Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold200
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: 649609
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:139848 original size:32 final size:32
Alignment explanation
Indices: 139807--139867 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
139797 CAACAATTTA
*
139807 TATCGATACATAAGTTTTGTATCGATACAATG
1 TATCGATACATAAGTATTGTATCGATACAATG
139839 TATCGATACATAAGTATTGTATCGATACA
1 TATCGATACATAAGTATTGTATCGATACA
139868 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTATTGTATCGATACAATG
Found at i:139928 original size:13 final size:13
Alignment explanation
Indices: 139910--139935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139900 CATTTTTCTG
139910 TGTATCGATACAT
1 TGTATCGATACAT
139923 TGTATCGATACAT
1 TGTATCGATACAT
139936 GGATCTTTGT
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:139932 original size:33 final size:33
Alignment explanation
Indices: 139890--139956 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
139880 ACCAAGGAAA
***
139890 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
139923 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
139956 T
1 T
139957 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:142364 original size:51 final size:52
Alignment explanation
Indices: 142303--142690 Score: 190
Period size: 51 Copynumber: 7.4 Consensus size: 52
142293 CTCAATTCTC
* * * *
142303 CACAATCGGGGATATTCCAACTCCGGTTTTATTTTC-AAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
142353 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTT
* * * * * *
142407 CACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC-CCCATTATTT
1 CACAATCGGGGATACTCCAACTCCGATTTTAT-TTC---CA-A---AAACACCAATT-TTT
** ** * *** *
142465 C-CAA--GGGGATACTCCAAC-CCCTTCTTTA-TTCTTAAAATATTGATTTCT
1 CACAATCGGGGATACTCCAACTCCGAT-TTTATTTCCAAAAACACCAATTTTT
* * * * * * * *
142513 CATAATCGGAGATACTCCAACCCCGGTTTTA-TTGCTAAAATACTAATTTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
* ** * *
142564 CCACAATCGGGGATACTCCAAC-CCTGGTTTTATTT-TTAAAACACTAATTTTC
1 -CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTT
** * * *
142616 CTTTAATCGGGGATACTCCAGCTTCGATTTTATTTCCAAAAGCACCAATTTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA-TTTTT
*
142670 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
142691 CTCGTTATTT
Statistics
Matches: 259, Mismatches: 51, Indels: 53
0.71 0.14 0.15
Matches are distributed among these distances:
48 5 0.02
49 5 0.02
50 1 0.00
51 71 0.27
52 71 0.27
53 58 0.22
54 13 0.05
55 17 0.07
57 11 0.04
58 7 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:142441 original size:27 final size:29
Alignment explanation
Indices: 142411--142485 Score: 102
Period size: 27 Copynumber: 2.7 Consensus size: 29
142401 ATTTTTCACA
*
142411 ATCGGGGATACTCCAACCCCGTTA-AT-C
1 ATCGGGGATACTCCAACCCCATTATATCC
*
142438 ATCGGGGATACTCCAACCCCATTATTTCC
1 ATCGGGGATACTCCAACCCCATTATATCC
*
142467 A-AGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
142486 TTCTTTATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 23 0.53
28 18 0.42
29 2 0.05
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCATTATATCC
Found at i:142594 original size:52 final size:52
Alignment explanation
Indices: 142301--142691 Score: 195
Period size: 52 Copynumber: 7.5 Consensus size: 52
142291 TTCTCAATTC
*
142301 TCCACAATCGGGGATATTCCAACTCC-GGTTTTATTT-TCAAAACACTAA-TTT
1 TCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTCT-AAAACACTAATTTT
* * * * *
142352 TCTATAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAAACACCAATTTT
1 TCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTT-C-TAAAACACTAATTTT
* * * ** **
142406 T-CACAATCGGGGATACTCCAACCC-CGTTAATCATCGGGGATACTCCAAC-CCCATTATT
1 TCCACAATCGGGGATACTCCAACCCTGGTT--TTAT------TTCTAAAACACTAATT-TT
* * * *
142464 T-C-CAA--GGGGATACTCCAACCCCT--TCTTTA-TTCTTAAAATATTGATTTC
1 TCCACAATCGGGGATACTCCAA-CCCTGGT-TTTATTTC-TAAAACACTAATTTT
* * * * *
142512 T-CATAATCGGAGATACTCCAACCCCGGTTTTATTGCTAAAATACTAATTTT
1 TCCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTT
*
142563 TCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTTAAAACACTAA-TTT
1 TCCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTT
** * * * * *
142614 TCCTTTAATCGGGGATACTCC-AGCTTCGATTTTATTTCCAAAAGCACCAATTTT
1 TCC-ACAATCGGGGATACTCCAACCCT-GGTTTTATTTCTAAAA-CACTAATTTT
* *
142668 TTCACAATCGAGGATACTCCAACC
1 TCCACAATCGGGGATACTCCAACC
142692 TCGTTATTTC
Statistics
Matches: 259, Mismatches: 51, Indels: 57
0.71 0.14 0.16
Matches are distributed among these distances:
47 2 0.01
48 6 0.02
49 5 0.02
50 3 0.01
51 70 0.27
52 75 0.29
53 47 0.18
54 16 0.06
55 14 0.05
56 4 0.02
57 8 0.03
58 7 0.03
59 1 0.00
60 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
TCCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTT
Found at i:142711 original size:28 final size:28
Alignment explanation
Indices: 142679--142750 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
142669 TCACAATCGA
* **
142679 GGATACTCCAACCTCGTTATTTCATTGG
1 GGATACTCCAACCCCGTTATTTCAGAGG
*
142707 GGATACTCCAACCCCGTTATTTCCGAGG
1 GGATACTCCAACCCCGTTATTTCAGAGG
*
142735 GGATACTCCAATCCCG
1 GGATACTCCAACCCCG
142751 ATTTTTTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCAGAGG
Found at i:144446 original size:21 final size:20
Alignment explanation
Indices: 144422--144480 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
144412 TTTTATTAGT
*
144422 CAACTCATTATTTTCATTTTG
1 CAACTCATTATTTTC-TTTTC
*
144443 CAACTCATTTCTTTTCTTTTC
1 CAACTCA-TTATTTTCTTTTC
*
144464 CAAATCATTCATTTTCT
1 CAACTCATT-ATTTTCT
144481 CCTCTAGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 23 0.72
22 7 0.22
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.53
Consensus pattern (20 bp):
CAACTCATTATTTTCTTTTC
Found at i:148850 original size:19 final size:20
Alignment explanation
Indices: 148826--148876 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
148816 TGATATATTA
148826 TATCGATACATGCTC-ATTG
1 TATCGATACATGCTCAATTG
*
148845 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTG
*
148865 TATCAATACATG
1 TATCGATACATG
148877 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTG
Found at i:148947 original size:33 final size:33
Alignment explanation
Indices: 148905--149004 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 33
148895 CTAAGTGAAA
* *
148905 TGTATCGATACATGAG-ACATTGCATCGATACAT
1 TGTATCGATACAT-AGTAAAATGCATCGATACAT
*
148938 TGTATCGATACATAGTAAAATGTATCGATACAT
1 TGTATCGATACATAGTAAAATGCATCGATACAT
* *
148971 TGTATCGATACATAGTAAAATGTATCAATACAT
1 TGTATCGATACATAGTAAAATGCATCGATACAT
149004 T
1 T
149005 ATGCCCAACA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 2 0.03
33 60 0.97
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATAGTAAAATGCATCGATACAT
Found at i:148963 original size:20 final size:20
Alignment explanation
Indices: 148938--149003 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
148928 ATCGATACAT
148938 TGTATCGATACATAGTAAAA
1 TGTATCGATACATAGTAAAA
148958 TGTATCGATAC--A-T----
1 TGTATCGATACATAGTAAAA
148971 TGTATCGATACATAGTAAAA
1 TGTATCGATACATAGTAAAA
*
148991 TGTATCAATACAT
1 TGTATCGATACAT
149004 TATGCCCAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 11 0.29
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 23 0.61
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAGTAAAA
Found at i:148976 original size:13 final size:13
Alignment explanation
Indices: 148921--148983 Score: 66
Period size: 13 Copynumber: 5.3 Consensus size: 13
148911 GATACATGAG
*
148921 ACATTGCATCGAT
1 ACATTGTATCGAT
148934 ACATTGTATCGAT
1 ACATTGTATCGAT
*
148947 ACATAGTA---A-
1 ACATTGTATCGAT
148956 A-A-TGTATCGAT
1 ACATTGTATCGAT
148967 ACATTGTATCGAT
1 ACATTGTATCGAT
148980 ACAT
1 ACAT
148984 AGTAAAATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
7 3 0.07
8 1 0.02
9 1 0.02
10 2 0.05
11 1 0.02
12 1 0.02
13 32 0.78
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:151651 original size:20 final size:20
Alignment explanation
Indices: 151626--151791 Score: 107
Period size: 20 Copynumber: 7.8 Consensus size: 20
151616 TTTTACCTAG
151626 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
* * *
151646 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTTA
* *
151666 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTTA
*
151686 ATGTATCTATATATTCTATCTTTTTACCCA
1 ATGTATC--GATA--C-AT-TTTTT----A
*
151716 GATTTATCGATACATTTTTTA
1 -ATGTATCGATACATTTTTTA
* * *
151737 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTTA
* * * *
151757 CTATATCGATACATTCTTCA
1 ATGTATCGATACATTTTTTA
151777 ATGTATCGATACATT
1 ATGTATCGATACATT
151792 CTATCTCTTA
Statistics
Matches: 111, Mismatches: 24, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
20 83 0.75
21 1 0.01
22 3 0.03
24 1 0.01
25 7 0.06
26 5 0.05
27 1 0.01
29 3 0.03
30 1 0.01
31 6 0.05
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTA
Found at i:151770 original size:91 final size:91
Alignment explanation
Indices: 151615--151839 Score: 346
Period size: 91 Copynumber: 2.5 Consensus size: 91
151605 AAAAATCACA
* *
151615 TTTTTACCTAGATGTATCGATACATTTTTTAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATGTATGAATATATCGATACAT
* *
151680 TCTTCAATGTATCTATATATTCTATC
66 TCTTCAATGTATCGATACATTCTATC
* *
151706 TTTTTACCCAGATTTATCGATACATTTTTTAATGTATCGATACATGTATGACTATATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATGTATGAATATATCGATACAT
151771 TCTTCAATGTATCGATACATTCTATC
66 TCTTCAATGTATCGATACATTCTATC
* * * *
151797 -TCTTA-CCAGATGTATAGATACATTATTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACAT
151840 CTAGTTAAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
89 34 0.28
90 4 0.03
91 85 0.69
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.43
Consensus pattern (91 bp):
TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATGTATGAATATATCGATACAT
TCTTCAATGTATCGATACATTCTATC
Found at i:156920 original size:163 final size:163
Alignment explanation
Indices: 156650--156956 Score: 569
Period size: 163 Copynumber: 1.9 Consensus size: 163
156640 GGCCTAACAT
* *
156650 AAGTTATTTTCATCCATTCTGACGTAAATGTTTTGTATTAAATAATGGAAAAGAAAAACTTAGTA
1 AAGTTATTTTCATCCATTCGGACGTAAATGTTTCGTATTAAATAATGGAAAAGAAAAACTTAGTA
* *
156715 AATTTGATGCTCAAAGTGATAAAGGAATTTTTCTTGGTTATTTAACAAACTGTAAAGCTTATCGA
66 AATTTGATGCTAAAAGTGATAAAGGAATTTTTCTTGGTTATTTAACAAACTCTAAAGCTTATCGA
156780 GTGTTTAATAAAAGTGTTATTTAATAAACTCTA
131 GTGTTTAATAAAAGTGTTATTTAATAAACTCTA
156813 AAGTTATTTTCATCCATTCGGACGTAAATGTTTCGTATTAAATAATGGAAAAGAAAAACTTAGTA
1 AAGTTATTTTCATCCATTCGGACGTAAATGTTTCGTATTAAATAATGGAAAAGAAAAACTTAGTA
*
156878 AATTTGATGCTAAAAGTGATGAAGGAATTTTTCTTGGTTATTTAACAAACTCTAAAGCTTATCGA
66 AATTTGATGCTAAAAGTGATAAAGGAATTTTTCTTGGTTATTTAACAAACTCTAAAGCTTATCGA
156943 GTGTTTAATAAAAG
131 GTGTTTAATAAAAG
156957 AACCTTAGTT
Statistics
Matches: 139, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
163 139 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (163 bp):
AAGTTATTTTCATCCATTCGGACGTAAATGTTTCGTATTAAATAATGGAAAAGAAAAACTTAGTA
AATTTGATGCTAAAAGTGATAAAGGAATTTTTCTTGGTTATTTAACAAACTCTAAAGCTTATCGA
GTGTTTAATAAAAGTGTTATTTAATAAACTCTA
Found at i:161422 original size:15 final size:15
Alignment explanation
Indices: 161398--161430 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
161388 AAGCATGAAC
*
161398 TAATCCGTAAGATCA
1 TAATCAGTAAGATCA
161413 TAATCAGTAAGATCA
1 TAATCAGTAAGATCA
161428 TAA
1 TAA
161431 ACATTTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.27
Consensus pattern (15 bp):
TAATCAGTAAGATCA
Found at i:161877 original size:19 final size:20
Alignment explanation
Indices: 161853--161903 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
161843 CGATATATTA
161853 TATCGATACATGCTC-ATTG
1 TATCGATACATGCTCAATTG
*
161872 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTG
161892 TATCGATACATG
1 TATCGATACATG
161904 AAACTGGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTG
Found at i:163227 original size:21 final size:20
Alignment explanation
Indices: 163190--163232 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
163180 ATCATATTTA
*
163190 ATACTATTTATTCTAATTAAT
1 ATACTATTTAATCTAA-TAAT
163211 ATACTATTTACAT-TAATAAT
1 ATACTATTTA-ATCTAATAAT
163231 AT
1 AT
163233 TATATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 13 0.65
22 1 0.05
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (20 bp):
ATACTATTTAATCTAATAAT
Found at i:163796 original size:16 final size:16
Alignment explanation
Indices: 163775--163809 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
163765 TTTTATTTTC
163775 TTATTAA-TTAATATAT
1 TTATTAATTTAATA-AT
163791 TTATTAATTTAATAAT
1 TTATTAATTTAATAAT
163807 TTA
1 TTA
163810 ATTATACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATTAATTTAATAAT
Found at i:163956 original size:22 final size:23
Alignment explanation
Indices: 163920--163975 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
163910 TATGATTATT
*
163920 TTTATTTTTTAAATAAAAT-AATA
1 TTTAATTTTTAAATAAAATCAA-A
*
163943 TTTAATTTTT-AATAACATCAAA
1 TTTAATTTTTAAATAAAATCAAA
163965 TATTAATTTTT
1 T-TTAATTTTT
163976 TTAATTCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAATTTTTAAATAAAATCAAA
Found at i:164770 original size:22 final size:22
Alignment explanation
Indices: 164745--164801 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
164735 TATTACTTTT
164745 TTATTTTATTTTTA-TCATA-CAA
1 TTATTTTATTTTTACT-A-AGCAA
* *
164767 TTATTCTATTTTTACTAAGTAA
1 TTATTTTATTTTTACTAAGCAA
164789 TTATTTTATTTTT
1 TTATTTTATTTTT
164802 TTTTATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTTTATTTTTACTAAGCAA
Found at i:169750 original size:19 final size:19
Alignment explanation
Indices: 169723--169761 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
169713 TGCCTAACAC
*
169723 ACCACCTAACACACTTAAT
1 ACCACCTAACACACCTAAT
* *
169742 ACCATCTAATACACCTAAT
1 ACCACCTAACACACCTAAT
169761 A
1 A
169762 TGTTTACCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (19 bp):
ACCACCTAACACACCTAAT
Found at i:171168 original size:52 final size:52
Alignment explanation
Indices: 171067--171239 Score: 206
Period size: 52 Copynumber: 3.3 Consensus size: 52
171057 TCGGAAGTAA
* *
171067 CGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-ATGGAAAAATTAGTGTTTTGAAAATAAAAC
* * *
171120 CGGGGTTGAAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGA-AAATAAAAC
* * * * **
171172 CGGGGTTGGAGTATCCCCGATTAT-GAAAAATCAATATTTTGGAAATAAAGT
1 CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAAC
*
171223 CAGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
171240 ATCGGAAATA
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
51 36 0.35
52 46 0.45
53 21 0.20
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAAC
Found at i:171260 original size:28 final size:26
Alignment explanation
Indices: 171225--171297 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 26
171215 AATAAAGTCA
171225 GGGTTGGAGTATCCCATCG-GAAATAACG
1 GGGTTGGAGTATCCC--CGAG-AATAACG
*
171253 GGGTTGGAGTATCCCCGATGATTAACG
1 GGGTTGGAGTATCCCCGA-GAATAACG
171280 GGGTTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
171298 TTGTGAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.05
27 24 0.57
28 16 0.38
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (26 bp):
GGGTTGGAGTATCCCCGAGAATAACG
Found at i:173172 original size:20 final size:20
Alignment explanation
Indices: 173145--173199 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
173135 TAAAATTTCC
*
173145 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
173165 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
173185 AAATGTATCGATACA
1 AAATGTATCGATACA
173200 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:173243 original size:19 final size:18
Alignment explanation
Indices: 173219--173286 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
173209 CAGTACCTAA
173219 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
173238 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
173253 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
173270 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
173287 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:173259 original size:13 final size:13
Alignment explanation
Indices: 173241--173265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
173231 ACAATACTTA
173241 TGTATCGATACAT
1 TGTATCGATACAT
173254 TGTATCGATACA
1 TGTATCGATACA
173266 AAACTTATGT
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:173263 original size:32 final size:32
Alignment explanation
Indices: 173222--173284 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
173212 TACCTAATTA
*
173222 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
173254 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
173285 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:173348 original size:21 final size:21
Alignment explanation
Indices: 173322--173398 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
173312 GTTGGGACCC
* *
173322 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
173343 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
173364 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
173385 TGTATCGATACATT
1 TGTATCGATACATT
173399 TGGATAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:174264 original size:27 final size:27
Alignment explanation
Indices: 174182--174264 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
174172 GGGCTTTAAG
174182 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
174209 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
174237 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
174264 A
1 A
174265 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:174438 original size:59 final size:59
Alignment explanation
Indices: 174077--174612 Score: 662
Period size: 55 Copynumber: 9.3 Consensus size: 59
174067 ATAAAGTGTA
* *
174077 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
174132 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
174187 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
174242 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
174297 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
174358 TCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGATTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
174417 TCCCGCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
174476 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
174535 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
174595 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
174613 AAAAAGCTGA
Statistics
Matches: 439, Mismatches: 28, Indels: 23
0.90 0.06 0.05
Matches are distributed among these distances:
53 1 0.00
54 4 0.01
55 191 0.44
56 1 0.00
57 1 0.00
59 139 0.32
60 79 0.18
61 23 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:175642 original size:14 final size:14
Alignment explanation
Indices: 175598--175642 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
175588 TTTTCTTCTC
175598 TTTTTT-CTTTGTTT
1 TTTTTTGCTTT-TTT
* *
175612 TGTTTTGTTTTTTT
1 TTTTTTGCTTTTTT
175626 TTTTTTGCTTTTTT
1 TTTTTTGCTTTTTT
175640 TTT
1 TTT
175643 GAAGAGAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 23 0.88
15 3 0.12
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (14 bp):
TTTTTTGCTTTTTT
Found at i:183861 original size:15 final size:15
Alignment explanation
Indices: 183841--183871 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
183831 ATTTCGTTTG
*
183841 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
183856 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
183871 G
1 G
183872 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:185702 original size:21 final size:21
Alignment explanation
Indices: 185673--185717 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
185663 AAGTTTTCAT
*
185673 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
185693 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
185715 TTT
1 TTT
185718 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:187965 original size:13 final size:13
Alignment explanation
Indices: 187947--187972 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
187937 AATTTTTTTG
187947 TGTATCGATACAT
1 TGTATCGATACAT
187960 TGTATCGATACAT
1 TGTATCGATACAT
187973 ACTTGGTGTA
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:192563 original size:15 final size:15
Alignment explanation
Indices: 192539--192571 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
192529 ACGCCTGACC
*
192539 TAATCCGTAAGATCA
1 TAATCAGTAAGATCA
192554 TAATCAGTAAGATCA
1 TAATCAGTAAGATCA
192569 TAA
1 TAA
192572 AACAGTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.27
Consensus pattern (15 bp):
TAATCAGTAAGATCA
Found at i:193013 original size:19 final size:20
Alignment explanation
Indices: 192989--193039 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
192979 CGATCTATTA
192989 TATCGATACATGCTC-ATTG
1 TATCGATACATGCTCAATTG
*
193008 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTG
193028 TATCGATACATG
1 TATCGATACATG
193040 AAACTGGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTG
Found at i:195572 original size:12 final size:12
Alignment explanation
Indices: 195541--195580 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
195531 TAGGTTTATT
*
195541 ATTTTTAATATA
1 ATTTTAAATATA
* *
195553 ATTCTAAATATT
1 ATTTTAAATATA
195565 ATTTTAAATATA
1 ATTTTAAATATA
195577 ATTT
1 ATTT
195581 CATTTGAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTAAATATA
Found at i:195876 original size:22 final size:22
Alignment explanation
Indices: 195851--195907 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
195841 TATTACTTTT
195851 TTATTTTATTTTTA-TCATA-CAA
1 TTATTTTATTTTTACT-A-AGCAA
* *
195873 TTATTCTATTTTTACTAAGTAA
1 TTATTTTATTTTTACTAAGCAA
195895 TTATTTTATTTTT
1 TTATTTTATTTTT
195908 TTTATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTTTATTTTTACTAAGCAA
Found at i:200852 original size:34 final size:34
Alignment explanation
Indices: 200809--200912 Score: 118
Period size: 34 Copynumber: 3.0 Consensus size: 34
200799 AGATAAGTTT
*
200809 ACCTAACACACCTAATATGTTTGCCTAACACACC
1 ACCTAACACACCTAATATGTTTACCTAACACACC
* ** *
200843 ACCTAACACACTTAATAAATTACTCACCTAACATACC
1 ACCTAACACACCTAATATGTT--T-ACCTAACACACC
* *
200880 ATCTAATACACCTAATATGTTTACCTAACACAC
1 ACCTAACACACCTAATATGTTTACCTAACACAC
200913 TTAATAAAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
34 28 0.50
35 1 0.02
36 1 0.02
37 26 0.46
ACGTcount: A:0.39, C:0.32, G:0.03, T:0.26
Consensus pattern (34 bp):
ACCTAACACACCTAATATGTTTACCTAACACACC
Found at i:202267 original size:81 final size:79
Alignment explanation
Indices: 202013--202270 Score: 196
Period size: 80 Copynumber: 3.2 Consensus size: 79
202003 GAGATAATAA
* * * * *** * *
202013 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCTGGTT-GTGAGAAATCGATG
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTAG-GAAAAATCAAT-
** * *
202077 A-TCAGAAAAAAGAAAT
64 ATTTTGAAAATA-AAAC
* * * *
202093 CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTAGGAAAAATCAATAT
** *
202158 TTTGGGAATAAAGC
66 TTTGAAAATAAAAC
* * * * ***
202172 CGGGGTCGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTGGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATT--AGGAAAAATCAAT
*
202237 GTTTTGAAAATAAAAC
64 ATTTTGAAAATAAAAC
*
202253 CGGGGTTGAAGTATCCCC
1 CGGGGTTGGAGTATCCCC
202271 GATTGTGGAA
Statistics
Matches: 139, Mismatches: 35, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
79 47 0.34
80 56 0.40
81 36 0.26
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTAGGAAAAATCAATAT
TTTGAAAATAAAAC
Found at i:202301 original size:52 final size:51
Alignment explanation
Indices: 202200--202372 Score: 213
Period size: 52 Copynumber: 3.3 Consensus size: 51
202190 TCGGAAGTAA
* *
202200 CGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-ATGGAAAAATTAGTGTTTTG-AAATAAAAC
* * *
202253 CGGGGTTGAAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTT-GAAATAAAAC
* * * **
202305 CGGGGTTGGAGTATCCCCGATTAT-GAAAAATCAATATTTTGGAAATAAAGT
1 CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTT-GAAATAAAAC
202356 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
202373 ATCGGAAATA
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
51 37 0.35
52 46 0.44
53 22 0.21
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAATAAAAC
Found at i:202419 original size:27 final size:27
Alignment explanation
Indices: 202356--202458 Score: 156
Period size: 27 Copynumber: 3.8 Consensus size: 27
202346 GAAATAAAGT
*
202356 CGGGGTTGGAGTAT-CCC-ATCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAT--G-ATTAA
202384 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
202411 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
202438 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
202459 TGTGAAAATT
Statistics
Matches: 72, Mismatches: 1, Indels: 5
0.92 0.01 0.06
Matches are distributed among these distances:
27 52 0.72
28 15 0.21
29 3 0.04
30 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGATTAA
Found at i:202477 original size:184 final size:183
Alignment explanation
Indices: 202121--202521 Score: 452
Period size: 184 Copynumber: 2.2 Consensus size: 183
202111 TCGAAAATAA
* * *
202121 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTCGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTCGGAGTAT
* * * **
202186 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAA
66 CCCATCGGAAATAACGGGGTTGGAGTATCCCCGATTAAAGG--AAATTGGAGTTCCGAAAATAAA
*
202251 ACCGGGGTTGAAGTATCCCCGATTGTGGAAAAATTAGTG-TTTTAGCAATAAAAC
129 ACCGGGGTTGAAGTATCCCCGATTGTGGAAAAATTAGTGTTTTTAGAAATAAAAC
* *
202305 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTCGGAGTAT
* ** **
202370 CCCATCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGG-GGTTGGAGTATCCCCGATGA
66 CCCATCGGAAATAACGGGGTTGGAGTATCCCC---GATTAAAGGAAATTGGAGT-T--CCGAAAA
* * * * * *
202434 T-TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAATTTGGTGTTTTTTTGGAAATAAAAT
125 TAAAACCGGGGTTGAAGTATCCCCGATTGTGGAAAAATTAGTG--TTTTTAGAAATAAAAC
* *
202492 CGGAGTTGGCGTATCCCCGATTATAGAAAA
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAA
202522 TTAGTGTCTT
Statistics
Matches: 183, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
184 106 0.58
185 24 0.13
186 2 0.01
187 46 0.25
188 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (183 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTCGGAGTAT
CCCATCGGAAATAACGGGGTTGGAGTATCCCCGATTAAAGGAAATTGGAGTTCCGAAAATAAAAC
CGGGGTTGAAGTATCCCCGATTGTGGAAAAATTAGTGTTTTTAGAAATAAAAC
Found at i:202500 original size:54 final size:50
Alignment explanation
Indices: 202442--202567 Score: 153
Period size: 51 Copynumber: 2.4 Consensus size: 50
202432 GATTAACGGG
* * *
202442 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAA-TTAGTG---TCTTGAAAATAAAATCGGA
* *
202496 GTTGGCGTATCCCCGATTATAGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAATTAGTGTCTTGAAAATAAAATCGGA
*
202547 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
202568 GAGAATTGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 34 0.54
54 23 0.37
55 5 0.08
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:204344 original size:13 final size:13
Alignment explanation
Indices: 204326--204351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
204316 ACAAAGATCC
204326 ATGTATCGATACA
1 ATGTATCGATACA
204339 ATGTATCGATACA
1 ATGTATCGATACA
204352 CAGAAAAATG
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:204347 original size:33 final size:33
Alignment explanation
Indices: 204305--204371 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
204295 AAAATTTCCA
***
204305 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
204338 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
204371 A
1 A
204372 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:204415 original size:19 final size:18
Alignment explanation
Indices: 204391--204458 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
204381 CAATACCTAA
204391 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
204410 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
204425 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
204442 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
204459 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:204431 original size:13 final size:13
Alignment explanation
Indices: 204413--204437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204403 ACAATACTTA
204413 TGTATCGATACAT
1 TGTATCGATACAT
204426 TGTATCGATACA
1 TGTATCGATACA
204438 AAACTTATGT
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:204435 original size:32 final size:32
Alignment explanation
Indices: 204394--204456 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
204384 TACCTAATTA
*
204394 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
204426 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
204457 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:204520 original size:21 final size:21
Alignment explanation
Indices: 204494--204570 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
204484 GTTGGGACCC
* *
204494 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
204515 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
204536 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
204557 TGTATCGATACATT
1 TGTATCGATACATT
204571 TGGATAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:205437 original size:27 final size:27
Alignment explanation
Indices: 205355--205437 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
205345 GGGCTTTAAG
205355 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
205382 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
205410 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
205437 A
1 A
205438 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:205616 original size:59 final size:59
Alignment explanation
Indices: 205250--205847 Score: 648
Period size: 55 Copynumber: 10.3 Consensus size: 59
205240 ATAAAGTGTA
* * *
205250 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-----GAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCG
* *
205305 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAGAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCG
* * *
205360 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCG
* * *
205415 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCG
* *
205470 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAA-AAAAAGGCG
* * *
205531 TCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGATTTAAAAAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCG
* * *
205590 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAA-GCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAA-AAAAAAAGGCG
* * * *
205649 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAA-AAAAAAAGGCG
* *
205708 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCG
* * * * *
205768 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGGGGGCTTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGC-TTTAAAA-AAAAAGGCG
205830 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
205848 AAAAAGCTGA
Statistics
Matches: 492, Mismatches: 35, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
54 4 0.01
55 193 0.39
56 1 0.00
58 5 0.01
59 134 0.27
60 100 0.20
61 27 0.05
62 28 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGGCG
Found at i:206873 original size:16 final size:16
Alignment explanation
Indices: 206832--206877 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
206822 CTTTTCTTCT
*
206832 CTTTTTTCTTTGTTTTG
1 CTTTTTT-TTTTTTTTG
206849 -TTTTGTTTTTTTTTTG
1 CTTTT-TTTTTTTTTTG
206865 CTTTTTTTTTTTT
1 CTTTTTTTTTTTT
206878 GAAGAGAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 20 0.77
17 6 0.23
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.85
Consensus pattern (16 bp):
CTTTTTTTTTTTTTTG
Found at i:210492 original size:13 final size:13
Alignment explanation
Indices: 210474--210499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
210464 AATTTTTTTA
210474 TGTATCGATACAT
1 TGTATCGATACAT
210487 TGTATCGATACAT
1 TGTATCGATACAT
210500 ACTTGGTGTA
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:213061 original size:13 final size:13
Alignment explanation
Indices: 213043--213081 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
213033 ATAATCACCC
213043 TGTATCGATACAA
1 TGTATCGATACAA
213056 TGTATCGATACAA
1 TGTATCGATACAA
213069 TGTATCGATACAA
1 TGTATCGATACAA
213082 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:217002 original size:21 final size:21
Alignment explanation
Indices: 216973--217017 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
216963 AAGTTTTCAT
*
216973 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
216993 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
217015 TTT
1 TTT
217018 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:217628 original size:9 final size:9
Alignment explanation
Indices: 217609--217644 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
217599 TCTGAGTCAC
*
217609 CATCTTCTT
1 CATCATCTT
*
217618 CAACATCTT
1 CATCATCTT
217627 CATCATCTT
1 CATCATCTT
217636 CATCATCTT
1 CATCATCTT
217645 TGATGGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (9 bp):
CATCATCTT
Found at i:219254 original size:13 final size:13
Alignment explanation
Indices: 219236--219261 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
219226 AATTTTTTTG
219236 TGTATCGATACAT
1 TGTATCGATACAT
219249 TGTATCGATACAT
1 TGTATCGATACAT
219262 ACTTGGTGTA
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:229512 original size:52 final size:52
Alignment explanation
Indices: 229403--229575 Score: 179
Period size: 52 Copynumber: 3.3 Consensus size: 52
229393 TCGGAAGTAA
* * * *
229403 CGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATATAAT
1 CGGGGTTGGAGTATCCCCGATT-ATGGAAAAATTAGTGTTTTGAAAATAAAAC
* * *
229456 CGGGGTTGGAGTATCCTCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGA-AAATAAAAC
* * * * **
229508 CGGGGTTGGAGTATCCCCGATTAT-GAAAAATCAATATTTTGGAAATAAAGT
1 CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAAC
**
229559 TAGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
229576 ATCGGAAATA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
51 35 0.35
52 44 0.44
53 21 0.21
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAAC
Found at i:232124 original size:13 final size:13
Alignment explanation
Indices: 232106--232131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
232096 ACAAAGATCC
232106 ATGTATCGATACA
1 ATGTATCGATACA
232119 ATGTATCGATACA
1 ATGTATCGATACA
232132 CAGAAAAATG
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:232127 original size:33 final size:33
Alignment explanation
Indices: 232085--232151 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
232075 AAAATTTCCA
***
232085 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
232118 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
232151 A
1 A
232152 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:232211 original size:13 final size:13
Alignment explanation
Indices: 232193--232217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
232183 ACAATACTTA
232193 TGTATCGATACAT
1 TGTATCGATACAT
232206 TGTATCGATACA
1 TGTATCGATACA
232218 AAACTTATGT
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:232230 original size:19 final size:19
Alignment explanation
Indices: 232171--232238 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
232161 CAGTACCTAA
* *
232171 TTATGTTTCGATACAATAC
1 TTATGTATCGATACAAAAC
232190 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
232205 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
232222 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
232239 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.64
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:236920 original size:22 final size:19
Alignment explanation
Indices: 236879--236916 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
236869 ACACACCTAA
236879 TATGTTTACCTAACACACC
1 TATGTTTACCTAACACACC
236898 TATGTTTACCTAACACACC
1 TATGTTTACCTAACACACC
236917 ACCTAACACA
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:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (19 bp):
TATGTTTACCTAACACACC
Found at i:243736 original size:21 final size:20
Alignment explanation
Indices: 243710--243769 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
243700 TACACACAAA
243710 AGAATGTATCGATACAATTT
1 AGAATGTATCGATACAATTT
*
243730 CAGAATGTATCGATAC-ATCT
1 -AGAATGTATCGATACAATTT
*
243750 AAAATTGTATCGATACAATT
1 AGAA-TGTATCGATACAATT
243770 AGGCAACGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.09
20 14 0.41
21 17 0.50
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AGAATGTATCGATACAATTT
Found at i:245344 original size:3 final size:3
Alignment explanation
Indices: 245338--245362 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
245328 CAACTCAAAG
245338 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
245363 AATCATGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:251889 original size:13 final size:13
Alignment explanation
Indices: 251871--251896 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
251861 CAAATTGCAC
251871 TGTATCGATACAT
1 TGTATCGATACAT
251884 TGTATCGATACAT
1 TGTATCGATACAT
251897 CATGTAAATG
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:253612 original size:20 final size:21
Alignment explanation
Indices: 253587--253638 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
253577 TTTTTTAAAG
253587 TCAAAGTCAATTG-TCAATGA
1 TCAAAGTCAATTGTTCAATGA
*
253607 TCAAAGTCAA-TGTTTAATGA
1 TCAAAGTCAATTGTTCAATGA
*
253627 TTAAAGTCAATT
1 TCAAAGTCAATT
253639 ATGAACTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (21 bp):
TCAAAGTCAATTGTTCAATGA
Found at i:259311 original size:12 final size:12
Alignment explanation
Indices: 259294--259329 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
259284 AGGAAATGAA
259294 CAAGAAAGAAAG
1 CAAGAAAGAAAG
259306 CAAGAAAGAAAG
1 CAAGAAAGAAAG
259318 CAA-AATAGAAAG
1 CAAGAA-AGAAAG
259330 ATTACCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.09
12 21 0.91
ACGTcount: A:0.67, C:0.08, G:0.22, T:0.03
Consensus pattern (12 bp):
CAAGAAAGAAAG
Found at i:261026 original size:154 final size:154
Alignment explanation
Indices: 260638--261067 Score: 479
Period size: 156 Copynumber: 2.8 Consensus size: 154
260628 ATATTATAGC
* * *
260638 TAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCGGTGACAACTTAAGAAT
1 TAGGATGAACCTATCCTAAATACCCACCTTCGACAT-AAAGCAGACCCGGTGACAACCTAGGACT
* * * * * * * *
260703 CGATTCTAGAAAATTATCAAAATGCCCTTAAGAGATATCTTCAACTTAAAAGTGCCTAATATCCC
65 CGATTCTAAAAAATTA-CAAAATGCCCTTAAGGGATACCTTCGACATAAAAGTACCTAACACCCC
* *
260768 TAAAGGACTTAAAAAGGATTACAAAA
129 TAAAAGACTTAAAAAGGATCACAAAA
* ** *
260794 TAGAATGAACCTATCCTAAATACCCACCTTCGACATTAAAGCAGACTTGGTAACAACCTAGGACT
1 TAGGATGAACCTATCCTAAATACCCACCTTCGACA-TAAAGCAGACCCGGTGACAACCTAGGACT
* * * * *
260859 TGGTTCTATAAAATTACAAAAATGCCCTTAAGGGATACCTTTGACATAAAAGTACCTAGCACCCC
65 CGATTCTAAAAAATTAC-AAAATGCCCTTAAGGGATACCTTCGACATAAAAGTACCTAACACCCC
* *
260924 TAAAAGACTT-AAAAGGATCATAGAA
129 TAAAAGACTTAAAAAGGATCACAAAA
* * * **
260949 -AGGATGAACCTATCCTGAGTACCCACCTTCGACGTAAAGGTGGACCCGGTGACAACCTAGGACT
1 TAGGATGAACCTATCCTAAATACCCACCTTCGACATAAA-GCAGACCCGGTGACAACCTAGGACT
* * *
261013 CGATTCTAAAAAATTACGAAAAT-ACCTCTATGGGTATACCTTCGACATGAAAGTA
65 CGATTCTAAAAAATTAC-AAAATGCCCT-TAAGGG-ATACCTTCGACATAAAAGTA
261068 TCCTTGTAAT
Statistics
Matches: 229, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
153 7 0.03
154 74 0.32
155 31 0.14
156 116 0.51
157 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (154 bp):
TAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAGCAGACCCGGTGACAACCTAGGACTC
GATTCTAAAAAATTACAAAATGCCCTTAAGGGATACCTTCGACATAAAAGTACCTAACACCCCTA
AAAGACTTAAAAAGGATCACAAAA
Found at i:262486 original size:22 final size:21
Alignment explanation
Indices: 262445--262486 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
262435 TTCAGATCAT
*
262445 GAAAATGAAGAAAATCAAAAC
1 GAAAATGAAGAAAATAAAAAC
262466 GAAAATTGAATGAAAA-AAAAA
1 GAAAA-TGAA-GAAAATAAAAA
262487 TGATTTACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.69, C:0.05, G:0.14, T:0.12
Consensus pattern (21 bp):
GAAAATGAAGAAAATAAAAAC
Found at i:262718 original size:19 final size:17
Alignment explanation
Indices: 262694--262729 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
262684 TTTTTCTTTT
262694 TTTTTCTTTCTCTCTTCTC
1 TTTTTC-TTCT-TCTTCTC
262713 TTTTTCTTCTTCTTCTC
1 TTTTTCTTCTTCTTCTC
262730 CTCATGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTCTTCTTCTTCTC
Found at i:263577 original size:166 final size:166
Alignment explanation
Indices: 263349--263727 Score: 559
Period size: 166 Copynumber: 2.3 Consensus size: 166
263339 AAAAGACTTT
* * * * *
263349 AAAAACTTT-AAAACTCGTGAAAACGAATGAATTATTGAAAACTTAATTTAACATGAATTAAATA
1 AAAAAATTTAAAAACTCATGAAAATGAATGAATTTTTGAAAAC-TAATTTAACATAAATTAAATA
* * * *
263413 ATAATATTTGATGAATTTTAAATATTAAAAACTAAGAAAAATCCCCCGAAAACGTTTACAGAGTA
65 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCAAAAACATTTACAGAGTA
* *
263478 GAAAACTTCGCATTTCAAAAACAGGGGAATTTAAAGG
130 GAAAACTCCGCATTTCAAAAACAAGGGAATTTAAAGG
* * *
263515 AAAAAATTTAAAAACTCATGAAAATGAATAAATTTTTAAAAACTAATTTAATATAAATTAAATAA
1 AAAAAATTTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAATTTAACATAAATTAAATAA
*
263580 TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCAAAAATATTTACAGAGTAG
66 TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCAAAAACATTTACAGAGTAG
* *
263645 AAAACTCCGCATTTCGAAAATAAGGGAATTTAAAGG
131 AAAACTCCGCATTTCAAAAACAAGGGAATTTAAAGG
263681 AAAAAATTTAAAAACTCA-GTAAAATGAA-GAA-TTTTGAAAACTAATTT
1 AAAAAATTTAAAAACTCATG-AAAATGAATGAATTTTTGAAAACTAATTT
263728 GTTGGTGAAT
Statistics
Matches: 192, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
164 15 0.08
165 3 0.02
166 146 0.76
167 28 0.15
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (166 bp):
AAAAAATTTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAATTTAACATAAATTAAATAA
TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCAAAAACATTTACAGAGTAG
AAAACTCCGCATTTCAAAAACAAGGGAATTTAAAGG
Found at i:264827 original size:43 final size:43
Alignment explanation
Indices: 264737--266845 Score: 852
Period size: 43 Copynumber: 49.4 Consensus size: 43
264727 GCCGACAAGT
* * * * * *
264737 AGACAAAGGATAAAG-AAGCCTCTCGAGTTTGAGTCAATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * *
264779 AGACAAAAGATAAAGAAAGTTTCCCGGGTCTGAGCTGATGGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * **
264822 TGACAAAGGATAAAGAAAGTCTCTTGGGTTTGAGCCGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * ** *
264865 AAATAAAAGATAAAG-AAGTCTCTC-GGTTTGAGTTGACGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* *
264906 AGACAAAAGATAAA-AAAGTCTCCCGAGTTTGAGCCGACGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * *
264948 AGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGATGGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* *
264991 AGACAAAAGATAAA-AAAATCTCCCAGGTTTGAGCCGAT-GG-
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
** * *
265031 -G-C---AGATAAAG-AAGTCTCCAAGGTTTGAGCCGACGGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * *
265068 AGACAAAGGATAAAGAAAGTTTCCCAGGTCTGAGCCGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * ** * * **
265111 ACATAAAAGATAATA-AAAGTCTTTCGAGTTTGAGTCGACAGGC
1 AGACAAAAGATAA-AGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * ** * * *
265154 AGACAAAAAATAAAGAAA-TATCCTAGGTCTGAGCCGATAGAC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * *
265196 AGATAGAAGATAAAGAAAG--T--C----TT---CAGACGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * ** *** * **
265228 AAACAGAAGATAAAGAAAGTCTCTTGGGTCAAAGCTGACAGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * ** *** * * *
265271 AAACAGAAGATAAAGAAAGTCTCTTGGGTCAAAGCTGACGGCC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * *
265314 AGACAGAAGATAAAGAAAGTCTCTCGGGTCTGAGACGATGGG-
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * ** *
265356 ATAACAAAAGATAAAGAAAGTCTCTCAAGTTTGAGCCGACGGGC
1 A-GACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * ** **
265400 TGAC-AAAGATAAAG-AAGTCTCTC-GGTCTGAGTTGACAGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * * * * *
265440 AGAAAAAAGATAAA-AAAGTCTCCTGAGTCTCAGCCAACGGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * * **
265482 AGACAAAAGATAAAGAAAGTTTTCAGGGTCTAAGCCGACAGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * * * * *
265525 GGACAAAGGATAAA-TAAGTCTCTCGAGTCTAAGTCGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * ** *
265567 AGATAAAAGATAAAG-AAGTCT-CTGAGGTCTAAGCCGACAGGT
1 AGACAAAAGATAAAGAAAGTCTCCCG-GGTTTGAGCCGATGGGC
* * ** ** *
265609 AGACAAAGGATAAAGAAAGTCTCCCGGGTCTGAGGTGACAGCC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * *
265652 AGATAAAAGATAAAGAATGTCTCTCGGGTCTGAGCCGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* ** * * *
265695 ACACAAAAGATACAA-AAAGTCTTTCAGGTCTGAGTCGATGGGC
1 AGACAAAAGATA-AAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * * * *
265738 AAACAGAAGA-AAAAAGAAGTCTCTCGGGTCTGAGCCGACGGGT
1 AGACAAAAGATAAAGA-AAGTCTCCCGGGTTTGAGCCGATGGGC
* ** * * * * *
265781 AGACAAAAGATAAAAAAAGTCTCATGAGTCTGAGTCAACGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* ** * *
265824 AGACAAAAGATAAAGAAAGTTTCCTAGGTCTAAGCCGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * * *
265867 AGACAAAAGATAAAGAAAGTTTTCCGAGTCTGAGTCGATGGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* *** * ** * ** *
265910 AGACAAAAGATAAAGAAAG-CAAACAAAAGATAAAGAAGTCTCTCGGGTTTG
1 AGACAAAAGATAAAGAAAGTC--TC-CCGGGT-TTG-AGCCGAT-GGG---C
* ** * * *** * * * *
265961 AGCCAATGGGTAGACA-AAAG-ATAAAGAAAGTTT--TCCAAGTCCGAGTC
1 AGACAAAAGATA-A-AGAAAGTCTCCCG--GGTTTGAGCCGA-T--G-GGC
** * * * *
266008 -GACAAGCTGACAAATGATAAAGAAA-TCTCATGAGTCTGAGTCGA-GAAGC
1 AGAC------A-AAA-GATAAAGAAAGTCTCCCGGGTTTGAGCCGATG-GGC
* * * * *
266057 AGATAAAAGATAAA-AAAGTCTCTCGGGTCTGAGCTGACGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * *
266099 AGACAAAAGATAAAGAAAGCCTCCCGGGTCTGAGCCGATAGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
** * *
266142 AGACAAAAGATAAAGAAAGTCTCCAAGGTCTGAGCTGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * ** * *
266185 AAAAAAAAGATAAAGAAAGTCTCTTGGGTTTAAGCCGATGGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * *
266228 AGACAAAAGATAAAGAAAGTCTCCCAGGTCTGAACCGATGAGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* ** * * * *
266271 AGACAAAAGATAAATAAAGTCTCCTAGATTTGAGCCAACGGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * *
266314 AGACAAAAGATAAAAAAAAAGTCTCTCGGGTCTGAGCCGATAGGC
1 AGACAAAAGAT--AAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * ** *
266359 AGACAAAGGATCAAG-AAGTCTCTTGGGTTTGAGCCGAAGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
*** * * *
266401 AGACAAAAGATAAAG-AAGTCTCCTAAGTCTGAGCCGACGAGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * * *
266443 AGACAAATGATAAAAAAAAGTCTCCCGGGTCTAAGTCGAAGGGC
1 AGACAAAAGAT-AAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
** * *
266487 AGACAAAAGATAAAGAAAGTCTCCCAAGTCTGAGCCGATGGCC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * * **
266530 AGATAAAAGATAAAGAAAGTTTCTCAGGTCTGCA-CCGATGAAC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTG-AGCCGATGGGC
* * * * ** *
266573 AGACAAAA-AGTATAGAAAGTCTCCCAGATCTGAGTTGACGGGCC
1 AGACAAAAGA-TAAAGAAAGTCTCCCGGGTTTGAGCCGATGGG-C
* * * * * * *
266617 A-ACAAAAGATGAA-AAAGTCTCCCGTGTCTGAGCCAACGAGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * ** * * *
266658 AGATAAAGGATAAAG-AAGTCTCTAGGGTCTGAGCCGAAGGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * * * *
266700 AGACAAAAGATAAAG-AAGTCTCTCGAGTCTGAGCCAATAGGT
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* * * *
266742 AGATAAAAGATAAAAAAAGTCTCTCGGGTCT-AGGCCGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGA-GCCGATGGGC
**** * *
266785 AGACAAAAGATAAAGAAAGTCTTTTAGGTTTGAACGGATGGGC
1 AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
* *
266828 AGATAAAAGATAAGGAAA
1 AGACAAAAGATAAAGAAA
266846 TCTAGGGTGA
Statistics
Matches: 1578, Mismatches: 402, Indels: 173
0.73 0.19 0.08
Matches are distributed among these distances:
32 22 0.01
34 1 0.00
35 28 0.02
36 2 0.00
38 2 0.00
39 2 0.00
40 14 0.01
41 69 0.04
42 405 0.26
43 897 0.57
44 46 0.03
45 33 0.02
46 3 0.00
47 6 0.00
48 4 0.00
49 7 0.00
50 3 0.00
51 13 0.01
52 7 0.00
53 11 0.01
54 3 0.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (43 bp):
AGACAAAAGATAAAGAAAGTCTCCCGGGTTTGAGCCGATGGGC
Found at i:265022 original size:85 final size:86
Alignment explanation
Indices: 264775--266845 Score: 981
Period size: 86 Copynumber: 24.3 Consensus size: 86
264765 TTGAGTCAAT
* * * * ** *
264775 GGGCAGACAAAAGATAAAGAAAGTTTCCCGGGTCTGAGCTGATGGGTTGACAAAGGATAAAGAAA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAAA
** * *
264840 GTCTCTTGGGTTTGAGCCGAT
66 GTCTCTCAGGTCTGAGCCGAC
* * * *
264861 GGGCAAATAAAAGATAAAG-AAGTCTCTC-G-GTTTGAGTTGACGGGCAGACAAAAGATAAA-AA
1 GGGCAGACAAAAGATAAAGAAAGTCTC-CAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAA
* *
264922 AGTCTC-CCGAGTTTGAGCCGAC
65 AGTCTCTCAG-GTCTGAGCCGAC
* *
264944 GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGATGGGTAGACAAAAGATAAA-AAA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAAA
* * *
265008 ATCTCCCAGGTTTGAGCCGA-
66 GTCTCTCAGGTCTGAGCCGAC
* * * * *
265028 TGG--G-C---AGATAAAG-AAGTCTCCA-AGGTTTGAGCCGACGGGTAGACAAAGGATAAAGAA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGA-GTCTGAGCTGACGGGCAGACAAAAGATAAAGAA
* * *
265085 AGTTTCCCAGGTCTGAGCCGAT
65 AGTCTCTCAGGTCTGAGCCGAC
* * * * * *
265107 GGGCACATAAAAGATAATA-AAAGTCTTTC-GAGTTTGAG-TCGACAGGCAGACAAAAAATAAAG
1 GGGCAGACAAAAGATAA-AGAAAGTC-TCCAGAGTCTGAGCT-GACGGGCAGACAAAAGATAAAG
* *
265169 AAA-TATC-CTAGGTCTGAGCCGAT
63 AAAGTCTCTC-AGGTCTGAGCCGAC
* * * * * *
265192 AGACAGATAGAAGATAAAGAAAGTCT------TC--A---GACGGGCAAACAGAAGATAAAGAAA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAAA
** ** *
265246 GTCTCTTGGGTCAAAGCTGAC
66 GTCTCTCAGGTCTGAGCCGAC
* * * ** * ** * *
265267 AGGCAAACAGAAGATAAAGAAAGTCTCTTGGGTCAAAGCTGACGGCCAGACAGAAGATAAAGAAA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAAA
* * *
265332 GTCTCTCGGGTCTGAGACGAT
66 GTCTCTCAGGTCTGAGCCGAC
* * * *
265353 GGG-ATAACAAAAGATAAAGAAAGTCTCTCA-AGTTTGAGCCGACGGGCTGAC-AAAGATAAAG-
1 GGGCA-GACAAAAGATAAAGAAAGTCTC-CAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGA
**
265414 AAGTCTCTC-GGTCTGAGTTGAC
64 AAGTCTCTCAGGTCTGAGCCGAC
* * * * ** *
265436 AGGCAGAAAAAAGATAAA-AAAGTCTCCTGAGTCTCAGCCAACGGGTAGACAAAAGATAAAGAAA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAAA
* *
265500 GT-TTTCAGGGTCTAAGCCGAC
66 GTCTCTCA-GGTCTGAGCCGAC
* * * * * * *
265521 AGGCGGACAAAGGATAAA-TAAGTCTCTC-GAGTCTAAG-TCGATGGGCAGATAAAAGATAAAG-
1 GGGCAGACAAAAGATAAAGAAAGTCTC-CAGAGTCTGAGCT-GACGGGCAGACAAAAGATAAAGA
* *
265582 AAGTCTCTGAGGTCTAAGCCGAC
64 AAGTCTCTCAGGTCTGAGCCGAC
* * * * * * * * * *
265605 AGGTAGACAAAGGATAAAGAAAGTCTCCCGGGTCTGAGGTGACAGCCAGATAAAAGATAAAGAAT
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAAA
* *
265670 GTCTCTCGGGTCTGAGCCGAT
66 GTCTCTCAGGTCTGAGCCGAC
* * * * * *
265691 GGGCACACAAAAGATACAA-AAAGTCTTTCAG-GTCTGAG-TCGATGGGCAAACAGAAGA-AAAA
1 GGGCAGACAAAAGATA-AAGAAAGTC-TCCAGAGTCTGAGCT-GACGGGCAGACAAAAGATAAAG
*
265752 AGAAGTCTCTCGGGTCTGAGCCGAC
63 A-AAGTCTCTCAGGTCTGAGCCGAC
* * *
265777 GGGTAGACAAAAGATAAAAAAAGTCT-CATGAGTCTGAG-TCAACGGGCAGACAAAAGATAAAGA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCA-GAGTCTGAGCT-GACGGGCAGACAAAAGATAAAGA
* * *
265840 AAGTTTC-CTAGGTCTAAGCCGAT
64 AAGTCTCTC-AGGTCTGAGCCGAC
* * *
265863 GGGCAGACAAAAGATAAAGAAAGTTTTCC-GAGTCTGAG-TCGATGGGTAGACAAAAGATAAAGA
1 GGGCAGACAAAAGATAAAGAAAG-TCTCCAGAGTCTGAGCT-GACGGGCAGACAAAAGATAAAGA
* ** * ** *
265926 AAG-CAAACAAAAGATAAAGAAGTCTC-TC
64 AAGTC--TC-TCAGGT-CTG-AG-C-CGAC
* * ** * * ** ** * *
265954 GGGTTTGAGCCAATGGGTAGACA-AAAG-ATAAAGAAAGTTTTCCAAG-T-CCGAGTC-GACAAG
1 GGG---CAGACAAAAGATA-A-AGAAAGTCTCCAG--AG---TCTGAGCTGACG-GGCAGACAA-
** * ** *
266014 CTGACAAATGATAAAGAAATCTCATGAGTCTGAGTCGA-
54 AAGATAAA-G--AAAG-TCTCTCA-G-GTCTGAGCCGAC
* * *
266052 GAAGCAGATAAAAGATAAA-AAAGTCTCTC-GGGTCTGAGCTGACGGGCAGACAAAAGATAAAGA
1 G-GGCAGACAAAAGATAAAGAAAGTCTC-CAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGA
* * * *
266115 AAGCCTCCCGGGTCTGAGCCGAT
64 AAGTCTCTCAGGTCTGAGCCGAC
* * * *
266138 AGGCAGACAAAAGATAAAGAAAGTCTCCA-AGGTCTGAGCTGATGGGCAAAAAAAAGATAAAGAA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGA-GTCTGAGCTGACGGGCAGACAAAAGATAAAGAA
** * * *
266202 AGTCTCTTGGGTTTAAGCCGAT
65 AGTCTCTCAGGTCTGAGCCGAC
* * * * * *
266224 GGGTAGACAAAAGATAAAGAAAGTCTCCCAG-GTCTGAACCGATGAGCAGACAAAAGATAAATAA
1 GGGCAGACAAAAGATAAAGAAAGTCT-CCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAA
* * *
266288 AGTCTC-CTAGATTTGAGCCAAC
65 AGTCTCTC-AGGTCTGAGCCGAC
* * * * ** * *
266310 GGGTAGACAAAAGATAAAAAAAAAGTCTCTC-GGGTCTGAGCCGATAGGCAGACAAAGGATCAAG
1 GGGCAGACAAAAGAT--AAAGAAAGTCTC-CAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAG
** * *
266374 -AAGTCTCTTGGGTTTGAGCCGAA
63 AAAGTCTCTCAGGTCTGAGCCGAC
* * * *
266397 GGGCAGACAAAAGATAAAG-AAGTCTCCTA-AGTCTGAGCCGACGAGCAGACAAATGATAAAAAA
1 GGGCAGACAAAAGATAAAGAAAGTCTCC-AGAGTCTGAGCTGACGGGCAGACAAAAGAT-AAAGA
* * * * *
266460 AAGTCTCCCGGGTCTAAGTCGAA
64 AAGTCTCTCAGGTCTGAGCCGAC
* * * *
266483 GGGCAGACAAAAGATAAAGAAAGTCTCCCA-AGTCTGAGCCGATGGCCAGATAAAAGATAAAGAA
1 GGGCAGACAAAAGATAAAGAAAGTCT-CCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAA
* *
266547 AGTTTCTCAGGTCTGCA-CCGAT
65 AGTCTCTCAGGTCTG-AGCCGAC
** * * *
266569 GAACAGACAAAA-AGTATAGAAAGTCTCCCAGA-TCTGAGTTGACGGGCCA-ACAAAAGATGAA-
1 GGGCAGACAAAAGA-TAAAGAAAGTCT-CCAGAGTCTGAGCTGACGGG-CAGACAAAAGATAAAG
* *
266630 AAAGTCTC-CCGTGTCTGAGCCAAC
63 AAAGTCTCTCAG-GTCTGAGCCGAC
* * * * * * * * *
266654 GAGTAGATAAAGGATAAAG-AAGTCTCTAGGGTCTGAGCCGAAGGGTAGACAAAAGATAAAG-AA
1 GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAAA
* *
266717 GTCTCTC-GAGTCTGAGCCAAT
66 GTCTCTCAG-GTCTGAGCCGAC
* * * * * * *
266738 AGGTAGATAAAAGATAAAAAAAGTCTCTC-GGGTCT-AGGCCGATGGGCAGACAAAAGATAAAGA
1 GGGCAGACAAAAGATAAAGAAAGTCTC-CAGAGTCTGA-GCTGACGGGCAGACAAAAGATAAAGA
* * * * * *
266801 AAGTCTTTTAGGTTTGAACGGAT
64 AAGTCTCTCAGGTCTGAGCCGAC
* *
266824 GGGCAGATAAAAGATAAGGAAA
1 GGGCAGACAAAAGATAAAGAAA
266846 TCTAGGGTGA
Statistics
Matches: 1539, Mismatches: 316, Indels: 260
0.73 0.15 0.12
Matches are distributed among these distances:
74 21 0.01
75 35 0.02
76 1 0.00
77 36 0.02
78 28 0.02
79 3 0.00
81 4 0.00
82 26 0.02
83 79 0.05
84 183 0.12
85 303 0.20
86 592 0.38
87 89 0.06
88 46 0.03
90 7 0.00
91 12 0.01
92 8 0.01
93 2 0.00
94 14 0.01
95 8 0.01
96 10 0.01
97 6 0.00
98 8 0.01
99 7 0.00
100 3 0.00
101 7 0.00
102 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (86 bp):
GGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACGGGCAGACAAAAGATAAAGAAA
GTCTCTCAGGTCTGAGCCGAC
Found at i:265048 original size:35 final size:35
Alignment explanation
Indices: 264998--265117 Score: 105
Period size: 35 Copynumber: 3.2 Consensus size: 35
264988 GGTAGACAAA
* *
264998 AGATAAAAAAATCTCCCAGGTTTGAGCCGATGGGC
1 AGATAAAGAAGTCTCCCAGGTTTGAGCCGATGGGC
* *
265033 AGATAAAGAAGTCTCCAAGGTTTGAGCCGACGGGTAGAC
1 AGATAAAGAAGTCTCCCAGGTTTGAGCCGA-TGG--G-C
* *
265072 AAAGGATAAAGAAAGTTTCCCAGGTCTGAGCCGATGGGC
1 --A-GATAAAG-AAGTCTCCCAGGTTTGAGCCGATGGGC
*
265111 ACATAAA
1 AGATAAA
265118 AGATAATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
35 27 0.40
36 7 0.10
37 1 0.01
38 1 0.01
39 2 0.03
40 1 0.01
41 1 0.01
42 9 0.13
43 19 0.28
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (35 bp):
AGATAAAGAAGTCTCCCAGGTTTGAGCCGATGGGC
Found at i:265059 original size:77 final size:79
Alignment explanation
Indices: 264955--265117 Score: 224
Period size: 78 Copynumber: 2.1 Consensus size: 79
264945 GGCAGACAAA
* *
264955 AGATAAAGAAAGTCTCCAGAGTCTGAGCTGATGGGTAGACAAAAGATAAA-AAAATCTCCCAGGT
1 AGATAAAGAAAGTCTCCAGAGTCTGAGCCGACGGGTAGACAAAAGATAAAGAAAATCTCCCAGGT
*
265019 TTGAGCCGATGGGC
66 CTGAGCCGATGGGC
* * * *
265033 AGATAAAG-AAGTCTCCA-AGGTTTGAGCCGACGGGTAGACAAAGGATAAAGAAAGTTTCCCAGG
1 AGATAAAGAAAGTCTCCAGA-GTCTGAGCCGACGGGTAGACAAAAGATAAAGAAAATCTCCCAGG
265096 TCTGAGCCGATGGGC
65 TCTGAGCCGATGGGC
*
265111 ACATAAA
1 AGATAAA
265118 AGATAATAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 1 0.01
77 35 0.47
78 39 0.52
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (79 bp):
AGATAAAGAAAGTCTCCAGAGTCTGAGCCGACGGGTAGACAAAAGATAAAGAAAATCTCCCAGGT
CTGAGCCGATGGGC
Found at i:265074 original size:120 final size:120
Alignment explanation
Indices: 264913--265128 Score: 310
Period size: 120 Copynumber: 1.8 Consensus size: 120
264903 GGCAGACAAA
*
264913 AGATAAAAAAGTCTCCCGAGTTTGAGCCGACGGGCAGACAAAAGATAAAGAAAGTCT-CCAGAGT
1 AGATAAAAAAGTCTCCAGAGTTTGAGCCGACGGGCAGACAAAAGATAAAGAAAGTCTCCCAG-GT
* * *
264977 CTGAGCTGATGGGTAGACAAAAGATAAAAAAATCTCCCAGGTTTGAGCCGATGGGC
65 CTGAGCCGATGGGCACACAAAAGATAAAAAAATCTCCCAGGTTTGAGCCGATGGGC
* * * *
265033 AGATAAAGAAGTCTCCA-AGGTTTGAGCCGACGGGTAGACAAAGGATAAAGAAAGTTTCCCAGGT
1 AGATAAAAAAGTCTCCAGA-GTTTGAGCCGACGGGCAGACAAAAGATAAAGAAAGTCTCCCAGGT
* *
265097 CTGAGCCGATGGGCACATAAAAGATAATAAAA
65 CTGAGCCGATGGGCACACAAAAGATAAAAAAA
265129 GTCTTTCGAG
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
119 1 0.01
120 79 0.94
121 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (120 bp):
AGATAAAAAAGTCTCCAGAGTTTGAGCCGACGGGCAGACAAAAGATAAAGAAAGTCTCCCAGGTC
TGAGCCGATGGGCACACAAAAGATAAAAAAATCTCCCAGGTTTGAGCCGATGGGC
Found at i:265160 original size:163 final size:161
Alignment explanation
Indices: 264872--265862 Score: 375
Period size: 163 Copynumber: 6.0 Consensus size: 161
264862 GGCAAATAAA
** *
264872 AGATAAAGAAGTCTCTCGGTTTGAGTTGACGGGCAGACAAAAGATAAAAAAGTCTCCCGAGTTTG
1 AGATAAAGAAGTCTCTCGGTTTGAGCCGACGGGCAGACAAAAGATAAAAAAGTCTCCCGAGTCTG
* ** * *
264937 AGCCGACGGGCAGACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGATGGGTAGACAAAAGAT
66 AGCCGACGGGCACACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACAGGCAGACAAAAAAT
* * * *
265002 AAAAAAATCTCCCAGGTTTGAGCCGATGGGC
131 AAAAAAATATCCCAGGTCTGAGCCGATAGAC
* * *
265033 AGATAAAGAAGTCTC-CAAGGTTTGAGCCGACGGGTAGACAAAGGATAAAGAAAGTTTCCC-AGG
1 AGATAAAGAAGTCTCTC--GGTTTGAGCCGACGGGCAGACAAAAGATAAA-AAAGTCTCCCGA-G
* * * *
265096 TCTGAGCCGATGGGCACATAAAAGATAATA-AAAGTCTTTC-GAGTTTGAG-TCGACAGGCAGAC
62 TCTGAGCCGACGGGCACACAAAAGATAA-AGAAAGTC-TCCAGAGTCTGAGCT-GACAGGCAGAC
* *
265158 AAAAAATAAAGAAATATCCTAGGTCTGAGCCGATAGAC
124 AAAAAATAAAAAAATATCCCAGGTCTGAGCCGATAGAC
* *** * * * ** *
265196 AGAT--AGAAG-ATAAAGAAAGTCTT---CAGACGGGCAAACAGAAGATAAAGAAAGTCTCTTGG
1 AGATAAAGAAGTCTCTCG---GT-TTGAGCCGACGGGCAGACAAAAGATAAA-AAAGTCTCCCGA
** * * * * ** * **
265255 GTCAAAGCTGACAGGCAAACAGAAGATAAAGAAAGTCTCTTGGGTCAAAGCTGAC-GGCCAGACA
61 GTCTGAGCCGACGGGCACACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACAGG-CAGACA
* * * * * * * *
265319 GAAGATAAAGAAAGTCTCTCGGGTCTGAGACGATGGGATAAC
125 AAAAATAAA-AAAATATCCCAGGTCTGAGCCGAT---A-GAC
* * * *
265361 AAAAGATAAAGAAAGTCTCTCAAGTTTGAGCCGACGGGCTGAC-AAAGATAAAGAAGTCTCTCG-
1 ---AGATAAAG-AAGTCTCTC-GGTTTGAGCCGACGGGCAGACAAAAGATAAAAAAGTCTCCCGA
** * * * * * ** * *
265424 GTCTGAGTTGACAGGCAGAAAAAAGATAAA-AAAGTCTCCTGAGTCTCAGCCAACGGGTAGACAA
61 GTCTGAGCCGACGGGCACACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACAGGCAGACAA
* * ** * *
265488 AAGATAAAGAAAGT-TTTCAGGGTCTAAGCCGACAGGCGGAC
126 AAAATAAA-AAAATATCCCA-GGTCTGAGCCGATA----GAC
* * * * * * * *
265529 AAAGGATAAATAAGTCTCTCGAGTCTAAGTCGATGGGCAGATAAAAGATAAAGAAGTCT-CTGAG
1 --A-GATAAAGAAGTCTCTCG-GTTTGAGCCGACGGGCAGACAAAAGATAAAAAAGTCTCCCGA-
* * * * * * * * * *
265593 GTCTAAGCCGACAGGTAGACAAAGGATAAAGAAAGTCTCCCGGGTCTGAGGTGACAGCCAGATAA
61 GTCTGAGCCGACGGGCACACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACAGGCAGACAA
* * * * *
265658 AAGAT-AAAGAATGTCTCTCGGGTCTGAGCCGATGGGCACAC
126 AAAATAAAAAAATATC-C-CAGGTCTGAGCCGAT----AGAC
* * * * * * * * *
265699 AAAAGATACAAAAAGTCTTTCAGGTCTGAGTCGATGGGCAAACAGAAGAAAAAAGAAGTCTCTCG
1 ---AGATA-AAGAAGTCTCTC-GGTTTGAGCCGACGGGCAGACAAAAGATAAAA-AAGTCTCCCG
* * * * * *
265764 GGTCTGAGCCGACGGGTAGACAAAAGATAAAAAAAGTCT-CATGAGTCTGAG-TCAACGGGCAGA
60 AGTCTGAGCCGACGGGCACACAAAAGATAAAGAAAGTCTCCA-GAGTCTGAGCT-GACAGGCAGA
* * * * *
265827 CAAAAGATAAAGAAAGTTTCCTAGGTCTAAGCCGAT
123 CAAAAAATAAA-AAAATATCCCAGGTCTGAGCCGAT
265863 GGGCAGACAA
Statistics
Matches: 620, Mismatches: 150, Indels: 109
0.71 0.17 0.12
Matches are distributed among these distances:
159 5 0.01
160 76 0.12
161 38 0.06
162 31 0.05
163 93 0.15
164 4 0.01
165 3 0.00
167 30 0.05
168 78 0.13
169 55 0.09
170 59 0.10
171 52 0.08
172 86 0.14
173 4 0.01
174 6 0.01
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.18
Consensus pattern (161 bp):
AGATAAAGAAGTCTCTCGGTTTGAGCCGACGGGCAGACAAAAGATAAAAAAGTCTCCCGAGTCTG
AGCCGACGGGCACACAAAAGATAAAGAAAGTCTCCAGAGTCTGAGCTGACAGGCAGACAAAAAAT
AAAAAAATATCCCAGGTCTGAGCCGATAGAC
Found at i:265980 original size:62 final size:63
Alignment explanation
Indices: 265869--265990 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 63
265859 CGATGGGCAG
* * *
265869 ACAAAAGATAAAGAAAGTTTTCCGAGTCTGAGTCGATGGGTAGACAAAAGATAAAGAAAGCAA
1 ACAAAAGATAAAGAAAGTTCTCCGAGTCTGAGCCAATGGGTAGACAAAAGATAAAGAAAGCAA
* *
265932 ACAAAAGATAAAG-AAG-TCTCTCGGGTTTGAGCCAATGGGTAGACAAAAGATAAAGAAAG
1 ACAAAAGATAAAGAAAGTTCTC-CGAGTCTGAGCCAATGGGTAGACAAAAGATAAAGAAAG
265991 TTTTCCAAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 3 0.06
62 37 0.70
63 13 0.25
ACGTcount: A:0.47, C:0.11, G:0.25, T:0.17
Consensus pattern (63 bp):
ACAAAAGATAAAGAAAGTTCTCCGAGTCTGAGCCAATGGGTAGACAAAAGATAAAGAAAGCAA
Found at i:267069 original size:63 final size:60
Alignment explanation
Indices: 266956--267166 Score: 171
Period size: 63 Copynumber: 3.5 Consensus size: 60
266946 GTCTTGACCA
* * *
266956 AATACAATCAAGAAGGGAGAGGTTTGACCGAGTACACTAAAATGAGGATAGTCTTAA-CTG
1 AATACAATCAAGAAGGGAGAGATTTGACCAAGTACACTAAAATGAGGATAGACTTAATC-G
* * *
267016 AATACAATCAAGAAGGGTGGTAAGATTTGACCAAGTACAGC-CAAATGAGGATAGACTTGATCG
1 AATACAATCAAGAAGGG-AG--AGATTTGACCAAGTACA-CTAAAATGAGGATAGACTTAATCG
* * * * * * *
267079 AATACAATCAAGCAA-GGATAAGATTTGA-CAGAGTATAATCAAATGAGGAAAGACTTAACCA
1 AATACAATCAAG-AAGGGA-GAGATTTGACCA-AGTACACTAAAATGAGGATAGACTTAATCG
* *
267140 AATACAGTCAAG-AGGGATAAGATTTGA
1 AATACAATCAAGAAGGGA-GAGATTTGA
267167 TGGAGTACAG
Statistics
Matches: 126, Mismatches: 15, Indels: 20
0.78 0.09 0.12
Matches are distributed among these distances:
59 1 0.01
60 32 0.25
61 43 0.34
63 46 0.37
64 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (60 bp):
AATACAATCAAGAAGGGAGAGATTTGACCAAGTACACTAAAATGAGGATAGACTTAATCG
Found at i:267190 original size:60 final size:61
Alignment explanation
Indices: 266855--267247 Score: 316
Period size: 60 Copynumber: 6.5 Consensus size: 61
266845 ATCTAGGGTG
* * ** * * *
266855 AGATTTGACCGAGTGCAGTCAAATGAGGAAAAACTTGAGTGAATACAGTCAAGTAGGGGTGA
1 AGATTTGACCGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAATCAAGAAGGGAT-A
* * * * * *
266917 A-ATTTGACCGAATATAGTCAAAT-A-AAATAGTCTTGACCAAATACAATCAAGAAGGGA-G
1 AGATTTGACCGAGTACAGTCAAATGAGGAA-AGACTTGACCGAATACAATCAAGAAGGGATA
* * * * * * * *
266975 AGGTTTGACCGAGTACACTAAAATGAGGATAGTCTTAACTGAATACAATCAAGAAGGGTGGTA
1 AGATTTGACCGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAATCAAGAA-GG-GATA
* * * *
267038 AGATTTGACCAAGTACAGCCAAATGAGGATAGACTTGATCGAATACAATCAAGCAA-GGATA
1 AGATTTGACCGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAATCAAG-AAGGGATA
* * * * * *
267099 AGATTTGACAGAGTATAATCAAATGAGGAAAGACTTAACCAAATACAGTCAAG-AGGGATA
1 AGATTTGACCGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAATCAAGAAGGGATA
** * * * *
267159 AGATTTGATGGAGTACAGTCAAATGAAGAAAGACTTGACCGAATAGAGTCAAG-TGGTG-TA
1 AGATTTGACCGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAATCAAGAAGG-GATA
* * *
267219 AGACTTGACCGAGTACCGTCCAATGAGGA
1 AGATTTGACCGAGTACAGTCAAATGAGGA
267248 TGGAATGAGT
Statistics
Matches: 261, Mismatches: 60, Indels: 22
0.76 0.17 0.06
Matches are distributed among these distances:
58 1 0.00
59 20 0.08
60 122 0.47
61 69 0.26
62 3 0.01
63 44 0.17
64 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (61 bp):
AGATTTGACCGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAATCAAGAAGGGATA
Found at i:267339 original size:58 final size:57
Alignment explanation
Indices: 267247--267360 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 57
267237 TCCAATGAGG
* * *
267247 ATGGAATGAGTTTGACCAGGCCTCAACACTAATACAATCAAATGAGGGATGGAAAGAA
1 ATGGAAAGAATTTGACCAGGCCTCAACACCAATACAATCAAATGAGGGAT-GAAAGAA
*
267305 ATGGAAAGAATTTGACCAGGCC-CTAACACCAATACAGTCAAATGAGGGATGAAAGA
1 ATGGAAAGAATTTGACCAGGCCTC-AACACCAATACAATCAAATGAGGGATGAAAGA
267361 GTTTGGCTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 7 0.14
58 44 0.86
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.18
Consensus pattern (57 bp):
ATGGAAAGAATTTGACCAGGCCTCAACACCAATACAATCAAATGAGGGATGAAAGAA
Found at i:267394 original size:35 final size:35
Alignment explanation
Indices: 267355--267428 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
267345 AATGAGGGAT
* *
267355 GAAAGAGTTTGGCTAGATATAGCCAAATGATGATG
1 GAAAGAGTTTGACTAGATATAGCCAAACGATGATG
* *
267390 GAAAGAGTTTGACTAGTTATAGTCAAACGATGATG
1 GAAAGAGTTTGACTAGATATAGCCAAACGATGATG
267425 GAAA
1 GAAA
267429 AATTTGATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (35 bp):
GAAAGAGTTTGACTAGATATAGCCAAACGATGATG
Found at i:268025 original size:28 final size:28
Alignment explanation
Indices: 267975--268903 Score: 915
Period size: 28 Copynumber: 32.4 Consensus size: 28
267965 AGGCAACTCT
* **
267975 TTTCAAAGCCCACACGTCAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
268003 TTTCAAAGCCTACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGC-AC-CC
*
268033 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
268061 TTTCAAGGCCCACGAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
268089 TTTCAAAGCCCACCAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
268117 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
268145 TTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* ** *
268173 TTTTAAA-CCCATGAGTCAGTGGCAACC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
268200 TTTCAAAGGCCACAAGTCAGTGGCGCTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
268228 TTTCAAAGCCCACAAGTCAATGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
268256 TTTCAAAGCCCATGCAAGTTAGTGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCC
*
268286 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
268315 TTTCAAAGCCCACAAGTCAGCGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
268343 TTTCAAAGCCCACAAGTCAGTGGCAATTCT
1 TTTCAAAGCCCACAAGTCAGTGGC-A-CCC
* * * * *
268373 TTTTAAAGCCTATAAGTCATTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
268401 TTTCAAAGCCCACAAGTCAATGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
268429 TTTCAAAGCCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
268458 TTTCAAAGCCCACAAGTTAGTGGGACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
268486 TTTCAAAGCCCACAAGTTAGTGGGACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
268515 TTTCAAAGCCCACAAGCCAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTCAGTGG-CAC-CC
* ***
268545 TTTCAAAGCCCACACAAGTTAGTGGCATTA
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
* ** *
268575 GTTCAAAGCCCACACAAGTTGGTGGTAACCC
1 TTTCAAAG-CC-CACAAGTCAGTGG-CACCC
** *
268606 ATTTCAAAGCCCACACAAGTTGGTGGTAACCC
1 -TTTCAAAG-CC-CACAAGTCAGTGG-CACCC
* * *
268638 GTTTCAAAGCTCACAAATTAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
268667 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
268695 TTTCAAAGCCCACAAGTCGGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
268723 TTTCAAAGTCCACAAGTCGGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * **
268751 TTTCAAAGTCCACAAGTCGGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
* *
268780 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
268808 TTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* **
268836 TTTCAAAGCCCACAAGTTAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
268864 TTTCAAAGTCCACAAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
268892 TTTTAAAGCCCA
1 TTTCAAAGCCCA
268904 TGCAAGCCGA
Statistics
Matches: 773, Mismatches: 112, Indels: 32
0.84 0.12 0.03
Matches are distributed among these distances:
27 24 0.03
28 475 0.61
29 104 0.13
30 116 0.15
31 5 0.01
32 49 0.06
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:269055 original size:48 final size:48
Alignment explanation
Indices: 268961--269174 Score: 200
Period size: 48 Copynumber: 4.5 Consensus size: 48
268951 AAATTCGATA
* * * * *
268961 TCGCTGGCATTGAATCAGCATATTG-GCACCTTT--ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* * *
269006 TCGCTAGCCTTGAATCAGCAAATTGTCCACTTTTCCCTTAGCTCGATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* * * * *
269054 TCACTGGCCTTAAATCAGCACATTGTCCACGTTTCCCTGAGCTTAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* * * * * **
269102 TCGTTGGCTTTGAATTAGCACATTGTCCATTTTTCCCTTGGCTTGATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
* **
269150 TCGTTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
269175 GCACTCTTTT
Statistics
Matches: 139, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
45 22 0.16
46 6 0.04
48 111 0.80
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (48 bp):
TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
Found at i:269127 original size:96 final size:96
Alignment explanation
Indices: 268997--269174 Score: 230
Period size: 96 Copynumber: 1.9 Consensus size: 96
268987 CACCTTTATT
268997 AGCTCAATGTCGCTAGCCTTGAATCAGCAAATTGTCCACTTTTCCCTTAGCTCGATGTCACTGGC
1 AGCTCAATGTCGCTAGCCTTGAATCAGCAAATTGTCCACTTTTCCCTTAGCTCGATGTCACTGGC
269062 CTTAAATCAGCACATTGTCCACGTTTCCCTG
66 CTTAAATCAGCACATTGTCCACGTTTCCCTG
* * * * * * * * * **
269093 AGCTTAATGTCGTTGGCTTTGAATTAGCACATTGTCCATTTTTCCCTTGGCTTGATGTCGTTGGC
1 AGCTCAATGTCGCTAGCCTTGAATCAGCAAATTGTCCACTTTTCCCTTAGCTCGATGTCACTGGC
* **
269158 CTTGAATTGGCACATTG
66 CTTAAATCAGCACATTG
269175 GCACTCTTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 68 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (96 bp):
AGCTCAATGTCGCTAGCCTTGAATCAGCAAATTGTCCACTTTTCCCTTAGCTCGATGTCACTGGC
CTTAAATCAGCACATTGTCCACGTTTCCCTG
Found at i:269515 original size:12 final size:12
Alignment explanation
Indices: 269498--269527 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
269488 GGACTTTTTT
*
269498 AAAAAAAATAAA
1 AAAAAAAACAAA
269510 AAAAAAAACAAA
1 AAAAAAAACAAA
269522 AAAAAA
1 AAAAAA
269528 GAGAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.93, C:0.03, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:269935 original size:20 final size:20
Alignment explanation
Indices: 269910--269984 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
269900 AAGTACCCAG
269910 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
269930 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
269950 ATGTATCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
269970 ATGTATCGATACATT
1 ATGTATCGATACATT
269985 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:270927 original size:21 final size:22
Alignment explanation
Indices: 270894--270934 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
270884 AGCCTTTGAC
*
270894 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTAATATGTTT
270916 CATGCA-TTTTTTAATATGT
1 CATGCATTTTTTTAATATGT
270935 CCAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (22 bp):
CATGCATTTTTTTAATATGTTT
Found at i:272569 original size:71 final size:71
Alignment explanation
Indices: 272493--272636 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
272483 TTATATAACT
272493 TTATTTCACTTGTTGCCATACTAACATATTTTCATTATGATGATTATTTGCATCCATATTTTCAA
1 TTATTTCACTTGTTGCCATACTAACATATTTTCATTATGATGATTATTTGCATCCATATTTTCAA
272558 AATTTG
66 AATTTG
272564 TTATTTCACTTGTTGCCATACTAACATATTTTCATTATGATGATTATTTGCATCCATATTTTCAA
1 TTATTTCACTTGTTGCCATACTAACATATTTTCATTATGATGATTATTTGCATCCATATTTTCAA
272629 AATTTG
66 AATTTG
272635 TT
1 TT
272637 TACAAAAATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (71 bp):
TTATTTCACTTGTTGCCATACTAACATATTTTCATTATGATGATTATTTGCATCCATATTTTCAA
AATTTG
Found at i:280372 original size:12 final size:12
Alignment explanation
Indices: 280355--280388 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
280345 TTTGAGGTGC
280355 TTATTTGTTTAT
1 TTATTTGTTTAT
*
280367 TTATTTATTTAT
1 TTATTTGTTTAT
*
280379 TTGTTTGTTT
1 TTATTTGTTT
280389 TGGTTTTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (12 bp):
TTATTTGTTTAT
Found at i:293143 original size:33 final size:33
Alignment explanation
Indices: 293106--293172 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
293096 TTCAACGATT
293106 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
293139 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
293172 T
1 T
293173 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:293144 original size:13 final size:13
Alignment explanation
Indices: 293126--293150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
293116 CATAAAATGT
293126 TGTATCGATACAA
1 TGTATCGATACAA
293139 TGTATCGATACA
1 TGTATCGATACA
293151 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:293231 original size:13 final size:13
Alignment explanation
Indices: 293213--293237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
293203 ATTACTCAAA
293213 TGTATCGATACAT
1 TGTATCGATACAT
293226 TGTATCGATACA
1 TGTATCGATACA
293238 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:293339 original size:52 final size:52
Alignment explanation
Indices: 293246--293373 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
293236 CACTGATCTT
*
293246 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
293297 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
293349 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
293374 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:298378 original size:52 final size:51
Alignment explanation
Indices: 298253--298388 Score: 182
Period size: 51 Copynumber: 2.6 Consensus size: 51
298243 AGATGAGAAG
* * * * * *
298253 AATGCTAATGTGTTGATTCAAGGCTAGCGACATTGGGCTTAGGAATGTTAA
1 AATGCCAATATGTTGATTCAAGGCCAGCGATATCGGGCTTAGGAATGTCAA
* *
298304 AATGCCAATATGCTAATTCAAGGCCAGCGATATCGGGCTTAGGAATGTCAA
1 AATGCCAATATGTTGATTCAAGGCCAGCGATATCGGGCTTAGGAATGTCAA
*
298355 AGATGCCAATATGTTGATTCAAGGCCAGTGATAT
1 A-ATGCCAATATGTTGATTCAAGGCCAGCGATAT
298389 TAGACTTAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 44 0.60
52 29 0.40
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
AATGCCAATATGTTGATTCAAGGCCAGCGATATCGGGCTTAGGAATGTCAA
Found at i:298427 original size:49 final size:49
Alignment explanation
Indices: 298358--298543 Score: 195
Period size: 43 Copynumber: 3.9 Consensus size: 49
298348 ATGTCAAAGA
* * *
298358 TGCCAATATGTTGATTCAAGGCCAGTGATATTAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGG
* *
298407 TGCCAATGTGCTGATTCAAGGCCAGCGACGTTAGACTT-AA-AT--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGG
* * *
298450 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTT--AAA-GATGAAGG
** * *
298502 CACCAATATGCTAATTCAAGGCCAGCGATATTAGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAG
298544 GTACCAATGT
Statistics
Matches: 114, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
43 36 0.32
45 1 0.01
46 2 0.02
47 2 0.02
48 3 0.03
49 34 0.30
50 4 0.04
52 32 0.28
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGG
Found at i:298536 original size:95 final size:92
Alignment explanation
Indices: 298353--298560 Score: 254
Period size: 95 Copynumber: 2.2 Consensus size: 92
298343 TAGGAATGTC
* * * * * ** *
298353 AAAGATGCCAATATGTTGATTCAAGGCCAGTGATATTAGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGACGAAGGCACCAATATGC
* *
298418 TGATTCAAGGCCAGCGACGTTAGACTT
66 TAATTCAAGGCCAGCGACATTAGACTT
* *
298445 AAATATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACGAAGGCACCAATA
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT--AAA-GACGAAGGCACCAATA
*
298510 TGCTAATTCAAGGCCAGCGATATTAGACTT
63 TGCTAATTCAAGGCCAGCGACATTAGACTT
* *
298540 AAAGGTACCAATGTGCTGATT
1 AAAGATGCCAATGTGCTGATT
298561 TAAAACCAAC
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
92 37 0.38
94 3 0.03
95 57 0.59
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (92 bp):
AAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGACGAAGGCACCAATATGC
TAATTCAAGGCCAGCGACATTAGACTT
Found at i:298699 original size:31 final size:30
Alignment explanation
Indices: 298626--298688 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
298616 GAAAAGGTTA
* * *
298626 CCACTAACTTGTGTGGGCTTTAGAGGGGTG
1 CCACCAACTTGTGTAGGCTTTAGAGAGGTG
298656 CCACCAACTTGTGTAGGCTTTAGAGAAGGTG
1 CCACCAACTTGTGTAGGCTTTAGAG-AGGTG
298687 CC
1 CC
298689 TCTGACTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.27
Consensus pattern (30 bp):
CCACCAACTTGTGTAGGCTTTAGAGAGGTG
Found at i:298733 original size:28 final size:28
Alignment explanation
Indices: 298662--299153 Score: 519
Period size: 28 Copynumber: 17.4 Consensus size: 28
298652 GGTGCCACCA
*
298662 ACTTGTGTAGGCTTTAGAGAAGG-TGCCTCTG
1 ACTTGTG--GGCTTT-GA-AAGGATGCCACTG
298693 ACTTGTGGGCTTTG-AAGAGATGCCACTG
1 ACTTGTGGGCTTTGAAAG-GATGCCACTG
* * *
298721 ACTTATGGACTTTGAAAGGATGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
298749 ACTCGTGGGCTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
298777 ACTTGTGGGCTTTG-AAGAGATGCTACTA
1 ACTTGTGGGCTTTGAAAG-GATGCCACTG
* * *
298805 ACTTGTGTGCTTTGAAAAGATGCAACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
298833 ACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGA-TGCCACTG
* *
298862 ACTTATGGGCTTTGAAAGGATTCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
298890 ACTTGTGGGCTTTGAAAGGATGCCATTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
298918 ACTTGTGGGATTTGAAAGGATGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
298946 ACTTGTGGGCTTTGAAAGGATGCCATTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
298974 ACTTGTGGG-TATTGAAATGATGCCATTG
1 ACTTGTGGGCT-TTGAAAGGATGCCACTG
* * *
299002 AGTCGTGGGCTTTGAAAATG-TGCCACTG
1 ACTTGTGGGCTTTG-AAAGGATGCCACTG
* * * *
299030 ACTTGTGGGCATGGAAAAGATGCCACTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* ** *
299058 ACTTGTGGGCTTGGAAAAAATGCCATTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * *
299086 ACTTGTGGGTTTTGAAAGGGTGCCATTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
299114 A-TTCGTTGGCTTTGAAAAGGATGCCACTG
1 ACTT-GTGGGCTTTG-AAAGGATGCCACTG
*
299143 ACTTATGGGCT
1 ACTTGTGGGCT
299154 ATGCCACTGA
Statistics
Matches: 394, Mismatches: 54, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.01
27 11 0.03
28 311 0.79
29 60 0.15
30 2 0.01
31 7 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
ACTTGTGGGCTTTGAAAGGATGCCACTG
Found at i:299330 original size:28 final size:27
Alignment explanation
Indices: 299155--299697 Score: 699
Period size: 27 Copynumber: 19.9 Consensus size: 27
299145 TTATGGGCTA
* *
299155 TGCCACTGACTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* ** * *
299182 TGTCATAGAGTTGTGGACTTAAAATGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * **
299209 TGCCACAGAGTTGTAGACTTAAGAGTT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
**
299236 TGCCATAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
299263 TGCCATGGAGTTTTGGACTTTAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
299290 TGCCACGGAGTTGTGGACTTAAAAGGTG
1 TGCCACGGAGTTGTGGACTTAAAAGG-G
*
299318 TGCCACAGAGTTGTGGACTATAAAAGGG
1 TGCCACGGAGTTGTGGACT-TAAAAGGG
*
299346 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
299373 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
299400 TGCCACGGAGTTGTGGACTTCAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
299427 TGTCACAGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* *
299455 TGTCATGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
299483 TGTCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
299511 TGCCACGGAGTTGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
**
299539 TGCCACGGAGTTGTGGACTTTAAAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
299567 TGCCACGGGGTTATGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
299594 TGCCATGGAGTTGTGGACTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTAAAAGGG
299621 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
299648 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
299675 TACCACGGAGTTGTGGACTTAAA
1 TGCCACGGAGTTGTGGACTTAAA
299698 TAGGAATGCC
Statistics
Matches: 462, Mismatches: 51, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
27 288 0.62
28 167 0.36
29 7 0.02
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.26
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:302387 original size:21 final size:21
Alignment explanation
Indices: 302361--302411 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
302351 TAGGGATCAG
*
302361 GTGCTTGATGTTATCTCGGTT
1 GTGCTTGATGCTATCTCGGTT
302382 GTGCTTGATGCTATCTCGGTT
1 GTGCTTGATGCTATCTCGGTT
302403 GTGCTTGAT
1 GTGCTTGAT
302412 TGGCATAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.10, C:0.16, G:0.29, T:0.45
Consensus pattern (21 bp):
GTGCTTGATGCTATCTCGGTT
Found at i:308222 original size:20 final size:20
Alignment explanation
Indices: 308199--308250 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
308189 TTCATCCATC
*
308199 TATCGATACATTGAAAAATG
1 TATCGATACATCGAAAAATG
308219 TATCGATACATCGAAAAATG
1 TATCGATACATCGAAAAATG
308239 TATCGATACATC
1 TATCGATACATC
308251 TGGGTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TATCGATACATCGAAAAATG
Found at i:310367 original size:79 final size:79
Alignment explanation
Indices: 310271--310917 Score: 469
Period size: 79 Copynumber: 8.2 Consensus size: 79
310261 ACAACGGGGC
* * *
310271 TAGAGTATCCCCGATTATGAAAAATTGATGTTCTGGAAATAAAATCAAGGTTGGAGTATCCCCTT
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTC
* *
310336 GGAAATAACAAGGT
66 GAAAATAACAGGGT
** * * * *
310350 TAGAGTATCCCTAATTAT-AGAAAATTGGTGTTTTGAAAATAAAATTAGGGTTGGAGTATCCCCC
1 TAGAGTATCCCCGATTATGA-AAAATTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCT
* *
310414 CAAAAATAACGGGGT
65 CGAAAATAACAGGGT
* * * ** * *
310429 TGGAGTATCCCCGATTCTGAGAAATCAATATTTTAGG-AATAAAATCGGGGTTGGAGTATCCCCT
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTT-GGAAATAAAATCAGGGTTGGAGTATCCCCT
310493 CGAAAATAACAGGGT
65 CGAAAATAACAGGGT
* * * ** * ** *
310508 TGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGG-AATAAAGCCGGGGTTGGAGTATCCCCT
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTT-GGAAATAAAATCAGGGTTGGAGTATCCCCT
**
310572 CGAAAATAATGGGGT
65 CGAAAATAACAGGGT
* * * * * ** * ** * *
310587 TGGAGTATTCCTGATTGTGAGAAATCAATATTTTAGG-AATAAAGCCGGGGTTGGAGTATCCTCT
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTT-GGAAATAAAATCAGGGTTGGAGTATCCCCT
* *
310651 CGGAAATAACGGGGT
65 CGAAAATAACAGGGT
* * ** * ** * * * *
310666 TGGATTATCCTTGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTC
* *
310731 GGAAATAACGGGGT
66 GAAAATAACAGGGT
* * * * ** * ** *
310745 TGGAGTATTCCCGATTGTGAGAAATCAATATTTTAGG-AATAAAGCCGGGGTTGGAGTATCCCCT
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTT-GGAAATAAAATCAGGGTTGGAGTATCCCCT
* *
310809 CGGAAATAACGGGGT
65 CGAAAATAACAGGGT
* * ** * ** *
310824 TGGAGTATCCCCGATTATGAGAAATCAATATTTTAGG-AATAAAGCCGGGGTTGGAGTATCCCCT
1 TAGAGTATCCCCGATTATGAAAAATTGATGTTTT-GGAAATAAAATCAGGGTTGGAGTATCCCCT
**
310888 CGAAAATAATGGGGT
65 CGAAAATAACAGGGT
*
310903 TGGAGTATCCCCGAT
1 TAGAGTATCCCCGAT
310918 GATTAATGGG
Statistics
Matches: 507, Mismatches: 56, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
78 2 0.00
79 502 0.99
80 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
TAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTC
GAAAATAACAGGGT
Found at i:310559 original size:158 final size:158
Alignment explanation
Indices: 310397--310917 Score: 862
Period size: 158 Copynumber: 3.3 Consensus size: 158
310387 AATAAAATTA
* * *
310397 GGGTTGGAGTATCCCCCCAAAAATAACGGGGTTGGAGTATCCCCGATTCTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
** * * *
310462 TAGGAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTG
66 TAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
310527 AGAAATCAATATTTTAGGAATAAAGCCG
131 AGAAATCAATATTTTAGGAATAAAGCCG
* * *
310555 GGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATTCCTGATTGTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
* * **
310620 TAGGAATAAAGCCGGGGTTGGAGTATCCTCTCGGAAATAACGGGGTTGGATTATCCTTGATTATG
66 TAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
* *
310685 AGAAATCAATATTTTAGAAATAAAACCG
131 AGAAATCAATATTTTAGGAATAAAGCCG
* *
310713 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATTCCCGATTGTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
310778 TAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
66 TAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
310843 AGAAATCAATATTTTAGGAATAAAGCCG
131 AGAAATCAATATTTTAGGAATAAAGCCG
*
310871 GGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
310918 GATTAATGGG
Statistics
Matches: 334, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 334 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (158 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
TAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATG
AGAAATCAATATTTTAGGAATAAAGCCG
Found at i:310694 original size:237 final size:237
Alignment explanation
Indices: 310397--310917 Score: 871
Period size: 237 Copynumber: 2.2 Consensus size: 237
310387 AATAAAATTA
* * *
310397 GGGTTGGAGTATCCCCCCAAAAATAACGGGGTTGGAGTATCCCCGATTCTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTT
* *
310462 TAGGAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTG
66 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTG
*
310527 AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAG
131 AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAG
* * *
310592 TATTCCTGATTGTGAGAAATCAATATTTTAGGAATAAAGCCG
196 TATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCG
* * * **
310634 GGGTTGGAGTATCCTCTCGGAAATAACGGGGTTGGATTATCCTTGATTATGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTT
* * *
310699 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATTCCCGATTGTG
66 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTG
*
310764 AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAG
131 AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAG
310829 TATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCG
196 TATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCG
*
310871 GGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
310918 GATTAATGGG
Statistics
Matches: 260, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
237 260 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (237 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTT
TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTG
AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAG
TATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCG
Found at i:310932 original size:27 final size:27
Alignment explanation
Indices: 310870--310944 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
310860 GAATAAAGCC
310870 GGGGTTGGAGTATCCCCTCGA-AAATAAT
1 GGGGTTGGAGTAT-CCC-CGATAAATAAT
* *
310898 GGGGTTGGAGTATCCCCGATGATTAAT
1 GGGGTTGGAGTATCCCCGATAAATAAT
310925 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
310945 TATCAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.64
28 13 0.30
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATAAATAAT
Found at i:311313 original size:51 final size:51
Alignment explanation
Indices: 310928--311310 Score: 569
Period size: 51 Copynumber: 7.5 Consensus size: 51
310918 GATTAATGGG
* *
310928 GTTGGAGTATCCCCGATTATCA-AAAATTGGTGTTCTTGGAAATAAAATAGGA
1 GTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTT-TTGAAAATAAAATCGGA
310980 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
311031 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
311082 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
* * * *
311133 GTTGGAATATCCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
* * *
311184 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
* * *
311235 GTTGGAATATCCCCGATTGT-GAAAAATTAGTGTTTT-AGAAATAAAATC-GA
1 GTTGGAGTATCCCCGATTATAG-AAAATTGGTGTTTTGA-AAATAAAATCGGA
*
311285 GGTTGGAGTACCCCCGATTAT-GAAAA
1 -GTTGGAGTATCCCCGATTATAGAAAA
311311 ATTGAGAAAC
Statistics
Matches: 308, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
50 8 0.03
51 268 0.87
52 32 0.10
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:313689 original size:13 final size:13
Alignment explanation
Indices: 313671--313709 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
313661 ACAAAGATCG
313671 ATGTATCGATACA
1 ATGTATCGATACA
313684 ATGTATCGATACA
1 ATGTATCGATACA
313697 ATGTATCGATACA
1 ATGTATCGATACA
313710 TTGAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:313693 original size:33 final size:33
Alignment explanation
Indices: 313651--313729 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
313641 AACTTCCTAG
** *
313651 ATGTATCGATACAAAG-ATCGATGTATCGATACA
1 ATGTATCGATACAAAGTATCGATACATCGA-AAA
* *
313684 ATGTATCGATACAATGTATCGATACATTGAAAA
1 ATGTATCGATACAAAGTATCGATACATCGAAAA
313717 ATGTATCGATACA
1 ATGTATCGATACA
313730 TTTCCTTGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGTATCGATACATCGAAAA
Found at i:313785 original size:19 final size:18
Alignment explanation
Indices: 313761--313823 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
313751 AGCGATACAT
313761 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
313780 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
313793 TGTATTGATACAACACTTA
1 TGTATCGATACAA-ACTTA
313812 TGTATCGATACA
1 TGTATCGATACA
313824 TTTGCTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:313794 original size:32 final size:32
Alignment explanation
Indices: 313748--313825 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
313738 GCAGTAGCTT
*
313748 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
* *
313780 TGTATCGATACATTGTATTGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
313812 TGTATCGATACATT
1 TGTATCGATACATT
313826 TGCTATTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:314171 original size:15 final size:15
Alignment explanation
Indices: 314151--314195 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
314141 ATTCCGCCAA
314151 ATCCACCACAAAATC
1 ATCCACCACAAAATC
** *
314166 ATCCACCACCTAATT
1 ATCCACCACAAAATC
*
314181 ACCCACCACAAAATC
1 ATCCACCACAAAATC
314196 GTTGATACAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:319297 original size:20 final size:20
Alignment explanation
Indices: 319272--319314 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
319262 CTACTAAGAT
319272 CAAATGGTGCATTTTATAGG
1 CAAATGGTGCATTTTATAGG
*
319292 CAAATGGTGCCTTTTATAGG
1 CAAATGGTGCATTTTATAGG
319312 CAA
1 CAA
319315 CATTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (20 bp):
CAAATGGTGCATTTTATAGG
Found at i:324268 original size:10 final size:9
Alignment explanation
Indices: 324230--324279 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
324220 TTCATAATGA
324230 AAAATAGAG
1 AAAATAGAG
324239 AAAATA-AG
1 AAAATAGAG
* *
324247 ATAA-AGAA
1 AAAATAGAG
324255 AGAAATAGAG
1 A-AAATAGAG
324265 AGAAATAGAG
1 A-AAATAGAG
324275 AAAAT
1 AAAAT
324280 GGAAAAGAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 1 0.03
8 7 0.21
9 12 0.35
10 14 0.41
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (9 bp):
AAAATAGAG
Found at i:325998 original size:55 final size:56
Alignment explanation
Indices: 325939--326070 Score: 176
Period size: 55 Copynumber: 2.4 Consensus size: 56
325929 TTCTAGTAAC
* ** * * **
325939 AATTGACACCAAAATGAAAAAGCCCAAGATTAGGTGGTAGGTTTCAT-CTAGTTGA
1 AATTGACACCAAAATGAAAAAGCCCAAGAATAACTAGTAGGTTTCATCCCAAATGA
*
325994 AATTGGCACCAAAATGAAAAAGCCCAAGAATAACTAGTAGGTTTCATCCCAAATGA
1 AATTGACACCAAAATGAAAAAGCCCAAGAATAACTAGTAGGTTTCATCCCAAATGA
*
326050 AATTGCCACCAAAATGAAAAA
1 AATTGACACCAAAATGAAAAA
326071 CTGAAAAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
55 42 0.63
56 25 0.37
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.21
Consensus pattern (56 bp):
AATTGACACCAAAATGAAAAAGCCCAAGAATAACTAGTAGGTTTCATCCCAAATGA
Found at i:326563 original size:7 final size:7
Alignment explanation
Indices: 326551--326579 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
326541 AAAAACAAGT
326551 AAAAACA
1 AAAAACA
326558 AAAAACA
1 AAAAACA
326565 AAAAAC-
1 AAAAACA
326571 AAAAACA
1 AAAAACA
326578 AA
1 AA
326580 CAAAAGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:326572 original size:30 final size:29
Alignment explanation
Indices: 326531--326596 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
326521 AAGCTCGGCT
* **
326531 AAAAGAAAACAAAAACAAGTAAAAACAAA
1 AAAAAAAAACAAAAACAAACAAAAACAAA
*
326560 AAACAAAAAACAAAAACAAACAAAAGCAAA
1 AAA-AAAAAACAAAAACAAACAAAAACAAA
326590 AAAAAAA
1 AAAAAAA
326597 GTGGAAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.02
Consensus pattern (29 bp):
AAAAAAAAACAAAAACAAACAAAAACAAA
Done.