Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold139
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: 1720190
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 4798 characters in sequence are not A, C, G, or T
File 10 of 11
Found at i:1474249 original size:71 final size:72
Alignment explanation
Indices: 1474115--1474268 Score: 211
Period size: 72 Copynumber: 2.2 Consensus size: 72
1474105 TTTTAACTAG
* * * * * *
1474115 ATGTATCAATACATTGAAAAATGTATCGATACATTTGGGAAAAAAAGACAGAATGTATCGATACA
1 ATGTATCGATACACTAAAAAATGTATCGATACATCTGAGAAAAAAAGACAGAATATATCGATACA
*
1474180 TTAAAGA
66 TGAAAGA
* *
1474187 ATGTATCGATACACTAAAAAATGTATCGATACATCTGAGTAAAAAA-ATAGAATATATCGATACA
1 ATGTATCGATACACTAAAAAATGTATCGATACATCTGAGAAAAAAAGACAGAATATATCGATACA
1474251 TGAAAGA
66 TGAAAGA
*
1474258 ATATATCGATA
1 ATGTATCGATA
1474269 TATTCGTACA
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 32 0.44
72 40 0.56
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (72 bp):
ATGTATCGATACACTAAAAAATGTATCGATACATCTGAGAAAAAAAGACAGAATATATCGATACA
TGAAAGA
Found at i:1474286 original size:71 final size:72
Alignment explanation
Indices: 1474131--1474268 Score: 206
Period size: 71 Copynumber: 1.9 Consensus size: 72
1474121 CAATACATTG
* * * * *
1474131 AAAAATGTATCGATACATTTGGGAAAAAAAGACAGAATGTATCGATACATTAAAGAATGTATCGA
1 AAAAATGTATCGATACATCTGAGAAAAAAAGACAGAATATATCGATACATGAAAGAATATATCGA
1474196 TACACTA
66 TACACTA
* *
1474203 AAAAATGTATCGATACATCTGAGTAAAAAA-ATAGAATATATCGATACATGAAAGAATATATCGA
1 AAAAATGTATCGATACATCTGAGAAAAAAAGACAGAATATATCGATACATGAAAGAATATATCGA
1474267 TA
66 TA
1474269 TATTCGTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
71 32 0.54
72 27 0.46
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.25
Consensus pattern (72 bp):
AAAAATGTATCGATACATCTGAGAAAAAAAGACAGAATATATCGATACATGAAAGAATATATCGA
TACACTA
Found at i:1474298 original size:40 final size:40
Alignment explanation
Indices: 1474241--1474351 Score: 170
Period size: 40 Copynumber: 2.8 Consensus size: 40
1474231 AAATAGAATA
*
1474241 TATCGATACA-TGAAAGAATATATCGATATATTCGTACATG
1 TATCGATACATTG-AAGAATATATCGATACATTCGTACATG
*
1474281 TATCGAAACATTGAAGAATATATCGATACATTCGTACATG
1 TATCGATACATTGAAGAATATATCGATACATTCGTACATG
* *
1474321 TATCGATACATTGAAAAATGTATCGATACAT
1 TATCGATACATTGAAGAATATATCGATACAT
1474352 CTAGGTAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 63 0.97
41 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (40 bp):
TATCGATACATTGAAGAATATATCGATACATTCGTACATG
Found at i:1484480 original size:12 final size:12
Alignment explanation
Indices: 1484463--1484517 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 12
1484453 TCCTTCGAAC
*
1484463 AAAAAAAA-AAC
1 AAAAAAAACAAA
1484474 AAAAAAAAC-AA
1 AAAAAAAACAAA
*
1484485 AAAACAAACAAA
1 AAAAAAAACAAA
*
1484497 AAAACAAACAAA
1 AAAAAAAACAAA
1484509 TAAAAAAAA
1 -AAAAAAAA
1484518 GAGGTCTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 17 0.45
12 14 0.37
13 7 0.18
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:1484483 original size:20 final size:20
Alignment explanation
Indices: 1484460--1484517 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
1484450 GCATCCTTCG
1484460 AACAAAAAAAAAACAAAAAA
1 AACAAAAAAAAAACAAAAAA
*
1484480 AACAAAAAACAAAC-AAAAA
1 AACAAAAAAAAAACAAAAAA
1484499 AACAAACAAATAAAA-AAAA
1 AACAAA-AAA-AAAACAAAA
1484518 GAGGTCTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 11 0.33
20 16 0.48
21 6 0.18
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (20 bp):
AACAAAAAAAAAACAAAAAA
Found at i:1484488 original size:16 final size:16
Alignment explanation
Indices: 1484463--1484517 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
1484453 TCCTTCGAAC
1484463 AAAAAAAAAACAAA-A
1 AAAAAAAAAACAAACA
1484478 AAAACAAAAAACAAACA
1 AAAA-AAAAAACAAACA
* *
1484495 AAAAAACAAACAAATA
1 AAAAAAAAAACAAACA
1484511 AAAAAAA
1 AAAAAAA
1484518 GAGGTCTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
15 4 0.11
16 26 0.74
17 5 0.14
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAACAAACA
Found at i:1485835 original size:57 final size:56
Alignment explanation
Indices: 1485729--1485981 Score: 197
Period size: 57 Copynumber: 4.4 Consensus size: 56
1485719 GTTCATCTCT
* ** *
1485729 TCAAAGCCCACAGGTCAGTGGCATCTCTTTAAAAAACCACAAGTTAGTGGCATCC-C
1 TCAAAGCCCACAAGTCAGTGGCATCT-TTTAAAAGCCCACAAGTCAGTGGCATCCTC
* * * *
1485785 GTCAAAGCCCACAAGTCGGTAGCATCTTTCTTAAAGCCCATAAGTCAGTGGCATCCTTC
1 -TCAAAGCCCACAAGTCAGTGGCATCTTT-TAAAAGCCCACAAGTCAGTGGCATCC-TC
* * * * *
1485844 TCAAAG-CAACAAGTCAATGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCTTTTAAAAGCCCACAAGTCAGTGGCATCCTC
* * ** * * * *
1485899 TCAAAGTCCACACAACTC-GATGGCAACTCTATTCAAATCCCACACAAATCGGTGGCACCCTT
1 TCAAAG-CC-CACAAGTCAG-TGGC-A-TCT-TTTAAAAGCC-CACAAGTCAGTGGCATCCTC
1485961 TCAAAGCCCACAAGTCAGTGG
1 TCAAAGCCCACAAGTCAGTGG
1485982 TAACTCTTTT
Statistics
Matches: 156, Mismatches: 28, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
55 7 0.04
56 25 0.16
57 62 0.40
58 16 0.10
59 2 0.01
60 13 0.08
61 9 0.06
62 22 0.14
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (56 bp):
TCAAAGCCCACAAGTCAGTGGCATCTTTTAAAAGCCCACAAGTCAGTGGCATCCTC
Found at i:1485942 original size:32 final size:31
Alignment explanation
Indices: 1485852--1486037 Score: 140
Period size: 32 Copynumber: 6.1 Consensus size: 31
1485842 TCTCAAAGCA
* *
1485852 ACAAGTCAATGGC-A-TCTTTTCAAAGCC-C
1 ACAAGTCGATGGCAACTCTTTTCAAATCCAC
1485880 ACAAGTC-AGTGGC-A-TCTTTTCAAAGTCCAC
1 ACAAGTCGA-TGGCAACTCTTTTCAAA-TCCAC
* *
1485910 ACAACTCGATGGCAACTCTATTCAAATCCCAC
1 ACAAGTCGATGGCAACTCTTTTCAAAT-CCAC
* * * *
1485942 ACAAATCGGTGGC-AC-CCTTTCAAAGCC-C
1 ACAAGTCGATGGCAACTCTTTTCAAATCCAC
*
1485970 ACAAGTC-AGTGGTAACTCTTTTCAAAGTCCAC
1 ACAAGTCGA-TGGCAACTCTTTTCAAA-TCCAC
* * *
1486002 ACAAGTTGGTGGCAACTCTTTTCAAAGCCCAC
1 ACAAGTCGATGGCAACTCTTTTCAAA-TCCAC
1486034 ACAA
1 ACAA
1486038 ATTGGTGGCA
Statistics
Matches: 128, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.01
28 32 0.25
29 6 0.05
30 26 0.20
31 7 0.05
32 56 0.44
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.24
Consensus pattern (31 bp):
ACAAGTCGATGGCAACTCTTTTCAAATCCAC
Found at i:1485963 original size:62 final size:61
Alignment explanation
Indices: 1485826--1486175 Score: 221
Period size: 60 Copynumber: 5.9 Consensus size: 61
1485816 TAAAGCCCAT
* * * * *
1485826 AAGTCAGTGGCATCCTTCTCAAAG-CA-ACAAGTCAATGGC-A-TCTTTTCAAAG-CC-CAC
1 AAGTCGGTGGCA-CCTTTTCAAAGCCACACAACTCAGTGGCAACTCTATTCAAAGTCCACAC
* *
1485882 AAGTCAGTGGCATCTTTTCAAAGTCCACACAACTC-GATGGCAACTCTATTCAAA-TCCCACAC
1 AAGTCGGTGGCACCTTTTCAAAG-CCACACAACTCAG-TGGCAACTCTATTCAAAGT-CCACAC
* * * * *
1485944 AAATCGGTGGCACCCTTTCAAAGCC-CACAAGTCAGTGGTAACTCTTTTCAAAGTCCACAC
1 AAGTCGGTGGCACCTTTTCAAAGCCACACAACTCAGTGGCAACTCTATTCAAAGTCCACAC
* * ** * * * *
1486004 AAGTTGGTGGCAACTCTTTTCAAAGCCCACACAAATTGGTGGC-ACCCT-TCCAAAG--CTCAT
1 AAGTCGGTGGC-AC-CTTTTCAAAG-CCACACAACTCAGTGGCAACTCTATTCAAAGTCCACAC
** * * * * *
1486064 AAGTTAGTGGTACCTTTTTAAAGCC-CACAAGTCAGTGGCACACCCT-TTCAAAG-CC-CAA
1 AAGTCGGTGGCACCTTTTCAAAGCCACACAACTCAGTGGCA-ACTCTATTCAAAGTCCACAC
* * * *
1486122 AAGTCGGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAA
1 AAGTCGGTGGCACCTTTTCAAAG-CCACACAACTCAGTGGCAACTCTATTCAAA
1486176 TCACCACTTT
Statistics
Matches: 235, Mismatches: 38, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
55 9 0.04
56 23 0.10
57 4 0.02
58 50 0.21
59 10 0.04
60 78 0.33
61 8 0.03
62 37 0.16
63 6 0.03
64 10 0.04
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (61 bp):
AAGTCGGTGGCACCTTTTCAAAGCCACACAACTCAGTGGCAACTCTATTCAAAGTCCACAC
Found at i:1486018 original size:92 final size:91
Alignment explanation
Indices: 1485869--1486175 Score: 369
Period size: 92 Copynumber: 3.4 Consensus size: 91
1485859 AATGGCATCT
* * *
1485869 TTTCAAAGCCCACAAGTCAGTGG-CA-TCTTTTCAAAGTCCACACAACTCGATGGCAACTCTATT
1 TTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCT-TT
*
1485932 CAAATCCCACACAAATCGGTGGCACCC
65 CAAAGCCCACACAAATCGGTGGCACCC
*
1485959 TTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGTCCACACAAGTTGGTGGCAACTCTTTT
1 TTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGTCCACACAAGTCGGTGGCAACTC-TTT
*
1486024 CAAAGCCCACACAAATTGGTGGCACCC
65 CAAAGCCCACACAAATCGGTGGCACCC
* * * * * * *
1486051 TTCCAAAGCTCATAAGTTAGTGGT-AC-CTTTTTAAAG-CC-CACAAGTCAGTGGCACACCCTTT
1 TTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGTCCACACAAGTCGGTGGCA-ACTCTTT
*
1486112 CAAAGCCCA-A-AAGTCGGTGGCACCC
65 CAAAGCCCACACAAATCGGTGGCACCC
* *
1486137 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAA
1 TTTCAAAG-CC-CACAAGTCAGTGGTAACTCTTTTCAAA
1486176 TCACCACTTT
Statistics
Matches: 186, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
86 20 0.11
87 2 0.01
88 35 0.19
89 7 0.04
90 40 0.22
91 3 0.02
92 78 0.42
93 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (91 bp):
TTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTC
AAAGCCCACACAAATCGGTGGCACCC
Found at i:1486117 original size:30 final size:28
Alignment explanation
Indices: 1485728--1486150 Score: 260
Period size: 28 Copynumber: 14.5 Consensus size: 28
1485718 CGTTCATCTC
* *
1485728 TTCAAAGCCCACAGGTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* ** *
1485757 TTAAAAAACCACAAGTTAGTGGCATCCC-
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * * *
1485785 GTCAAAGCCCACAAGTCGGTAGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1485812 TTCTTAAAGCCCATAAGTCAGTGGCATCCT
1 TTC--AAAGCCCACAAGTCAGTGGCACCCT
* * * *
1485842 TCTCAAAG-CAACAAGTCAATGGCATCTT
1 T-TCAAAGCCCACAAGTCAGTGGCACCCT
* *
1485870 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1485898 TTCAAAGTCCACACAACTC-GATGGCAACTCT
1 TTCAAAG-CC-CACAAGTCAG-TGGC-ACCCT
* * *
1485929 ATTCAAATCCCACACAAATCGGTGGCACCCT
1 -TTCAAA-GCC-CACAAGTCAGTGGCACCCT
* *
1485960 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
** *
1485990 TTCAAAGTCCACACAAGTTGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* **
1486022 TTCAAAGCCCACACAAATTGGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
* * * * * *
1486052 TCCAAAGCTCATAAGTTAGTGGTACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1486080 TTTAAAGCCCACAAGTCAGTGGCACACCCT
1 TTCAAAGCCCACAAGTCAGTGG--CACCCT
* *
1486110 TTCAAAGCCCAAAAGTCGGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1486138 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1486151 CAAGTCGGTG
Statistics
Matches: 313, Mismatches: 61, Indels: 41
0.75 0.15 0.10
Matches are distributed among these distances:
26 1 0.00
27 8 0.03
28 119 0.38
29 52 0.17
30 60 0.19
31 12 0.04
32 60 0.19
33 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1486308 original size:49 final size:49
Alignment explanation
Indices: 1486240--1486338 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
1486230 GGCACCTTTA
* * * * *
1486240 TTAGCCTAATGTCGCTGGCCTTGAATCGGCACATTGGTCCACTTTTCCC
1 TTAGCCCAACGTCCCTGGCCTTGAATCAGCACATTAGTCCACTTTTCCC
*
1486289 TTAGCCCAACGTCCCTGGCCTTGAATCAGCACGTTAGTCCACTTTTCCC
1 TTAGCCCAACGTCCCTGGCCTTGAATCAGCACATTAGTCCACTTTTCCC
1486338 T
1 T
1486339 ATACCTAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.17, C:0.33, G:0.18, T:0.31
Consensus pattern (49 bp):
TTAGCCCAACGTCCCTGGCCTTGAATCAGCACATTAGTCCACTTTTCCC
Found at i:1498412 original size:51 final size:51
Alignment explanation
Indices: 1498336--1498448 Score: 226
Period size: 51 Copynumber: 2.2 Consensus size: 51
1498326 ATAGGTATTT
1498336 GTATCGATACATAAAAGGTTGACTTAAGCTACAGGGTCAAAACCCTAGATA
1 GTATCGATACATAAAAGGTTGACTTAAGCTACAGGGTCAAAACCCTAGATA
1498387 GTATCGATACATAAAAGGTTGACTTAAGCTACAGGGTCAAAACCCTAGATA
1 GTATCGATACATAAAAGGTTGACTTAAGCTACAGGGTCAAAACCCTAGATA
1498438 GTATCGATACA
1 GTATCGATACA
1498449 AACCTAGAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (51 bp):
GTATCGATACATAAAAGGTTGACTTAAGCTACAGGGTCAAAACCCTAGATA
Found at i:1498462 original size:20 final size:21
Alignment explanation
Indices: 1498430--1498468 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1498420 GGGTCAAAAC
1498430 CCTAGATAGTATCGATACAAA
1 CCTAGATAGTATCGATACAAA
1498451 CCTAGA-AGTATCGATACA
1 CCTAGATAGTATCGATACA
1498469 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (21 bp):
CCTAGATAGTATCGATACAAA
Found at i:1500444 original size:97 final size:97
Alignment explanation
Indices: 1500187--1500433 Score: 377
Period size: 97 Copynumber: 2.5 Consensus size: 97
1500177 TTTTTTATTA
* * *
1500187 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAATGTCCTCGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
1500252 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
66 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
* * *
1500284 AAAAGCGGGGTTGGAGTATCCCCTCGAAGGAATGGGGTTGAAGTGTCCCAGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
* *
1500349 AGTGAGAATAAGATTTAAACTTTGATGTGTTT
66 AGTGAGAATAAAATTTAAACTTTGATGCGTTT
* * ** *
1500381 AAAAGCGGGATTGAAGTATCCCCTCGGAGGAATAAGGTTGGAGTATCCCCGAT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
1500434 AAATAAAATT
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 134 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
AGTGAGAATAAAATTTAAACTTTGATGCGTTT
Found at i:1502666 original size:20 final size:20
Alignment explanation
Indices: 1502640--1502694 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1502630 AAAAAGACAG
* * *
1502640 AATGTATTGATACATTCATA
1 AATGTATCGATACATTAAAA
*
1502660 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
1502680 AATGTATCGATACAT
1 AATGTATCGATACAT
1502695 CTGGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:1502746 original size:71 final size:73
Alignment explanation
Indices: 1502591--1502746 Score: 235
Period size: 71 Copynumber: 2.2 Consensus size: 73
1502581 TAACTAGATA
* *
1502591 TATCGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAAAGACAGAATGTATTGATACATT
1 TATCGATACATTAAAAAATGTATCGATACATCTAGGAAAAAAAAGACAGAATGTATCGATACATT
* *
1502656 CATACATG
66 CAAAAATG
**
1502664 TATCGATACATTAAAAAATGTATCGATACATCT-GGGTAAAAAA-ACAGAATGTATCGATACATT
1 TATCGATACATTAAAAAATGTATCGATACATCTAGGAAAAAAAAGACAGAATGTATCGATACATT
*
1502727 GAAAAATG
66 CAAAAATG
1502735 TATCGATACATT
1 TATCGATACATT
1502747 TAGGTAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
71 36 0.47
72 8 0.11
73 32 0.42
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (73 bp):
TATCGATACATTAAAAAATGTATCGATACATCTAGGAAAAAAAAGACAGAATGTATCGATACATT
CAAAAATG
Found at i:1503380 original size:10 final size:10
Alignment explanation
Indices: 1503347--1503381 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1503337 ATACATTAAA
1503347 AGTGATGAAC
1 AGTGATGAAC
* *
1503357 AGCGATGAAT
1 AGTGATGAAC
1503367 AGTGATGAAC
1 AGTGATGAAC
1503377 AGTGA
1 AGTGA
1503382 AACATGAGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.31, T:0.20
Consensus pattern (10 bp):
AGTGATGAAC
Found at i:1504298 original size:42 final size:43
Alignment explanation
Indices: 1504251--1504335 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 43
1504241 CTTTTTTTTA
1504251 TTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCC-CCTT
1 TTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCACCTT
1504293 TTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCACCTT
1 TTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCACCTT
1504336 AATATAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (43 bp):
TTCTTGTAACTAATACCAAAAGTTTATGCAAGCTCTCCACCTT
Found at i:1505305 original size:13 final size:13
Alignment explanation
Indices: 1505284--1505348 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
1505274 CATACTGAAG
*
1505284 CAATGTATCGATT
1 CAATGTATCGATA
*
1505297 CATTGTATCGATA
1 CAATGTATCGATA
* *
1505310 CAATGTATCAATT
1 CAATGTATCGATA
* *
1505323 CATTGTATCAATA
1 CAATGTATCGATA
1505336 CAATGTATCGATA
1 CAATGTATCGATA
1505349 TAAATTTCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1505323 original size:26 final size:26
Alignment explanation
Indices: 1505284--1505344 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
1505274 CATACTGAAG
* *
1505284 CAATGTATCGATTCATTGTATCGATA
1 CAATGTATCAATTCATTGTATCAATA
1505310 CAATGTATCAATTCATTGTATCAATA
1 CAATGTATCAATTCATTGTATCAATA
1505336 CAATGTATC
1 CAATGTATC
1505345 GATATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (26 bp):
CAATGTATCAATTCATTGTATCAATA
Found at i:1509045 original size:32 final size:33
Alignment explanation
Indices: 1508987--1509049 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
1508977 CACCCAGATG
*
1508987 TATCGATACATTATGCTTTGTATCGATACATTC
1 TATCGATACATTATGCATTGTATCGATACATTC
1509020 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
1509050 GGACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTC
Found at i:1509060 original size:20 final size:19
Alignment explanation
Indices: 1509014--1509070 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1509004 TTGTATCGAT
* *
1509014 ACATTCTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1509033 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1509052 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1509071 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1511371 original size:19 final size:19
Alignment explanation
Indices: 1511349--1511386 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1511339 AAAAGAATTA
1511349 GAAAAGAAAATAACCGAAT
1 GAAAAGAAAATAACCGAAT
1511368 GAAAAGAAAATAACCGAAT
1 GAAAAGAAAATAACCGAAT
1511387 TGCAAGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.16, T:0.11
Consensus pattern (19 bp):
GAAAAGAAAATAACCGAAT
Found at i:1514635 original size:20 final size:20
Alignment explanation
Indices: 1514610--1514684 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
1514600 TTTTCACAAT
1514610 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
1514630 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
1514650 TCGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
* *
1514670 ATGTATCAATACATT
1 TTGTATCGATACATT
1514685 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 1 0.02
20 47 0.98
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1517064 original size:28 final size:28
Alignment explanation
Indices: 1517032--1517103 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1517022 TCACAATCAA
**
1517032 GGATACTCCAACCCTGTTATTTCATTGG
1 GGATACTCCAACCCTGTTATTTCAGAGG
* *
1517060 GGATACTCCAACCCCGTTATTTCCGAGG
1 GGATACTCCAACCCTGTTATTTCAGAGG
*
1517088 GGATACTACAACCCTG
1 GGATACTCCAACCCTG
1517104 GCTTTATTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (28 bp):
GGATACTCCAACCCTGTTATTTCAGAGG
Found at i:1517170 original size:107 final size:106
Alignment explanation
Indices: 1516979--1517181 Score: 250
Period size: 107 Copynumber: 1.9 Consensus size: 106
1516969 TTTTCATCTC
* **
1516979 GGGGATACTCCAACCCCGATTTCATTTCCAAAATACCAATTTTTCACAATCAAGGATACTCCAAC
1 GGGGATACTACAACCCCGATTTCATTTCCAAAATACCAATTTCCCACAATCAAGGATACTCCAAC
* *
1517044 CCTGTTATTTCATTGGGGATACTCCAACCCCGTTATTTCCGA
66 CCCGTTATTT-ATCGGGGATACTCCAACCCCGTTATTTCCGA
* * * **
1517086 GGGGATACTACAACCCTGGCTTT-ATTTCTAAAATATTAATTTCCCACAATC-AGGAATACTCCA
1 GGGGATACTACAACCC-CGATTTCATTTCCAAAATACCAATTTCCCACAATCAAGG-ATACTCCA
1517149 ACCCCGTTATTT-TCGCAGGGATACTCCAACCCC
64 ACCCCGTTATTTATCG--GGGATACTCCAACCCC
1517182 AGCCTTATTT
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
105 2 0.02
106 3 0.04
107 73 0.89
108 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (106 bp):
GGGGATACTACAACCCCGATTTCATTTCCAAAATACCAATTTCCCACAATCAAGGATACTCCAAC
CCCGTTATTTATCGGGGATACTCCAACCCCGTTATTTCCGA
Found at i:1517270 original size:78 final size:79
Alignment explanation
Indices: 1517060--1517337 Score: 285
Period size: 79 Copynumber: 3.5 Consensus size: 79
1517050 ATTTCATTGG
** * * ** * * *
1517060 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTACAACCCTGGCTTTA-TTTCTAAAATATTA
1 GGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCAGCCTTATTTTC-AAAACACTA
*
1517124 ATTTCCCACAATC-A
65 ATTTTCCACAATCGA
* * * *
1517138 GGAATACTCCAACCCCGTTATTTTCGCAGGGATACTCCAACCCCAGCCTTATTTTTAAAGCA-TC
1 GG-ATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCAGCCTTATTTTCAAAACACT-
* * *
1517202 AATTTTTCATAATCGG
64 AATTTTCCACAATCGA
* * * * * * *
1517218 GGATACTCTAATCTCGTTATTTTTG-AGGGATACTCCAACCTCGGTCTTATTTTCAAAACACTGA
1 GGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCAGCCTTATTTTCAAAACACTAA
1517282 TTTTCCACAATCGA
66 TTTTCCACAATCGA
1517296 GGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCC
1 GGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCC
1517338 TAATTTTATT
Statistics
Matches: 163, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
78 67 0.41
79 91 0.56
80 5 0.03
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCCAGCCTTATTTTCAAAACACTAA
TTTTCCACAATCGA
Found at i:1519557 original size:21 final size:22
Alignment explanation
Indices: 1519533--1519582 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1519523 ATCAAATCTT
* *
1519533 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
1519554 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
1519576 --TCAAAAT
1 CTTCAAAAT
1519583 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:1519613 original size:21 final size:23
Alignment explanation
Indices: 1519584--1519639 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 23
1519574 CATCAAAATC
*
1519584 ATCAACAAAAACGGTT-TT-AAA
1 ATCATCAAAAACGGTTATTCAAA
* *
1519605 ATCATC-AAATCTGTTATTCAAA
1 ATCATCAAAAACGGTTATTCAAA
1519627 ATCTATCAAAAAC
1 ATC-ATCAAAAAC
1519640 CATAATCTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 7 0.26
21 7 0.26
22 6 0.22
23 3 0.11
24 4 0.15
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (23 bp):
ATCATCAAAAACGGTTATTCAAA
Found at i:1520854 original size:15 final size:15
Alignment explanation
Indices: 1520834--1520870 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1520824 GAAGAAGATG
1520834 CTCCTCCTCCTCCTT
1 CTCCTCCTCCTCCTT
*
1520849 CTCCTCCTCCTCTTT
1 CTCCTCCTCCTCCTT
*
1520864 CTTCTCC
1 CTCCTCC
1520871 ATCGAAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (15 bp):
CTCCTCCTCCTCCTT
Found at i:1522028 original size:13 final size:13
Alignment explanation
Indices: 1522010--1522034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1522000 TACATGGCAA
1522010 ATTGTATCGATAC
1 ATTGTATCGATAC
1522023 ATTGTATCGATA
1 ATTGTATCGATA
1522035 TATGATGAAT
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:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:1522033 original size:33 final size:33
Alignment explanation
Indices: 1521991--1522059 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1521981 CTATCACTGT
*
1521991 TTGTATCGATACATGGCAAATTGTATCGATACA
1 TTGTATCGATACATGACAAATTGTATCGATACA
* **
1522024 TTGTATCGATATATGATGAATTGTATCGATACA
1 TTGTATCGATACATGACAAATTGTATCGATACA
1522057 TTG
1 TTG
1522060 CTTCAAATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGACAAATTGTATCGATACA
Found at i:1522909 original size:10 final size:10
Alignment explanation
Indices: 1522894--1522928 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1522884 ATTAAAAGTA
1522894 ATGAATAGTG
1 ATGAATAGTG
1522904 ATGAATAGTG
1 ATGAATAGTG
* *
1522914 ATGAACAATG
1 ATGAATAGTG
1522924 ATGAA
1 ATGAA
1522929 CAATGAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.26
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:1523130 original size:21 final size:22
Alignment explanation
Indices: 1523106--1523149 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1523096 ATACATTACA
1523106 TATTT-TTACTTTGAAAAACAT
1 TATTTCTTACTTTGAAAAACAT
**
1523127 TATTTCTTTGTTTGAAAAACAT
1 TATTTCTTACTTTGAAAAACAT
1523149 T
1 T
1523150 TAATCATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (22 bp):
TATTTCTTACTTTGAAAAACAT
Found at i:1524473 original size:128 final size:127
Alignment explanation
Indices: 1524235--1524496 Score: 434
Period size: 128 Copynumber: 2.1 Consensus size: 127
1524225 AATGTCAATA
* *
1524235 ACTTAAAACCGACCAATCTATACTTGAAAATAACTTGAACCCGAAATGACTCAATCTATAGTATT
1 ACTTAAAACCGACCAATCTATACTTGAAAATAACTTGAACCCGAAATGACTAAATCTATAGTATC
*
1524300 CCAAATCTAAAATAACCTTAATCTGAAACGATCCGAATCTAAAATAATCCAAACCCAAAATG
66 CCAAATCTAAAATAACCTTAATCTGAAACGATCCAAATCTAAAATAATCCAAACCCAAAATG
* * *
1524362 ACTTAAAACCGACCAATCTATACTTGAAAATGACTTGAACCCGAAATGACTTAAATTTGTAGTAT
1 ACTTAAAACCGACCAATCTATACTTGAAAATAACTTGAACCCGAAATGAC-TAAATCTATAGTAT
* *
1524427 CCCAAATCTAAAATAACTTTAATCTGAAACGATCCAAATCTAAAATAATCCAAGCCCAAAATG
65 CCCAAATCTAAAATAACCTTAATCTGAAACGATCCAAATCTAAAATAATCCAAACCCAAAATG
*
1524490 ACATAAA
1 ACTTAAA
1524497 CTTGAAATGA
Statistics
Matches: 125, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
127 49 0.39
128 76 0.61
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (127 bp):
ACTTAAAACCGACCAATCTATACTTGAAAATAACTTGAACCCGAAATGACTAAATCTATAGTATC
CCAAATCTAAAATAACCTTAATCTGAAACGATCCAAATCTAAAATAATCCAAACCCAAAATG
Found at i:1525370 original size:2 final size:2
Alignment explanation
Indices: 1525363--1525395 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1525353 AATATGATTC
1525363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1525396 CATAAAACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1525921 original size:28 final size:28
Alignment explanation
Indices: 1525878--1525944 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
1525868 AATTCTAAAT
1525878 ATATAATAAATTTTATTATTATATAATA
1 ATATAATAAATTTTATTATTATATAATA
*
1525906 A-ATATATAAATTTTATTTTTATATAATA
1 ATATA-ATAAATTTTATTATTATATAATA
1525934 ATATAATAAAT
1 ATATAATAAAT
1525945 ATATAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 3 0.08
28 30 0.83
29 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATATAATAAATTTTATTATTATATAATA
Found at i:1525943 original size:36 final size:36
Alignment explanation
Indices: 1525898--1525973 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
1525888 TTTTATTATT
* *
1525898 ATATAATAAATATATAAATTTTATTTTTATATAA-TA
1 ATATAATAAATATAT-AATTTTATTATTATAAAATTA
1525934 ATATAATAAATATATAATTTTATTATTATAAAATTA
1 ATATAATAAATATATAATTTTATTATTATAAAATTA
1525970 ATAT
1 ATAT
1525974 GAATTAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 16 0.43
36 21 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
ATATAATAAATATATAATTTTATTATTATAAAATTA
Found at i:1526172 original size:14 final size:14
Alignment explanation
Indices: 1526125--1526171 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
1526115 ATGAACTATA
*
1526125 ATTTTT-ATTTTAT
1 ATTTTTAATTTAAT
1526138 ATATTTTAATTTAAT
1 AT-TTTTAATTTAAT
*
1526153 ATTTTTAA-TTATT
1 ATTTTTAATTTAAT
1526166 ATTTTT
1 ATTTTT
1526172 TCGTTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.40
14 10 0.33
15 8 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTAATTTAAT
Found at i:1528284 original size:16 final size:15
Alignment explanation
Indices: 1528259--1528288 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1528249 TAAATGATCA
1528259 TAAAAAATATTAATT
1 TAAAAAATATTAATT
1528274 TAAAAATATATTAAT
1 TAAAAA-ATATTAAT
1528289 AAATTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAAATATTAATT
Found at i:1528614 original size:23 final size:21
Alignment explanation
Indices: 1528588--1528652 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 21
1528578 ATAAAGTAAA
1528588 ATTTTATATAATTATATAAATTT
1 ATTTT-TATAATTATATAAA-TT
*
1528611 ATTTTTTAATATATTAAATAAA-T
1 A-TTTTT-ATA-ATTATATAAATT
*
1528634 AATTTTA-AATTATATAAAT
1 ATTTTTATAATTATATAAAT
1528653 AAAAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
19 9 0.26
20 1 0.03
21 1 0.03
22 4 0.11
23 4 0.11
24 7 0.20
25 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTTATAATTATATAAATT
Found at i:1528638 original size:24 final size:24
Alignment explanation
Indices: 1528589--1528655 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 24
1528579 TAAAGTAAAA
* *
1528589 TTTT-ATATAATTATATAAATTTATT
1 TTTTAATAT-ATTAAATAAA-TTAAT
1528614 TTTTAATATATTAAATAAA-TAAT
1 TTTTAATATATTAAATAAATTAAT
*
1528637 TTTAAAT-TATATAAATAAA
1 TTTTAATATAT-TAAATAAA
1528656 AATATATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 3 0.08
23 17 0.46
25 13 0.35
26 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTAATATATTAAATAAATTAAT
Found at i:1528661 original size:14 final size:13
Alignment explanation
Indices: 1528645--1528692 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
1528635 ATTTTAAATT
1528645 ATATAAATAAAAA
1 ATATAAATAAAAA
1528658 TATATAAA-AAAAA
1 -ATATAAATAAAAA
* *
1528671 AGATAAATAAGAA
1 ATATAAATAAAAA
1528684 A-ATAAATAA
1 ATATAAATAA
1528693 TTTAAAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 14 0.45
13 10 0.32
14 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (13 bp):
ATATAAATAAAAA
Found at i:1528665 original size:23 final size:24
Alignment explanation
Indices: 1528620--1528665 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
1528610 TATTTTTTAA
*
1528620 TATATTAAATAAATAATTTTAAAT
1 TATATTAAATAAATAATTATAAAT
1528644 TATA-TAAATAAA-AATATATAAA
1 TATATTAAATAAATAAT-TATAAA
1528666 AAAAAAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 13 0.65
24 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TATATTAAATAAATAATTATAAAT
Found at i:1529744 original size:93 final size:96
Alignment explanation
Indices: 1529576--1529762 Score: 310
Period size: 93 Copynumber: 2.0 Consensus size: 96
1529566 CAATTGTAAT
*
1529576 ATTAGTTTTTATTGTGTTTGAAGTGATAGTTTTTTTTTCTTAATTTCTTTTATTAATTTTTGTAG
1 ATTAGTTTTTATCGTGTTTGAAGTGATAG--TTTTTTTCTTAATTTCTTTTATTAATTTTTGTAG
1529641 ATTTTTTGGTAGAGTTGGTGTTTTGATTGAAAA
64 ATTTTTTGGTAGAGTTGGTGTTTTGATTGAAAA
1529674 ATTAGTTTTTATCGTGTTTGAAGTTG-TAG-TTTTTT-TT-ATTTCTTTTATTAATTTTTGTAGA
1 ATTAGTTTTTATCGTGTTTGAAG-TGATAGTTTTTTTCTTAATTTCTTTTATTAATTTTTGTAGA
1529735 TTTTTTGGTAGAGTTGGTGTTTTGATTG
65 TTTTTTGGTAGAGTTGGTGTTTTGATTG
1529763 GGGCTTTGTT
Statistics
Matches: 87, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
93 52 0.60
94 2 0.02
95 6 0.07
98 25 0.29
99 2 0.02
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.59
Consensus pattern (96 bp):
ATTAGTTTTTATCGTGTTTGAAGTGATAGTTTTTTTCTTAATTTCTTTTATTAATTTTTGTAGAT
TTTTTGGTAGAGTTGGTGTTTTGATTGAAAA
Found at i:1532915 original size:2 final size:2
Alignment explanation
Indices: 1532908--1532943 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1532898 CTGAAGTTTC
1532908 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1532944 GTTTCCCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1535771 original size:2 final size:2
Alignment explanation
Indices: 1535764--1535792 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1535754 TTGATCAATG
1535764 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1535793 TCCACATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1539948 original size:37 final size:38
Alignment explanation
Indices: 1539894--1539973 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
1539884 ATTTTATTTA
* * * *
1539894 TATAATTTTAATGTATA-TAGTTAAAATTTAAATAAAT
1 TATATTTTTAATATATATTACTAAAAATTTAAATAAAT
*
1539931 TATATTTTTAATATATATTACTAAAAATTTAAATATAT
1 TATATTTTTAATATATATTACTAAAAATTTAAATAAAT
1539969 TATAT
1 TATAT
1539974 ATAGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 15 0.41
38 22 0.59
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (38 bp):
TATATTTTTAATATATATTACTAAAAATTTAAATAAAT
Found at i:1540081 original size:12 final size:12
Alignment explanation
Indices: 1540066--1540109 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1540056 TAAATTATGC
1540066 TTTAAAATAATA
1 TTTAAAATAATA
*
1540078 TTTAAAATTATA
1 TTTAAAATAATA
*
1540090 -TAAAAATAATA
1 TTTAAAATAATA
*
1540101 TTTTAAATA
1 TTTAAAATA
1540110 TATAATACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTTAAAATAATA
Found at i:1540111 original size:22 final size:23
Alignment explanation
Indices: 1540069--1540114 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
1540059 ATTATGCTTT
1540069 AAAATAATATTTAAAATTATATA
1 AAAATAATATTTAAAATTATATA
*
1540092 AAAATAATATTTTAAA-TATATA
1 AAAATAATATTTAAAATTATATA
1540114 A
1 A
1540115 TACACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATAATATTTAAAATTATATA
Found at i:1540147 original size:29 final size:28
Alignment explanation
Indices: 1540069--1540141 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
1540059 ATTATGCTTT
*
1540069 AAAATAATA-TTTAAA-AT-T-ATATA-
1 AAAATAATATTTTAAATATATAATACAC
1540092 AAAATAATATTTTAAATATATAATACAC
1 AAAATAATATTTTAAATATATAATACAC
*
1540120 AAAATAATATTTATGAATATAT
1 AAAATAATATTT-TAAATATAT
1540142 TTTACAAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.21
24 6 0.14
25 2 0.05
26 1 0.02
27 4 0.10
28 12 0.29
29 8 0.19
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (28 bp):
AAAATAATATTTTAAATATATAATACAC
Found at i:1540331 original size:22 final size:22
Alignment explanation
Indices: 1540306--1540356 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1540296 GTTCAGGCTC
*
1540306 GTTCGAGTTCGAGCTCATTTGA
1 GTTCGAGTTCGAGCTCATTCGA
* * *
1540328 GTTCGGGTTCGAGCTTATTCGG
1 GTTCGAGTTCGAGCTCATTCGA
1540350 GTTCGAG
1 GTTCGAG
1540357 CTTATTTGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.14, C:0.18, G:0.33, T:0.35
Consensus pattern (22 bp):
GTTCGAGTTCGAGCTCATTCGA
Found at i:1540348 original size:16 final size:16
Alignment explanation
Indices: 1540329--1540404 Score: 91
Period size: 16 Copynumber: 4.8 Consensus size: 16
1540319 CTCATTTGAG
1540329 TTCGGGTTCGAGCTTA
1 TTCGGGTTCGAGCTTA
1540345 TTCGGGTTCGAGCTTA
1 TTCGGGTTCGAGCTTA
* * *
1540361 TTTGGTTTC-AGACTTT
1 TTCGGGTTCGAG-CTTA
*
1540377 TTCGGGTTCGAGCTCA
1 TTCGGGTTCGAGCTTA
*
1540393 TTTGGGTTCGAG
1 TTCGGGTTCGAG
1540405 TTCGGGTCGG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
15 2 0.04
16 46 0.92
17 2 0.04
ACGTcount: A:0.12, C:0.17, G:0.30, T:0.41
Consensus pattern (16 bp):
TTCGGGTTCGAGCTTA
Found at i:1540354 original size:38 final size:36
Alignment explanation
Indices: 1540289--1540407 Score: 104
Period size: 38 Copynumber: 3.3 Consensus size: 36
1540279 CAATTGGGCG
** *
1540289 GGTTCGGGTTCAGGCTCGTTCGAGTTCGAGCTCATTT
1 GGTTCGGGTTCA-GCTTATTCGGGTTCGAGCTCATTT
*
1540326 GAGTTCGGGTTCGAGCTTATTCGGGTTCGAGCTTATTT
1 G-GTTCGGGTTC-AGCTTATTCGGGTTCGAGCTCATTT
*
1540364 GG-T----TTCAGACTTTTTCGGGTTCGAGCTCATTT
1 GGTTCGGGTTCAG-CTTATTCGGGTTCGAGCTCATTT
*
1540396 GGGTTCGAGTTC
1 -GGTTCGGGTTC
1540408 GGGTCGGTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
31 2 0.03
32 24 0.36
33 2 0.03
34 1 0.01
36 1 0.01
37 2 0.03
38 34 0.51
39 1 0.01
ACGTcount: A:0.12, C:0.18, G:0.31, T:0.39
Consensus pattern (36 bp):
GGTTCGGGTTCAGCTTATTCGGGTTCGAGCTCATTT
Found at i:1541400 original size:21 final size:20
Alignment explanation
Indices: 1541375--1541428 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
1541365 TTACAAGCCA
1541375 ATGTATCGATACAAT-TTGGT
1 ATGTATCGATACAATCTT-GT
1541395 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
1541415 ATGTATCGATACAA
1 ATGTATCGATACAA
1541429 ATAGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.39
20 5 0.16
21 14 0.45
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:1541520 original size:20 final size:20
Alignment explanation
Indices: 1541497--1541566 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
1541487 GCAAGTATTA
*
1541497 ATACATTTGGTCATGTATCG
1 ATACATTTGATCATGTATCG
* *
1541517 ATAC-TGTGCATTATGTATCG
1 ATACATTTG-ATCATGTATCG
* ***
1541537 ATACATCTGAAGGTGTATCG
1 ATACATTTGATCATGTATCG
1541557 ATACATTTGA
1 ATACATTTGA
1541567 GGGTTTTGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 3 0.08
20 34 0.85
21 3 0.08
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (20 bp):
ATACATTTGATCATGTATCG
Found at i:1544015 original size:13 final size:13
Alignment explanation
Indices: 1543997--1544032 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1543987 ATAAACCCTT
*
1543997 TGTATCGATACAC
1 TGTATCGATACAA
1544010 TGTATCGATACAA
1 TGTATCGATACAA
1544023 TGTATCGATA
1 TGTATCGATA
1544033 TAGAGAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1544489 original size:19 final size:19
Alignment explanation
Indices: 1544465--1544530 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
1544455 TTTCAACGAT
1544465 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1544484 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1544498 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1544516 TTGTATCGATACATA
1 TTGTATCGATACATA
1544531 TGAAGTTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1544502 original size:32 final size:32
Alignment explanation
Indices: 1544466--1544528 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1544456 TTCAACGATT
1544466 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1544498 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
1544529 TATGAAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1544503 original size:13 final size:13
Alignment explanation
Indices: 1544485--1544509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1544475 ACATAAGTGT
1544485 TGTATCGATACAA
1 TGTATCGATACAA
1544498 TGTATCGATACA
1 TGTATCGATACA
1544510 TAAGTGTTGT
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:1552426 original size:20 final size:21
Alignment explanation
Indices: 1552379--1552430 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1552369 GCCAATCACC
*
1552379 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
1552400 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
1552420 TGTATCGATAC
1 TGTATCGATAC
1552431 TATGTATCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 13 0.48
21 13 0.48
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:1552437 original size:13 final size:13
Alignment explanation
Indices: 1552419--1552444 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1552409 ACATTTGGTC
1552419 ATGTATCGATACT
1 ATGTATCGATACT
1552432 ATGTATCGATACT
1 ATGTATCGATACT
1552445 CTGCATTATG
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):
ATGTATCGATACT
Found at i:1553411 original size:16 final size:15
Alignment explanation
Indices: 1553386--1553415 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1553376 ATGTTAAATT
1553386 TATATTATATTCTAC
1 TATATTATATTCTAC
1553401 TATATTGATATTCTA
1 TATATT-ATATTCTA
1553416 AGTGCGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATTATATTCTAC
Found at i:1555525 original size:21 final size:23
Alignment explanation
Indices: 1555485--1555527 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1555475 TGAATAATAA
1555485 GATCAATCCTTGTTTCTATAAAG
1 GATCAATCCTTGTTTCTATAAAG
*
1555508 GATCTATCCTT-TTT-TATAAA
1 GATCAATCCTTGTTTCTATAAA
1555528 AGATTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (23 bp):
GATCAATCCTTGTTTCTATAAAG
Found at i:1556005 original size:21 final size:21
Alignment explanation
Indices: 1555973--1556055 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 21
1555963 ATACATAATT
*
1555973 ATATTTACATATAGTAAAAAA
1 ATATGTACATATAGTAAAAAA
* * * **
1555994 ATATGTATATATAGCATAACT
1 ATATGTACATATAGTAAAAAA
* *
1556015 GTATGTACATATGGTAAAAAA
1 ATATGTACATATAGTAAAAAA
1556036 ATATGTACATATAGTAAAAA
1 ATATGTACATATAGTAAAAA
1556056 TTATATTTGT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.33
Consensus pattern (21 bp):
ATATGTACATATAGTAAAAAA
Found at i:1556025 original size:42 final size:42
Alignment explanation
Indices: 1555958--1556049 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
1555948 ATAAAAACAA
* *
1555958 TATATATA-CATAATTATATTTACATATAGTAAAAAAATATG
1 TATATATAGCATAACTATATGTACATATAGTAAAAAAATATG
* *
1555999 TATATATAGCATAACTGTATGTACATATGGTAAAAAAATATG
1 TATATATAGCATAACTATATGTACATATAGTAAAAAAATATG
*
1556041 TACATATAG
1 TATATATAG
1556050 TAAAAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 8 0.18
42 37 0.82
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (42 bp):
TATATATAGCATAACTATATGTACATATAGTAAAAAAATATG
Found at i:1556210 original size:21 final size:21
Alignment explanation
Indices: 1556186--1556238 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1556176 CTCTATGCAA
1556186 ATATAGTAAAACCACATGTAC
1 ATATAGTAAAACCACATGTAC
* * *
1556207 ATATAGTATAACTATATGTAC
1 ATATAGTAAAACCACATGTAC
1556228 ATATAGTAAAA
1 ATATAGTAAAA
1556239 ACTATATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.30
Consensus pattern (21 bp):
ATATAGTAAAACCACATGTAC
Found at i:1556342 original size:19 final size:19
Alignment explanation
Indices: 1556320--1556357 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1556310 TTGATCGATA
*
1556320 CTTAGAAAAATGATCAATT
1 CTTAGAAAAAGGATCAATT
1556339 CTTAGAAAAAGGATCAATT
1 CTTAGAAAAAGGATCAATT
1556358 TTTTTCGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (19 bp):
CTTAGAAAAAGGATCAATT
Found at i:1557321 original size:20 final size:19
Alignment explanation
Indices: 1557292--1557330 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1557282 AGGTCAAAAC
1557292 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
1557311 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
1557331 TAATGCACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:1557382 original size:20 final size:21
Alignment explanation
Indices: 1557353--1557405 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
1557343 ATAGATACAT
*
1557353 TGTATTGATACATG-ACCA-AA
1 TGTATCGATACATGCA-CAGAA
* *
1557373 TGTATCGATACTTGCATAGAA
1 TGTATCGATACATGCACAGAA
1557394 TGTATCGATACA
1 TGTATCGATACA
1557406 GGTGATTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATGCACAGAA
Found at i:1558060 original size:20 final size:20
Alignment explanation
Indices: 1558037--1558109 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1558027 ACAATTCAAA
1558037 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1558057 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1558078 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1558098 GTATCGATACAT
1 GTATCGATACAT
1558110 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:1558081 original size:21 final size:21
Alignment explanation
Indices: 1558055--1558130 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1558045 ACATGTTGCA
1558055 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1558076 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1558096 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1558117 ATGTATCGATACAT
1 ATGTATCGATACAT
1558131 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:1558088 original size:41 final size:41
Alignment explanation
Indices: 1558037--1558130 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1558027 ACAATTCAAA
*
1558037 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1558078 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1558119 GTATCGATACAT
1 GTATCGATACAT
1558131 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:1558187 original size:13 final size:13
Alignment explanation
Indices: 1558169--1558194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1558159 TACAGCAAGT
1558169 ATGTATCGATACA
1 ATGTATCGATACA
1558182 ATGTATCGATACA
1 ATGTATCGATACA
1558195 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:1562278 original size:15 final size:15
Alignment explanation
Indices: 1562258--1562288 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1562248 TAAAAATGTC
*
1562258 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1562273 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1562288 C
1 C
1562289 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:1564381 original size:20 final size:21
Alignment explanation
Indices: 1564302--1564380 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
1564292 AATGTCCAAA
*
1564302 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
1564322 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
1564347 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
1564367 TTGTATCGATACAT
1 ATGTATCGATACAT
1564381 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:1564385 original size:13 final size:13
Alignment explanation
Indices: 1564367--1564405 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1564357 ACATTTTTCT
1564367 TTGTATCGATACA
1 TTGTATCGATACA
1564380 TTGTATCGATACA
1 TTGTATCGATACA
*
1564393 CTGTATCGATACA
1 TTGTATCGATACA
1564406 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:1566875 original size:20 final size:20
Alignment explanation
Indices: 1566852--1566924 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1566842 ACAATTCAAA
1566852 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1566872 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1566893 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1566913 GTATCGATACAT
1 GTATCGATACAT
1566925 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:1566896 original size:21 final size:21
Alignment explanation
Indices: 1566870--1566945 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1566860 ACATGTTGCA
1566870 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1566891 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1566911 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1566932 ATGTATCGATACAT
1 ATGTATCGATACAT
1566946 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:1566903 original size:41 final size:41
Alignment explanation
Indices: 1566852--1566945 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1566842 ACAATTCAAA
*
1566852 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1566893 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1566934 GTATCGATACAT
1 GTATCGATACAT
1566946 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:1567002 original size:13 final size:13
Alignment explanation
Indices: 1566984--1567009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1566974 TACAGCAAGT
1566984 ATGTATCGATACA
1 ATGTATCGATACA
1566997 ATGTATCGATACA
1 ATGTATCGATACA
1567010 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:1569552 original size:113 final size:112
Alignment explanation
Indices: 1569368--1569578 Score: 307
Period size: 113 Copynumber: 1.9 Consensus size: 112
1569358 GATTGCATGT
* * * *
1569368 CAAAATGCAACATTGAATCTTAACTAGTGCTACCCATTGATAACTAGTCAGCAATCATCAACATC
1 CAAAATGCAACATTAAATCTCAACCAATGCTACCCATTGATAACTAGTCAGCAATCATCAACATC
* * *
1569433 TTGATAAATATCATATAAGTTAAGATTGGAAACCATGGAATGTATGC
66 TGGATAAATATCATATAAGTTAACATTAGAAACCATGGAATGTATGC
* * *
1569480 CAAAATGCAACATTAAATCTCAACCAATGGTATCCTATTGATAACTAGTCAGTAA-CAATCAACA
1 CAAAATGCAACATTAAATCTCAACCAATGCTA-CCCATTGATAACTAGTCAGCAATC-ATCAACA
1569544 TCTGGATAAATATCATATAAGTTAACATTAGAAAC
64 TCTGGATAAATATCATATAAGTTAACATTAGAAAC
1569579 GAACTTTCAT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
112 28 0.32
113 59 0.68
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (112 bp):
CAAAATGCAACATTAAATCTCAACCAATGCTACCCATTGATAACTAGTCAGCAATCATCAACATC
TGGATAAATATCATATAAGTTAACATTAGAAACCATGGAATGTATGC
Found at i:1570389 original size:16 final size:16
Alignment explanation
Indices: 1570370--1570460 Score: 87
Period size: 16 Copynumber: 5.8 Consensus size: 16
1570360 GAAAATGATG
*
1570370 CAAACCTAAAATGACC
1 CAAACCTGAAATGACC
* *
1570386 CAAAACTGAAATGGCC
1 CAAACCTGAAATGACC
* *
1570402 CATACCCGAAATGACC
1 CAAACCTGAAATGACC
*
1570418 C-AACCTGAAATAACC
1 CAAACCTGAAATGACC
* *
1570433 CGAA-CTCGAAATAACC
1 CAAACCT-GAAATGACC
1570449 CAAACCTGAAAT
1 CAAACCTGAAAT
1570461 AACTTGAACG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
15 14 0.23
16 45 0.74
17 2 0.03
ACGTcount: A:0.45, C:0.31, G:0.11, T:0.13
Consensus pattern (16 bp):
CAAACCTGAAATGACC
Found at i:1570414 original size:32 final size:32
Alignment explanation
Indices: 1570378--1570463 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 32
1570368 TGCAAACCTA
* **
1570378 AAATGACCCAAAACTGAAATGGCCC-ATACCCG
1 AAATGACCCAAACCTGAAATAACCCGA-ACCCG
*
1570410 AAATGACCC-AACCTGAAATAACCCGAACTCG
1 AAATGACCCAAACCTGAAATAACCCGAACCCG
*
1570441 AAATAACCCAAACCTGAAATAAC
1 AAATGACCCAAACCTGAAATAAC
1570464 TTGAACGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 24 0.51
32 23 0.49
ACGTcount: A:0.45, C:0.30, G:0.12, T:0.13
Consensus pattern (32 bp):
AAATGACCCAAACCTGAAATAACCCGAACCCG
Found at i:1572984 original size:19 final size:20
Alignment explanation
Indices: 1572954--1572993 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
1572944 ATCCTTAAGC
1572954 TTATACTATGCATCATTCAT
1 TTATACTATGCATCATTCAT
1572974 TTATA-TATGCATCATTCAT
1 TTATACTATGCATCATTCAT
1572993 T
1 T
1572994 GCCAAGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATACTATGCATCATTCAT
Found at i:1575050 original size:20 final size:20
Alignment explanation
Indices: 1575026--1575073 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
1575016 AAAGATATTT
1575026 ATTTTTATTAAAAATT-AAA
1 ATTTTTATTAAAAATTAAAA
* *
1575045 ATTTTTA-TATATATTAAAA
1 ATTTTTATTAAAAATTAAAA
1575064 TATTTTTATT
1 -ATTTTTATT
1575074 TTTTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.25
19 10 0.42
20 7 0.29
21 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTATTAAAAATTAAAA
Found at i:1575401 original size:16 final size:16
Alignment explanation
Indices: 1575377--1575413 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1575367 CCAATTGACC
*
1575377 GAACTCGAAATAACTT
1 GAACCCGAAATAACTT
*
1575393 GAACCCGAAATGACTT
1 GAACCCGAAATAACTT
1575409 GAACC
1 GAACC
1575414 TAAAATAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (16 bp):
GAACCCGAAATAACTT
Found at i:1575419 original size:16 final size:16
Alignment explanation
Indices: 1575384--1575422 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1575374 ACCGAACTCG
*
1575384 AAATAACTTGAACCCG
1 AAATAACTTGAACCCA
* *
1575400 AAATGACTTGAACCTA
1 AAATAACTTGAACCCA
1575416 AAATAAC
1 AAATAAC
1575423 CTAAAACCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (16 bp):
AAATAACTTGAACCCA
Found at i:1575460 original size:16 final size:16
Alignment explanation
Indices: 1575415--1575503 Score: 74
Period size: 16 Copynumber: 5.5 Consensus size: 16
1575405 ACTTGAACCT
*
1575415 AAAATAACCTAAAAC-C
1 AAAATGACCT-AAACTC
*
1575431 AAAATGAACC-AAACTT
1 AAAATG-ACCTAAACTC
1575447 AAAATGACCTAAACTC
1 AAAATGACCTAAACTC
* * **
1575463 GAAATAACCCGAACTC
1 AAAATGACCTAAACTC
*
1575479 AAAACGACCTAAACTC
1 AAAATGACCTAAACTC
1575495 AAAAGTGAC
1 AAAA-TGAC
1575504 TTGAAAGTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
15 7 0.12
16 43 0.77
17 6 0.11
ACGTcount: A:0.53, C:0.25, G:0.08, T:0.15
Consensus pattern (16 bp):
AAAATGACCTAAACTC
Found at i:1576909 original size:32 final size:30
Alignment explanation
Indices: 1576873--1576931 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1576863 GAAAACAAAT
1576873 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1576905 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1576932 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1577331 original size:20 final size:20
Alignment explanation
Indices: 1577285--1577358 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
1577275 ATCCCAATGA
* **
1577285 CATGTATCGATACATCGTTTT
1 CATGTATCGATACATTG-AAT
1577306 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
1577326 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
1577346 TATGTATCGATAC
1 CATGTATCGATAC
1577359 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.04
20 28 0.61
21 16 0.35
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:1579339 original size:21 final size:20
Alignment explanation
Indices: 1579310--1579352 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1579300 GACTAGTGTG
* *
1579310 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1579331 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1579351 GG
1 GG
1579353 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1581888 original size:15 final size:15
Alignment explanation
Indices: 1581868--1581898 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1581858 ATTTCGTTTG
*
1581868 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1581883 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1581898 G
1 G
1581899 GATATTTTTA
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:1585661 original size:32 final size:30
Alignment explanation
Indices: 1585625--1585683 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1585615 GAAAACAAAT
1585625 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1585657 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1585684 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1586050 original size:20 final size:20
Alignment explanation
Indices: 1586004--1586077 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
1585994 ATCCCAATGA
***
1586004 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
1586025 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
1586045 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
1586065 TATGTATCGATAC
1 CATGTATCGATAC
1586078 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:1587425 original size:33 final size:32
Alignment explanation
Indices: 1587382--1587446 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1587372 CACACCCAGA
* *
1587382 TGTATTGATACATATTGCTTAGTATTGATACAT
1 TGTATCGATACATATT-CTTAGTATCGATACAT
* *
1587415 TGTATCGATACATGTTCTTGGTATCGATACAT
1 TGTATCGATACATATTCTTAGTATCGATACAT
1587447 ATTGAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (32 bp):
TGTATCGATACATATTCTTAGTATCGATACAT
Found at i:1587559 original size:20 final size:21
Alignment explanation
Indices: 1587516--1587568 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1587506 TTACTGTGTC
*
1587516 GTATCGATACATACTTGAATT
1 GTATCGATACATACGTGAATT
*
1587537 GTATCGATACATA-GTGCATT
1 GTATCGATACATACGTGAATT
*
1587557 GTATCAATACAT
1 GTATCGATACAT
1587569 TGAGCCTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (21 bp):
GTATCGATACATACGTGAATT
Found at i:1588074 original size:33 final size:31
Alignment explanation
Indices: 1588004--1588130 Score: 116
Period size: 32 Copynumber: 4.0 Consensus size: 31
1587994 CTAAGTGATT
* *
1588004 GAGAGGTTCTATCCTAGCTTTG-AAAGATAGTG
1 GAGAGGTTCTATCTTAGC-CTGAAAAGATAG-G
*
1588036 TAGAGGTTCTATCTTAGCCTGCAAAAGATAGG
1 GAGAGGTTCTATCTTAGCCTG-AAAAGATAGG
*
1588068 GAAGAGGTTTTATCTTAGCCCATGAAAAGATAGG
1 G-AGAGGTTCTATCTTAG-CC-TGAAAAGATAGG
* *
1588102 GAG-GTTTCTATTTTAGCCTTG-AAAGATAG
1 GAGAGGTTCTATCTTAGCC-TGAAAAGATAG
1588131 TGTTATAAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
30 8 0.10
31 6 0.07
32 27 0.33
33 25 0.31
34 13 0.16
35 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (31 bp):
GAGAGGTTCTATCTTAGCCTGAAAAGATAGG
Found at i:1589757 original size:21 final size:21
Alignment explanation
Indices: 1589706--1589799 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 21
1589696 TAATACTCTT
*
1589706 GAAAAGAAAATAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
* *
1589727 GAGGAA-AAAATAAATGAATTG
1 GA-AAAGAAAATAAATGAATTA
* *
1589748 GAAAAGAAAAGAAATGAGTTA
1 GAAAAGAAAATAAATGAATTA
* * *
1589769 CAGGAAGAAAAT-GATGAATTA
1 GA-AAAGAAAATAAATGAATTA
**
1589790 GCTAAGAAAA
1 GAAAAGAAAA
1589800 ACAAAAATTT
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
20 9 0.16
21 37 0.67
22 9 0.16
ACGTcount: A:0.59, C:0.02, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:1589774 original size:42 final size:42
Alignment explanation
Indices: 1589706--1589788 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
1589696 TAATACTCTT
* * *
1589706 GAAAAGAAAATAAGTGAATTAGAGGAA-AAAATAAATGAATTG
1 GAAAAGAAAAGAAATGAATTACAGGAAGAAAAT-AATGAATTG
* *
1589748 GAAAAGAAAAGAAATGAGTTACAGGAAGAAAATGATGAATT
1 GAAAAGAAAAGAAATGAATTACAGGAAGAAAATAATGAATT
1589789 AGCTAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 30 0.86
43 5 0.14
ACGTcount: A:0.58, C:0.01, G:0.23, T:0.18
Consensus pattern (42 bp):
GAAAAGAAAAGAAATGAATTACAGGAAGAAAATAATGAATTG
Found at i:1591879 original size:13 final size:13
Alignment explanation
Indices: 1591861--1591891 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1591851 ACAATTCATC
1591861 ATGTATCGATACA
1 ATGTATCGATACA
*
1591874 ATGTATCGATATA
1 ATGTATCGATACA
1591887 ATGTA
1 ATGTA
1591892 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1591883 original size:33 final size:32
Alignment explanation
Indices: 1591846--1591908 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1591836 TTATAGCCAT
*
1591846 TCGATACAAT-TCATCATGTATCGATACAATGTA
1 TCGATACAATGT-ACCATGTATCGATA-AATGTA
*
1591879 TCGATATAATGTACCATGTATCGATAAATG
1 TCGATACAATGTACCATGTATCGATAAATG
1591909 GTGGTAGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 4 0.15
33 22 0.81
34 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
TCGATACAATGTACCATGTATCGATAAATGTA
Found at i:1596187 original size:13 final size:13
Alignment explanation
Indices: 1596169--1596194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1596159 CAATTTTTTG
1596169 TGTATCGATACAT
1 TGTATCGATACAT
1596182 TGTATCGATACAT
1 TGTATCGATACAT
1596195 ACTTGCTGTA
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:1598757 original size:13 final size:13
Alignment explanation
Indices: 1598739--1598774 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
1598729 ATAATCACCC
1598739 TGTATCGATACAA
1 TGTATCGATACAA
1598752 TGTATCGATACAA
1 TGTATCGATACAA
1598765 TGTATCGATA
1 TGTATCGATA
1598775 TAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1600878 original size:15 final size:15
Alignment explanation
Indices: 1600858--1600887 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1600848 ATTTCGTTTG
*
1600858 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1600873 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1600888 AGACATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1604913 original size:13 final size:13
Alignment explanation
Indices: 1604895--1604919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1604885 CAATTTTTTG
1604895 TGTATCGATACAT
1 TGTATCGATACAT
1604908 TGTATCGATACA
1 TGTATCGATACA
1604920 GCAAGTTTGG
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:1608157 original size:51 final size:51
Alignment explanation
Indices: 1608090--1608204 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
1608080 AAATAACGGG
* *
1608090 GTTGGAGTATCCCCGATTGTA-AGAAATTGGTGTTTT-GAAAATAAAACCAGA
1 GTTGGAGTATCCCCGATTATAGA-AAATTGGTATTTTAG-AAATAAAACCAGA
* * * * *
1608141 GTTGGAATATCTCCGATTATGGAAAATTGGTATTTTAGAAATAAAATCAGG
1 GTTGGAGTATCCCCGATTATAGAAAATTGGTATTTTAGAAATAAAACCAGA
1608192 GTTGGAGTATCCC
1 GTTGGAGTATCCC
1608205 TTCGAAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 51 0.96
52 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATAGAAAATTGGTATTTTAGAAATAAAACCAGA
Found at i:1608157 original size:122 final size:122
Alignment explanation
Indices: 1607935--1608172 Score: 343
Period size: 122 Copynumber: 2.0 Consensus size: 122
1607925 GAAATAAAAA
* * *
1607935 TCGGGGTTGGAGTATCCCCTCAAAAATAACTAGGTTGGAGTATCCCTGATTATAGAAAATCGGTA
1 TCGGGGTTGGAGTATCCCATCAAAAATAACGAGGTTGGAGTATCCCCGATTATAGAAAATCGGTA
* * * *
1608000 TTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAAAATTGGTAATAAAG
66 TTTTGAAAATAAAACCAGAGTTGGAATATCCCCGATTATGGAAAATTGGTAATAAAG
* * * *
1608057 TCGGGGTTGGAGTATCCCATCAGAAATAACGGGGTTGGAGTATCCCCGATTGTA-AGAAATTGGT
1 TCGGGGTTGGAGTATCCCATCAAAAATAACGAGGTTGGAGTATCCCCGATTATAGA-AAATCGGT
* *
1608121 GTTTTGAAAATAAAACCAGAGTTGGAATATCTCCGATTATGGAAAATTGGTA
65 ATTTTGAAAATAAAACCAGAGTTGGAATATCCCCGATTATGGAAAATTGGTA
1608173 TTTTAGAAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
121 1 0.01
122 101 0.99
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (122 bp):
TCGGGGTTGGAGTATCCCATCAAAAATAACGAGGTTGGAGTATCCCCGATTATAGAAAATCGGTA
TTTTGAAAATAAAACCAGAGTTGGAATATCCCCGATTATGGAAAATTGGTAATAAAG
Found at i:1608274 original size:107 final size:107
Alignment explanation
Indices: 1608153--1608449 Score: 405
Period size: 107 Copynumber: 2.8 Consensus size: 107
1608143 TGGAATATCT
* *** * ** *
1608153 CCGATTATGGAAAATTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCTTCGAAAATAACG
1 CCGATTATGAAAAATCAATATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACG
* * * *
1608218 GGATTGGAGTATCCTCGATGACATAACAAGGTTGGAGTACCC
66 GGGTTGGAGTATCCCCGATAAAATAACAAGGTTGGAGTACCC
* *
1608260 CCGATTATGAAAAATCAATATTTTAGATATAAAGCCAGGGTTAGAGTATCCCCTCAAAAATAACG
1 CCGATTATGAAAAATCAATATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACG
**
1608325 GGGTTGGAGTATCCCCGATAAAATAACGGGGTTGGAGTACCC
66 GGGTTGGAGTATCCCCGATAAAATAACAAGGTTGGAGTACCC
* * *
1608367 CCGATTATGAAAAAAACAACATTTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGGAAATAA
1 CCGATTATG-AAAAATCAATA-TTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAA
1608432 CGGGGTTGGAGTATCCCC
64 CGGGGTTGGAGTATCCCC
1608450 AATTGTGAAA
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
107 100 0.60
108 9 0.05
109 58 0.35
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (107 bp):
CCGATTATGAAAAATCAATATTTTAGATATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACG
GGGTTGGAGTATCCCCGATAAAATAACAAGGTTGGAGTACCC
Found at i:1608337 original size:28 final size:28
Alignment explanation
Indices: 1608297--1608368 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
1608287 TATAAAGCCA
*
1608297 GGGTTAGAGTATCCCCTCA-AAAATAACG
1 GGGTTGGAGTATCCCC-CATAAAATAACG
*
1608325 GGGTTGGAGTATCCCCGATAAAATAACG
1 GGGTTGGAGTATCCCCCATAAAATAACG
1608353 GGGTTGGAGTA-CCCCC
1 GGGTTGGAGTATCCCCC
1608369 GATTATGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.12
28 35 0.88
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCATAAAATAACG
Found at i:1608497 original size:51 final size:50
Alignment explanation
Indices: 1608436--1608579 Score: 180
Period size: 51 Copynumber: 2.8 Consensus size: 50
1608426 AAATAACGGG
*
1608436 GTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTG-GAAAAATTGATGTTTTGGAAATAAAATCAGA
* * * * *
1608487 GTTGGAGTATCCCCGATTGCAGTAAATCGATGCTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGGA-AAAATTGATGTTTTGGAAATAAAATCAGA
* * *
1608538 GTTGGAGTATCCCTGATTAAGAAAAATTGACGTTTTGGAAAT
1 GTTGGAGTATCCCCGATT-GGAAAAATTGATGTTTTGGAAAT
1608580 GGAACCGGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.01
51 75 0.97
52 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGGAAAAATTGATGTTTTGGAAATAAAATCAGA
Found at i:1610927 original size:13 final size:13
Alignment explanation
Indices: 1610867--1610908 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
1610857 ACAATGAGCT
1610867 ATGTATCGATACA
1 ATGTATCGATACA
1610880 ATGTATCGATACA
1 ATGTATCGATACA
1610893 ATGTATCGATACA
1 ATGTATCGATACA
1610906 ATG
1 ATG
1610909 AGCAATGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1610935 original size:20 final size:20
Alignment explanation
Indices: 1610826--1610945 Score: 109
Period size: 20 Copynumber: 5.7 Consensus size: 20
1610816 AAAATGCCTG
*
1610826 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
* *
1610846 AATATATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
*
1610866 TATGTATCGATACAATGTATCGATA
1 AATGTATCGATACAATG-A--G--A
*
1610891 CAATGTATCGATACAATGAGC
1 -AATGTATCGATACAATGAGA
1610912 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
1610932 AATGTATCGATACA
1 AATGTATCGATACA
1610946 TCTGGGCAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.01
20 61 0.73
21 2 0.02
23 2 0.02
25 1 0.01
26 16 0.19
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:1610983 original size:13 final size:13
Alignment explanation
Indices: 1610965--1610989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1610955 ACCCAGAATA
1610965 TATCGATACAATG
1 TATCGATACAATG
1610978 TATCGATACAAT
1 TATCGATACAAT
1610990 AAACAATGTA
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:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1610997 original size:20 final size:20
Alignment explanation
Indices: 1610972--1611028 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1610962 ATATATCGAT
1610972 ACAATGTATCGATACAATAA
1 ACAATGTATCGATACAATAA
** *
1610992 ACAATGTATTAATACAATGA
1 ACAATGTATCGATACAATAA
*
1611012 ATAATGTATCGATACAA
1 ACAATGTATCGATACAA
1611029 ATTGTGAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (20 bp):
ACAATGTATCGATACAATAA
Found at i:1611672 original size:41 final size:41
Alignment explanation
Indices: 1611627--1611757 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
1611617 TCCTTAAGGA
*
1611627 CAAAGGGAAAAAGAAAAGGGAAGTGTCCTGCTTCTTGAGGG
1 CAAAGGGAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGG
* * * *
1611668 CAAAGTGAAAAAG---A--GTA-CGTCCTGCTTTTTGAGGA
1 CAAAGGGAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGG
* *
1611703 TAAAGGAAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGG
1 CAAAGGGAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGG
*
1611744 CAAAGTGAAAAAGA
1 CAAAGGGAAAAAGA
1611758 GTACGTCCTG
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
35 25 0.36
36 2 0.03
38 2 0.03
40 2 0.03
41 39 0.56
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.18
Consensus pattern (41 bp):
CAAAGGGAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGG
Found at i:1611690 original size:35 final size:35
Alignment explanation
Indices: 1611651--1611770 Score: 134
Period size: 35 Copynumber: 3.3 Consensus size: 35
1611641 AAAGGGAAGT
1611651 GTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTAC
1 GTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTAC
* ** *
1611686 GTCCTGCTTTTTGAGGATAAAG-GAAAAAAGAAAAGGGAAGC
1 GTCCTGCTTCTTGAGGGCAAAGTG-AAAAAG---A--GTA-C
1611727 GTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTAC
1 GTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTAC
1611762 GTCCTGCTT
1 GTCCTGCTT
1611771 TTCGAGGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
34 1 0.01
35 35 0.51
36 2 0.03
38 2 0.03
40 2 0.03
41 26 0.38
42 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (35 bp):
GTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTAC
Found at i:1611731 original size:76 final size:76
Alignment explanation
Indices: 1611623--1611797 Score: 296
Period size: 76 Copynumber: 2.3 Consensus size: 76
1611613 TTGCTCCTTA
* * *
1611623 AGGACAAAGGGAAAAAGAAAAGGGAAGTGTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACGT
1 AGGATAAAGGAAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACGT
*
1611688 CCTGCTTTTTG
66 CCTGCTTTTCG
1611699 AGGATAAAGGAAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACGT
1 AGGATAAAGGAAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACGT
1611764 CCTGCTTTTCG
66 CCTGCTTTTCG
1611775 AGGATAAAGGAACAAAAGGAAAA
1 AGGATAAAGGAA-AAAA-GAAAA
1611798 TGAAATGCAT
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 84 0.90
77 4 0.04
78 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.18
Consensus pattern (76 bp):
AGGATAAAGGAAAAAAGAAAAGGGAAGCGTCCTGCTTCTTGAGGGCAAAGTGAAAAAGAGTACGT
CCTGCTTTTCG
Found at i:1611813 original size:44 final size:42
Alignment explanation
Indices: 1611788--1611882 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 42
1611778 ATAAAGGAAC
1611788 AAAAGGAAAATGAAA-TGCATCCTGCTCTTTGAGGACAAAAGA
1 AAAAGGAAAAT-AAAGTGCATCCTGCTCTTTGAGGACAAAAGA
* * *
1611830 AAGAGGAAAATAAAGTGCATCCTGCTCTTTGTGGACAAAGGA
1 AAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGA
*
1611872 GAAAAGAAAAA
1 -AAAAGGAAAA
1611883 GGCGTTCTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 3 0.07
42 35 0.76
43 8 0.17
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.18
Consensus pattern (42 bp):
AAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGA
Done.