178484 original size:92 final size:92
Alignment explanation
Indices: 178366--179019 Score: 1065
Period size: 92 Copynumber: 6.9 Consensus size: 92
178356 GCACCTTCAT
178366 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
178431 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
178458 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
178523 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
* *
178550 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAAT
178615 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTC
63 GTAGCTGGCCTTGACTCAGCACATTGGCA----C
*
178649 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
178714 TAGCTGGCCTTGACTCAGCACATTGGCACCTTC
64 TAGCTGGCCTTGACTCAGCACATTGGCA----C
178747 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
178812 TAGCTGGCCTTGACTCAGCACATTGGCAC
64 TAGCTGGCCTTGACTCAGCACATTGGCAC
178841 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
178906 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
* * *
178933 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
*
178998 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGACTCAGCAC
179020 GTTGACATCC
Statistics
Matches: 538, Mismatches: 12, Indels: 21
0.94 0.02 0.04
Matches are distributed among these distances:
92 262 0.49
94 9 0.02
95 81 0.15
98 141 0.26
99 4 0.01
101 41 0.08
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCAC
Found at i:178828 original size:383 final size:383
Alignment explanation
Indices: 177975--179085 Score: 1864
Period size: 383 Copynumber: 2.8 Consensus size: 383
177965 CTCTAAGCCA
* *
177975 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
* *
178040 TTGACTCAGCACATTGGCACCTTCATCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTG
63 TTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
* *
178105 GCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
122 GCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
178170 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
178 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
178235 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
243 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
178300 CATATTGGCATCTTCATCTTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
308 CATATTGGCATCTTCATCTTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
178365 TCTTTAAGTCC
373 TCTTTAAGTCC
178376 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
178441 ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
66 ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
178506 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
131 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
178571 CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
196 CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
178636 CATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
261 CATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
178701 TTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
326 TTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
178759 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
178824 ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
66 ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
178889 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
131 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
* * *
178954 CCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
196 CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
* * * * *
179019 CGTTGACATCCTTTTTCTCATCTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGGCAT
261 CATTGGCA-CC----T-TCATCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCAT
179083 CTT
319 CTT
179086 TATCACTTTT
Statistics
Matches: 689, Mismatches: 14, Indels: 26
0.95 0.02 0.04
Matches are distributed among these distances:
383 472 0.69
384 2 0.00
385 1 0.00
388 3 0.00
389 88 0.13
390 3 0.00
392 40 0.06
394 1 0.00
398 45 0.07
399 3 0.00
401 31 0.04
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (383 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
CATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
TTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
Found at i:179935 original size:33 final size:33
Alignment explanation
Indices: 179898--179964 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
179888 TTCAACGATT
179898 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
179931 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
179964 T
1 T
179965 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:179936 original size:13 final size:13
Alignment explanation
Indices: 179918--179942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179908 CATAAAATGT
179918 TGTATCGATACAA
1 TGTATCGATACAA
179931 TGTATCGATACA
1 TGTATCGATACA
179943 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:180026 original size:13 final size:13
Alignment explanation
Indices: 180008--180032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179998 ATTACTCACA
180008 TGTATCGATACAT
1 TGTATCGATACAT
180021 TGTATCGATACA
1 TGTATCGATACA
180033 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:180169 original size:52 final size:52
Alignment explanation
Indices: 180041--180161 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
180031 CACTGATCTT
*
180041 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
180093 TGTATCGATACATGCCGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
180145 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
180162 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:187360 original size:16 final size:16
Alignment explanation
Indices: 187330--187360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
187320 TTCTTTTCCA
*
187330 AAAAAAGAAACAAAAC
1 AAAAAAGAAAAAAAAC
187346 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
187361 AGAGAGGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAC
Found at i:188305 original size:1 final size:1
Alignment explanation
Indices: 188301--188325 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
188291 CTTTTTTTTT
188301 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
188326 GTCCACGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:188361 original size:31 final size:30
Alignment explanation
Indices: 188323--188437 Score: 151
Period size: 30 Copynumber: 3.7 Consensus size: 30
188313 AAAAAAAAAA
*
188323 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGCTC
* *
188354 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATC-TTTGC-TC
*
188386 AAAGTCCACAACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTG-CTC
188416 AAAGTCCACGACTCAGTGGCAT
1 AAAGTCCACGACTCAGTGGCAT
188438 TTTTTCTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
30 28 0.38
31 24 0.32
32 22 0.30
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTGCTC
Found at i:188432 original size:62 final size:60
Alignment explanation
Indices: 188323--188472 Score: 210
Period size: 62 Copynumber: 2.4 Consensus size: 60
188313 AAAAAAAAAA
* *
188323 AAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACAACTCAGTGGC-AT-TTTGCTCAAAGTCCACGACTCAGTGGCAT-TTTTTCTTT
188386 AAAGTCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACAACTCAGTGGCATTTTG-CTCAAAGTCCACGACTCAGTGGCATTTTTTCTTT
* * *
188447 AAAGCCCACAATTCCGTGGCACTTTT
1 AAAGTCCACAACTCAGTGGCA-TTTT
188473 TTCATCTTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
61 30 0.38
62 31 0.39
63 19 0.24
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (60 bp):
AAAGTCCACAACTCAGTGGCATTTTGCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTT
Found at i:188497 original size:34 final size:32
Alignment explanation
Indices: 188359--189079 Score: 483
Period size: 34 Copynumber: 21.7 Consensus size: 32
188349 TGCTCAAAGT
* * * *
188359 CCACGACTCAGTGGCA-TCTTTTTCTTTAAAGT
1 CCACAACTCCGTGGCACT-TTTTTCTTTTAAGC
* * ** *
188391 CCACAACTCAGTGGCA-TTTTGTC-TCAAAGT
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* * *
188421 CCACGACTCAGTGGCA-TTTTTTCTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
188452 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-T-TTTAAGC
*
188486 CCACAACTCCGTGGCAC-----CCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* *
188514 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-T-TTTAAGC
*
188548 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCT-TTT-AAGC
188582 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTT--CTTTT--AAGC
188619 CCACAACTCCGTGGCACTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
*
188652 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTT--CTTTTAAGC
**
188687 CCACAACTCCGTGGCATCTTTCTCCCTTCTTAAAGCC
1 CCACAACTCCGTGGCA-CTTT-TTTCTT-TT-AAG-C
* * * *
188724 CACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGC
1 C-CACAACTCCGTGGC-ACTTTTTTCTTTT--AAGC
* *
188760 CCACAACTCCGTGGCACCTTCTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
**
188793 CCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGC
1 CCACAACTCCGTGGCA--CTTTTTT-CTTTT--AAGC
*
188830 CCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* * ****
188863 CCACAACTCTGTGGCACCTACGACTTTGT--G-
1 CCACAACTCCGTGGCACTTTTTTCTTT-TAAGC
* * ** * *
188893 GCAC-TCT-C-TTTC-C---CTT-TTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
188917 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGC
1 CCACAACTCCGTGGCA-CTTTTTTC-TTTTAAGC
188951 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTT--CTTTT--AAGC
188988 CCACAACTCCGTGGCACTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
*
189021 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTT--CTTTTAAGC
189056 CCACAACTCCGTGGCATCTTTTTT
1 CCACAACTCCGTGGCA-CTTTTTT
189080 TCCTTCCCAA
Statistics
Matches: 569, Mismatches: 65, Indels: 107
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 2 0.00
24 3 0.01
25 2 0.00
26 2 0.00
27 7 0.01
28 20 0.04
29 4 0.01
30 30 0.05
31 24 0.04
32 24 0.04
33 100 0.18
34 135 0.24
35 81 0.14
36 41 0.07
37 74 0.13
38 15 0.03
39 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.34
Consensus pattern (32 bp):
CCACAACTCCGTGGCACTTTTTTCTTTTAAGC
Found at i:188570 original size:96 final size:94
Alignment explanation
Indices: 188359--189078 Score: 428
Period size: 105 Copynumber: 7.2 Consensus size: 94
188349 TGCTCAAAGT
* * * * * ** *
188359 CCACGACTCAGTGGCATCTTTTTCT-TTAAAGTCCACAACTCAGTGGCA-TTTTGTCTCAAAGTC
1 CCACAACTCCGTGGCACCTTTTTCTCTTTAAGTCCACAACTCCGTGGCACCCTT-T-TCAAAGCC
* * *
188422 CACGACTCAGTGGCA-TTTTTTCTTTAAAGC
64 CACAACTCCGTGGCACTTTTTTCTTTTAAGC
* *
188452 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAAGCCC
1 CCACAACTCCGTGGCACCTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCTTTTCAAAGCCC
* *
188516 ACAATTCCGTGGCACTTTTTTCATCTTTAAGT
65 ACAACTCCGTGGCACTTTTTTC-T-TTTAAGC
* *
188548 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCTCTTT-AAGTCCACAACTCCGTGGCA--------CCCTTTT
188613 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGC
57 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
*
188652 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCT
1 CCACAACTCCGTGGCAC-CTTTTTCTC-TTTAAGTCCACAACTCCGTGGCA-------CCCTT-T
* * * *
188717 T-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGC
56 TCAAAG-CC-CACAACTCCGTGGC-ACTTTTTTCTTTT--AAGC
* * **
188760 CCACAACTCCGTGGCACCTTCTTCT-TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCTCTTT-AAGTCCACAACTCCGTGGCA--C------CCTTTT
*
188824 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
57 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT-AAGC
* * * ** ** ** *
188863 CCACAACTCTGTGGCACC---TACGACTTT--GT-GGC-ACTCTC-T--TTCCCTTTTTTAAGTC
1 CCACAACTCCGTGGCACCTTTTTC-TCTTTAAGTCCACAACTC-CGTGGCACCCTTTTCAAAGCC
* *
188918 CACAACTCCGTGGCACCTTTTTCCGTTTAAAGC
64 CACAACTCCGTGGCA-CTTTTTTC-TTTTAAGC
* * **
188951 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 CCACAACTCCGTGGCAC-CTTTTTCTC-TTT--AAGTCCACAACTCCGTGGCACCCTTTTC----
*
189016 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
58 AAAGCCCACAACTCCGTGGCACT-TTTTT--CTTTTAAGC
*
189056 CCACAACTCCGTGGCATCTTTTT
1 CCACAACTCCGTGGCACCTTTTT
189079 TTCCTTCCCA
Statistics
Matches: 499, Mismatches: 70, Indels: 105
0.74 0.10 0.16
Matches are distributed among these distances:
87 25 0.05
88 26 0.05
89 4 0.01
91 1 0.00
92 5 0.01
93 37 0.07
94 9 0.02
95 27 0.05
96 49 0.10
97 6 0.01
98 6 0.01
99 1 0.00
100 7 0.01
101 3 0.01
102 3 0.01
103 27 0.05
104 84 0.17
105 95 0.19
106 37 0.07
107 25 0.05
108 22 0.04
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.34
Consensus pattern (94 bp):
CCACAACTCCGTGGCACCTTTTTCTCTTTAAGTCCACAACTCCGTGGCACCCTTTTCAAAGCCCA
CAACTCCGTGGCACTTTTTTCTTTTAAGC
Found at i:188655 original size:70 final size:70
Alignment explanation
Indices: 188414--189079 Score: 674
Period size: 70 Copynumber: 9.4 Consensus size: 70
188404 GCATTTTGTC
* * *
188414 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAATTCCGTGGCACT-TTTTT-
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
188475 CATCTT
66 CCT-TT
* *
188481 T--AAGTCCACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCCGTGGCACT-TTTTT-
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
188537 CATCTT
66 CCT-TT
*
188543 T--AAGTCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
188606 CCCTTT
65 CCCTTT
*
188612 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
188677 CCTTT
66 CCTTT
** * *
188682 T--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCTTAAAGCCCACACAAGTCGGTGGCAAC-C
1 TCAAAGTCCACAACTCCGTGGCA-CTTT-TTTCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTC
*
188744 TTCTT--CTTT
60 TTTTTCCCTTT
* * * ** *
188753 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
188818 CCTTT
66 CCTTT
* * *
188823 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACGACT
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCA-CT----CT
*
188888 TTGTGGCACTCTCTT
61 TT-T-TC-C-CT-TT
* * *
188903 TCCCTTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCAC
1 T--C-----AAAGTCCACAACTCCGTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
188968 TCTTTTTCCCTTT
58 TCTTTTTCCCTTT
*
188981 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
189046 CCTTT
66 CCTTT
189051 T--AAGTCCACAACTCCGTGGCATCTTTTTT
1 TCAAAGTCCACAACTCCGTGGCA-CTTTTTT
189080 TCCTTCCCAA
Statistics
Matches: 518, Mismatches: 39, Indels: 82
0.81 0.06 0.13
Matches are distributed among these distances:
61 1 0.00
62 59 0.11
65 18 0.03
67 5 0.01
68 79 0.15
69 21 0.04
70 155 0.30
71 62 0.12
72 5 0.01
73 36 0.07
74 2 0.00
75 4 0.01
76 2 0.00
78 4 0.01
79 4 0.01
80 4 0.01
81 1 0.00
82 2 0.00
83 4 0.01
87 21 0.04
88 29 0.06
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (70 bp):
TCAAAGTCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CCTTT
Found at i:189124 original size:32 final size:32
Alignment explanation
Indices: 189086--189177 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 32
189076 TTTTTCCTTC
189086 CCAAAGCCCACACAAGTCGGTGGCAAC-TCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
189117 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAA-CTTCTT
189151 CCAAAGCCCACACAAGTCGGTGGCAAC
1 CCAAAGCCCACACAAGTCGGTGGCAAC
189178 CCCTCTAAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
31 2 0.03
32 25 0.43
33 25 0.43
34 6 0.10
ACGTcount: A:0.29, C:0.36, G:0.20, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
Found at i:189162 original size:33 final size:32
Alignment explanation
Indices: 189086--189178 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
189076 TTTTTCCTTC
189086 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
189117 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
189151 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
189179 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:189301 original size:49 final size:49
Alignment explanation
Indices: 189190--190234 Score: 1364
Period size: 49 Copynumber: 21.5 Consensus size: 49
189180 CTCTAAGCCA
*
189190 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* * *
189242 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
189291 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* *
189343 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
189392 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* *
189444 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * * *
189493 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
189542 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
189591 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
189640 AATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
189683 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
189732 AATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
189775 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCC
* *
189827 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * * *
189876 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
189925 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
189974 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
190023 AATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
190066 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
190115 AATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
190158 AATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCC
*
190210 AATGTAGCTGGCCTTGAATCAGCAC
1 AATATAGCTGGCCTTGAATCAGCAC
190235 GTTGACATCC
Statistics
Matches: 874, Mismatches: 83, Indels: 72
0.85 0.08 0.07
Matches are distributed among these distances:
43 156 0.18
45 4 0.00
47 2 0.00
49 507 0.58
50 10 0.01
51 4 0.00
52 191 0.22
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
Found at i:189699 original size:92 final size:92
Alignment explanation
Indices: 189581--190234 Score: 1065
Period size: 92 Copynumber: 6.9 Consensus size: 92
189571 GCACCTTCAT
189581 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
189646 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
189673 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
189738 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
* *
189765 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAAT
189830 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTC
63 GTAGCTGGCCTTGACTCAGCACATTGGCA----C
*
189864 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
189929 TAGCTGGCCTTGACTCAGCACATTGGCACCTTC
64 TAGCTGGCCTTGACTCAGCACATTGGCA----C
189962 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
190027 TAGCTGGCCTTGACTCAGCACATTGGCAC
64 TAGCTGGCCTTGACTCAGCACATTGGCAC
190056 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
190121 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
* * *
190148 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
*
190213 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGACTCAGCAC
190235 GTTGACATCC
Statistics
Matches: 538, Mismatches: 12, Indels: 21
0.94 0.02 0.04
Matches are distributed among these distances:
92 262 0.49
94 9 0.02
95 81 0.15
98 141 0.26
99 4 0.01
101 41 0.08
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCAC
Found at i:190043 original size:383 final size:383
Alignment explanation
Indices: 189190--190300 Score: 1864
Period size: 383 Copynumber: 2.8 Consensus size: 383
189180 CTCTAAGCCA
* *
189190 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
* *
189255 TTGACTCAGCACATTGGCACCTTCATCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTG
63 TTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
* *
189320 GCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
122 GCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
189385 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
178 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
189450 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
243 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
189515 CATATTGGCATCTTCATCTTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
308 CATATTGGCATCTTCATCTTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
189580 TCTTTAAGTCC
373 TCTTTAAGTCC
189591 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
189656 ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
66 ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
189721 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
131 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
189786 CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
196 CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
189851 CATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
261 CATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
189916 TTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
326 TTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
189974 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
190039 ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
66 ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
190104 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
131 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
* * *
190169 CCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
196 CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
* * * * *
190234 CGTTGACATCCTTTTTCTCATCTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGGCAT
261 CATTGGCA-CC----T-TCATCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCAT
190298 CTT
319 CTT
190301 TATCACTTTT
Statistics
Matches: 689, Mismatches: 14, Indels: 26
0.95 0.02 0.04
Matches are distributed among these distances:
383 472 0.69
384 2 0.00
385 1 0.00
388 3 0.00
389 88 0.13
390 3 0.00
392 40 0.06
394 1 0.00
398 45 0.07
399 3 0.00
401 31 0.04
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (383 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
ACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
CATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
TTCAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
Found at i:191150 original size:33 final size:33
Alignment explanation
Indices: 191113--191179 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
191103 TTCAACGATT
191113 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
191146 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
191179 T
1 T
191180 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:191151 original size:13 final size:13
Alignment explanation
Indices: 191133--191157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
191123 CATAAAATGT
191133 TGTATCGATACAA
1 TGTATCGATACAA
191146 TGTATCGATACA
1 TGTATCGATACA
191158 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:191241 original size:13 final size:13
Alignment explanation
Indices: 191223--191247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
191213 ATTACTCACA
191223 TGTATCGATACAT
1 TGTATCGATACAT
191236 TGTATCGATACA
1 TGTATCGATACA
191248 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:191384 original size:52 final size:52
Alignment explanation
Indices: 191256--191376 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
191246 CACTGATCTT
*
191256 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
191308 TGTATCGATACATGCCGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
191360 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
191377 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:194639 original size:13 final size:13
Alignment explanation
Indices: 194621--194646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
194611 ACATAAGTTT
194621 TGTATCGATACAA
1 TGTATCGATACAA
194634 TGTATCGATACAA
1 TGTATCGATACAA
194647 AATTACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:200453 original size:18 final size:18
Alignment explanation
Indices: 200414--200454 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
200404 ATCAATATTG
* * *
200414 ATATTACCACCAAAGTTC
1 ATATTAACACCAAAGATA
200432 ATATTAACACCAAAGATA
1 ATATTAACACCAAAGATA
200450 ATATT
1 ATATT
200455 CGTATTAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (18 bp):
ATATTAACACCAAAGATA
Found at i:318394 original size:20 final size:20
Alignment explanation
Indices: 318369--318406 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
318359 TTTTACAAAT
*
318369 TTCATTTTACTTCAAAATAC
1 TTCATTTTACATCAAAATAC
*
318389 TTCATTTTTCATCAAAAT
1 TTCATTTTACATCAAAAT
318407 CACCAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCATTTTACATCAAAATAC
Found at i:320858 original size:20 final size:19
Alignment explanation
Indices: 320812--320868 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
320802 TTGTATCGAT
* *
320812 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
*
320831 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
320850 ACAATTGTAGCGATACATG
1 AC-ATTGTATCGATACATG
320869 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:322372 original size:157 final size:157
Alignment explanation
Indices: 322052--322517 Score: 451
Period size: 157 Copynumber: 3.0 Consensus size: 157
322042 AAAAATGGAG
* * * * *
322052 TTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTGAA
1 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCTCCAATGGTGAAAAATC-ATGTTTTAG
* * * *
322117 AAATAAAATCGAGTTTAGAGCATCCCCTCAAAAATAACGTAGTTGAAGTATCCCTGATTGTGAGA
65 AAATAAAATCGAGGTTAGAGCATCCCCTCAAAAATAACGGAGTTGAAGTATCCCTGATTATGAAA
* *
322182 AATCGATGTTTTAGAAATAAAACCAGGG
130 AATCGATGTTTTAGAAATAAAACCAAGA
* * * *
322210 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCTCCGATTGTGGAAAATTATTGTTTTAG
1 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCTCCAATGGTGAAAAATCA-TGTTTTAG
* * * **
322275 AAATCAAA-CTG-GGTTGGAGTATTGCCTCAAAAATAACAGGA-TTGGAA-TAT-CCTCGATTAT
65 AAATAAAATC-GAGGTTAGAGCATCCCCTCAAAAATAAC-GGAGTT-GAAGTATCCCT-GATTAT
*
322335 GAAAAATCGATGTTTTAGAAATAAAATCAAGA
126 GAAAAATCGATGTTTTAGAAATAAAACCAAGA
* * *
322367 TTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCTCCAATGGTGAAAAATCAGTGTTTT-G
1 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCTCCAATGGTGAAAAATCA-TGTTTTAG
* * * * * * ** * * * * ** *
322431 AAAATAAAACCAAGATTGGAGTATCTCCTTGAAAATAATGGGGTTGGAGTATCCC-AATGGTGGA
65 -AAATAAAATCGAGGTTAGAGCATCCCCTCAAAAATAACGGAGTTGAAGTATCCCTGATTATGAA
*
322495 AAATCGATATTTTAGAAATAAAA
129 AAATCGATGTTTTAGAAATAAAA
322518 ACATCATTGA
Statistics
Matches: 253, Mismatches: 44, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
156 4 0.02
157 154 0.61
158 93 0.37
159 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (157 bp):
TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCTCCAATGGTGAAAAATCATGTTTTAGA
AATAAAATCGAGGTTAGAGCATCCCCTCAAAAATAACGGAGTTGAAGTATCCCTGATTATGAAAA
ATCGATGTTTTAGAAATAAAACCAAGA
Found at i:322438 original size:236 final size:235
Alignment explanation
Indices: 322051--322498 Score: 526
Period size: 236 Copynumber: 1.9 Consensus size: 235
322041 TAAAAATGGA
* * * *
322051 GTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTGA
1 GTTGGAGTATCCCCTCAAAAATAACAGGATTAGAATATCCCCAATGATGAAAAATCGATGTTTGA
* * * * * *
322116 AAAATAAAATCGAGTTTAGAGCATCCCCTCAAAAATAACGTAGTTGAAGTATCCCTGATTGTGAG
66 AAAATAAAATCAAGATTAGAGCATCCCCTCAAAAATAACGGAGTTGAAGTATCCCTAATGGTGAA
* *
322181 AAATCGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGT
131 AAATCGATGTTTTAGAAATAAAACCAAGATTGGAGTATCCCCT-AGAAAATAACGGGGTTGGAGT
* *
322245 ATCTCCGATTGTGGAAAATTATTGTTTTAGAAATCAAACTGG
195 ATC-CCAATGGTGGAAAATTATTGTTTTAGAAATCAAACTGG
** * * * * *
322287 GTTGGAGTATTGCCTCAAAAATAACAGGATTGGAATATCCTCGATTATGAAAAATCGATGTTTTA
1 GTTGGAGTATCCCCTCAAAAATAACAGGATTAGAATATCCCCAATGATGAAAAATCGATGTTTGA
* * * * ** * * *
322352 GAAATAAAATCAAGATTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCTCC-AATGGTGA
66 AAAATAAAATCAAGATTAGAGCATCCCCTCAAAAATAACGGAGTTGAAGTATC-CCTAATGGTGA
* * *
322416 AAAATC-AGTGTTTT-GAAAATAAAACCAAGATTGGAGTATCTCCTTGAAAATAATGGGGTTGGA
130 AAAATCGA-TGTTTTAG-AAATAAAACCAAGATTGGAGTATCCCCTAGAAAATAACGGGGTTGGA
322479 GTATCCCAATGGTGGAAAAT
193 GTATCCCAATGGTGGAAAAT
322499 CGATATTTTA
Statistics
Matches: 175, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
235 16 0.09
236 157 0.90
237 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (235 bp):
GTTGGAGTATCCCCTCAAAAATAACAGGATTAGAATATCCCCAATGATGAAAAATCGATGTTTGA
AAAATAAAATCAAGATTAGAGCATCCCCTCAAAAATAACGGAGTTGAAGTATCCCTAATGGTGAA
AAATCGATGTTTTAGAAATAAAACCAAGATTGGAGTATCCCCTAGAAAATAACGGGGTTGGAGTA
TCCCAATGGTGGAAAATTATTGTTTTAGAAATCAAACTGG
Found at i:322519 original size:79 final size:78
Alignment explanation
Indices: 322052--322517 Score: 429
Period size: 79 Copynumber: 5.9 Consensus size: 78
322042 AAAAATGGAG
* * * *
322052 TTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCAATGGTGAAAAATCGATGTTTGAA
1 TTGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTAT-CCCAATGGTGAAAAATCGATGTTTTAG
* * *
322117 AAATAAAATCGAGT
65 AAATAAAACCAAGA
* * * ** * * * *
322131 TTAGAGCATCCCCTCAAAAATAACGTAGTTGAAGTATCCCTGATTGTGAGAAATCGATGTTTTAG
1 TTGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCCC-AATGGTGAAAAATCGATGTTTTAG
* *
322196 AAATAAAACCAGGG
65 AAATAAAACCAAGA
* * * * * *
322210 TTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCTCCGATTGTGGAAAAT-TATTGTTTTA
1 TTGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTATC-CCAATGGTGAAAAATCGA-TGTTTTA
* ** *
322274 GAAATCAAA-CTGGG
64 GAAATAAAACCAAGA
* * * * **
322288 TTGGAGTAT-TGCCTCAAAAATAACAGGATTGGAATATCCTCGATTATGAAAAATCGATGTTTTA
1 TTGGAGTATCT-CCTCAAAAATAACGGGGTTGGAGTATCC-CAATGGTGAAAAATCGATGTTTTA
*
322352 GAAATAAAATCAAGA
64 GAAATAAAACCAAGA
** *
322367 TTGGAGTATCTCCTCGGAAATAATGGGGTTGGAGTATCTCCAATGGTGAAAAATC-AGTGTTTT-
1 TTGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTATC-CCAATGGTGAAAAATCGA-TGTTTTA
322430 GAAAATAAAACCAAGA
64 G-AAATAAAACCAAGA
** * * *
322446 TTGGAGTATCTCCTTGAAAATAATGGGGTTGGAGTATCCCAATGGTGGAAAATCGATATTTTAGA
1 TTGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCCCAATGGTGAAAAATCGATGTTTTAGA
322511 AATAAAA
66 AATAAAA
322518 ACATCATTGA
Statistics
Matches: 322, Mismatches: 52, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
77 1 0.00
78 97 0.30
79 220 0.68
80 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (78 bp):
TTGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCCCAATGGTGAAAAATCGATGTTTTAGA
AATAAAACCAAGA
Found at i:323794 original size:15 final size:15
Alignment explanation
Indices: 323766--323802 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
323756 CATTTTTATG
*
323766 GAAAG-AAAATATAA
1 GAAAGAAAAAAATAA
323780 GAAAGAAAAAAATAA
1 GAAAGAAAAAAATAA
323795 GAAA-AAAA
1 GAAAGAAAA
323803 TGCATGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
GAAAGAAAAAAATAA
Found at i:325495 original size:97 final size:97
Alignment explanation
Indices: 325384--325569 Score: 248
Period size: 97 Copynumber: 1.9 Consensus size: 97
325374 AAATATCCTC
* * ** * ** *
325384 TCAGAGGAATGGGGTTGGAGTGTCC-CTAATGATGACAATTTAGGTGAAAATAAGATTTAAATCT
1 TCAGAAGAATGGGGTTGGAGTATCCTC-AACAATGACAATTTAAGCAAAAATAAGATTTAAATAT
* *
325448 TGATAAGTTTAAAAGCAAGGTTGGAATGCCCCT
65 TGACAAGTTTAAAAACAAGGTTGGAATGCCCCT
*
325481 TCAGAAGAATGGGGTTGGAGTATCCTCAACAATGATAATTTAAGCAAAAATAAGATTTAAATATT
1 TCAGAAGAATGGGGTTGGAGTATCCTCAACAATGACAATTTAAGCAAAAATAAGATTTAAATATT
*
325546 GACAAGTTTAAAAATAAGGTTGGA
66 GACAAGTTTAAAAACAAGGTTGGA
325570 GTATCTCCTC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
97 75 0.99
98 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (97 bp):
TCAGAAGAATGGGGTTGGAGTATCCTCAACAATGACAATTTAAGCAAAAATAAGATTTAAATATT
GACAAGTTTAAAAACAAGGTTGGAATGCCCCT
Found at i:333061 original size:39 final size:39
Alignment explanation
Indices: 332998--333158 Score: 115
Period size: 39 Copynumber: 3.9 Consensus size: 39
332988 AAAGATGAAA
* *
332998 GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
333037 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* ** * * *
333076 AGGAACAAAGAGCCAATATGCTGATTCAAGGCTGGCGATATTAGGCTC
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
333124 GTGCTAATGTGTTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
333159 TCTTAAAGAT
Statistics
Matches: 91, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
39 61 0.67
48 30 0.33
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:333133 original size:87 final size:87
Alignment explanation
Indices: 332950--333164 Score: 268
Period size: 87 Copynumber: 2.5 Consensus size: 87
332940 ATGTTAAAGA
* * ** * ** * *
332950 TGCCAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAAGTGCTAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AAGAACAAAGAGCCAATATGCTGATT
* *
333015 CAAGGCCAGCGATATTGGGCTTG
65 CAAGGCCAGCGATATTAGGCTCG
*
333038 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAGGAACAAAGAGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGAACAAAGAGCCAATATGCTGATTC
**
333103 AAGGCTGGCGATATTAGGCTCG
66 AAGGCCAGCGATATTAGGCTCG
* * *
333125 TGCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAA
333165 AGATGGTTAA
Statistics
Matches: 109, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
87 76 0.70
88 33 0.30
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGAACAAAGAGCCAATATGCTGATTC
AAGGCCAGCGATATTAGGCTCG
Found at i:333205 original size:139 final size:135
Alignment explanation
Indices: 333037--333335 Score: 402
Period size: 139 Copynumber: 2.2 Consensus size: 135
333027 TATTGGGCTT
* *
333037 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AGGAACAAAGAGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGAACAAAGAGCC-ATATGCTGAT
* * * * *
333101 TCAAGGCTGGCGATATTAGGCTCGTGCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAA
65 TCAAGGCTAGCAATATTAGGCTCGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA
*
333166 GATGGTTAAG
129 -A-GG-CAAG
* ** * *
333176 GTGCCAATGTGCTGATTCAAGGCCCACGACATCGGTCTTAAAGATGAAGGTGCCATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGAACAAAGAGCCATATGCTGATT
* *
333241 CAAGGCTAGCAATATTGGGCTTGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
66 CAAGGCTAGCAATATTAGGCTCGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
333306 GCAAG
131 GCAAG
*
333311 GTGCCAATATGCTGATTCAAGGCCA
1 GTGCCAATGTGCTGATTCAAGGCCA
333336 GCGATATTTG
Statistics
Matches: 142, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
135 26 0.18
136 2 0.01
137 1 0.01
138 2 0.01
139 102 0.72
140 9 0.06
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (135 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGAACAAAGAGCCATATGCTGATT
CAAGGCTAGCAATATTAGGCTCGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
GCAAG
Found at i:333207 original size:52 final size:50
Alignment explanation
Indices: 333124--333513 Score: 195
Period size: 48 Copynumber: 8.6 Consensus size: 50
333114 TATTAGGCTC
* * *
333124 GTGCTAATGTGTTGATTCAAGG-CCAGCGACATTGGTCTTAAAGATGGTTAAG
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGACATCGGTCTTAAAGAT-G--AAG
333176 GTGCCAATGTGCTGATTCAAGGCCCA-CGACATCGGTCTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGACATCGGTCTTAAAGATGAAG
* * * * * *
333225 GTGCC-ATATGCTGATTCAAGG-CTAGCAATATTGGGCTT---G-T--A-
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGACATCGGTCTTAAAGATGAAG
*
333266 ---CCAATGTGCTGATTCAAGG-CCAGCGACATTGGTCTTAAAG--GCAAG
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGACATCGGTCTTAAAGATG-AAG
* * *
333311 GTGCCAATATGCTGATTCAAGG-CCAGCGATATTTGG-C-T-----T--A-
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGACA-TCGGTCTTAAAGATGAAG
* * *
333351 -TGCCAATGTGCTGATTCAAGG-CTAGCGACATTGGTCTTAGAGAT-AAG
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGACATCGGTCTTAAAGATGAAG
* * * *
333398 GTGCCAATATGCTGATTCAAGG-CCAGCGATATTGGGC-T-----T--A-
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGACATCGGTCTTAAAGATGAAG
* * * *
333438 -TGCCAATGTGCTGATTCAAGG-CTAGCGACATTGGTCTTAGAGA-CAAG
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGACATCGGTCTTAAAGATGAAG
*
333485 GTGCCAATATGCTGATTCAAGG-CCAGCGA
1 GTGCCAATGTGCTGATTCAAGGCCCAGCGA
333514 TATTGGGCTT
Statistics
Matches: 274, Mismatches: 29, Indels: 74
0.73 0.08 0.20
Matches are distributed among these distances:
38 6 0.02
39 88 0.32
40 2 0.01
41 2 0.01
42 3 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 4 0.01
48 109 0.40
49 12 0.04
51 1 0.00
52 38 0.14
53 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (50 bp):
GTGCCAATGTGCTGATTCAAGGCCCAGCGACATCGGTCTTAAAGATGAAG
Found at i:333283 original size:87 final size:87
Alignment explanation
Indices: 333177--333780 Score: 897
Period size: 87 Copynumber: 6.9 Consensus size: 87
333167 ATGGTTAAGG
* * *
333177 TGCCAATGTGCTGATTCAAGGCCCA-CGACATCGGTCTTAAAGATGAAGGTGCC-ATATGCTGAT
1 TGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGAT
* * *
333240 TCAAGGCTAGCAATATTGGGCTTG
64 TCAAGGCCAGCGATATTGGGCTTA
* * *
333264 TACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
*
333329 AAGGCCAGCGATATTTGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* *
333351 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAGAGATAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
333416 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
*
333438 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
333503 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * *
333525 TGCCAATGTGTTGATTCAAGGTCAGCGTCATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
* *
333590 GAGGCCAGTGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * *
333612 TGCCAATGTGTTGATTCAAGGTCAGCGACATTTGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
* * *
333677 AAGACCAGCGATATTAGGCTTG
66 AAGGCCAGCGATATTGGGCTTA
** ** * * *
333699 CACCAATGTATTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAGGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
333764 AAGGCCAGCGATATTGG
66 AAGGCCAGCGATATTGG
333781 ACTCAAGATG
Statistics
Matches: 477, Mismatches: 38, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
86 11 0.02
87 466 0.98
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:333297 original size:39 final size:39
Alignment explanation
Indices: 333225--333643 Score: 228
Period size: 39 Copynumber: 9.8 Consensus size: 39
333215 AAAGATGAAG
* * * *
333225 GTGCC-ATATGCTGATTCAAGGCTAGCAATATTGGGCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
333263 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
333302 AAAGGCAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTTGGCTT
1 ---------GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
333350 ATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAGAGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC-T-----T
* *
333395 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
333437 ATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
333476 AGAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * * * *
333524 ATGCCAATGTGTTGATTCAAGGTCAGCGTCATTGGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * * *
333563 AGAGACAAGGTGCCAATATGCTGATTCGAGGCCAGTGATATTGGGCTT
1 ---------GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
333611 ATGCCAATGTGTTGATTCAAGGTCAGCGACATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATT
333644 TGTCTTAGAG
Statistics
Matches: 289, Mismatches: 55, Indels: 73
0.69 0.13 0.18
Matches are distributed among these distances:
38 4 0.01
39 151 0.52
40 1 0.00
42 1 0.00
45 1 0.00
47 1 0.00
48 130 0.45
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:333319 original size:226 final size:222
Alignment explanation
Indices: 332897--333422 Score: 678
Period size: 226 Copynumber: 2.3 Consensus size: 222
332887 TTGAAGAAGA
** * * * * *
332897 ATGCCAATGTGCTGAGACAAGGTCGGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-G-A-GAT-AAGGTGCCAATATGCT
* *
332962 GATTCAAGGCCAACGATATCAGACTTAAAGATGAAAGTGCTAATATGCTGATTCAAGGCCAGCGA
62 GATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCTAATATGCTGATTCAAGGCCAGCAA
*
333027 TATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAGGAACAAAGAGCCAA
127 TATTGGGCTTGTACCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAGG-ACAAAGAGCCAA
**
333092 TATGCTGATTCAAGGCTGGCGATATTAGGCTC
191 TATGCTGATTCAAGGCCAGCGATATTAGGCTC
* * * * *
333124 GTGCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGCT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AGA--GATAAGGTGCCAATATGCT
* * * * * *
333189 GATTCAAGGCCCACGACATCGGTCTTAAAGATGAAGGTGC-CATATGCTGATTCAAGGCTAGCAA
62 GATTCAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCTAATATGCTGATTCAAGGCCAGCAA
* * *
333253 TATTGGGCTTGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGG-CAAGGTGCCA
127 TATTGGGCTTGTACCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT--AGGACAAAGAGCCA
* *
333317 ATATGCTGATTCAAGGCCAGCGATATTTGGCTT
190 ATATGCTGATTCAAGGCCAGCGATATTAGGCTC
*
333350 ATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAGAGATAAGGTGCCAATATGCTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATAAGGTGCCAATATGCTGATT
333415 CAAGGCCA
66 CAAGGCCA
333423 GCGATATTGG
Statistics
Matches: 260, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
222 28 0.11
224 3 0.01
226 140 0.54
227 81 0.31
228 7 0.03
229 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (222 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATAAGGTGCCAATATGCTGATT
CAAGGCCAACGACATCAGACTTAAAGATGAAAGTGCTAATATGCTGATTCAAGGCCAGCAATATT
GGGCTTGTACCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAGGACAAAGAGCCAATATGC
TGATTCAAGGCCAGCGATATTAGGCTC
Found at i:333879 original size:34 final size:33
Alignment explanation
Indices: 333836--334375 Score: 537
Period size: 33 Copynumber: 16.8 Consensus size: 33
333826 TATTGGGCTT
* *
333836 AAAGGTGCCACAGAGTTGTGGACTTACAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
333868 AAAGGGATGCCACAGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * *
333904 AAAGGTGCCACGGAGTCGTAGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
333936 AAAGGTGCCACGGAGTCGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
333969 CAAGGTGCTAGGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * ** *
334002 ATAGATGCCACAAAGTTATGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
334032 ---GGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
334062 AAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * *
334098 AAGGGTGCCACGGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
334130 AAAGGTGCCACGGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
334163 CAAGGTGCCACGGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
334196 AAAGATGCCATGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
334226 ---GGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
334256 AAAGAGTGCCATGGAGTTGTGGGCTTTAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
334290 AAAGATGCCATGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
334320 ---GGTGCCACGGAGTTATGGACTTTGAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
334351 AAAGGTGCCACAGAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
334376 TGGGAAGAGA
Statistics
Matches: 421, Mismatches: 58, Indels: 57
0.79 0.11 0.11
Matches are distributed among these distances:
27 63 0.15
28 7 0.02
29 1 0.00
32 64 0.15
33 138 0.33
34 110 0.26
35 26 0.06
36 12 0.03
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:334048 original size:60 final size:60
Alignment explanation
Indices: 333902--334341 Score: 338
Period size: 60 Copynumber: 7.0 Consensus size: 60
333892 CTTAAAAGGG
* * * * * **
333902 AAAAAGGTGCCACGGAGTCGTAGACTTAAAAAG-AAAAGGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTATGGACTT
* * * **
333961 AAAAGGAACAAGGTGCTAGGGAGTTGTGGACTTAAAAGGAAATAGATGCCACAAAGTTATGGACT
1 AAAA-G-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTATGGACT
334026 T
60 T
* * *
334027 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGATGCCACGGAGGTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA--GATGCCACGGAGTTATGGACTT
* * *
334089 AAAAGGGAAAAGGGTGCCACGGAGTCGTGGACTTAAAAAG-AAAAGGTGCCACGGAGTTATGGAC
1 -------AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTATGGAC
334153 TT
59 TT
* * *
334155 AAAAGGAACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGACT
1 AAAA-G-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTATGGACT
334220 T
60 T
* * *
334221 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTATGGACTT
* *
334282 TAAAGGAAAAAGATGCCATGGAGTTGTGGACTTAAAAGG-----G-TGCCACGGAGTTATGGACT
1 AAAAGG-----G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTATGGACT
334341 T
60 T
334342 TGAAAGGAAA
Statistics
Matches: 312, Mismatches: 39, Indels: 59
0.76 0.10 0.14
Matches are distributed among these distances:
59 8 0.03
60 82 0.26
61 24 0.08
62 18 0.06
65 50 0.16
66 70 0.22
67 25 0.08
68 4 0.01
69 31 0.10
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTATGGACTT
Found at i:334085 original size:194 final size:194
Alignment explanation
Indices: 333839--334375 Score: 766
Period size: 194 Copynumber: 2.8 Consensus size: 194
333829 TGGGCTTAAA
* * *
333839 GGTGCCACAGAGTTGTGGACTTACAA-GAAAAAGGGATGCCACAGAGGTGTGGGCTTAAAAGGGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGA
* **
333903 AAAAGGTGCCACGGAGTCGTAGACTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGA
66 AAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
* * * *
333968 ACAAGGTGCTAGGGAGTTGTGGACTTAAAAGGAAATAGATGCCACAAAGTTATGGACTTAAAAG
131 ACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACAAAGTTATGGACTTAAAAG
334032 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGA
*
334097 AAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
66 AAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
*** *
334162 ACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCATGGAGTTGTGGACTTAAAAG
131 ACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACAAAGTTATGGACTTAAAAG
* * * *
334226 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAG-TGCCATGGAGTTGTGGGCTTTAAA-GGA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGA
* * * *
334289 AAAAGATGCCATGGAGTTGTGGACTT-AAAAG----GGTGCCACGGAGTTATGGACTTTGAAAGG
66 AAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTATGGAC-TTAAAAGG
* * **
334349 AAAAAGGTGCCACAGAGTCGTGGACTT
130 AACAAGGTGCCACGGAGTTATGGACTT
334376 TGGGAAGAGA
Statistics
Matches: 314, Mismatches: 28, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
187 20 0.06
188 30 0.10
191 5 0.02
192 25 0.08
193 45 0.14
194 189 0.60
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (194 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGGGA
AAAAGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTATGGACTTAAAAGGA
ACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACAAAGTTATGGACTTAAAAG
Found at i:334225 original size:26 final size:26
Alignment explanation
Indices: 334195--334252 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
334185 CTTAAAAGGA
*
334195 AAAAGATGCCATGGAGTTGTGGACTT
1 AAAAGATGCCACGGAGTTGTGGACTT
*
334221 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAA-GATGCCACGGAGTTGTGGACTT
334248 AAAAG
1 AAAAG
334253 GAAAAAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (26 bp):
AAAAGATGCCACGGAGTTGTGGACTT
Found at i:334619 original size:31 final size:30
Alignment explanation
Indices: 334356--334669 Score: 286
Period size: 31 Copynumber: 10.0 Consensus size: 30
334346 AGGAAAAAGG
* *
334356 TGCCACAGAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
334386 TGCCACTGAGCCATGAACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * *
334416 TTGCCACTAAATCGTGGACTTGGAAGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * *
334448 TGCCACTGAGTCATGGACTTTGAAAAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG----AGAAGAGA
* *
334482 TGCCATTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * * *
334513 TTGCCATTGAGTTGTGGACTTTAAAGAAAAAGA
1 -TGCCACTGAGTCGTGGACTTT-GAG-AAGAGA
334546 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAG--AAGAGA
**
334578 TGCCACTGAGTTATGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
334608 TTGTCACTGAGTCGTGAACTTTGAGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
334639 TTGCCATTGAGTCATGGACTTTGAGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTGAGAAGAGA
334670 GATTTGAAGA
Statistics
Matches: 238, Mismatches: 36, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
30 31 0.13
31 97 0.41
32 76 0.32
33 6 0.03
34 28 0.12
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:335960 original size:14 final size:14
Alignment explanation
Indices: 335941--335975 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
335931 CTTTGCATTC
335941 TTTTTTTGTGTGTG
1 TTTTTTTGTGTGTG
* *
335955 TTTTTTTGTTTTTG
1 TTTTTTTGTGTGTG
335969 TTTTTTT
1 TTTTTTT
335976 TTTCGTGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTTTTTGTGTGTG
Found at i:342798 original size:15 final size:15
Alignment explanation
Indices: 342778--342808 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
342768 ATGAGATTGG
342778 ATATGAAAATTTGAA
1 ATATGAAAATTTGAA
342793 ATATGAAAATTTGAA
1 ATATGAAAATTTGAA
342808 A
1 A
342809 ATGTCTCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (15 bp):
ATATGAAAATTTGAA
Found at i:344791 original size:13 final size:12
Alignment explanation
Indices: 344773--344831 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
344763 CTATCGGTCA
344773 TTTTTTTCATTCT
1 TTTTTTTC-TTCT
*
344786 TTTTTTT-TACT
1 TTTTTTTCTTCT
*
344797 TTGATTTT-TTCT
1 TT-TTTTTCTTCT
*
344809 TTTTTTTCCTTCA
1 TTTTTTT-CTTCT
344822 TTTTTTTCTT
1 TTTTTTTCTT
344832 TTCATATCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 9 0.24
12 12 0.32
13 17 0.45
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:344813 original size:21 final size:22
Alignment explanation
Indices: 344787--344833 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
344777 TTTCATTCTT
* *
344787 TTTTTTTACTTTGA-TTTTTTC
1 TTTTTTTACCTTCATTTTTTTC
*
344808 TTTTTTTTCCTTCATTTTTTTC
1 TTTTTTTACCTTCATTTTTTTC
344830 TTTT
1 TTTT
344834 CATATCTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTTTACCTTCATTTTTTTC
Found at i:346797 original size:16 final size:17
Alignment explanation
Indices: 346764--346797 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
346754 TATTTTTTTG
346764 ACTTGACATTAGTTTCA
1 ACTTGACATTAGTTTCA
*
346781 ACTTGATATTA-TTTCA
1 ACTTGACATTAGTTTCA
346797 A
1 A
346798 TATAATCCCC
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:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (17 bp):
ACTTGACATTAGTTTCA
Found at i:357320 original size:13 final size:13
Alignment explanation
Indices: 357302--357327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
357292 TAATTTTTTG
357302 TGTATCGATACAT
1 TGTATCGATACAT
357315 TGTATCGATACAT
1 TGTATCGATACAT
357328 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:357338 original size:32 final size:33
Alignment explanation
Indices: 357282--357345 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
357272 TACAAGCCAA
*
357282 TGTATCGATATAATTTTTTGTGTATCGATACAT
1 TGTATCGATATAATATTTTGTGTATCGATACAT
*
357315 TGTATCGATA-CATATTTTGTGTATCGATACA
1 TGTATCGATATAATATTTTGTGTATCGATACA
357346 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTATCGATATAATATTTTGTGTATCGATACAT
Found at i:357450 original size:20 final size:20
Alignment explanation
Indices: 357397--357452 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
357387 ACATCTTTTT
*
357397 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
357417 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
357436 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
357453 TAAGGGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:359892 original size:13 final size:13
Alignment explanation
Indices: 359874--359912 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
359864 ATAATCCCCC
*
359874 TGTATCGATACAG
1 TGTATCGATACAA
359887 TGTATCGATACAA
1 TGTATCGATACAA
359900 TGTATCGATACAA
1 TGTATCGATACAA
359913 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:361552 original size:20 final size:20
Alignment explanation
Indices: 361529--361601 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
361519 ACAATTCAAA
361529 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
361549 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
361570 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
361590 GTATCGATACAT
1 GTATCGATACAT
361602 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:361573 original size:21 final size:21
Alignment explanation
Indices: 361547--361622 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
361537 ACATGTTGCA
361547 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
361568 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
361588 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
361609 ATGTATCGATACAT
1 ATGTATCGATACAT
361623 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:361580 original size:41 final size:41
Alignment explanation
Indices: 361529--361622 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
361519 ACAATTCAAA
*
361529 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
361570 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
361611 GTATCGATACAT
1 GTATCGATACAT
361623 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:361679 original size:13 final size:13
Alignment explanation
Indices: 361661--361686 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
361651 TACAGCAAGT
361661 ATGTATCGATACA
1 ATGTATCGATACA
361674 ATGTATCGATACA
1 ATGTATCGATACA
361687 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:363932 original size:21 final size:21
Alignment explanation
Indices: 363899--363948 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
363889 TTGCAAGTTG
*
363899 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
363921 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
363942 AAATAAA
1 AAATAAA
363949 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:365767 original size:15 final size:15
Alignment explanation
Indices: 365747--365777 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
365737 TAAAAATGTC
*
365747 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
365762 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
365777 C
1 C
365778 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:367870 original size:20 final size:21
Alignment explanation
Indices: 367791--367869 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
367781 AATGTCCAAA
*
367791 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
367811 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
367836 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
367856 TTGTATCGATACAT
1 ATGTATCGATACAT
367870 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:367874 original size:13 final size:13
Alignment explanation
Indices: 367856--367894 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
367846 ACATTTTTCT
367856 TTGTATCGATACA
1 TTGTATCGATACA
367869 TTGTATCGATACA
1 TTGTATCGATACA
*
367882 CTGTATCGATACA
1 TTGTATCGATACA
367895 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:370368 original size:20 final size:20
Alignment explanation
Indices: 370345--370417 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
370335 ACAATTCAAA
370345 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
370365 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
370386 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
370406 GTATCGATACAT
1 GTATCGATACAT
370418 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:370389 original size:21 final size:21
Alignment explanation
Indices: 370363--370438 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
370353 ACATGTTGCA
370363 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
370384 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
370404 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
370425 ATGTATCGATACAT
1 ATGTATCGATACAT
370439 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:370396 original size:41 final size:41
Alignment explanation
Indices: 370345--370438 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
370335 ACAATTCAAA
*
370345 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
370386 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
370427 GTATCGATACAT
1 GTATCGATACAT
370439 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:370495 original size:13 final size:13
Alignment explanation
Indices: 370477--370502 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
370467 TACAGCAAGT
370477 ATGTATCGATACA
1 ATGTATCGATACA
370490 ATGTATCGATACA
1 ATGTATCGATACA
370503 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:372031 original size:15 final size:15
Alignment explanation
Indices: 372011--372041 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
372001 ATTTCGTTTG
*
372011 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
372026 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
372041 G
1 G
372042 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:373040 original size:20 final size:20
Alignment explanation
Indices: 373015--373055 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
373005 TAGCCAAGGT
373015 ATGTCATTGTTGTCGGCAAC
1 ATGTCATTGTTGTCGGCAAC
373035 ATGTCATTGTTGTCGGCAAC
1 ATGTCATTGTTGTCGGCAAC
373055 A
1 A
373056 AAACATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (20 bp):
ATGTCATTGTTGTCGGCAAC
Found at i:373892 original size:21 final size:21
Alignment explanation
Indices: 373863--373907 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
373853 CAAGTTTTTT
*
373863 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
373883 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
373905 TTT
1 TTT
373908 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:375886 original size:20 final size:20
Alignment explanation
Indices: 375861--375912 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
375851 TACAAGCCAA
*
375861 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATATTTTG
375881 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
*
375900 TGTATTGATACAA
1 TGTATCGATACAA
375913 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:376016 original size:20 final size:20
Alignment explanation
Indices: 375963--376018 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
375953 ACATCTTTTT
*
375963 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
375983 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
376002 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
376019 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:376712 original size:56 final size:56
Alignment explanation
Indices: 376635--376835 Score: 167
Period size: 56 Copynumber: 3.6 Consensus size: 56
376625 GCACTAGCTA
* *
376635 AAATTGGCA-CAAAAATGAGAAAGCCTAAGAATAACTAATAGGTTTTATCCCAGTTG
1 AAATTGGCACCAAATA-GAGAAAGCCTAAGAGTAACTAATAGGTTTTATCCCAGTTG
* * * ** ** * * * *
376691 AAACTGGCACCAAATAGAGAAAGCCCAAGAGTATCTTGTAGG-GATAGCTTCAGCTA
1 AAATTGGCACCAAATAGAGAAAGCCTAAGAGTAACTAATAGGTTTTATC-CCAGTTG
* * * * *
376747 AAATTGACACCAAGATA-AAAAAGCCTAAGAGTAACTGATAGGTTTCATCCTAGTTG
1 AAATTGGCACCAA-ATAGAGAAAGCCTAAGAGTAACTAATAGGTTTTATCCCAGTTG
*
376803 AAATTGGCAACAAA-ATGAGAAAGCCTAAGAGTA
1 AAATTGGCACCAAATA-GAGAAAGCCTAAGAGTA
376836 GTTGGTAAAA
Statistics
Matches: 108, Mismatches: 31, Indels: 12
0.72 0.21 0.08
Matches are distributed among these distances:
54 1 0.01
55 4 0.04
56 93 0.86
57 10 0.09
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (56 bp):
AAATTGGCACCAAATAGAGAAAGCCTAAGAGTAACTAATAGGTTTTATCCCAGTTG
Found at i:376823 original size:112 final size:112
Alignment explanation
Indices: 376630--376835 Score: 288
Period size: 112 Copynumber: 1.8 Consensus size: 112
376620 AGATAGCACT
* * * *
376630 AGCTAAAATTGGCACAAAAATGAGAAAGCCTAAGAATAACTAATAGGTTTTATCCCAGTTGAAAC
1 AGCTAAAATTGACACAAAAATAAAAAAGCCTAAGAATAACTAATAGGTTTCATCCCAGTTGAAAC
*
376695 TGGCACCAAATAGAGAAAGCCCAAGAGTATCTTGTAGGGATAGCTTC
66 TGGCACAAAATAGAGAAAGCCCAAGAGTATCTTGTAGGGATAGCTTC
* * * * * *
376742 AGCTAAAATTGACACCAAGATAAAAAAGCCTAAGAGTAACTGATAGGTTTCATCCTAGTTGAAAT
1 AGCTAAAATTGACACAAAAATAAAAAAGCCTAAGAATAACTAATAGGTTTCATCCCAGTTGAAAC
*
376807 TGGCAACAAAAT-GAGAAAGCCTAAGAGTA
66 TGGC-ACAAAATAGAGAAAGCCCAAGAGTA
376836 GTTGGTAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
112 75 0.93
113 6 0.07
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (112 bp):
AGCTAAAATTGACACAAAAATAAAAAAGCCTAAGAATAACTAATAGGTTTCATCCCAGTTGAAAC
TGGCACAAAATAGAGAAAGCCCAAGAGTATCTTGTAGGGATAGCTTC
Found at i:376870 original size:112 final size:112
Alignment explanation
Indices: 376630--376919 Score: 273
Period size: 112 Copynumber: 2.6 Consensus size: 112
376620 AGATAGCACT
* * * * * * * *
376630 AGCTAAAATTGGCACAAAAATGAGAAAGCCTAAGAATAACTAATAGGTTTTATCCCAGTTGAAAC
1 AGCTAAAATTGACACCAAAATAAAAAAGCCTAAGAGTAACTAATAGGTTTCATCCTAGTTGAAAT
* * *** *
376695 TGGCACCAAATAGAGAAAGCCCAAGAGTATCTTGTAGGGATAGCTTC
66 TGGCACAAAATAGAGAAAGCCCAAGAGTATCTGGTAAAAATAACTTC
* *
376742 AGCTAAAATTGACACCAAGATAAAAAAGCCTAAGAGTAACTGATAGGTTTCATCCTAGTTGAAAT
1 AGCTAAAATTGACACCAAAATAAAAAAGCCTAAGAGTAACTAATAGGTTTCATCCTAGTTGAAAT
*
376807 TGGCAACAAAAT-GAGAAAGCCTAAGAGTAGT-TGGTAAAAATAAC-TC
66 TGGC-ACAAAATAGAGAAAGCCCAAGAGTA-TCTGGTAAAAATAACTTC
* ** ** * * * * *
376853 TAGTTGCAATT-AGCACCAAAATATGAAAGCCAAAAAGCAGCTAATAGGTTTCATCCTAGCTGAA
1 -AGCTAAAATTGA-CACCAAAATAAAAAAGCCTAAGAGTAACTAATAGGTTTCATCCTAGTTGAA
376917 ATT
64 ATT
376920 CACACCCAAA
Statistics
Matches: 145, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
111 3 0.02
112 135 0.93
113 7 0.05
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (112 bp):
AGCTAAAATTGACACCAAAATAAAAAAGCCTAAGAGTAACTAATAGGTTTCATCCTAGTTGAAAT
TGGCACAAAATAGAGAAAGCCCAAGAGTATCTGGTAAAAATAACTTC
Found at i:379323 original size:83 final size:83
Alignment explanation
Indices: 379184--379383 Score: 364
Period size: 83 Copynumber: 2.4 Consensus size: 83
379174 TACACGCTCC
379184 AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
1 AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
379249 TTAAATAGTGTGAACAGT
66 TTAAATAGTGTGAACAGT
379267 AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
1 AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
379332 TTAAATAGTGTGAACAGT
66 TTAAATAGTGTGAACAGT
* * * *
379350 GATGTATCGATACTATTTATAGTGTATCGATACA
1 AATGTATCGATACAATTCATAATGTATCGATACA
379384 CTGTATCGAT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 113 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (83 bp):
AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
TTAAATAGTGTGAACAGT
Found at i:379390 original size:13 final size:13
Alignment explanation
Indices: 379372--379409 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
379362 CTATTTATAG
*
379372 TGTATCGATACAC
1 TGTATCGATACAA
379385 TGTATCGATACAA
1 TGTATCGATACAA
*
379398 TGTATTGATACA
1 TGTATCGATACA
379410 TGAATAGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:379460 original size:21 final size:22
Alignment explanation
Indices: 379419--379476 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
379409 ATGAATAGTG
*
379419 ATGAACAGTGATTTTTATCGATAC
1 ATGAACAGTGA--TGTATCGATAC
379443 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
379464 ATGAACAGTGATG
1 ATGAACAGTGATG
379477 AATAGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 15 0.47
22 7 0.22
23 5 0.16
24 5 0.16
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:379644 original size:21 final size:21
Alignment explanation
Indices: 379604--379644 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
379594 GTCAACCTTG
*
379604 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
379625 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
379645 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:381936 original size:23 final size:24
Alignment explanation
Indices: 381891--381937 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
381881 CAAAGAATTG
*
381891 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
381915 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
381938 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:383123 original size:84 final size:84
Alignment explanation
Indices: 382966--383130 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
382956 CATTTTCCAC
* * * *
382966 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
383031 TCACTGATTTATTTTCATT
66 TCACTGATTTATTTTCATT
* *
383050 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
383112 CACTTATTGATTTATTTTC
63 AACTCACTGATTTATTTTC
383131 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCACTGATTTATTTTCATT
Found at i:384740 original size:83 final size:83
Alignment explanation
Indices: 384601--384800 Score: 364
Period size: 83 Copynumber: 2.4 Consensus size: 83
384591 TACACGCTCC
384601 AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
1 AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
384666 TTAAATAGTGTGAACAGT
66 TTAAATAGTGTGAACAGT
384684 AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
1 AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
384749 TTAAATAGTGTGAACAGT
66 TTAAATAGTGTGAACAGT
* * * *
384767 GATGTATCGATACTATTTATAGTGTATCGATACA
1 AATGTATCGATACAATTCATAATGTATCGATACA
384801 CTGTATCGAT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 113 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (83 bp):
AATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAACCGTTGGGCTTTTA
TTAAATAGTGTGAACAGT
Found at i:384807 original size:13 final size:13
Alignment explanation
Indices: 384789--384826 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
384779 CTATTTATAG
*
384789 TGTATCGATACAC
1 TGTATCGATACAA
384802 TGTATCGATACAA
1 TGTATCGATACAA
*
384815 TGTATTGATACA
1 TGTATCGATACA
384827 TGAATAGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:384877 original size:21 final size:22
Alignment explanation
Indices: 384836--384893 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
384826 ATGAATAGTG
*
384836 ATGAACAGTGATTTTTATCGATAC
1 ATGAACAGTGA--TGTATCGATAC
384860 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
384881 ATGAACAGTGATG
1 ATGAACAGTGATG
384894 AATAGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 15 0.47
22 7 0.22
23 5 0.16
24 5 0.16
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:385061 original size:21 final size:21
Alignment explanation
Indices: 385021--385061 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
385011 GTCAACCTTG
*
385021 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
385042 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
385062 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:387352 original size:23 final size:24
Alignment explanation
Indices: 387307--387353 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
387297 CAAAGAATTG
*
387307 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
387331 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
387354 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:388539 original size:84 final size:84
Alignment explanation
Indices: 388382--388546 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
388372 CATTTTCCAC
* * * *
388382 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
388447 TCACTGATTTATTTTCATT
66 TCACTGATTTATTTTCATT
* *
388466 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
388528 CACTTATTGATTTATTTTC
63 AACTCACTGATTTATTTTC
388547 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCACTGATTTATTTTCATT
Found at i:390628 original size:13 final size:13
Alignment explanation
Indices: 390610--390647 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
390600 CTATTTATAG
*
390610 TGTATCGATACAC
1 TGTATCGATACAA
390623 TGTATCGATACAA
1 TGTATCGATACAA
*
390636 TGTATTGATACA
1 TGTATCGATACA
390648 TGAATAGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:390698 original size:21 final size:22
Alignment explanation
Indices: 390672--390714 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
390662 TAGTGATTTT
390672 TATCGATACATGAA-AGTGATG
1 TATCGATACATGAACAGTGATG
390693 TATCGATACATGAACAGTGATG
1 TATCGATACATGAACAGTGATG
390715 AATAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (22 bp):
TATCGATACATGAACAGTGATG
Found at i:390882 original size:21 final size:21
Alignment explanation
Indices: 390842--390882 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
390832 GTCAACCTTG
*
390842 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
390863 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
390883 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:391118 original size:20 final size:19
Alignment explanation
Indices: 391095--391155 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
391085 AAAAAAAACC
*
391095 AAAAAGTAAAAAAATGAAAG
1 AAAAAGCAAAAAAA-GAAAG
*
391115 AAAAAGGCAAAAGAAGAAAG
1 AAAAA-GCAAAAAAAGAAAG
391135 AAAAAG-AAAGAAAA-AAAG
1 AAAAAGCAAA-AAAAGAAAG
391153 AAA
1 AAA
391156 GATTATTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 10 0.28
19 4 0.11
20 15 0.42
21 7 0.19
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (19 bp):
AAAAAGCAAAAAAAGAAAG
Found at i:391143 original size:10 final size:10
Alignment explanation
Indices: 391095--391149 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
391085 AAAAAAAACC
391095 AAAAAGTAAA-
1 AAAAAG-AAAG
*
391105 AAAATGAAAG
1 AAAAAGAAAG
*
391115 AAAAAGGCAA-
1 AAAAA-GAAAG
*
391125 AAGAAGAAAG
1 AAAAAGAAAG
391135 AAAAAGAAAG
1 AAAAAGAAAG
391145 AAAAA
1 AAAAA
391150 AAGAAAGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 6 0.17
10 27 0.75
11 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:392268 original size:58 final size:57
Alignment explanation
Indices: 392186--392296 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
392176 AATATAGGGC
392186 CATTCTAGTAATTTACCATAATTTAAGACTATTTACACAATTTCATGCATTTTACAGT
1 CATTCTAGTAATTTACCATAATTTAAGACTA-TTACACAATTTCATGCATTTTACAGT
** * * ** *
392244 CATTCTAGTAATTTGGCATGATTTAGGACTATTACGTAATTTCATGTATTTTA
1 CATTCTAGTAATTTACCATAATTTAAGACTATTACACAATTTCATGCATTTTA
392297 TGGTCATCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 19 0.41
58 27 0.59
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (57 bp):
CATTCTAGTAATTTACCATAATTTAAGACTATTACACAATTTCATGCATTTTACAGT
Found at i:394418 original size:49 final size:50
Alignment explanation
Indices: 394356--394452 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 50
394346 GTTTAATTTC
*
394356 AAAAAATGAATTTATATAATCTCACAATCAACACAACAATA-TCACAAAT
1 AAAAAATGAATTTACATAATCTCACAATCAACACAACAATATTCACAAAT
* * * * *
394405 AAAACATGAATTTACATTATGTCATAATCAACACAATAATATTCACAA
1 AAAAAATGAATTTACATAATCTCACAATCAACACAACAATATTCACAA
394453 TCTAACTCCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
49 35 0.85
50 6 0.15
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.27
Consensus pattern (50 bp):
AAAAAATGAATTTACATAATCTCACAATCAACACAACAATATTCACAAAT
Found at i:395506 original size:33 final size:33
Alignment explanation
Indices: 395469--395535 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
395459 TTCAACGATT
395469 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
395502 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
395535 T
1 T
395536 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:395507 original size:13 final size:13
Alignment explanation
Indices: 395489--395513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
395479 CATAAAATGT
395489 TGTATCGATACAA
1 TGTATCGATACAA
395502 TGTATCGATACA
1 TGTATCGATACA
395514 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:395597 original size:13 final size:13
Alignment explanation
Indices: 395579--395603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
395569 ATTACTCACA
395579 TGTATCGATACAT
1 TGTATCGATACAT
395592 TGTATCGATACA
1 TGTATCGATACA
395604 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:395668 original size:52 final size:52
Alignment explanation
Indices: 395612--395742 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 52
395602 CACTGATCTT
*
395612 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
* * *
395664 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
* *
395716 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
395743 ATATTTCGGG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:403995 original size:31 final size:31
Alignment explanation
Indices: 403952--404095 Score: 170
Period size: 31 Copynumber: 4.6 Consensus size: 31
403942 AAAAAAAAAG
*
403952 AAGTCCATGACTCAGTGGCAATCTCTTCTCA
1 AAGTCCACGACTCAGTGGCAATCTCTTCTCA
*
403983 AAGTCCACGACTCAGTGGCAATCTCTGCTCA
1 AAGTCCACGACTCAGTGGCAATCTCTTCTCA
* *
404014 AAGTCCACAACGCAGTGGC-ATC-CTTCTCTTTA
1 AAGTCCACGACTCAGTGGCAATCTCTTCTC---A
* *
404046 AAGTCCAGGACTCAGTGGC-AT-TTTGTCTCA
1 AAGTCCACGACTCAGTGGCAATCTCT-TCTCA
404076 AAGTCCACGACTCAGTGGCA
1 AAGTCCACGACTCAGTGGCA
404096 TTTTTTCTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.05
30 22 0.23
31 46 0.47
32 20 0.21
33 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCAATCTCTTCTCA
Found at i:404096 original size:62 final size:63
Alignment explanation
Indices: 403952--404126 Score: 191
Period size: 62 Copynumber: 2.8 Consensus size: 63
403942 AAAAAAAAAG
*
403952 AAGTCCATGACTCAGTGGCAATCTCTTCTC---AAAGTCCACGACTCAGTGGCAATCTCTGCTCA
1 AAGTCCACGACTCAGTGGC-ATC-CTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTGCTCA
* * * *
404014 AAGTCCACAACGCAGTGGCATCCTTCTCTTTAAAGTCCAGGACTCAGTGGC-AT-TTTGTCTCA
1 AAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTG-CTCA
* * * * *
404076 AAGTCCACGACTCAGTGGCAT-TTTTTCTTTAAAGCCCACAACTCCGTGGCA
1 AAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGCA
404127 CCTTGTTCCT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
60 6 0.06
61 29 0.31
62 41 0.43
63 19 0.20
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (63 bp):
AAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTGCTCA
Found at i:404115 original size:93 final size:93
Alignment explanation
Indices: 403952--404765 Score: 350
Period size: 102 Copynumber: 8.2 Consensus size: 93
403942 AAAAAAAAAG
* * * * *
403952 AAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGC-TCAAA
1 AAGTCCACGACTCAGTGGC-AT-TCTTCTCAAAGTCCACGACTCAGTGGC-ATTTTTTCTTTAAA
* * *
404016 GTCCACAACGCAGTGGCATCCTT-CT-CTTTA
63 GCCCACAACTCCGTGGCA-CCTTGCTCCTTTA
* *
404046 AAGTCCAGGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTTAAAGC
1 AAGTCCACGACTCAGTGGCATTCT-TCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTTAAAGC
* *
404111 CCACAACTCCGTGGCACCTTGTTCCTTTT
65 CCACAACTCCGTGGCACCTTGCTCCTTTA
* * * * * * *
404140 AAGTCCACAACTCTGTGGCACTCTT-T-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
1 AAGTCCACGACTCAGTGGCATTCTTCTCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAG
**
404203 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
64 CCCACAACTCCGTGGCAC-CTTGCT-CC-TTT-A
* * * * * * * * * *
404237 AAGCCCACAACTCCGTAGCACATT-TTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAGTCCACGACTCAGT-G-GCATTCTTC--TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTT
*
404301 CAAAGCCCACAACTCCGTGGCACCTT-CTTCTTTTCA
60 -AAAGCCCACAACTCCGTGGCACCTTGC-TCCTTT-A
* * * * * * * *
404337 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAGTCCACGACTCAGTGGCA--TTCTTC-TC--AAAGTCCACGACTCAGTGGCA-TTTTTTC-TT
* ** *
404402 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTA
59 T-AAAGCCCACAACTCCGTGGCACCTTGCTCCTTTA
* * * * * * * *
404438 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 AAGTCCACGACTCAGTGGCA--TTCTTC---TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TT
*
404503 TAAAGCCCACAACTCCGTGGCACCTT-CTTCTTTTCA
59 TAAAGCCCACAACTCCGTGGCACCTTGC-TCCTTT-A
* * * * * *
404539 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCATC
1 AAGTCCACGACTCAGTGGCA--TTCTTC---TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-T-
* * ** *
404604 TTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTA
58 TTAAAGCCCACAACTCCGTGGCACCTTGCTC-CTTTA
* * * * * * * * *
404641 AAGCCCACAACTCCGTGGCACATTTTTCTGTTTAAAGCCCACAACTCCGGGGCACTCTTTTTTCC
1 AAGTCCACGACTCAGTGG--CATTCTTC---TCAAAGTCCACGACTCAGTGGCA---TTTTTT--
* * *
404706 CTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTT
56 C-TTTAAAGCCCACAACTCCGTGGCACCTTGCTCCTTTA
*
404745 AAGTCCACAACTTC-GTGGCAT
1 AAGTCCACGAC-TCAGTGGCAT
404766 CTTTCACCCT
Statistics
Matches: 621, Mismatches: 61, Indels: 68
0.83 0.08 0.09
Matches are distributed among these distances:
91 18 0.03
92 18 0.03
93 72 0.12
94 46 0.07
95 2 0.00
96 3 0.00
97 14 0.02
98 5 0.01
99 4 0.01
100 54 0.09
101 124 0.20
102 174 0.28
103 28 0.05
104 27 0.04
105 30 0.05
106 2 0.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.32
Consensus pattern (93 bp):
AAGTCCACGACTCAGTGGCATTCTTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTTAAAGCC
CACAACTCCGTGGCACCTTGCTCCTTTA
Found at i:404191 original size:26 final size:26
Alignment explanation
Indices: 404134--404191 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
404124 GCACCTTGTT
* * *
404134 CCTTTTAAGTCCACAACTCTGTGGCA
1 CCTTTAAAGCCCACAACTCCGTGGCA
404160 CTCTTTAAAGCCCACAACTCCGTGGCA
1 C-CTTTAAAGCCCACAACTCCGTGGCA
404187 CCTTT
1 CCTTT
404192 TTCTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (26 bp):
CCTTTAAAGCCCACAACTCCGTGGCA
Found at i:404306 original size:34 final size:33
Alignment explanation
Indices: 404075--404769 Score: 874
Period size: 34 Copynumber: 20.8 Consensus size: 33
404065 ATTTTGTCTC
* * * *
404075 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404106 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTT-TTTCTTTT
* *
404140 -AAGTCCACAACTCTGTGGCA-C----TC-TTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
404166 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
404199 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* *
404235 CAAAGCCCACAACTCCGTAGCA-CATTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404268 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404301 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404335 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
404371 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404403 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404437 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404470 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404504 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404537 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
404571 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
404607 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
*
404640 AAAGCCCACAACTCCGTGGCACATTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
*
404674 AAAGCCCACAACTCCGGGGCACTCTTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTT--CTTTT
*
404711 AAAGCCCACAACTCCGTGGCACCTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * * *
404744 TAAGTCCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
404770 CACCCTTTCC
Statistics
Matches: 595, Mismatches: 39, Indels: 58
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.01
27 19 0.03
28 1 0.00
31 18 0.03
32 28 0.05
33 155 0.26
34 297 0.50
35 11 0.02
36 17 0.03
37 44 0.07
38 2 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:404854 original size:33 final size:32
Alignment explanation
Indices: 404771--404873 Score: 152
Period size: 32 Copynumber: 3.2 Consensus size: 32
404761 GGCATCTTTC
* *
404771 ACCCTTTCCAAAGCCCACACAAGTCAGTGGCA
1 ACCCTCTCCAAAGCCCACACAAGTCGGTGGCA
*
404803 ACCCTCTCCAAAGCCCACACAAGTTGGTGGCA
1 ACCCTCTCCAAAGCCCACACAAGTCGGTGGCA
* *
404835 ACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACC-CTCTCCAAAGCCCACACAAGTCGGTGGCA
404868 ACCCTC
1 ACCCTC
404874 CTAAGCCCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
32 34 0.54
33 29 0.46
ACGTcount: A:0.29, C:0.38, G:0.17, T:0.17
Consensus pattern (32 bp):
ACCCTCTCCAAAGCCCACACAAGTCGGTGGCA
Found at i:404937 original size:49 final size:49
Alignment explanation
Indices: 404875--405443 Score: 688
Period size: 49 Copynumber: 11.9 Consensus size: 49
404865 GCAACCCTCC
* *
404875 TAAGCCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
404924 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
404973 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
405022 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG---C---ATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
405065 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * *
405114 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * * * *
405163 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
405212 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * * *
405255 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
405304 TAAGTCCAATGTAGCTGGCCTTAAATCAGCACATT-G-A-C---ACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
405347 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTT
* *
405399 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
405444 TTCTCATCTG
Statistics
Matches: 445, Mismatches: 53, Indels: 41
0.83 0.10 0.08
Matches are distributed among these distances:
43 110 0.25
44 2 0.00
45 1 0.00
46 4 0.01
47 1 0.00
48 2 0.00
49 281 0.63
52 42 0.09
53 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
Found at i:405113 original size:92 final size:92
Alignment explanation
Indices: 404970--405443 Score: 660
Period size: 92 Copynumber: 5.0 Consensus size: 92
404960 GCACCTTTAT
* * * *
404970 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
* * *
405035 GCTGGCCTTGACTCAACACATTGGCAT
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
405062 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTA
1 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
*
405127 GCTGGCCTTGACTCAGCACATTGGCCCCTTCAC
66 GCTGGCCTTGAATCAGCACATTGG------CAC
* * * *
405160 CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
405225 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
405252 CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTA
1 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
* *
405317 GCTGGCCTTAAATCAGCACATTGACAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
405344 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAAT
*
405409 GTAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
405440 CTTT
1 CTTT
405444 TTCTCATCTG
Statistics
Matches: 348, Mismatches: 24, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
92 215 0.62
93 3 0.01
95 41 0.12
96 5 0.01
98 84 0.24
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:405209 original size:190 final size:190
Alignment explanation
Indices: 404875--405802 Score: 1034
Period size: 190 Copynumber: 4.7 Consensus size: 190
404865 GCAACCCTCC
*
404875 TAAGCCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * * *
404940 GGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * *
405005 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCATCTT
131 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTT
* *
405065 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTAGCT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * * *
405130 GGCCTTGACTCAGCACATTGGCCCCTTCACCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
*
405195 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
131 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTT
* * *
405255 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTAGCT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* *
405320 GGCCTTAAATCAGCACATT-G-A----CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * *
405379 ATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
131 ATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA------
405444 TTCTCATCT
187 ---TC-T-T
* * * *
405453 GTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCACCTTCAT
1 -TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGG---------CAC----CT----TT-AT
*
405518 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATA
47 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATA
* *
405583 GCTGGCCTTGAATCAGCATATGGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
112 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
405648 CACATTGGCACCTCATCTT
177 CACATTGG-----CATCTT
* * * * *
405667 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTA-----AA-TCCAATATAGCT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * * * *
405726 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAG
66 GGCCTTGACTCAGCACATTGGCACC--TT-CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
405791 CATATTGACATC
128 CATATTGGCATC
405803 CTTTTTCATC
Statistics
Matches: 630, Mismatches: 61, Indels: 92
0.80 0.08 0.12
Matches are distributed among these distances:
184 42 0.07
186 3 0.00
187 43 0.07
189 35 0.06
190 254 0.40
191 2 0.00
192 40 0.06
195 1 0.00
196 3 0.00
197 1 0.00
198 1 0.00
199 33 0.05
200 2 0.00
204 3 0.00
208 3 0.00
212 2 0.00
213 29 0.05
214 1 0.00
215 1 0.00
216 4 0.01
217 37 0.06
218 1 0.00
219 1 0.00
220 41 0.07
221 2 0.00
223 43 0.07
225 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (190 bp):
TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTT
Found at i:405481 original size:55 final size:52
Alignment explanation
Indices: 405347--405481 Score: 162
Period size: 52 Copynumber: 2.5 Consensus size: 52
405337 TTGACACCTT
* * *
405347 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCTG
* *
405399 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CATCTG
* * * *
405454 TAAGCCCAATATCGTTGGCCATGAATCA
1 TAAGTCCAATATAGCTGGCCTTGAATCA
405482 ACATATTGGC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 35 0.51
53 2 0.03
54 5 0.07
55 27 0.39
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (52 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCTG
Found at i:405585 original size:49 final size:49
Alignment explanation
Indices: 405509--405797 Score: 394
Period size: 49 Copynumber: 6.0 Consensus size: 49
405499 TCACTTTTCT
*
405509 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * * *
405558 CACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATGGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
405607 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
405656 CACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * *
405703 -A----CACCTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* *
405747 CACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATATTG
1 CACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
405798 ACATCCTTTT
Statistics
Matches: 212, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
43 37 0.17
44 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 42 0.20
49 91 0.43
52 38 0.18
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
Done.