Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006400.1 Hibiscus syriacus cultivar Beakdansim tig00015426_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1412076
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:359 original size:24 final size:23
Alignment explanation
Indices: 311--359 Score: 55
Period size: 24 Copynumber: 2.0 Consensus size: 23
301 TTTCTTTATC
*
311 TGGTCATTTATTTTGTGCTTTCTT
1 TGGTCATTTATTTTGT-CTTACTT
335 TGGTCATTTTATTTTAGT-TTACTT
1 TGGTCA-TTTATTTT-GTCTTACTT
359 T
1 T
360 TTTTAACCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 12 0.55
25 8 0.36
26 2 0.09
ACGTcount: A:0.12, C:0.10, G:0.14, T:0.63
Consensus pattern (23 bp):
TGGTCATTTATTTTGTCTTACTT
Found at i:359 original size:28 final size:27
Alignment explanation
Indices: 282--359 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 27
272 ATATATTTTG
*
282 TGGTCATTTTATTTTGTGCTTTCTTTATC
1 TGGTCATTTTATTTTGT--TTACTTTATC
* * *
311 TGGTCA-TTTATTTTG--TGCTTTCTT
1 TGGTCATTTTATTTTGTTTACTTTATC
335 TGGTCATTTTATTTTAGTTTACTTT
1 TGGTCATTTTATTTT-GTTTACTTT
360 TTTTAACCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
24 12 0.29
25 8 0.20
26 1 0.02
28 14 0.34
29 6 0.15
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.63
Consensus pattern (27 bp):
TGGTCATTTTATTTTGTTTACTTTATC
Found at i:13595 original size:64 final size:63
Alignment explanation
Indices: 13510--13650 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 63
13500 TTGTTTAAGG
* * *
13510 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGAATTTA
1 TGCATCGATGCATAAGCAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGAATTTA
* * * * *
13574 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGCAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGAATTTA
13638 TGCATCGATGCAT
1 TGCATCGATGCAT
13651 GGTGTAATGC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 60 0.90
65 6 0.09
66 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCATAAGCAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGAATTTA
Found at i:15418 original size:147 final size:148
Alignment explanation
Indices: 15018--15467 Score: 742
Period size: 147 Copynumber: 3.0 Consensus size: 148
15008 GAGTCGAGGG
* * * * * * *
15018 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGGTCTT-TGAGGCACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
* * *
15082 ACCTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
15147 TATGGCACTACGGTGAAAT
130 TATGGCACTACGGTGAAAT
*
15166 TCTACGCGGTCTTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
15231 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
*
15296 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGAAAT
*
15315 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGCAACATGTGTGAAGTCTTGTAAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATA
15379 CTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
*
15444 ATGGCACTACGGTGTAAT
131 ATGGCACTACGGTGAAAT
15462 TCTACG
1 TCTACG
15468 TGCACTTCGG
Statistics
Matches: 285, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
147 133 0.47
148 47 0.16
149 105 0.37
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATA
CTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
ATGGCACTACGGTGAAAT
Found at i:18739 original size:64 final size:63
Alignment explanation
Indices: 18670--18793 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 63
18660 ATGCACATGC
* *
18670 AGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTATGTATCGATGCATAAGG
1 AGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTATGCATCGATGCATAAGG
* * *
18734 AGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTATGCATCGATGCAT
1 AGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTATGCATCGATGCAT
18794 GGTGTAATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
64 46 0.87
65 6 0.11
66 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (63 bp):
AGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTATGCATCGATGCATAAGG
Found at i:20393 original size:147 final size:148
Alignment explanation
Indices: 20159--20608 Score: 733
Period size: 149 Copynumber: 3.0 Consensus size: 148
20149 GAGTTGAGGG
* * * * * * * * **
20159 TCTACGCAGTCCTTCGGGACATGTGTATATTCTTTGGAACATTTATGAGGTCTT-TGAGGTACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
* *
20223 ACTTGGTCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
20288 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
20307 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATA
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATA
20371 CTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
*
20436 ATGGCACTACAGTGCAAT
131 ATGGCACTACGGTGCAAT
*
20454 TCTACGAGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
20519 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
*
20584 TATGGCACTACGGTGTAAT
130 TATGGCACTACGGTGCAAT
20603 TCTACG
1 TCTACG
20609 TGCACTTCGG
Statistics
Matches: 283, Mismatches: 16, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
146 28 0.10
147 105 0.37
148 17 0.06
149 133 0.47
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATA
CTTGATCCTTAGTATATGTATATAATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTAT
ATGGCACTACGGTGCAAT
Found at i:20879 original size:21 final size:21
Alignment explanation
Indices: 20831--20879 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
20821 GATGATATTG
* *
20831 ATAGA-GATAATGATAATAAT
1 ATAGATGATAATGATAAGAAA
* *
20851 ATATATGATAATGCTAAGAAA
1 ATAGATGATAATGATAAGAAA
20872 ATAGATGA
1 ATAGATGA
20880 CGATATATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.29
Consensus pattern (21 bp):
ATAGATGATAATGATAAGAAA
Found at i:29730 original size:19 final size:21
Alignment explanation
Indices: 29693--29735 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
29683 TAACTTTTTC
29693 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
29713 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
29733 TTT
1 TTT
29736 ACCTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:29741 original size:19 final size:20
Alignment explanation
Indices: 29692--29741 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
29682 TTAACTTTTT
*
29692 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
29712 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
29731 CTTTTACCTTT
1 CTTTTACCTTT
29742 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:37849 original size:18 final size:19
Alignment explanation
Indices: 37823--37872 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
37813 ATACAATTTT
* *
37823 AGTAACGATACTAATGG-G
1 AGTATCGATACTAAGGGTG
*
37841 AGTATCGATACCAAGGGTTG
1 AGTATCGATACTAAGGG-TG
37861 AGTATCGATACT
1 AGTATCGATACT
37873 CCCTATAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 14 0.54
20 12 0.46
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (19 bp):
AGTATCGATACTAAGGGTG
Found at i:40511 original size:10 final size:10
Alignment explanation
Indices: 40496--40520 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
40486 ATCGTAAACA
40496 AATCAACTTT
1 AATCAACTTT
40506 AATCAACTTT
1 AATCAACTTT
40516 AATCA
1 AATCA
40521 TTCAGGACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (10 bp):
AATCAACTTT
Found at i:41084 original size:11 final size:11
Alignment explanation
Indices: 41068--41099 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
41058 AAATGTTAAG
41068 TGCTTTTGGAA
1 TGCTTTTGGAA
*
41079 TGCTTTTTGAA
1 TGCTTTTGGAA
41090 TGCTTTTGGA
1 TGCTTTTGGA
41100 TTGAACCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.09, G:0.25, T:0.50
Consensus pattern (11 bp):
TGCTTTTGGAA
Found at i:42369 original size:84 final size:83
Alignment explanation
Indices: 42273--43311 Score: 932
Period size: 84 Copynumber: 12.6 Consensus size: 83
42263 CTGAATGGAA
* * **
42273 TCGAACTCGAAGGTATTTTGTTGGAAGATAGCCCTTCTCGCCTAAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGT-TTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * *
42338 GCCTTTGAGCTGAGTGTAA
65 GCCTTGGAGCTGAGCGTAG
* * * * * *
42357 TCAAACTCGAAGGTCTCTGTT-GATAGATAACCATTCTAGCCTTGAGTTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTTTTTGTTGGA-AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * ** *
42421 GTCTTTGAGCTGAGTATAA
65 GCCTTGGAGCTGAGCGTAG
* * * * * *
42440 TCGAACTCG-AGG-GTCT-TTGGCAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATATG
1 TCGAACTCGAAGGTTTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
*
42502 CCTTGGAGCCT-AGCGTTG
66 CCTTGGAG-CTGAGCGTAG
* * * * * * *
42520 TTGAACTCGAATGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAATTATACTGCAAATGATAT
1 TCGAACTCGAAGGT-TTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
42585 GCCTTGGAGCTGAACGTAG
65 GCCTTGGAGCTGAGCGTAG
* * * * *
42604 TCGAACTCGAAGG-TTTTGGTGGCAGATAGCCCTTCTAGCTTTGAGTTATGCTACAAATGATGTG
1 TCGAACTCGAAGGTTTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
42668 CCTTGGAGCTGAGC---G
66 CCTTGGAGCTGAGCGTAG
* * * ** *
42683 TCGACCTCGAAGGTCTTTGTT-GACAGATAACCCTTCTCGCCTTGAGTTATTATGTAAATGATGT
1 TCGAACTCGAAGGTTTTTGTTGGA-AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * * *
42747 GTCCTCGAAGCTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
* * * * * * * * * * *
42767 TCGAACTCG-AGG-GTCT-TTGGCAGACATCCTTTTTCGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTTTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
* * *
42829 TCTTTGTGCTGAGCGTAG
66 CCTTGGAGCTGAGCGTAG
* * * * *
42847 TCGAACTCGAAGGTCTTTGTT-GACAGATAACCCTTCTAGCCTTGATTTATGATGTAAATGATGC
1 TCGAACTCGAAGGTTTTTGTTGGA-AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * *
42911 GTCCTTGAAGCTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
* * * * * * * *
42931 TCAAACTTG-AGG-GTCT-TTGGCATATAACCCTTATAGCCTTGAGTTATGCTACAAATGATGTG
1 TCGAACTCGAAGGTTTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
42993 CCTTGGAGCTGAGCGTAG
66 CCTTGGAGCTGAGCGTAG
* * * * *
43011 TCGAACTCGAAGGTCTTTTGATGGAAGGTAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATGT
1 TCGAACTCGAAGGT-TTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
43076 GCATTGGAGCTGAGCGTAG
65 GCCTTGGAGCTGAGCGTAG
* * * * **
43095 TCAAACTCGAAGGTCTTTTGTTGGCAA-ATATCCCTTCTTGCCTTGAGATATATTGCAAATGATG
1 TCGAACTCGAAGGT-TTTTGTTGG-AAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
43159 TGCCTTGGAGCTGAGCGTAG
64 TGCCTTGGAGCTGAGCGTAG
* * *
43179 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGT-TTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
43244 GCCTTGGAGCTGAGCGTAG
65 GCCTTGGAGCTGAGCGTAG
* * * * * *
43263 TCGAACTCAAAGG--TCT-TTGGTAGATAGCCCTTCTTGCCTTGAGCTATGC
1 TCGAACTCGAAGGTTTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGC
43312 AGTCAATAGT
Statistics
Matches: 771, Mismatches: 157, Indels: 58
0.78 0.16 0.06
Matches are distributed among these distances:
79 14 0.02
80 164 0.21
81 95 0.12
82 70 0.09
83 106 0.14
84 320 0.42
85 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (83 bp):
TCGAACTCGAAGGTTTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAG
Found at i:42582 original size:164 final size:163
Alignment explanation
Indices: 42293--43311 Score: 1080
Period size: 164 Copynumber: 6.2 Consensus size: 163
42283 AGGTATTTTG
* * * ** * * * *
42293 TTGGAAGATAGCCCTTCTCGCCTAAAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
1 TTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * ** * **
42358 CAAACTCGAAGGTCTCTGTTGATAGATAACCATTCTAGCCTTGAGTTATGTTGTAAATGATGTGT
66 CGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGT
* ** *
42423 CTTTGAGCTGAGTATAATCGAACTCGAGGGTCT
131 CTTGGAGCTGAGCGTAATCGAACTCGAAGGTCT
* * *
42456 TTGGCAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCTTGGAGCCT-AGCGTTG
1 TTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAG-CTGAGCGTAG
* * * * *
42520 TTGAACTCGAATGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAATTATACTGCAAATGATAT
65 TCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGT
* * * *
42585 GCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTTT
129 GTCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCT
* * * *
42620 TGGTGGCAGATAGCCCTTCTAGCTTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGC---
1 T--TGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* * *
42682 GTCGACCTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATTA-TGTAAATGATG
64 GTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTA-TACTGTAAATGATG
* * * *
42746 TGTCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
128 TGT-CTTGGAGCTGAGCGTAATCGAACTCGAAGGTCT
* * * * * * * * * *
42783 TTGGCAGACATCCTTTTTCGACTTAAGCTATGCTGCAAATGATGTGTCTTTGTGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * *
42848 CGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGATTTATGA-TGTAAATGATGCG
66 CGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTAT-ACTGTAAATGATGTG
* * * * *
42912 TCCTTGAAGCTGAGTGTAATCAAACTTGAGGGTCT
130 T-CTTGGAGCTGAGCGTAATCGAACTCGAAGGTCT
* * * *
42947 TTGGCATATAACCCTTATAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * * * *
43012 CGAACTCGAAGGTCTTTTGATGGAAGGTAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATGTG
66 CGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTG
* *
43077 -CATTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTT
130 TC-TTGGAGCTGAGCGTAATCGAACTCGAAGGTC---T
* * * * **
43114 GTTGGCAAATATCCCTTCTTGCCTTGAGATATATTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1 -TTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
*
43179 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
65 TCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGT
* * *
43244 GCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCT
129 GTCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCT
* * *
43279 TTGGTAGATAGCCCTTCTTGCCTTGAGCTATGC
1 TTGGCAGATAACCCTTCTAGCCTTGAGCTATGC
43312 AGTCAATAGT
Statistics
Matches: 712, Mismatches: 124, Indels: 39
0.81 0.14 0.04
Matches are distributed among these distances:
161 46 0.06
162 39 0.05
163 110 0.15
164 280 0.39
165 42 0.06
166 50 0.07
167 4 0.01
168 140 0.20
169 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (163 bp):
TTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGT
CTTGGAGCTGAGCGTAATCGAACTCGAAGGTCT
Found at i:44637 original size:100 final size:99
Alignment explanation
Indices: 44414--44678 Score: 444
Period size: 100 Copynumber: 2.7 Consensus size: 99
44404 GGCTAGTTGG
* *
44414 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA--TATCATTGTATAGA
1 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTGTATAGA
*
44477 TATTATAATCACCTTTATCAGGCTATCTGAATATT
65 TATTATAATCACCTTTATCAGGCTACCTGAATATT
44512 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGAT
1 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGAT
*
44577 ATTATAATCACCTTTATCAGGCTTACCTGAATCTT
66 ATTATAATCACCTTTATCAGGC-TACCTGAATATT
* *
44612 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGAT
44677 AT
66 AT
44679 AATATTAACA
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
98 48 0.30
99 34 0.22
100 76 0.48
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (99 bp):
ATCCATAAAGCCGGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGAT
ATTATAATCACCTTTATCAGGCTACCTGAATATT
Found at i:48119 original size:11 final size:11
Alignment explanation
Indices: 48103--48134 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
48093 AAATGTTAAG
48103 TGCTTTTGGAA
1 TGCTTTTGGAA
*
48114 TGCTTTTCGAA
1 TGCTTTTGGAA
48125 TGCTTTTGGA
1 TGCTTTTGGA
48135 TTGAACCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.12, G:0.25, T:0.47
Consensus pattern (11 bp):
TGCTTTTGGAA
Found at i:54595 original size:17 final size:17
Alignment explanation
Indices: 54573--54606 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54563 TATAAAATAC
* *
54573 ATAAAAGAATTTAAAAT
1 ATAAAAAAAATTAAAAT
54590 ATAAAAAAAATTAAAAT
1 ATAAAAAAAATTAAAAT
54607 TTTCACGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAAAAAAAATTAAAAT
Found at i:56231 original size:22 final size:22
Alignment explanation
Indices: 56200--56255 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
56190 TCGGAAGGGG
*
56200 GTATCAGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAGAA
56222 GTATCGGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAGAA
56244 GTATCGGTACCA
1 GTATCGGTACCA
56256 AGGTAGTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (22 bp):
GTATCGGTACCATAGTATAGAA
Found at i:56842 original size:34 final size:34
Alignment explanation
Indices: 56799--56928 Score: 125
Period size: 34 Copynumber: 3.5 Consensus size: 34
56789 TAGTTGAAAC
56799 GCATATGGGTGCATTATCAACATAAAAGAATAAT
1 GCATATGGGTGCATTATCAACATAAAAGAATAAT
***
56833 GCATATGGGTGCATTATTGGCATGAAATGATGTCATAGCTGAAAT
1 GCATATGGGTGCATTATCAACAT-AAA--A-G--A-A--T--AAT
*
56878 GCATATGGGTGCATTATCATCATAAAAGAATAAT
1 GCATATGGGTGCATTATCAACATAAAAGAATAAT
56912 GCATATGGGTGCATTAT
1 GCATATGGGTGCATTAT
56929 TGGCATGAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 22
0.74 0.06 0.21
Matches are distributed among these distances:
34 40 0.51
35 3 0.04
36 1 0.01
37 1 0.01
38 2 0.03
39 1 0.01
40 1 0.01
41 2 0.03
42 1 0.01
43 1 0.01
44 3 0.04
45 23 0.29
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (34 bp):
GCATATGGGTGCATTATCAACATAAAAGAATAAT
Found at i:56865 original size:79 final size:79
Alignment explanation
Indices: 56663--57120 Score: 765
Period size: 79 Copynumber: 5.8 Consensus size: 79
56653 GAACGAATGA
* *
56663 ATAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
*
56728 GGTGCATTATCAGC
66 GGTGCATTATCAAC
* * * *
56742 AT-AAAGAATAATGAATATGGGTGCATTATTGTCATGAAAGGATGTCATAGTTGAAACGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
56806 GGTGCATTATCAAC
66 GGTGCATTATCAAC
*
56820 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
*
56885 GGTGCATTATCATC
66 GGTGCATTATCAAC
*
56899 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATATCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
56964 GGTGCATTATCAAC
66 GGTGCATTATCAAC
* *
56978 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTTCATAGTTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
57043 GGTGCATTATCAAC
66 GGTGCATTATCAAC
* * *
57057 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAACTAAAAATGCATA
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCT-GAAATGCATA
57121 AAAGATGCAT
Statistics
Matches: 356, Mismatches: 21, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
78 73 0.21
79 274 0.77
80 9 0.03
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
GGTGCATTATCAAC
Found at i:56894 original size:45 final size:43
Alignment explanation
Indices: 56830--57106 Score: 194
Period size: 34 Copynumber: 6.9 Consensus size: 43
56820 ATAAAAGAAT
56830 AATGCATATGGGTGCATTATTGGCATGAAATGATGTCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATGTCATAG-TGA
***
56875 AATGCATATGGGTGCATTATCATCAT-AAA-A-G--A-A-T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGATGTCATAGTGA
*
56909 AATGCATATGGGTGCATTATTGGCATGAAAGGATATCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATGTCATAG-TGA
***
56954 AATGCATATGGGTGCATTATCAACAT-AAA-A-G--A-A-T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGATGTCATAGTGA
*
56988 AATGCATATGGGTGCATTATTGGCATGAAAGGATTTCATAGTTGA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATGTCATAG-TGA
***
57033 AATGCATATGGGTGCATTATCAACAT-AAA-A-G--A-A-T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGATGTCATAGTGA
*
57067 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA
1 AATGCATATGGGTGCATTATTGGCATGAAA-GATGTCATA
57107 ACTAAAAATG
Statistics
Matches: 181, Mismatches: 22, Indels: 62
0.68 0.08 0.23
Matches are distributed among these distances:
34 69 0.38
35 9 0.05
36 3 0.02
37 3 0.02
38 4 0.02
39 3 0.02
40 3 0.02
41 4 0.02
42 3 0.02
43 2 0.01
44 9 0.05
45 69 0.38
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (43 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGATGTCATAGTGA
Found at i:57586 original size:29 final size:29
Alignment explanation
Indices: 57544--57604 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
57534 TATGCCAGTT
* *
57544 AGATAAACGATTAAACACTGTTGAGTAAA
1 AGATAAACGATTAAACACTGTTAAATAAA
*
57573 AGATGAACGATTAAACACTGTTAAATAAA
1 AGATAAACGATTAAACACTGTTAAATAAA
57602 AGA
1 AGA
57605 ATAATGGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.23
Consensus pattern (29 bp):
AGATAAACGATTAAACACTGTTAAATAAA
Found at i:59061 original size:18 final size:18
Alignment explanation
Indices: 59032--59102 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
59022 TGAATATTTA
*
59032 TCCCGAATGACCACTATG
1 TCCCGAAGGACCACTATG
* *
59050 TCCCGGAGGACCACTGATTT
1 TCCCGAAGGACCACT-A-TG
* *
59070 TTCCGAAGAACCACTATG
1 TCCCGAAGGACCACTATG
*
59088 TCCCGAATGACCACT
1 TCCCGAAGGACCACT
59103 GATAATCCCT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 26 0.63
19 2 0.05
20 13 0.32
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:61777 original size:4 final size:4
Alignment explanation
Indices: 61768--61914 Score: 285
Period size: 4 Copynumber: 36.8 Consensus size: 4
61758 ACGTTAGAAA
*
61768 GATG GATG GATG GATG GATG GATG GATT GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
61816 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
61864 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG GATG
61912 GAT
1 GAT
61915 ACATAGATAG
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 141 1.00
ACGTcount: A:0.25, C:0.00, G:0.49, T:0.26
Consensus pattern (4 bp):
GATG
Found at i:64190 original size:22 final size:22
Alignment explanation
Indices: 64165--64220 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
64155 CCGGAAGGGG
64165 GTATCGGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAGAA
64187 GTATCGGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAGAA
64209 GTATCGGTACCA
1 GTATCGGTACCA
64221 AGGTAGTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (22 bp):
GTATCGGTACCATAGTATAGAA
Found at i:64721 original size:34 final size:34
Alignment explanation
Indices: 64683--64973 Score: 147
Period size: 34 Copynumber: 7.6 Consensus size: 34
64673 TCATAGCTGA
*
64683 AATGCATATGGGTGCATTATCAACATAAAAGAAT
1 AATGCATATGGGTGCATTATCAGCATAAAAGAAT
* *
64717 AATGCATATGGGTGCATTAT-TGTCATGAAAGGATGTCAT
1 AATGCATATGGGTGCATTATCAG-CAT-AAA--A-G-AAT
* *
64756 AGTTGAAATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 A-ATG-CAT--AT--GGGTGCATTATCAGCATAAAAGAAT
64796 AATGCATATGGGTGCATTATTC-GCATAAAATGATACCATAGCT
1 AATGCATATGGGTGCATTA-TCAGCATAAAA-G-----A-A--T
*
64839 GAAATGGATATGGGTGCATTATCATG-ATAAAAGAAT
1 --AATGCATATGGGTGCATTATCA-GCATAAAAGAAT
* **
64875 AATGAATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCT
1 AATGCATATGGGTGCATTATCAGCAT--AAA-A-G--A-A--T
*
64918 GAAATGCATATGGGTGCATTATCAACATAAAAGAAT
1 --AATGCATATGGGTGCATTATCAGCATAAAAGAAT
64954 AATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
64974 TGGCATGAAA
Statistics
Matches: 201, Mismatches: 17, Indels: 78
0.68 0.06 0.26
Matches are distributed among these distances:
33 1 0.00
34 82 0.41
35 6 0.03
36 7 0.03
37 2 0.01
38 6 0.03
39 7 0.03
40 7 0.03
41 6 0.03
42 2 0.01
43 7 0.03
44 6 0.03
45 60 0.30
46 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCAGCATAAAAGAAT
Found at i:64763 original size:79 final size:79
Alignment explanation
Indices: 64628--65086 Score: 704
Period size: 79 Copynumber: 5.8 Consensus size: 79
64618 GAACGAATGA
* *
64628 ATAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
64693 GGTGCATTATCAAC
66 GGTGCATTATCAAC
* * *
64707 ATAAAAGAATAATGCATATGGGTGCATTATTGTCATGAAAGGATGTCATAGTTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
64772 GGTGCATTATCAGC
66 GGTGCATTATCAAC
* * * * *
64786 ATAAAAGAATAATGCATATGGGTGCATTATTCGCATAAAATGATACCATAGCTGAAATGGATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
**
64851 GGTGCATTATCATG
66 GGTGCATTATCAAC
* *
64865 ATAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
64930 GGTGCATTATCAAC
66 GGTGCATTATCAAC
*
64944 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
* *
65009 GATGCATTATCAGC
66 GGTGCATTATCAAC
* * *
65023 ATAAGAGAATAATG-ATTATGGGTGCATTATTGGCATGAAAGGATGCCATAACTAAAAATGCATA
1 ATAAAAGAATAATGCA-TATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT-GAAATGCATA
65087 AAGGGTGCCT
Statistics
Matches: 347, Mismatches: 31, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
78 1 0.00
79 337 0.97
80 9 0.03
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTGCATTATCAAC
Found at i:65045 original size:237 final size:237
Alignment explanation
Indices: 64628--65072 Score: 784
Period size: 237 Copynumber: 1.9 Consensus size: 237
64618 GAACGAATGA
* *
64628 ATAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
*
64693 GGTGCATTATCAACATAAAAGAATAATGCATATGGGTGCATTATTGTCATGAAAGGATGTCATAG
66 GGTGCATTATCAACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAG
* *
64758 TTGAAATGCATATGGGTGCATTATCAGCATAAAAGAATAATGCATATGGGTGCATTATTCGCATA
131 CTGAAATGCATATGGATGCATTATCAGCATAAAAGAATAATGCATATGGGTGCATTATTCGCATA
*
64823 AAATGATACCATAGCTGAAATGGATATGGGTGCATTATCATG
196 AAAGGATACCATAGCTGAAATGGATATGGGTGCATTATCATG
64865 ATAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
64930 GGTGCATTATCAACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAG
66 GGTGCATTATCAACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAG
* *
64995 CTGAAATGCATATGGATGCATTATCAGCATAAGAGAATAATG-ATTATGGGTGCATTATTGGCAT
131 CTGAAATGCATATGGATGCATTATCAGCATAAAAGAATAATGCA-TATGGGTGCATTATTCGCAT
* *
65059 GAAAGGATGCCATA
195 AAAAGGATACCATA
65073 ACTAAAAATG
Statistics
Matches: 197, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
236 1 0.01
237 196 0.99
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (237 bp):
ATAAAAGAATAATGAATATGGGTGCATTATTGGCATGAAAAGATGCCATAGCTGAAATGCATATG
GGTGCATTATCAACATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAG
CTGAAATGCATATGGATGCATTATCAGCATAAAAGAATAATGCATATGGGTGCATTATTCGCATA
AAAGGATACCATAGCTGAAATGGATATGGGTGCATTATCATG
Found at i:69136 original size:24 final size:24
Alignment explanation
Indices: 69109--69199 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
69099 CATAATTCAA
69109 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* * * * *
69133 GTCATGTATCAGATTAAAATCCAT
1 GTCAAGTATCATATCAGAATCCAG
69157 GTCAA-TATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
*
69180 GTCAAGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
69200 TCAAATCGGA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 19 0.35
24 36 0.65
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAG
Found at i:70459 original size:21 final size:21
Alignment explanation
Indices: 70433--70474 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
70423 CCAGAATGGG
*
70433 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
70454 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
70475 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:72132 original size:19 final size:20
Alignment explanation
Indices: 72089--72136 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
72079 TCTAAATCCT
*
72089 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
72109 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
72128 TTTTCAAAA
1 TTTTCAAAA
72137 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:73562 original size:21 final size:21
Alignment explanation
Indices: 73538--73578 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
73528 ATCTATTCCC
73538 GGGGAATC-GATACCCCCTGGG
1 GGGGAATCTG-TACCCCCTGGG
73559 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
73579 ACAATCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.29, G:0.37, T:0.17
Consensus pattern (21 bp):
GGGGAATCTGTACCCCCTGGG
Found at i:76800 original size:20 final size:21
Alignment explanation
Indices: 76757--76808 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
76747 AAGATGAAAT
76757 TTCTCTCTTTTTCTCCTCCACA
1 TTCTCT-TTTTTCTCCTCCACA
*
76779 TTCT-TTTTTTCTCACT-CTCA
1 TTCTCTTTTTTCTC-CTCCACA
76799 TTCTCTTTTT
1 TTCTCTTTTT
76809 GAATCACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 15 0.56
21 8 0.30
22 4 0.15
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.60
Consensus pattern (21 bp):
TTCTCTTTTTTCTCCTCCACA
Found at i:84511 original size:21 final size:21
Alignment explanation
Indices: 84487--84541 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
84477 ATAACAGAAT
84487 AAAAGATAAATTCCTTTGTCG
1 AAAAGATAAATTCCTTTGTCG
*
84508 AAAAGGTAAATTCCTTTGTCG
1 AAAAGATAAATTCCTTTGTCG
84529 AAAAGATAAATTC
1 AAAAGATAAATTC
84542 TTGCGTCCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (21 bp):
AAAAGATAAATTCCTTTGTCG
Found at i:86403 original size:31 final size:31
Alignment explanation
Indices: 86365--86424 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
86355 CATTGCAGTG
**
86365 GGCGAGCCTAGTCGATGGGTTTAGCCTAGTA
1 GGCGAGCCTAGGAGATGGGTTTAGCCTAGTA
*
86396 GGCGAGCCTAGGAGTTGGGTTTAGCCTAG
1 GGCGAGCCTAGGAGATGGGTTTAGCCTAG
86425 ATGTAATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.25
Consensus pattern (31 bp):
GGCGAGCCTAGGAGATGGGTTTAGCCTAGTA
Found at i:87170 original size:16 final size:16
Alignment explanation
Indices: 87149--87179 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
87139 TTTGTCTAGA
87149 ATTGTTATTTTGTATG
1 ATTGTTATTTTGTATG
87165 ATTGTTATTTTGTAT
1 ATTGTTATTTTGTAT
87180 AGCACTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (16 bp):
ATTGTTATTTTGTATG
Found at i:92159 original size:7 final size:7
Alignment explanation
Indices: 92147--92202 Score: 112
Period size: 7 Copynumber: 8.0 Consensus size: 7
92137 ACCCCTCTCT
92147 ACACATC
1 ACACATC
92154 ACACATC
1 ACACATC
92161 ACACATC
1 ACACATC
92168 ACACATC
1 ACACATC
92175 ACACATC
1 ACACATC
92182 ACACATC
1 ACACATC
92189 ACACATC
1 ACACATC
92196 ACACATC
1 ACACATC
92203 TTACCTTTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
ACACATC
Found at i:93136 original size:35 final size:36
Alignment explanation
Indices: 93090--93170 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 36
93080 AACACATTCA
* *
93090 TCAATTACATTCTAAATCC-CAAATT-CCAAAATGCT
1 TCAATTACATTCTAAA-CCTCAAATTACAAAAATACT
93125 TCAATTACATTCTAAACCTCAAATTACAAAAATACT
1 TCAATTACATTCTAAACCTCAAATTACAAAAATACT
93161 TCAATTACAT
1 TCAATTACAT
93171 GCCCAACCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
34 2 0.05
35 22 0.52
36 18 0.43
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.32
Consensus pattern (36 bp):
TCAATTACATTCTAAACCTCAAATTACAAAAATACT
Found at i:93896 original size:146 final size:146
Alignment explanation
Indices: 93667--93957 Score: 469
Period size: 146 Copynumber: 2.0 Consensus size: 146
93657 AAAAACTATT
* *
93667 TAAATTAAAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAACAGAAACTCA
1 TAAATTAAAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCA
**
93732 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTAGAGTCAA
66 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAAT--AAAAAAAATAGAGTCAA
93797 -TATTTTATAAACTGAAC
129 CTATTTTATAAACTGAAC
* * **
93814 TAAATTAGAATCAAATAATATTATAATATGATAAATATTTATAA-TAATTTTAAACAGAAACTTG
1 TAAATTAAAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCA
*
93878 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATAAAAAAAATCGAGTCAACT
66 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATAAAAAAAATAGAGTCAACT
93943 ATTTTATAAACTGAA
131 ATTTTATAAACTGAA
93958 TTGAGTATTT
Statistics
Matches: 134, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
144 14 0.10
145 16 0.12
146 63 0.47
147 41 0.31
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (146 bp):
TAAATTAAAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCA
AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATAAAAAAAATAGAGTCAACT
ATTTTATAAACTGAAC
Found at i:95205 original size:22 final size:21
Alignment explanation
Indices: 95179--95224 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
95169 ATAATACTAA
95179 TAATTAATTATATTTTTATATT
1 TAATTAATTATA-TTTTATATT
**
95201 TAATTTTTTATATTTTATATT
1 TAATTAATTATATTTTATATT
95222 TAA
1 TAA
95225 AATATTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TAATTAATTATATTTTATATT
Found at i:95229 original size:16 final size:16
Alignment explanation
Indices: 95210--95242 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95200 TTAATTTTTT
95210 ATATTT-TATATTTAAA
1 ATATTTGTAT-TTTAAA
95226 ATATTTGTATTTTAAA
1 ATATTTGTATTTTAAA
95242 A
1 A
95243 AATAAACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATATTTGTATTTTAAA
Found at i:95870 original size:16 final size:18
Alignment explanation
Indices: 95836--95872 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
95826 TCAAATAGGA
*
95836 AAAAGAAAAGGAATTATT
1 AAAAGAAAAGGAATAATT
95854 AAAAG-AAA-GAATAATT
1 AAAAGAAAAGGAATAATT
95870 AAA
1 AAA
95873 GAGATGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.19
Consensus pattern (18 bp):
AAAAGAAAAGGAATAATT
Found at i:96163 original size:51 final size:51
Alignment explanation
Indices: 96078--96197 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
96068 GGGTTATAGA
* * * *
96078 GCGGTGCAGGGGCCGCGCCTTTGCATTAATTCTGACACAATTATGCAAGGC
1 GCGGTGCAGGGGCCGCGCATTTGCATTAACTCTGACAAAATTATGCAAAGC
* * *
96129 GCGGTTCAGGGGCCGCGCATTTGCTTTAACTCTGAGAAAATTATGCAAAGC
1 GCGGTGCAGGGGCCGCGCATTTGCATTAACTCTGACAAAATTATGCAAAGC
* *
96180 GCGGTGCATGGGTCGCGC
1 GCGGTGCAGGGGCCGCGC
96198 CTTGTATAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (51 bp):
GCGGTGCAGGGGCCGCGCATTTGCATTAACTCTGACAAAATTATGCAAAGC
Found at i:99456 original size:13 final size:13
Alignment explanation
Indices: 99438--99498 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
99428 GCAATAAACA
99438 AAATTAACAAAAT
1 AAATTAACAAAAT
99451 AAATTAAC-AAA-
1 AAATTAACAAAAT
* *
99462 AAA-T-CCAACA-
1 AAATTAACAAAAT
99472 AAATTAACAAAAT
1 AAATTAACAAAAT
*
99485 AAATTAAAAAAAT
1 AAATTAACAAAAT
99498 A
1 A
99499 TCCTCCAGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 1 0.03
10 6 0.15
11 4 0.10
12 7 0.18
13 21 0.54
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATTAACAAAAT
Found at i:99474 original size:34 final size:34
Alignment explanation
Indices: 99434--99501 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
99424 TATGGCAATA
99434 AACAAAATTAACAAAATAAATTAACAAAAA-ATCC
1 AACAAAATTAACAAAATAAATTAA-AAAAATATCC
99468 AACAAAATTAACAAAATAAATTAAAAAAATATCC
1 AACAAAATTAACAAAATAAATTAAAAAAATATCC
99502 TCCAGGAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 5 0.15
34 28 0.85
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (34 bp):
AACAAAATTAACAAAATAAATTAAAAAAATATCC
Found at i:101091 original size:16 final size:16
Alignment explanation
Indices: 101070--101102 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
101060 TAATAAATAA
101070 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
101086 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
101102 A
1 A
101103 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:101186 original size:10 final size:10
Alignment explanation
Indices: 101168--101242 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
101158 CATTTAATAA
*
101168 ATAAGCGAAC
1 ATAAACGAAC
101178 ATAAACGAAC
1 ATAAACGAAC
101188 ----ACGAAC
1 ATAAACGAAC
101194 ATAAACGAAC
1 ATAAACGAAC
* *
101204 ATGAAC-ATAA
1 ATAAACGA-AC
101214 ATGAACACGAAC
1 AT-AA-ACGAAC
101226 ATAAACGAAC
1 ATAAACGAAC
*
101236 ATCAACG
1 ATAAACG
101243 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.55, C:0.21, G:0.13, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:101194 original size:16 final size:16
Alignment explanation
Indices: 101173--101236 Score: 110
Period size: 16 Copynumber: 4.0 Consensus size: 16
101163 AATAAATAAG
101173 CGAACATAAACGAACA
1 CGAACATAAACGAACA
101189 CGAACATAAACGAACA
1 CGAACATAAACGAACA
* *
101205 TGAACATAAATGAACA
1 CGAACATAAACGAACA
101221 CGAACATAAACGAACA
1 CGAACATAAACGAACA
101237 TCAACGTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.56, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:102251 original size:10 final size:10
Alignment explanation
Indices: 102236--102283 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
102226 ATAAATGAAA
102236 GAACATAAAC
1 GAACATAAAC
102246 GAACATAATCGAAC
1 GAACAT-A---AAC
102260 GAACATAAAC
1 GAACATAAAC
*
102270 GAACATAACC
1 GAACATAAAC
102280 GAAC
1 GAAC
102284 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:102251 original size:24 final size:25
Alignment explanation
Indices: 102223--102277 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
102213 GATTGAGTTA
102223 AACATAAAT-GAAAGAACATAAACG
1 AACATAAATCGAAAGAACATAAACG
*
102247 AACAT-AATCGAACGAACATAAACG
1 AACATAAATCGAAAGAACATAAACG
102271 AACATAA
1 AACATAA
102278 CCGAACGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 3 0.11
24 24 0.86
25 1 0.04
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (25 bp):
AACATAAATCGAAAGAACATAAACG
Found at i:102260 original size:14 final size:14
Alignment explanation
Indices: 102243--102273 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
102233 AAAGAACATA
*
102243 AACGAACATAATCG
1 AACGAACATAAACG
102257 AACGAACATAAACG
1 AACGAACATAAACG
102271 AAC
1 AAC
102274 ATAACCGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.23, G:0.13, T:0.10
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:102282 original size:24 final size:24
Alignment explanation
Indices: 102236--102284 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
102226 ATAAATGAAA
*
102236 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCGAAC
102260 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
102284 G
1 G
102285 TTCACGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.22, G:0.14, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:102805 original size:18 final size:19
Alignment explanation
Indices: 102770--102805 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
102760 AATAGTTAAA
102770 TAAAATACTAACAAAATAC
1 TAAAATACTAACAAAATAC
*
102789 TAAAATA-TAATAAAATA
1 TAAAATACTAACAAAATA
102806 TACCTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAAATACTAACAAAATAC
Found at i:104735 original size:12 final size:12
Alignment explanation
Indices: 104718--104744 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
104708 CTTGAAACAT
104718 TTTAAGCTCGAA
1 TTTAAGCTCGAA
104730 TTTAAGCTCGAA
1 TTTAAGCTCGAA
104742 TTT
1 TTT
104745 GAACCTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (12 bp):
TTTAAGCTCGAA
Found at i:113147 original size:15 final size:15
Alignment explanation
Indices: 113121--113168 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
113111 TTAATAAAAT
113121 AAGTTAGAGTGATTAA
1 AAGTT-GAGTGATTAA
113137 AA-TATGAGTGATTTAA
1 AAGT-TGAGTGA-TTAA
*
113153 AAGTTAAGTGATTAA
1 AAGTTGAGTGATTAA
113168 A
1 A
113169 TTGATAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 12 0.43
16 15 0.54
17 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (15 bp):
AAGTTGAGTGATTAA
Found at i:119514 original size:3 final size:3
Alignment explanation
Indices: 119506--119572 Score: 84
Period size: 3 Copynumber: 22.3 Consensus size: 3
119496 GGCCTGTTTG
* *
119506 TAA TAA TAA TAA TAT TAA TAA TAA AAA TATA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA
119553 T-A TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
119573 TAAAACCGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.07
3 46 0.82
4 6 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:119547 original size:20 final size:20
Alignment explanation
Indices: 119514--119568 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
119504 TGTAATAATA
*
119514 ATAATATTAATAATAAAAAT
1 ATAATAATAATAATAAAAAT
*
119534 AT-ATAATAAATAATAATAAT
1 ATAATAAT-AATAATAAAAAT
119554 ATAATAATAATAATA
1 ATAATAATAATAATA
119569 TAATTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.13
20 22 0.71
21 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATAATAATAATAAAAAT
Found at i:120099 original size:39 final size:39
Alignment explanation
Indices: 120026--120126 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
120016 GTTGAACAAA
*
120026 TTCTTCTCATTATGAATTCCTTCTTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACT-CTTCTTTCTTCTTCAGATGAG
120066 TTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAG
120105 TTCTTCTCATTATGAACT-TTCT
1 TTCTTCTCATTATGAACTCTTCT
120127 CTGGAAAAGC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
38 4 0.07
39 39 0.65
40 17 0.28
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (39 bp):
TTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAG
Found at i:120110 original size:152 final size:153
Alignment explanation
Indices: 119915--120239 Score: 466
Period size: 152 Copynumber: 2.2 Consensus size: 153
119905 GCTGAACAAA
* *
119915 TTCTTCTCATTATGAA--CTTCTTCTCCTCTTTAGATGAGTTCTTCTTATTATGAACTCTT-TCT
1 TTCTTCTCATTATGAACTCTTCTTCTCCTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCT
*
119977 GGCAATA-CTGATCCATCGAA-TGATGAAATCGAGCAAAAAGTTGAACAAATTCTTCTCATTATG
65 GG-AAAAGCTGATCCATC-AAGTGATGAAATCGAGCAAAAAGTTGAACAAATTCTTCTCATTATG
*
120040 AATTCCTTCTTTCTTCTTCAGATGAG
128 AATTCCTTCTTCCTTCTTCAGATGAG
*
120066 TTCTTCTCATTATGAACTCTTCTT-TCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTCTTCTTCTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * *
120130 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGACCGAATTCTTCTCATTATGAAT
66 GAAAAGCTGATCCATCAAGTGATGAAATCGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAT
*
120195 TTCTTCTTCCTTCTTCAGATGAG
131 TCCTTCTTCCTTCTTCAGATGAG
120218 TTCTTCTCATTATGAACT-TTCT
1 TTCTTCTCATTATGAACTCTTCT
120240 CTGGAAATGC
Statistics
Matches: 157, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
151 27 0.17
152 124 0.79
153 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (153 bp):
TTCTTCTCATTATGAACTCTTCTTCTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAAATCGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAT
TCCTTCTTCCTTCTTCAGATGAG
Found at i:120592 original size:113 final size:113
Alignment explanation
Indices: 120064--120574 Score: 920
Period size: 113 Copynumber: 4.5 Consensus size: 113
120054 TCTTCAGATG
*
120064 AGTTCTTCTCATTATGAAC-TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
120128 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGACCGA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAAC-A
*
120177 A-TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
120241 TGGAAATGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
120289 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
120354 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
*
120402 AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
120467 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
120515 AGCTT-TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 AG-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
120575 CTACCTGGTA
Statistics
Matches: 385, Mismatches: 10, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
112 18 0.05
113 366 0.95
114 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
Found at i:120716 original size:76 final size:76
Alignment explanation
Indices: 120590--120744 Score: 274
Period size: 76 Copynumber: 2.0 Consensus size: 76
120580 TGGTAATGCT
* *
120590 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAATATCATGCACTG
1 GATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
*
120655 TAGGACTTACA
66 CAGGACTTACA
*
120666 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
120731 CAGGACTTACA
66 CAGGACTTACA
120742 GAT
1 GAT
120745 ATGGGAAATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (76 bp):
GATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
CAGGACTTACA
Found at i:120997 original size:37 final size:37
Alignment explanation
Indices: 120950--121228 Score: 222
Period size: 37 Copynumber: 7.6 Consensus size: 37
120940 GTTTTAAGAA
* * *
120950 AAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAGTTCTGTTTCGAGAG
* * * ** *
120987 AAACTGTCTCAAGCGAGACAAA-TTTTGTTTTAAGAA
1 AAACTATCTCAAGCGAGATAAAGTTCTGTTTCGAGAG
* * *
121023 AAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAGTTCTGTTTCGAGAG
* * * *
121060 AAACTGTCTCGAGCGAGACAAAGTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAGTTCTGTTTCGAGAG
* * * ** *
121097 AAACTGTCTCGAGCGAGACAAAGTTCTGTTTTAAGAA
1 AAACTATCTCAAGCGAGATAAAGTTCTGTTTCGAGAG
* * * *
121134 AAACAATCTCAAGTGAGATAAA-TTGTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAGTT-CTGTTTCGAGAG
* * * ** *
121171 AAACTTTCTCAAGCGAGA-AAAATTTTGTTTTAAGAA
1 AAACTATCTCAAGCGAGATAAAGTTCTGTTTCGAGAG
* *
121207 AAACAATCTCAAGTGAGATAAA
1 AAACTATCTCAAGCGAGATAAA
121229 TTTTATTTGA
Statistics
Matches: 191, Mismatches: 47, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
36 55 0.29
37 136 0.71
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (37 bp):
AAACTATCTCAAGCGAGATAAAGTTCTGTTTCGAGAG
Found at i:121025 original size:73 final size:73
Alignment explanation
Indices: 120916--121090 Score: 296
Period size: 73 Copynumber: 2.4 Consensus size: 73
120906 TTCGAAATAT
* *
120916 CTGTCTTAAGCGAAACAAATCTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTT
1 CTGTCTCAAGCGAGACAAAT-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTT
120981 CGAGTGAAA
65 CGAGTGAAA
120990 CTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTC
1 CTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTC
121055 GAGTGAAA
66 GAGTGAAA
* *
121063 CTGTCTCGAGCGAGACAAAGTTCTGTTT
1 CTGTCTCAAGCGAGACAAA-TTTTGTTT
121091 CGAGTGAAAC
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
73 71 0.74
74 25 0.26
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (73 bp):
CTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTC
GAGTGAAA
Found at i:121088 original size:22 final size:22
Alignment explanation
Indices: 121063--121125 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
121053 TCGAGTGAAA
121063 CTGTCTCGAGCGAGACAAAGTT
1 CTGTCTCGAGCGAGACAAAGTT
* *
121085 CTGTTTCGA--GTG--AAA---
1 CTGTCTCGAGCGAGACAAAGTT
121100 CTGTCTCGAGCGAGACAAAGTT
1 CTGTCTCGAGCGAGACAAAGTT
121122 CTGT
1 CTGT
121126 TTTAAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 14
0.62 0.08 0.29
Matches are distributed among these distances:
15 8 0.27
17 2 0.07
18 3 0.10
19 3 0.10
20 2 0.07
22 12 0.40
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (22 bp):
CTGTCTCGAGCGAGACAAAGTT
Found at i:121165 original size:111 final size:110
Alignment explanation
Indices: 120956--121188 Score: 369
Period size: 111 Copynumber: 2.1 Consensus size: 110
120946 AGAAAAACAA
* * *
120956 TCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAG
1 TCTCAAGCGAGACAAAGTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTCTGTTTTAAG
*
121021 AAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAAACTG
66 AAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGGGAAACTG
* *
121066 TCTCGAGCGAGACAAAGTTCTGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTCTGTTTTAA
1 TCTCAAGCGAGACAAAGTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAA-TTCTGTTTTAA
* *
121131 GAAAAACAATCTCAAGTGAGATAAA-TTGTTGTTTCGAGGGAAACTT
65 GAAAAACAATCTCAAGTGAGATAAAGTT-CTGTTTCGAGGGAAACTG
121177 TCTCAAGCGAGA
1 TCTCAAGCGAGA
121189 AAAATTTTGT
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
110 51 0.46
111 61 0.54
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (110 bp):
TCTCAAGCGAGACAAAGTTCTGTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTCTGTTTTAAG
AAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGGGAAACTG
Found at i:121217 original size:73 final size:74
Alignment explanation
Indices: 121086--121230 Score: 238
Period size: 73 Copynumber: 2.0 Consensus size: 74
121076 GACAAAGTTC
* * *
121086 TGTTTCGAGTGAAACTGTCTCGAGCGAGACAAAGTTCTGTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGGGAAACTGTCTCAAGCGAGACAAAATTCTGTTTTAAGAAAAACAATCTCAAGTGAG
121151 ATAAATTGT
66 ATAAATTGT
* *
121160 TGTTTCGAGGGAAACTTTCTCAAGCGAGA-AAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAG
1 TGTTTCGAGGGAAACTGTCTCAAGCGAGACAAAATTCTGTTTTAAGAAAAACAATCTCAAGTGAG
121224 ATAAATT
66 ATAAATT
121231 TTATTTGAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 40 0.61
74 26 0.39
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (74 bp):
TGTTTCGAGGGAAACTGTCTCAAGCGAGACAAAATTCTGTTTTAAGAAAAACAATCTCAAGTGAG
ATAAATTGT
Found at i:121969 original size:22 final size:22
Alignment explanation
Indices: 121942--122018 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
121932 AATAAAGCTT
121942 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
121964 TTATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
121986 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
122008 TCATCTTTGAA
1 TCATCTTTGAA
122019 GAGTGTAGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:122456 original size:54 final size:54
Alignment explanation
Indices: 122381--122531 Score: 284
Period size: 54 Copynumber: 2.8 Consensus size: 54
122371 TTCGTAAAAC
*
122381 ATTTGACAACACATGCATCCTTTTCTGTGGCTTTTGCTCAGATGTTTGTAAAGT
1 ATTTGACAACACATTCATCCTTTTCTGTGGCTTTTGCTCAGATGTTTGTAAAGT
*
122435 ATTTGACAACACGTTCATCCTTTTCTGTGGCTTTTGCTCAGATGTTTGTAAAGT
1 ATTTGACAACACATTCATCCTTTTCTGTGGCTTTTGCTCAGATGTTTGTAAAGT
122489 ATTTGACAACACATTCATCCTTTTCTGTGGCTTTTGCTCAGAT
1 ATTTGACAACACATTCATCCTTTTCTGTGGCTTTTGCTCAGAT
122532 TTCTCAATCA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (54 bp):
ATTTGACAACACATTCATCCTTTTCTGTGGCTTTTGCTCAGATGTTTGTAAAGT
Found at i:124796 original size:114 final size:114
Alignment explanation
Indices: 124596--124815 Score: 368
Period size: 114 Copynumber: 1.9 Consensus size: 114
124586 GATGATCATG
* *
124596 TTCATCTTTCAAATCCAATGATTGGTTTTGAGGTTCTTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGAGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
124661 ACACTTCCAAAAGATGTTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
124710 TTCATCTTTCAAATCTAATGATTGGTTTTGAGGTTCATACTAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGAGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
124775 ACACTTCCAGAAGATGCTATTGGGTTTCCTTATTTCTACTA
66 ACACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTA
124816 CGAGAACGTG
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGAGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:127108 original size:1 final size:1
Alignment explanation
Indices: 127102--127166 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
127092 ATTTTCCTTC
* * * * * * * *
127102 TTTTTTTTTCTTTTTCTTTTTCTTTTTGTTTTGTTTTGTTTTTTTTCTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
127167 CTTCTTCTTT
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.88
Consensus pattern (1 bp):
T
Found at i:127112 original size:10 final size:10
Alignment explanation
Indices: 127099--127180 Score: 73
Period size: 9 Copynumber: 8.6 Consensus size: 10
127089 TCAATTTTCC
127099 TTCTTTTTTT
1 TTCTTTTTTT
*
127109 TTC-TTTTTC
1 TTCTTTTTTT
*
127118 TT-TTTCTTT
1 TTCTTTTTTT
* *
127127 TTGTTTTGTT
1 TTCTTTTTTT
*
127137 TT-GTTTTTT
1 TTCTTTTTTT
127146 TTCTTTTTTT
1 TTCTTTTTTT
127156 TTC-TTTTTT
1 TTCTTTTTTT
* *
127165 TTCTTCTTCT
1 TTCTTTTTTT
127175 TTCTTT
1 TTCTTT
127181 GTTGGATGAG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
9 29 0.51
10 28 0.49
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:127117 original size:6 final size:6
Alignment explanation
Indices: 127102--127180 Score: 69
Period size: 6 Copynumber: 13.3 Consensus size: 6
127092 ATTTTCCTTC
* *
127102 TTTT-T TTTTCT TTTTCT TTTTCT TTTTGT TTTGT-T TTGTTTT TTTTC-
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT-TCT TT-TTCT TTTTCT
127149 TTTT-T TTTTCT TTTT-T TTCTTCT TCTTTCT TT
1 TTTTCT TTTTCT TTTTCT TT-TTCT T-TTTCT TT
127181 GTTGGATGAG
Statistics
Matches: 63, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
5 15 0.24
6 35 0.56
7 12 0.19
8 1 0.02
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:127166 original size:19 final size:19
Alignment explanation
Indices: 127093--127180 Score: 90
Period size: 19 Copynumber: 4.6 Consensus size: 19
127083 CTTGATTCAA
*
127093 TTTTCCTTCTTTTTTTTTCT
1 TTTTCTTTC-TTTTTTTTCT
* *
127113 TTTTCTTT-TTCTTTTTGT
1 TTTTCTTTCTTTTTTTTCT
*
127131 TTTGT-TTTGTTTTTTTTCT
1 TTT-TCTTTCTTTTTTTTCT
*
127150 TTTTTTTTCTTTTTTTTCT
1 TTTTCTTTCTTTTTTTTCT
*
127169 TCTTCTTTCTTT
1 TTTTCTTTCTTT
127181 GTTGGATGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
18 15 0.26
19 35 0.61
20 7 0.12
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (19 bp):
TTTTCTTTCTTTTTTTTCT
Found at i:127482 original size:2 final size:2
Alignment explanation
Indices: 127475--127508 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
127465 ACAACAAATG
127475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
127509 TTAAAAGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129156 original size:27 final size:27
Alignment explanation
Indices: 129087--129156 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
129077 ATTTAAAACC
129087 AAATGCAATTATGT-AAAAATGAAAATGT
1 AAATGCAA--ATGTAAAAAATGAAAATGT
* **
129115 AAATACAAACATAAAAAAT-ACAAATGT
1 AAATGCAAATGTAAAAAATGA-AAATGT
129142 AAATGCAAATGTAAA
1 AAATGCAAATGTAAA
129157 TATGTGAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.09
27 24 0.71
28 7 0.21
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (27 bp):
AAATGCAAATGTAAAAAATGAAAATGT
Found at i:129234 original size:7 final size:8
Alignment explanation
Indices: 129216--129254 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
129206 ATAAAAGTAT
129216 AAATGCAA
1 AAATGCAA
129224 AAATG-AA
1 AAATGCAA
129231 AAATGCAA
1 AAATGCAA
*
129239 AGATGC-A
1 AAATGCAA
129246 AAATGCAA
1 AAATGCAA
129254 A
1 A
129255 TGTATGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.62, C:0.10, G:0.15, T:0.13
Consensus pattern (8 bp):
AAATGCAA
Found at i:129234 original size:15 final size:15
Alignment explanation
Indices: 129216--129254 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
129206 ATAAAAGTAT
129216 AAATGCAAAAATGAA
1 AAATGCAAAAATGAA
* *
129231 AAATGCAAAGATGCA
1 AAATGCAAAAATGAA
129246 AAATGCAAA
1 AAATGCAAA
129255 TGTATGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.10, G:0.15, T:0.13
Consensus pattern (15 bp):
AAATGCAAAAATGAA
Found at i:132969 original size:3 final size:3
Alignment explanation
Indices: 132961--133023 Score: 83
Period size: 3 Copynumber: 20.7 Consensus size: 3
132951 GGCCTGTTTG
* *
132961 TAA TAA TAA TAT TAA TAA TAA AAA TATA TAA TAAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA
133007 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
133024 TAAATAAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:132999 original size:20 final size:20
Alignment explanation
Indices: 132974--133031 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 20
132964 TAATAATATT
132974 AATAATAAAAATATATAATA
1 AATAATAAAAATATATAATA
*
132994 AATAAT-AATATA-ATAAT-
1 AATAATAAAAATATATAATA
*
133011 AATAATAATAATATA-AATA
1 AATAATAAAAATATATAATA
133030 AA
1 AA
133032 ACCGGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 6 0.19
18 12 0.38
19 8 0.25
20 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATAAAAATATATAATA
Found at i:139311 original size:40 final size:38
Alignment explanation
Indices: 139215--139311 Score: 88
Period size: 43 Copynumber: 2.4 Consensus size: 38
139205 GCATTTTTAT
*
139215 AAAAACGCCGCCAAAAGTATTCTTTAGCAGCGTTTTTCG
1 AAAAACGCCG-CAAAAGTATTCTTTAGCAGCGTTTTGCG
* ** *
139254 AAAAACACCAAAAAAAAGTCTTATTCTTTAGCAGGGTTTTGC-
1 AAAAACGCC--GCAAAAG---TATTCTTTAGCAGCGTTTTGCG
139296 AAAAACGCCGCAAAAG
1 AAAAACGCCGCAAAAG
139312 GGACTTTCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
39 8 0.18
40 10 0.22
42 8 0.18
43 19 0.42
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (38 bp):
AAAAACGCCGCAAAAGTATTCTTTAGCAGCGTTTTGCG
Found at i:154078 original size:98 final size:97
Alignment explanation
Indices: 153884--154083 Score: 249
Period size: 98 Copynumber: 2.1 Consensus size: 97
153874 GAAATTATTG
*
153884 ATTTATTGGTTTATGAACCATGGCAACATGGTATGTGATATCTGATTACGGTTTTCATCGAAAAG
1 ATTTATTGGTTTATGAACCATGGCAACATGGAATGTGATATCTGATTACGGTTTTCATCGAAAAG
153949 TATGAATTGTACATGATTTATGAAATAATGGA
66 TATGAATTGTACATGATTTATGAAATAATGGA
* ** * * * * * *
153981 ATTTATTGGTTTATGAACTATGGTTACCTGGAATGTGTTATCTGGTTTCCTGTTTTCAATGGAAA
1 ATTTATTGGTTTATGAACCATGGCAACATGGAATGTGATATCT-GATTACGGTTTTC-ATCGAAA
* * * *
154046 A-TATGAATTGTTCCTGATTTATGGAATCATGGA
64 AGTATGAATTGTACATGATTTATGAAATAATGGA
154079 ATTTA
1 ATTTA
154084 GTAGGTGTGC
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
97 37 0.43
98 43 0.49
99 7 0.08
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (97 bp):
ATTTATTGGTTTATGAACCATGGCAACATGGAATGTGATATCTGATTACGGTTTTCATCGAAAAG
TATGAATTGTACATGATTTATGAAATAATGGA
Found at i:157663 original size:35 final size:35
Alignment explanation
Indices: 157624--157698 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
157614 AATCAACAAT
*
157624 TACATTCTAAACC-CTAAAATTCAAAATATTTCAAC
1 TACATTCTAAACCTC-AAAATTCAAAATACTTCAAC
* * *
157659 TACATTCTAAACCTCAAATTTTAAAATACTTCAAT
1 TACATTCTAAACCTCAAAATTCAAAATACTTCAAC
157694 TACAT
1 TACAT
157699 GCCCAACCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (35 bp):
TACATTCTAAACCTCAAAATTCAAAATACTTCAAC
Found at i:158138 original size:143 final size:145
Alignment explanation
Indices: 157869--158156 Score: 463
Period size: 143 Copynumber: 2.0 Consensus size: 145
157859 AAATACTCAA
*
157869 TTCAGTTTATAAAATAGTTGACTCAAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTATAAAATAGTTAACTCAAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAA--C
* *
157934 GAATTGAATTGAATTTTCGAGTTTCTATTTAAATTTAATAATAAATATTTATCATATTATAATAT
64 G-ATTGAATTGAATTTTCGAGTTTCTATTTAAATTTAATAATAAATATTTATAATACTATAATAT
157999 TATTTGATTATAATTCAG
128 TATTTGATTATAATTCAG
* *
158017 TTCAGTTTATAAAATAGTTAACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAATTCAA-G-
1 TTCAGTTTATAAAATAGTTAACTCAAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAACGA
* * *
158080 TTGAATTGAATTTTCGAGTTTCTGTTTAACTTTAATTATAAATATTTATAATACTATAATATTAT
66 TTGAATTGAATTTTCGAGTTTCTATTTAAATTTAATAATAAATATTTATAATACTATAATATTAT
158145 TTGATTATAATT
131 TTGATTATAATT
158157 TAAATAGTTT
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
143 72 0.55
145 1 0.01
148 59 0.45
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (145 bp):
TTCAGTTTATAAAATAGTTAACTCAAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAACGA
TTGAATTGAATTTTCGAGTTTCTATTTAAATTTAATAATAAATATTTATAATACTATAATATTAT
TTGATTATAATTCAG
Found at i:158716 original size:35 final size:36
Alignment explanation
Indices: 158655--158735 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 36
158645 GGGGTTAGGC
**
158655 ATGTAATTGAAGTATTTTTGGAATTTGAGG-TTTAGA
1 ATGTAATTGAAACATTTTTGGAATTTG-GGATTTAGA
158691 ATGTAATTGAAACA-TTTTGGAATTTGGGATTTAGA
1 ATGTAATTGAAACATTTTTGGAATTTGGGATTTAGA
158726 ATGTAATTGA
1 ATGTAATTGA
158736 TGATTGTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
34 2 0.05
35 28 0.67
36 12 0.29
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.42
Consensus pattern (36 bp):
ATGTAATTGAAACATTTTTGGAATTTGGGATTTAGA
Found at i:164117 original size:37 final size:37
Alignment explanation
Indices: 164041--164117 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
164031 ATTTTATATT
*
164041 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
164078 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
164115 TTT
1 TTT
164118 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:170782 original size:23 final size:23
Alignment explanation
Indices: 170756--170799 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
170746 ACCAGGGAAA
170756 GTTTCCTTCTTTCT-TTCGAATAG
1 GTTT-CTTCTTTCTCTTCGAATAG
* *
170779 GTTTTTTTTTTCTCTTCGAAT
1 GTTTCTTCTTTCTCTTCGAAT
170800 GCTCCCACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.11, C:0.18, G:0.11, T:0.59
Consensus pattern (23 bp):
GTTTCTTCTTTCTCTTCGAATAG
Found at i:171446 original size:3 final size:3
Alignment explanation
Indices: 171432--171491 Score: 77
Period size: 3 Copynumber: 19.3 Consensus size: 3
171422 AAAATGTAAC
*
171432 ATA ATA ATTA ATA ATA ATA TATA ATA TATA ATA ATA ATG ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA ATA ATA
171480 ATA ATA A-A ATA A
1 ATA ATA ATA ATA A
171492 AAAATAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 2 0.04
3 40 0.78
4 9 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:171977 original size:133 final size:131
Alignment explanation
Indices: 171682--172281 Score: 580
Period size: 133 Copynumber: 4.5 Consensus size: 131
171672 TGGTCGTCTA
* * ** * **
171682 AGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGATGGATGACTCGACTCATACGTGATG
1 AGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGCAATG
* * * *
171747 AATAGTTTTGGTCATCTTTATTGATAAGGTAGATAACACGGTTCCTACGTGATGAGGAC--CGAT
66 AAGAGTTCTGGCCATCTTTA--G--AGGGT-GATAACACGGTTCCTACGTGATGAGGACAAC-A-
171810 GGTTATCT
124 GGTTATCT
* ** * *
171818 AAGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACATGGTTCCTACGCGAT
1 -AGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGCAAT
* * * * ** *
171883 GAGGACG-ACAGACCATCTTTATGAGGGTGATAACACGGTTCCTACGTGATGAGGGTAACAGGCT
65 GAAGA-GTTCTGGCCATCTTTA-GAGGGTGATAACACGGTTCCTACGTGATGAGGACAACAGGTT
*
171947 GTCT
128 ATCT
* **
171951 AGGGTTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGTGAT
1 AGGG-TGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGCAAT
** * *
172016 GAAGAGTTCTGGCCATCTTTAG-GAATGATAACATGGTTCCTACGTGATGAGGACAACTGGTTAT
65 GAAGAGTTCTGGCCATCTTTAGAGGGTGATAACACGGTTCCTACGTGATGAGGACAACAGGTTAT
172080 C-
130 CT
* * * **
172081 AGAGGTGACACAACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGGCACAACTCATACATAAT
1 AG-GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGCAAT
* ****
172146 GAAGAGTTCTGGCCATCTTTAGGGAGGGTGATAACACGGTTCCTACGCGATGAGGACGGTTGGTT
65 GAAGAGTTCTGGCCATCTTTA--GAGGGTGATAACACGGTTCCTACGTGATGAGGACAACAGGTT
172211 ATCT
128 ATCT
* * * * * * ** *
172215 ATGGGTGACATGGCTTCTACATGATAAGGAGATCTGGTCGGGGGATGACACGGTTCCTACGCAAT
1 A-GGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGCAAT
172280 GA
65 GA
172282 GGATGATATG
Statistics
Matches: 385, Mismatches: 67, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
130 77 0.20
131 37 0.10
132 7 0.02
133 137 0.36
134 56 0.15
135 2 0.01
136 2 0.01
137 66 0.17
138 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (131 bp):
AGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGCAATG
AAGAGTTCTGGCCATCTTTAGAGGGTGATAACACGGTTCCTACGTGATGAGGACAACAGGTTATC
T
Found at i:172253 original size:264 final size:267
Alignment explanation
Indices: 171682--172266 Score: 700
Period size: 264 Copynumber: 2.2 Consensus size: 267
171672 TGGTCGTCTA
** *
171682 AGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGATGGATGACTCGACTCATACGTGATG
1 AGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACGTGATG
* * * * *
171747 AATAGTTTTGGTCATCTTTATTGATAAGGTAGATAACACGGTTCCTACGTGATGAGGACCGATGG
66 AAGAGTTCTGGCCATCTTTA-TGAGAA-GTAGATAACACGGTTCCTACGTGATGAGGACCAATGG
* **** *
171812 TTATCTAAGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACATGGTTCCTA
129 TTATCTAAGGGTGACACAACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAACTCATA
* * * * * **
171877 CGCGATGAGGACGACAGACCATCTTTATGAGGGTGATAACACGGTTCCTACGTGATGAGGGTAAC
194 CACAATGAAGACGACAGACCATCTTTAGGAGGGTGATAACACGGTTCCTACGCGATGAGGACAAC
*
171942 AGGCTGTCT
259 AGGCTATCT
*
171951 AGGGTTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACGACTCATACGTGAT
1 AGGG-TGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACGTGAT
*
172016 GAAGAGTTCTGGCCATCTTTA-G-GAA-T-GATAACATGGTTCCTACGTGATGAGGA-CAACTGG
65 GAAGAGTTCTGGCCATCTTTATGAGAAGTAGATAACACGGTTCCTACGTGATGAGGACCAA-TGG
*
172076 TTATC--AGAGGTGACACAACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGGCACAACTCAT
129 TTATCTAAG-GGTGACACAACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAACTCAT
* * * *
172139 ACATAATGAAGA-GTTCTGGCCATCTTTAGGGAGGGTGATAACACGGTTCCTACGCGATGAGGAC
193 ACACAATGAAGACG-ACAGACCATCTTTA-GGAGGGTGATAACACGGTTCCTACGCGATGAGGAC
**** *
172203 GGTTGGTTATCT
256 AACAGGCTATCT
* * * *
172215 ATGGGTGACATGGCTTCTACATGATAAGGAGATCTGGTCGGGGGATGACACG
1 A-GGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACG
172267 GTTCCTACGC
Statistics
Matches: 271, Mismatches: 39, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
262 3 0.01
263 69 0.25
264 114 0.42
265 4 0.01
267 2 0.01
268 1 0.00
269 4 0.01
270 74 0.27
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (267 bp):
AGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACGTGATG
AAGAGTTCTGGCCATCTTTATGAGAAGTAGATAACACGGTTCCTACGTGATGAGGACCAATGGTT
ATCTAAGGGTGACACAACTCCTACGTGATGAGGAGGTCTGGTCGGGGGATGACACAACTCATACA
CAATGAAGACGACAGACCATCTTTAGGAGGGTGATAACACGGTTCCTACGCGATGAGGACAACAG
GCTATCT
Found at i:172569 original size:31 final size:30
Alignment explanation
Indices: 172534--172593 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
172524 AGAGACAAAG
*
172534 TTTTGTTTCAAAATAAATAGACTCAAAGATC
1 TTTTGTTTCAAAAGAAA-AGACTCAAAGATC
*
172565 TTTTGTTTCAAAAGAAACGACTCAAAGAT
1 TTTTGTTTCAAAAGAAAAGACTCAAAGAT
172594 GATGGTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAAAGACTCAAAGATC
Found at i:172589 original size:30 final size:31
Alignment explanation
Indices: 172443--172593 Score: 98
Period size: 29 Copynumber: 4.9 Consensus size: 31
172433 TGGTAAATTG
*
172443 TGTTTCCAAAGAAATAGACTCAAAGAT-TTT
1 TGTTTCAAAAGAAATAGACTCAAAGATCTTT
* *
172473 TATTTCAAAAGAAA-CGACTCAAAGAT-TTT
1 TGTTTCAAAAGAAATAGACTCAAAGATCTTT
* ** * * * *
172502 TCTCACGAAA-AACT-GTCTCAAGAGAGACAAAGTTT
1 TGTTTCAAAAGAAATAGACTCAA-AGA-TC----TTT
*
172537 TGTTTCAAAATAAATAGACTCAAAGATCTTT
1 TGTTTCAAAAGAAATAGACTCAAAGATCTTT
*
172568 TGTTTCAAAAGAAA-CGACTCAAAGAT
1 TGTTTCAAAAGAAATAGACTCAAAGAT
172594 GATGGTTTGT
Statistics
Matches: 92, Mismatches: 19, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
28 8 0.09
29 23 0.25
30 23 0.25
31 16 0.17
35 10 0.11
36 6 0.07
37 6 0.07
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (31 bp):
TGTTTCAAAAGAAATAGACTCAAAGATCTTT
Found at i:172705 original size:36 final size:36
Alignment explanation
Indices: 172632--172943 Score: 184
Period size: 36 Copynumber: 8.9 Consensus size: 36
172622 ATAATTTGGA
* * *
172632 AAATTATCTCAAGTGAGACAACATTT-TTTTTAGAG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
*
172667 AAATTGTCACAAGCGAGACAAAATTTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
* *
172703 AAATTGTCTCAAGCTAGACAAAGTTTGTTTTT-GAG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
** * * * * *
172738 AAAACGATCTTAAGTGAGATC-AACTTTG-TTTAATGTG
1 AAATTG-TCTCAAGCGAGA-CAAAATTTGTTTTTA-GAG
**** * * * *
172775 AAA------CAA---ATTTGAAATTTATATCTCAAAGG
1 AAATTGTCTCAAGCGAGACAAAATTTGT-TTTTAGA-G
* * * * *
172804 AAAAATATCTCAAGCGAGACGAAATTTGTTTTGAAAG
1 -AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
* * *
172841 AAATTGTCTCAAGCGAGACGAAATTTGTTTTGAAAG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
* *
172877 AAATTGTCTCAAACGAGACATAATTTGTTTTTAGA-
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
*
172912 AAACTGTCTCAAGCGAGACAAAATTTGTTTTT
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTT
172944 CAAAAGAAGT
Statistics
Matches: 217, Mismatches: 41, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
27 6 0.03
29 4 0.02
30 5 0.02
35 61 0.28
36 120 0.55
37 7 0.03
38 5 0.02
39 9 0.04
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (36 bp):
AAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGAG
Found at i:173322 original size:22 final size:23
Alignment explanation
Indices: 173260--173326 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
173250 TTCTTGTATT
*
173260 TTCAAAAGTATGAAAATA-TCAA
1 TTCAAAAGTTTGAAAATATTCAA
* *
173282 TTAAAAGAGTTTTGAAAAATATTTAA
1 TTCAAA-AG-TTTG-AAAATATTCAA
173308 -TCAAAAGTTTGAAAATATT
1 TTCAAAAGTTTGAAAATATT
173327 GCCCCTTTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 13 0.35
23 6 0.16
24 5 0.14
25 10 0.27
26 3 0.08
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.34
Consensus pattern (23 bp):
TTCAAAAGTTTGAAAATATTCAA
Found at i:174087 original size:2 final size:2
Alignment explanation
Indices: 174080--174197 Score: 236
Period size: 2 Copynumber: 59.0 Consensus size: 2
174070 GTATACTATG
174080 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
174122 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
174164 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
174198 ATATGTTGGG
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 116 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:178152 original size:17 final size:18
Alignment explanation
Indices: 178130--178166 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
178120 AATGTAACAT
178130 AATAATA-ATA-ATAATAA
1 AATAATATATATATAA-AA
178147 AATAATATATATATAAAA
1 AATAATATATATATAAAA
178165 AA
1 AA
178167 AAACACTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 7 0.39
19 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AATAATATATATATAAAA
Found at i:185280 original size:35 final size:35
Alignment explanation
Indices: 185207--185281 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
185197 CGTCACGTCC
* **
185207 AGTAAGGCCTTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
185242 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
185277 AGTAA
1 AGTAA
185282 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:185369 original size:24 final size:24
Alignment explanation
Indices: 185342--185449 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
185332 TATATCAAAA
* *
185342 ATCAAAACATAATTCAAGTCAAGT
1 ATCAAAACAGAATCCAAGTCAAGT
* * *
185366 ATCATATCAGAATCCAAGTCATGT
1 ATCAAAACAGAATCCAAGTCAAGT
* * *
185390 ATCAGATCAGAATCCATGTCAA-T
1 ATCAAAACAGAATCCAAGTCAAGT
* * * *
185413 ATCATATCAGAATCCAGGTCAGGT
1 ATCAAAACAGAATCCAAGTCAAGT
*
185437 ATCATAACAGAAT
1 ATCAAAACAGAAT
185450 TCAAATTTGA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 20 0.28
24 51 0.72
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (24 bp):
ATCAAAACAGAATCCAAGTCAAGT
Found at i:185439 original size:47 final size:48
Alignment explanation
Indices: 185359--185449 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
185349 CATAATTCAA
* *
185359 GTCAAGTATCATATCAGAATCCAAGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAAGTCAGGTATCAGAACAGAATCCAT
* *
185407 GTCAA-TATCATATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAATCCAAGTCAGGTATCAGAACAGAAT
185450 TCAAATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (48 bp):
GTCAAGTATCATATCAGAATCCAAGTCAGGTATCAGAACAGAATCCAT
Found at i:187177 original size:21 final size:20
Alignment explanation
Indices: 187091--187248 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
187081 AAATGACCAA
**
187091 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
187110 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
187130 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
187150 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
187171 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* ** *
187192 CAAATTCGCATTGCAATTTT
1 CAAAATCGCAACGCGATTTT
* *
187212 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
187233 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
187249 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 41 0.40
21 45 0.44
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:187277 original size:20 final size:20
Alignment explanation
Indices: 187215--187408 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
187205 CAATTTTCCA
* ** *
187215 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
187235 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
187255 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
187275 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
187295 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
187315 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
187335 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
187355 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
187375 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
187396 AAATCGCAACGCG
1 AAATCGCAACGCG
187409 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:187299 original size:60 final size:60
Alignment explanation
Indices: 187215--187408 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
187205 CAATTTTCCA
* ** * *
187215 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
187275 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
187335 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
187396 AAATCGCAACGCG
1 AAATCGCAACGCG
187409 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:187807 original size:33 final size:33
Alignment explanation
Indices: 187768--187838 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
187758 TTCACTTAGA
* *
187768 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
187801 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
187834 TTTCA
1 TTTCA
187839 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:187944 original size:21 final size:20
Alignment explanation
Indices: 187918--188023 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
187908 TGCAGAAGAG
187918 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
187939 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
187959 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
187980 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
187994 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
188013 TCGCAACGAGA
1 TCGCAACGAGA
188024 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.17
20 16 0.24
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:187962 original size:20 final size:21
Alignment explanation
Indices: 187916--187994 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
187906 TTTGCAGAAG
*
187916 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
187938 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
187957 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
187979 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
187995 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:187975 original size:41 final size:38
Alignment explanation
Indices: 187911--188027 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
187901 TTCAATTTGC
* *
187911 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
187949 AGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
187990 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
188023 AGAAT
1 AGAAT
188028 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.10
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:188000 original size:14 final size:14
Alignment explanation
Indices: 187981--188034 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
187971 AAATGAAAAG
187981 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
187995 CGCAACGCGAAATGAAAAT
1 CGCAA--CG--A-GAGAAT
188014 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
188028 CGCAACG
1 CGCAACG
188035 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:188010 original size:33 final size:33
Alignment explanation
Indices: 187970--188039 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
187960 CGCAACGAGA
187970 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
*
188003 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
188036 GAAA
1 GAAA
188040 CCAAAATCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.26, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
Found at i:188046 original size:33 final size:33
Alignment explanation
Indices: 187976--188050 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
187966 GAGAGAAATG
* **
187976 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
188009 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
188042 AAAATCGCA
1 AAAATCGCA
188051 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.23, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:188068 original size:19 final size:19
Alignment explanation
Indices: 188046--188143 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
188036 GAAACCAAAA
*
188046 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
188065 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
188079 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
188098 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
188112 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
188131 TCGCGTTGCGATT
1 TCGCGTTGCGATT
188144 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:188087 original size:14 final size:14
Alignment explanation
Indices: 188068--188157 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
188058 TTTCATTTCG
188068 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
188082 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
188101 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
188115 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
188132 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
188148 CGTTGCGATT
1 CGTTGCGATT
188158 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:188093 original size:33 final size:33
Alignment explanation
Indices: 188051--188165 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
188041 CAAAATCGCA
188051 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
188084 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
188117 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
188150 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
188166 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:190023 original size:93 final size:93
Alignment explanation
Indices: 189864--190244 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
189854 TAGATTGCTT
*
189864 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
189929 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
189957 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
190022 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
190050 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
190115 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
190143 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
190208 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
190236 AGTAAATTT
1 AGTAAATTT
190245 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 285 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:190328 original size:19 final size:19
Alignment explanation
Indices: 190288--190386 Score: 91
Period size: 19 Copynumber: 5.4 Consensus size: 19
190278 TAGTTTACTT
* *
190288 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
190308 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
190327 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
190346 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
**
190360 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
190379 TCGCAACG
1 TCGCAACG
190387 AAAGAATCGC
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 38 0.58
20 13 0.20
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:190363 original size:14 final size:14
Alignment explanation
Indices: 190344--190399 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
190334 GCGAAATGAA
*
190344 AATCGCAACGACAG
1 AATCGCAACGAAAG
190358 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
190375 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
190391 AATCGCAAC
1 AATCGCAAC
190400 ATTGGGTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 17 0.47
16 5 0.14
17 6 0.17
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:190367 original size:33 final size:33
Alignment explanation
Indices: 190325--190399 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
190315 GCGAAACCAA
*
190325 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
190358 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
190391 AATCGCAAC
1 AATCGCAAC
190400 ATTGGGTGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:190453 original size:19 final size:19
Alignment explanation
Indices: 190427--190525 Score: 100
Period size: 19 Copynumber: 5.4 Consensus size: 19
190417 ACGAAAAAAT
190427 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
190446 CATTGCGA--TTC-TGT--
1 CGTTGCGATTTTCATTTCG
190460 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
**
190479 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTCATTTCG
*
190498 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
190518 TGTTGCGA
1 CGTTGCGA
190526 AAGTAAACTA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
14 7 0.11
16 5 0.08
17 5 0.08
19 36 0.55
20 12 0.18
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:190466 original size:33 final size:33
Alignment explanation
Indices: 190426--190488 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
190416 AACGAAAAAA
190426 TCGTTGCGATTTTCATTTCGCATTGCGATTCTG
1 TCGTTGCGATTTTCATTTCGCATTGCGATTCTG
*
190459 TCGTTGCGATTTTCATTTCGCGTTGCGATT
1 TCGTTGCGATTTTCATTTCGCATTGCGATT
190489 TTGGTTTCGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (33 bp):
TCGTTGCGATTTTCATTTCGCATTGCGATTCTG
Found at i:192470 original size:14 final size:14
Alignment explanation
Indices: 192451--192486 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
192441 ATTGTTTAAT
192451 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
192465 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
192479 TGATTTGT
1 TGATTTGT
192487 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:192621 original size:19 final size:19
Alignment explanation
Indices: 192593--192690 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
192583 AAAATTGACT
192593 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
192612 ATCTCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
192631 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
192645 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
192664 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
192684 ATCGCAA
1 ATCGCAA
192691 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 37 0.54
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:192722 original size:53 final size:53
Alignment explanation
Indices: 192593--192712 Score: 224
Period size: 53 Copynumber: 2.3 Consensus size: 53
192583 AAAATTGACT
*
192593 ATCGCAATGCGAAATGAAAATCTCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
192645 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
192698 ATCGCAATGCGAAAT
1 ATCGCAATGCGAAAT
192713 TCATTTCGCA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
52 28 0.42
53 38 0.58
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Done.