Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 88 of 109
Found at i:17772928 original size:45 final size:45
Alignment explanation
Indices: 17772877--17772965 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
17772867 AATTGAAAGT
* *
17772877 ATCAATTTTTCTTAAAAATAAGTTTTCAAAAATGGATTTTTGAGC
1 ATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGAATTTTTGAGC
*
17772922 ATCAATTTTCCTTAAAAATAAGTTTTCAAAAGTGAATTTTTGAG
1 ATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGAATTTTTGAG
17772966 GAAAAGTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (45 bp):
ATCAATTTTCCTTAAAAATAAGTTTTCAAAAATGAATTTTTGAGC
Found at i:17774385 original size:34 final size:34
Alignment explanation
Indices: 17774346--17774431 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
17774336 GATGTTTTTG
* **
17774346 AAAAAACATTACTATATTAGC-GACATTTGTATCT
1 AAAAAACGTTACTATATTAGCAG-CATTTACATCT
* * *
17774380 AAAAAATGTCACTATATTAGCAGCGTTTACATCT
1 AAAAAACGTTACTATATTAGCAGCATTTACATCT
*
17774414 GAAAAACGTTACTATATT
1 AAAAAACGTTACTATATT
17774432 GGTGGCGTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
34 41 0.98
35 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (34 bp):
AAAAAACGTTACTATATTAGCAGCATTTACATCT
Found at i:17774495 original size:34 final size:34
Alignment explanation
Indices: 17774457--17774523 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
17774447 TTTGAGATGC
* * * *
17774457 CGTTAATTTAGTGATATTTTTATCATAAAAACAT
1 CGTTAAATTAGTGACATTTGTATCAAAAAAACAT
* *
17774491 CGTTAAATTGGTGACGTTTGTATCAAAAAAACA
1 CGTTAAATTAGTGACATTTGTATCAAAAAAACA
17774524 CTGCTAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (34 bp):
CGTTAAATTAGTGACATTTGTATCAAAAAAACAT
Found at i:17777378 original size:63 final size:63
Alignment explanation
Indices: 17777262--17777870 Score: 304
Period size: 63 Copynumber: 9.7 Consensus size: 63
17777252 ATTTACAAAA
* ** * * *
17777262 AAGATTATTGAAGGTGTTTTAGGTAAAAAAAATGCCTTTAATAATCTTCTTAAATTTTTTAGAG
1 AAGATTATTGAAGGTATTTTTTG-CAAAAAAATGCCTTCAATAATCCTCTTAAATTTTTTAGAG
* * *
17777326 AAGATTATTGAAGGTGTTTTTTGCAAAAAAATGCCTTCAATAATCCTCTTAAATTTTGATAAAG
1 AAGATTATTGAAGGTATTTTTTGCAAAAAAATGCCTTCAATAATCCTCTTAAATTTT-TTAGAG
* *
17777390 -AGATTATT-AA---A-----TGCAAAAAACA--CCTTCAATAATCCCCTTAAATTTTGATA-A-
1 AAGATTATTGAAGGTATTTTTTGCAAAAAA-ATGCCTTCAATAATCCTCTTAAATTTT-TTAGAG
* * * * *
17777441 ATAGATTATTAAAGGCATTTTTTGGC-AAAAAATACCTTCAATAATCCCTTTTAATTTTTTTA-A
1 A-AGATTATTGAAGGTATTTTTT-GCAAAAAAATGCCTTCAATAAT-CCTCTTAAATTTTTTAGA
17777504 G
63 G
* * * * * * *
17777505 GAGATTATTGAAGGTATTTTCTACAAAAAAAAAAAATGTCTTCATTAATCCCCTTAAA-TTTTGA
1 AAGATTATTGAAGGTATTTTTTGC-----AAAAAAATGCCTTCAATAATCCTCTTAAATTTTTTA
17777569 TGAG
61 -GAG
* * * *
17777573 GAGATTATTGAAGGTA-TTTTTGATCAAAAATAT--CTTCAATAATCC-CTTCTAATTTTTTTAT
1 AAGATTATTGAAGGTATTTTTTG--CAAAAAAATGCCTTCAATAATCCTC-T-TAAATTTTTTAG
17777634 AG
62 AG
* * ** *** *
17777636 GAGATTATTGATGGCGTTTTTTGGTCAAAAACGCCTTCAATAAT-CTCATCT-AATTTTTTAGAG
1 AAGATTATTGAAGGTATTTTTTGCAAAAAAATGCCTTCAATAATCCTC-T-TAAATTTTTTAGAG
* ** * * *
17777699 AGGATTATTGAAGGTATTTTCTGTAAAAAAAAAAATACCTTCAATAATCCCCTT-CATTTTTTAT
1 AAGATTATTGAAGGTATTTT-T-T--GCAAAAAAATGCCTTCAATAATCCTCTTAAATTTTTTA-
17777763 GAG
61 GAG
* * * * * *
17777766 AGGATTATTGAAGGTATTTTGTGC-AGAAAATACTTTTAATAATCC-CTTTCAAA-TTTTTATGA
1 AAGATTATTGAAGGTATTTTTTGCAAAAAAATGCCTTCAATAATCCTC-TT-AAATTTTTTA-GA
17777828 G
63 G
* *** *
17777829 -AGATTATTGAAGGCATTTCAAGCAAAAAAA-GCCTTTAATAAT
1 AAGATTATTGAAGGTATTTTTTGCAAAAAAATGCCTTCAATAAT
17777871 ATGCTCATAA
Statistics
Matches: 429, Mismatches: 71, Indels: 92
0.72 0.12 0.16
Matches are distributed among these distances:
52 1 0.00
53 35 0.08
54 11 0.03
55 1 0.00
57 1 0.00
61 3 0.01
62 73 0.17
63 132 0.31
64 69 0.16
65 2 0.00
66 14 0.03
67 50 0.12
68 36 0.08
69 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (63 bp):
AAGATTATTGAAGGTATTTTTTGCAAAAAAATGCCTTCAATAATCCTCTTAAATTTTTTAGAG
Found at i:17777666 original size:131 final size:131
Alignment explanation
Indices: 17777413--17777655 Score: 346
Period size: 131 Copynumber: 1.9 Consensus size: 131
17777403 CAAAAAACAC
*
17777413 CTTCAATAATCCCCTTAAATTTTGATAAATAGATTATTAAAGGCATTTTTTGGCAAAAAATACCT
1 CTTCAATAATCCCCTTAAATTTTGATAAAGAGATTATTAAAGGCATTTTTTGGCAAAAAATACCT
* *
17777478 TCAATAATCCCTTTTAATTTTTTTAAGGAGATTATTGAAGGTATTTTCTACAAAAAAAAAAAATG
66 TCAATAATCCCTTCTAATTTTTTTAAGGAGATTATTGAAGGCATTTTCTACAAAAAAAAAAAATG
17777543 T
131 T
* * * * * * *
17777544 CTTCATTAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGTA-TTTTTGATC-AAAAATATC
1 CTTCAATAATCCCCTTAAATTTTGATAAAGAGATTATTAAAGGCATTTTTTG-GCAAAAAATACC
* *
17777607 TTCAATAATCCCTTCTAATTTTTTTATAGGAGATTATTGATGGCGTTTT
65 TTCAATAATCCCTTCTAATTTTTTTA-AGGAGATTATTGAAGGCATTTT
17777656 TTGGTCAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
130 39 0.40
131 59 0.60
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (131 bp):
CTTCAATAATCCCCTTAAATTTTGATAAAGAGATTATTAAAGGCATTTTTTGGCAAAAAATACCT
TCAATAATCCCTTCTAATTTTTTTAAGGAGATTATTGAAGGCATTTTCTACAAAAAAAAAAAATG
T
Found at i:17777780 original size:193 final size:193
Alignment explanation
Indices: 17777350--17777846 Score: 494
Period size: 193 Copynumber: 2.6 Consensus size: 193
17777340 TGTTTTTTGC
* * * * *
17777350 AAAAAAATGCCTTCAATAATCCTCTTAAATTTTGATAAAGAGATTATT-AA---A-----TGCAA
1 AAAAAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGTATTTTGTGCAG
* * * * * * *
17777406 AAAACACCTTCAATAATCCCCTT-AAATTTTGATAAATAGATTATTAAAGGCATTTTTTGGCAAA
66 AAAATACTTTCAATAATCCCTTTCAAATTTTTAT-GAGAGATTATTGAAGGCATTTTTTGGCAAA
* * *
17777470 AAATACCTTCAATAATCCCTTTTAATTTTTTTAAGGAGATTATTGAAGGTATTTTCTACAAAAA
130 AAACACCTTCAATAATCCCATCTAATTTTTTTAAGGAGATTATTGAAGGTATTTTCTACAAAAA
** *
17777534 AAAAAAATGTCTTCATTAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGTATTTT-TGATC
1 AAAAAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGTATTTTGTG--C
* * *
17777598 A-AAAATA-TCTTCAATAATCCC-TTCTAATTTTTTTAT-AGGAGATTATTGATGGCGTTTTTTG
64 AGAAAATACT-TTCAATAATCCCTTTC-AA-ATTTTTATGA-GAGATTATTGAAGGCATTTTTTG
* *
17777659 GTC-AAAAACGCCTTCAATAATCTCATCTAA-TTTTTT-AGAGAGGATTATTGAAGGTATTTTCT
125 G-CAAAAAACACCTTCAATAATCCCATCTAATTTTTTTAAG-GA-GATTATTGAAGGTATTTTCT
**
17777721 -GTAAAA
187 ACAAAAA
* * *
17777727 AAAAAAATACCTTCAATAATCCCCTTCATTTTTTATGA-GAGGATTATTGAAGGTATTTTGTGCA
1 AAAAAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGA-GATTATTGAAGGTATTTTGTGCA
*
17777791 GAAAATACTTTTAATAATCCCTTTCAAATTTTTATGAGAGATTATTGAAGGCATTT
65 GAAAATACTTTCAATAATCCCTTTCAAATTTTTATGAGAGATTATTGAAGGCATTT
17777847 CAAGCAAAAA
Statistics
Matches: 259, Mismatches: 30, Indels: 40
0.79 0.09 0.12
Matches are distributed among these distances:
184 43 0.17
185 2 0.01
188 1 0.00
192 34 0.13
193 100 0.39
194 72 0.28
195 7 0.03
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (193 bp):
AAAAAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGTATTTTGTGCAG
AAAATACTTTCAATAATCCCTTTCAAATTTTTATGAGAGATTATTGAAGGCATTTTTTGGCAAAA
AACACCTTCAATAATCCCATCTAATTTTTTTAAGGAGATTATTGAAGGTATTTTCTACAAAAA
Found at i:17777866 original size:62 final size:61
Alignment explanation
Indices: 17777728--17777870 Score: 162
Period size: 62 Copynumber: 2.3 Consensus size: 61
17777718 TCTGTAAAAA
* * * ***
17777728 AAAAAATACCTTCAATAATCCCCTTCATTTTTTATGAGAGGATTATTGAAGGTATTTTGTGC
1 AAAAAA-ACCTTTAATAATCCCCTTCAATTTTTATGAGAGGATTATTGAAGGCATTTCAAGC
* * *
17777790 AGAAAATACTTTTAATAATCCCTTTCAAATTTTTATGAGA-GATTATTGAAGGCATTTCAAGC
1 A-AAAAAACCTTTAATAATCCCCTTC-AATTTTTATGAGAGGATTATTGAAGGCATTTCAAGC
17777852 AAAAAAAGCCTTTAATAAT
1 AAAAAAA-CCTTTAATAAT
17777871 ATGCTCATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
61 5 0.07
62 46 0.69
63 16 0.24
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (61 bp):
AAAAAAACCTTTAATAATCCCCTTCAATTTTTATGAGAGGATTATTGAAGGCATTTCAAGC
Found at i:17782297 original size:127 final size:125
Alignment explanation
Indices: 17782098--17782342 Score: 307
Period size: 126 Copynumber: 1.9 Consensus size: 125
17782088 GGGGTATTAT
* * * * * *
17782098 AGTAAATTTCAAATAAAATTTCACATGTTAAATTTTTATGAAGCAATGATAAGGGCATTTTAATA
1 AGTAAATTTCAAATAAAATATCACATATCAAATTATTATAAAGCAATGATAAGGACATTTTAATA
* * *
17782163 ATTTAATATGT-AGTTAATTTTATATTTTGTTAAAATTTCATATGA-AATTTAATAGGTGTAC
66 ATTTAATATATGA-TTAATTTTATATTATGTT-AAATTTAATAT-ATAATTTAATAGGTGTAC
* * **
17782224 AGTAATTTTTAAATAAAATATCACATATCAAATTATTATAAAAGCAATGACT-AGGATGTTTTAA
1 AGTAAATTTCAAATAAAATATCACATATCAAATTATTAT-AAAGCAATGA-TAAGGACATTTTAA
17782288 TAATTTAATATATGATTAATTTTATATTATGTTAAATTTAATATATAATTTAATA
64 TAATTTAATATATGATTAATTTTATATTATGTTAAATTTAATATATAATTTAATA
17782343 AAGGTATTAT
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
125 1 0.01
126 52 0.51
127 47 0.46
128 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (125 bp):
AGTAAATTTCAAATAAAATATCACATATCAAATTATTATAAAGCAATGATAAGGACATTTTAATA
ATTTAATATATGATTAATTTTATATTATGTTAAATTTAATATATAATTTAATAGGTGTAC
Found at i:17782309 original size:16 final size:15
Alignment explanation
Indices: 17782288--17782333 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
17782278 GATGTTTTAA
17782288 TAATTTAATATATGAT
1 TAATTTAATATATG-T
*
17782304 TAATTTTATATTATGT
1 TAATTTAATA-TATGT
17782320 TAAATTTAATATAT
1 T-AATTTAATATAT
17782334 AATTTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (15 bp):
TAATTTAATATATGT
Found at i:17782434 original size:112 final size:112
Alignment explanation
Indices: 17782294--17782523 Score: 435
Period size: 112 Copynumber: 2.1 Consensus size: 112
17782284 TTAATAATTT
*
17782294 AATATATGATTAATTTTATATTATGTTAAATTTAATATATAATTTAATAAAGGTATTATAGTAAT
1 AATATATGATTAATTTTATATTATGTTAAATTTAATATATAATTTAATAAAGGTATTACAGTAAT
17782359 TTTGAAACAAAAATGCCACATATCAACTTTTTATGAAGTACTCATAA
66 TTTGAAACAAAAATGCCACATATCAACTTTTTATGAAGTACTCATAA
17782406 AATATATGATTAATTTTATATTATGTTAAATTTAATATATAATTTAATAAAGGTATTACAGTAAT
1 AATATATGATTAATTTTATATTATGTTAAATTTAATATATAATTTAATAAAGGTATTACAGTAAT
*
17782471 TTTGAAACAAAAATGTCACATATCAACTTTTTATGAAGTACTCATAA
66 TTTGAAACAAAAATGCCACATATCAACTTTTTATGAAGTACTCATAA
17782518 AA-ATAT
1 AATATAT
17782524 TTTCGTAATT
Statistics
Matches: 116, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
111 4 0.03
112 112 0.97
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (112 bp):
AATATATGATTAATTTTATATTATGTTAAATTTAATATATAATTTAATAAAGGTATTACAGTAAT
TTTGAAACAAAAATGCCACATATCAACTTTTTATGAAGTACTCATAA
Found at i:17782970 original size:29 final size:31
Alignment explanation
Indices: 17782912--17782972 Score: 108
Period size: 29 Copynumber: 2.0 Consensus size: 31
17782902 GTAATTTTGA
17782912 TCAATAATAAGAAAATGGATATTTTCATAAT
1 TCAATAATAAGAAAATGGATATTTTCATAAT
17782943 TCAATAATAAG-AAA-GGATATTTTCATAAT
1 TCAATAATAAGAAAATGGATATTTTCATAAT
17782972 T
1 T
17782973 ATGATATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 16 0.53
30 3 0.10
31 11 0.37
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (31 bp):
TCAATAATAAGAAAATGGATATTTTCATAAT
Found at i:17783008 original size:90 final size:91
Alignment explanation
Indices: 17782903--17783075 Score: 228
Period size: 90 Copynumber: 1.9 Consensus size: 91
17782893 GGTATTATAG
*
17782903 TAATTTTGATCAATAATA-AGA-AAATGGATATTTTCATAATTCAATAATAAG-AAAG-GATATT
1 TAATTTTGATCAATAATAGAGATAAA-GGA-ATTCT-ATAATTCAATAATAAGAAAAGAGATATT
17782964 TTCATAATTATGATATGAGGAGATCATAA
63 TTCATAATTATGATATGAGGAGATCATAA
* * * *
17782993 TAATTTTGGTCAATAATATGAGATTAAGTAATTCTGTAATTCAATAATAAGAAAAGAGATATTTT
1 TAATTTTGATCAATAATA-GAGATAAAGGAATTCTATAATTCAATAATAAGAAAAGAGATATTTT
*
17783058 CATAATTATGGTATGAGG
65 CATAATTATGATATGAGG
17783076 GTATTATAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
90 32 0.44
91 8 0.11
92 30 0.42
93 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.36
Consensus pattern (91 bp):
TAATTTTGATCAATAATAGAGATAAAGGAATTCTATAATTCAATAATAAGAAAAGAGATATTTTC
ATAATTATGATATGAGGAGATCATAA
Found at i:17783112 original size:55 final size:55
Alignment explanation
Indices: 17783039--17783236 Score: 158
Period size: 55 Copynumber: 3.7 Consensus size: 55
17783029 TAATTCAATA
* * *
17783039 ATAAGAAAAGAGATATTTTCATAATTATGGTATGAGGGTATTATAGTAAGTAATT
1 ATAAGAAAAGAAATATTTTCATAATTATGGTATAAGGGTATTATAGTAAATAATT
* * * * *
17783094 ATAAGAAAAGAAATATTTTCGTAGTTATGGTGTAAGGGCA-TA-A-TAATTAATT
1 ATAAGAAAAGAAATATTTTCATAATTATGGTATAAGGGTATTATAGTAAATAATT
*** ** * ** ** *
17783146 -TAAGAAAAGAGGCATTTTTGTAATTATGATATGTGAATATTATAGCAAATAATT
1 ATAAGAAAAGAAATATTTTCATAATTATGGTATAAGGGTATTATAGTAAATAATT
17783200 AT---AAAAGAAATGATATTTCATAATTATGGTATAAGGG
1 ATAAGAAAAGAAAT-AT-TTTCATAATTATGGTATAAGGG
17783237 CATAATAATC
Statistics
Matches: 106, Mismatches: 31, Indels: 13
0.71 0.21 0.09
Matches are distributed among these distances:
51 27 0.25
52 16 0.15
53 4 0.04
54 24 0.23
55 35 0.33
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (55 bp):
ATAAGAAAAGAAATATTTTCATAATTATGGTATAAGGGTATTATAGTAAATAATT
Found at i:17783170 original size:106 final size:105
Alignment explanation
Indices: 17783040--17783251 Score: 257
Period size: 106 Copynumber: 2.0 Consensus size: 105
17783030 AATTCAATAA
* * ** * *
17783040 TAAGAAAAGAGATATTTTCATAATTATGGTATGAGGGTATTATAGTAAGTAATTATAAGAAAAGA
1 TAAGAAAAGAGACATTTTCATAATTATGATATGAGAATATTATAGCAAATAATTAT---AAAAGA
* * * *
17783105 AAT-AT-TTTCGTAGTTATGGTGTAAGGGCATAATAATTAATT
63 AATGATATTTCATAATTATGGTATAAGGGCATAATAATCAATT
* ** *
17783146 TAAGAAAAGAGGCATTTTTGTAATTATGATATGTGAATATTATAGCAAATAATTATAAAAGAAAT
1 TAAGAAAAGAGACATTTTCATAATTATGATATGAGAATATTATAGCAAATAATTATAAAAGAAAT
17783211 GATATTTCATAATTATGGTATAAGGGCATAATAATCAATT
66 GATATTTCATAATTATGGTATAAGGGCATAATAATCAATT
17783251 T
1 T
17783252 GATCGTGTGT
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
103 9 0.10
104 2 0.02
105 33 0.37
106 46 0.51
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (105 bp):
TAAGAAAAGAGACATTTTCATAATTATGATATGAGAATATTATAGCAAATAATTATAAAAGAAAT
GATATTTCATAATTATGGTATAAGGGCATAATAATCAATT
Found at i:17786074 original size:57 final size:59
Alignment explanation
Indices: 17785878--17786386 Score: 370
Period size: 58 Copynumber: 8.7 Consensus size: 59
17785868 TGCTTTTATA
* * * ****
17785878 TAAGTAAAATTGATACTTTCAACTTTTTCTCAAAGTA----TTTAGAGGTTTTTA-TTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTAAAAATATTTGTTTAGAAAAATTTATTTT
* * * **** * *
17785932 TAAGAAAAATTGGTACTTCCAAC-TTTTCTTCAAAATATTT-TTTTTTTAATTTTAATTT
1 TAAGAAAAATTGATACTTTCAACTTTTTC-TAAAAATATTTGTTTAGAAAAATTTATTTT
* * * *
17785990 CAAGAAAAATTAATACTTTCAACTTTTTCTCAAAATA-TTGTTT-GAAAATTCTTCA-TTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTAAAAATATTTGTTTAGAAAAAT-TT-ATTTT
* * *
17786048 TAAG-ATAATTGATATTTTCAACTTTTTCTAAAAATATTTTTTTTAGAAAAATTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTAAAAATA-TTTGTTTAGAAAAATTTATTTT
* *
17786107 TAAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATATTTTTTA-AAAAATTTATTTT
1 TAAGAAAAATTGATACTTTCAAC-TTTTTCTAAAAATAT-TTGTTTAGAAAAATTTATTTT
* ** * * * * * *
17786167 TAAGGAAAACGGTTATTTTCAACCTTTCCCAAAAATATTT-TTTAGAAAAAAATTTTATATT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTAAAAATATTTGTTTAG--AAAAA-TTTATTTT
* *
17786228 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT-TTTA-AAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCT-AAAAATATTTGTTTAGAAAAATTTATTTT
* * * * *
17786286 CAAGAAAAATTGATACTTTTAA-TTTTTCCTCAAAAATATATTTTTTTG-GAAATTGTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTT-CT-AAAAATAT-TTGTTTAGAAAAATT-TATTTT
*
17786347 TCAA-AAAAATTGATACTTTCAACTTTTCCTTAAAAATATT
1 T-AAGAAAAATTGATACTTTCAACTTTTTC-TAAAAATATT
17786387 ATTCTTGAAA
Statistics
Matches: 373, Mismatches: 53, Indels: 52
0.78 0.11 0.11
Matches are distributed among these distances:
53 5 0.01
54 27 0.07
57 50 0.13
58 82 0.22
59 39 0.10
60 67 0.18
61 82 0.22
62 21 0.06
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (59 bp):
TAAGAAAAATTGATACTTTCAACTTTTTCTAAAAATATTTGTTTAGAAAAATTTATTTT
Found at i:17786097 original size:17 final size:17
Alignment explanation
Indices: 17786077--17786117 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
17786067 AACTTTTTCT
*
17786077 AAAAATATT-TTTTTTAG
1 AAAAAT-TTATTTTTAAG
17786094 AAAAATTTATTTTTAAG
1 AAAAATTTATTTTTAAG
17786111 AAAAATT
1 AAAAATT
17786118 GATACTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
AAAAATTTATTTTTAAG
Found at i:17786355 original size:119 final size:117
Alignment explanation
Indices: 17785871--17786407 Score: 462
Period size: 119 Copynumber: 4.6 Consensus size: 117
17785861 AACTCATTGC
* * * ***
17785871 TTTTATA--TAAGTAAAATTGATACTTTCAACTTTTTCTC-AAAGTA---TTTAGAGGTTTTTAT
1 TTTTATATTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTA-AAAATTTTAT
* * * * **
17785930 TTTAAGAAAAATTGGTACTTCCAACTTTTCTTCAAAATATTTTTTTT--TTAA
65 TTTAAGAAAAATTGATATTTTCAACTTTTCCTCAAAATATTTTTTTTGAAAAA
* * * *
17785981 TTTTA-ATTTCAAGAAAAATTAATACTTTCAACTTTTTCTC-AAAATATTGTTTGAAAATTCTTC
1 TTTTATATTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATT-TT-
* * *
17786044 ATTTTAAG-ATAATTGATATTTTCAACTTTTTCTAAAAATATTTTTTTTAGAAAAA
63 ATTTTAAGAAAAATTGATATTTTCAACTTTTCCTCAAAATATTTTTTTT-GAAAAA
* * *
17786099 -TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTCC-AAAAATATATTTTTTAAAAAATTT
1 TTTTATATTTAAGAAAAATTGATACTTTCAAC--TTTTCCTCAAAA-ATATTTTTTAAAAATTTT
* ** * * *
17786162 ATTTTTAAGGAAAACGGTTATTTTCAACCTTTCC-CAAAA-ATATTTTTTAGAAAAAAA
63 A-TTTTAAGAAAAATTGATATTTTCAACTTTTCCTCAAAATAT-TTTTTTTG--AAAAA
17786219 TTTTATATTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTATT
1 TTTTATATTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTATT
* *
17786284 TTCAAGAAAAATTGATACTTTT-AATTTTTCCTCAAAAATATATTTTTTTG-GAAA
66 TT-AAGAAAAATTGATA-TTTTCAACTTTTCCTC-AAAATAT-TTTTTTTGAAAAA
* * * * *
17786338 TTGTATTTTTCAA-AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTATTCTTGAAATTTTT
1 TTTTATATTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TT-TTAAAAATTTT
17786402 ATTTTA
63 ATTTTA
17786408 TATTTTATTT
Statistics
Matches: 349, Mismatches: 47, Indels: 52
0.78 0.10 0.12
Matches are distributed among these distances:
109 1 0.00
110 5 0.01
111 1 0.00
112 33 0.09
114 3 0.01
115 38 0.11
116 8 0.02
117 25 0.07
118 13 0.04
119 114 0.33
120 50 0.14
121 48 0.14
122 10 0.03
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (117 bp):
TTTTATATTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTATT
TTAAGAAAAATTGATATTTTCAACTTTTCCTCAAAATATTTTTTTTGAAAAA
Found at i:17786374 original size:61 final size:60
Alignment explanation
Indices: 17785924--17786406 Score: 433
Period size: 60 Copynumber: 8.2 Consensus size: 60
17785914 ATTTAGAGGT
* * * **
17785924 TTTTA-TTTTAAGAAAAATTGGTACTTCCAACTTTTCTTCAAAATAT-TTTTTTT-TTAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTGAAAA
* * * * *
17785981 TTTTAATTTCAAGAAAAATTAATACTTTCAACTTTTTCTC-AAA-ATA-TTGTTTGAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTGAAAA
* * * *
17786038 TTCTTCA-TTTTAAG-ATAATTGATATTTTCAACTTTTTCTAAAAATAT-TTTTTTTAGAAAA
1 TT-TT-ATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTT-GAAAA
* * *
17786098 ATTTATTTTTAAGAAAAATTGATACTTTCAACTTTT-TTCCAAAA-ATATATTTTTTAAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCT-CAAAATATAT-TTTTTTGAAAA
* * ** * * * *
17786158 ATTTATTTTTAAGGAAAACGGTTATTTTCAACCTTTCC-CAAAA-ATATTTTTTAGAAAAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTG---AAAA
* *
17786219 TTTTATATTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATA-TTTTTTAAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTGAAAA
* * * *
17786277 TTTTATTTTCAAGAAAAATTGATACTTTTAATTTTTCCTCAAAAATATATTTTTTTGGAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAATATATTTTTTTGAAAA
* * * *
17786338 TTGTATTTTTCAA-AAAAATTGATACTTTCAACTTTTCCTTAAAA-ATATTATTCTTGAAAT
1 TTTTATTTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATT-TTTTTGAAAA
17786398 TTTTATTTT
1 TTTTATTTT
17786407 ATATTTTATT
Statistics
Matches: 347, Mismatches: 55, Indels: 45
0.78 0.12 0.10
Matches are distributed among these distances:
56 7 0.02
57 34 0.10
58 85 0.24
59 38 0.11
60 87 0.25
61 86 0.25
62 10 0.03
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (60 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTGAAAA
Found at i:17787791 original size:43 final size:43
Alignment explanation
Indices: 17787667--17787827 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
17787657 CACAATTTCA
* * * * *
17787667 ACTTTGAAAAAGTAAATAAGGCTCCTCTAATCAAAGGCTCAACA
1 ACTTTGAAAAA-TAAACAAAGCTCCTCTAAACAGAGGCTCAACG
* * *
17787711 ACTTTGAAAAAAATAAACAAAGCTCATTTAAATAGAGGCTCAACG
1 ACTTTG--AAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACG
* *
17787756 ACTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAATG
1 ACTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACG
* *
17787799 ACTTTGGAAAATAAACAAAGCTTCTCTAA
1 ACTTTGAAAAATAAACAAAGCTCCTCTAA
17787828 TTAGCAAACA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
43 58 0.59
44 6 0.06
45 30 0.30
46 5 0.05
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (43 bp):
ACTTTGAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACG
Found at i:17787876 original size:108 final size:107
Alignment explanation
Indices: 17787725--17787920 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 107
17787715 TGAAAAAAAT
* * * *
17787725 AAACAAAGCTCATTTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAAACAGA
1 AAACAAAGCTCATCTAAAGAGAGGCTAAACGACTTTGAAAAATAAATAAAACTCCTCTAAACAGA
**
17787790 GGCTCAATGACTTTGGAAAATAAACAAAGCTTCTCTAATTAGC
66 GGCTCAACAACTTT-GAAAATAAACAAAGCTTCTCTAATTAGC
* * *
17787833 AAACAATGCTCCTCTAAAGAGAGGCTAAACGATTTTGAAAAATAAATAAAACTCCTCTAAACAGA
1 AAACAAAGCTCATCTAAAGAGAGGCTAAACGACTTTGAAAAATAAATAAAACTCCTCTAAACAGA
*
17787898 GGCTTAACAACTTTGAAAATAAA
66 GGCTCAACAACTTTGAAAATAAA
17787921 TAACTCATCT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
107 9 0.12
108 69 0.88
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (107 bp):
AAACAAAGCTCATCTAAAGAGAGGCTAAACGACTTTGAAAAATAAATAAAACTCCTCTAAACAGA
GGCTCAACAACTTTGAAAATAAACAAAGCTTCTCTAATTAGC
Found at i:17788000 original size:83 final size:81
Alignment explanation
Indices: 17787866--17788053 Score: 214
Period size: 83 Copynumber: 2.3 Consensus size: 81
17787856 GCTAAACGAT
** *
17787866 TTTGAAAAATAAATAAAACTCCTCTAAACAGAGGCTTAACAACTTTGAAAATAAATAACTCATCT
1 TTTGAAAAATAAAT--TGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAATAAATAACTCATCT
* * *
17787931 AAATAGAGGCAATAGAAC
64 AAACAGAGGCAACACAAC
* ** *
17787949 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCATCCACAACTTTGAAAAATAAATTGCTCCTCT
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGC-TCAACAACTTTG-AAAATAAATAACTCATCT
*
17788014 AAACAGAGGCACCACAAC
64 AAACAGAGGCAACACAAC
* *
17788032 TTTTAAGAAATAAAATGCTCCT
1 TTTGAA-AAATAAATTGCTCCT
17788054 TGACAATCAT
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 17 0.19
82 10 0.11
83 48 0.54
84 14 0.16
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (81 bp):
TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAATAAATAACTCATCTAA
ACAGAGGCAACACAAC
Found at i:17788003 original size:42 final size:42
Alignment explanation
Indices: 17787839--17788053 Score: 208
Period size: 42 Copynumber: 5.2 Consensus size: 42
17787829 TAGCAAACAA
* * * *
17787839 TGCTCCTCTAAAGAGAGGC-TAAACGATTTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCATCAACAACTTTGAAAAATAAAT
** *
17787880 AAAACTCCTCTAAACAGAGGC-TTAACAACTTTG-AAAATAAAT
1 --TGCTCCTCTAAACAGAGGCATCAACAACTTTGAAAAATAAAT
** * * *
17787922 AACTCATCTAAATAGAGGCA--ATAGAACTTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCATCA-ACAACTTTGAAAAATAAAT
*
17787963 TGCTCCTCTAAACAGAGGCATCCACAACTTTGAAAAATAAAT
1 TGCTCCTCTAAACAGAGGCATCAACAACTTTGAAAAATAAAT
* * *
17788005 TGCTCCTCTAAACAGAGGCA-CCACAACTTTTAAGAAATAAAA
1 TGCTCCTCTAAACAGAGGCATCAACAACTTTGAA-AAATAAAT
17788047 TGCTCCT
1 TGCTCCT
17788054 TGACAATCAT
Statistics
Matches: 149, Mismatches: 17, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 25 0.17
41 37 0.25
42 61 0.41
43 25 0.17
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.25
Consensus pattern (42 bp):
TGCTCCTCTAAACAGAGGCATCAACAACTTTGAAAAATAAAT
Found at i:17788498 original size:21 final size:20
Alignment explanation
Indices: 17788474--17788517 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
17788464 AAATATCCTT
*
17788474 ATTTGAAACTCAAAGATTCTC
1 ATTTG-AACTCAAAGATTCAC
**
17788495 ATTTGAGTTCAAAGATTCAC
1 ATTTGAACTCAAAGATTCAC
17788515 ATT
1 ATT
17788518 CGATGAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (20 bp):
ATTTGAACTCAAAGATTCAC
Found at i:17788567 original size:79 final size:80
Alignment explanation
Indices: 17788420--17788659 Score: 358
Period size: 79 Copynumber: 3.0 Consensus size: 80
17788410 TTTGCATTCT
* *
17788420 AGTTCAAAGATTCACA-TCCAGCGAACATTAGGGTTTCACACCCCAAATATCCTTATTTGAAACT
1 AGTTCAAAGATTCACATTCGA-CGAACATTAGGGTTTCACACCCCAAAGATCCTTATTTGAAACT
17788484 CAAAGATTCTCATTTG
65 CAAAGATTCTCATTTG
* * *
17788500 AGTTCAAAGATTCACATTCGATGAACATTA-GGTTTCACACCTCAAAGATCCTTATTTAAAACTC
1 AGTTCAAAGATTCACATTCGACGAACATTAGGGTTTCACACCCCAAAGATCCTTATTTGAAACTC
17788564 AAAGATTCTCATTTG
66 AAAGATTCTCATTTG
* * * *
17788579 AGTTCAAAAATTCACATTCGACGAACATTAGGGTTTCATACCCCAGAGATCCTTATTTGAAATTC
1 AGTTCAAAGATTCACATTCGACGAACATTAGGGTTTCACACCCCAAAGATCCTTATTTGAAACTC
* *
17788644 AAATATTCTTATTTG
66 AAAGATTCTCATTTG
17788659 A
1 A
17788660 AAACTCAAAA
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
79 74 0.51
80 67 0.47
81 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (80 bp):
AGTTCAAAGATTCACATTCGACGAACATTAGGGTTTCACACCCCAAAGATCCTTATTTGAAACTC
AAAGATTCTCATTTG
Found at i:17793904 original size:61 final size:59
Alignment explanation
Indices: 17793829--17794252 Score: 457
Period size: 60 Copynumber: 7.2 Consensus size: 59
17793819 ATTTGAAGGT
* * *
17793829 TTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATGTTTTTCTTGATAAT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TTGA-AAA
* * * *
17793889 TTTTATTTTTAAGAAAAATTGGTACTTCCAACTTTTTCTCAAAATATTTTTTTTTGAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTTGAAAA
* * *
17793949 TTTTAATTTCAAGAAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTTAAAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTT-GAAAA
** * ** * * * *
17794009 AATTATTTTTAAGGAAAACGGTTA-TTTTAACCTTTCC-CAAAAATATTTTTTTTAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA
* * * *
17794066 -TTTATTTTAAAGGAAAATTGATACTTTTAACTTTTCCTC-AAAATATTTTTTTGGAAAT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAAA
* *
17794124 TTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTTCTCAAAAATATATTTTTTTGAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAA-ATATTTTTTTGAAAA
* * * *
17794185 TTGTATTTTTAAG-AAAATTGATACTTTCAACTTTTCTTTAAAAATATTATTCTTGAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTTGAAAA
17794244 TTTTATTTT
1 TTTTATTTT
17794253 ATATTTTATT
Statistics
Matches: 307, Mismatches: 44, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
56 18 0.06
57 29 0.09
58 24 0.08
59 75 0.24
60 87 0.28
61 57 0.19
62 17 0.06
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA
Found at i:17794079 original size:56 final size:58
Alignment explanation
Indices: 17793969--17794117 Score: 169
Period size: 57 Copynumber: 2.6 Consensus size: 58
17793959 AAGAAAAATT
* * *
17793969 GATACTTTCAACTTTTCTCCAAAAATATTTTTTTAAAAAAAATTATTTTTAAGGAAAACG
1 GATACTTTTAACCTTTC-CCAAAAATATTTTTTT-AAAAAAATTATTTTAAAGGAAAACG
* * * **
17794029 GTTA-TTTTAACCTTTCCCAAAAATATTTTTTT-TAAAATTTATTTTAAAGGAAAATT
1 GATACTTTTAACCTTTCCCAAAAATATTTTTTTAAAAAAATTATTTTAAAGGAAAACG
*
17794085 GATACTTTTAACTTTTCCTC-AAAATATTTTTTT
1 GATACTTTTAACCTTTCC-CAAAAATATTTTTTT
17794118 GGAAATTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
56 22 0.29
57 25 0.32
58 17 0.22
59 10 0.13
60 3 0.04
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (58 bp):
GATACTTTTAACCTTTCCCAAAAATATTTTTTTAAAAAAATTATTTTAAAGGAAAACG
Found at i:17794781 original size:19 final size:19
Alignment explanation
Indices: 17794757--17794795 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17794747 GCCAGAAAGC
17794757 TCAACCGGCA-CTGAAAAAT
1 TCAACCGGCATC-GAAAAAT
17794776 TCAACCGGCATCGAAAAAT
1 TCAACCGGCATCGAAAAAT
17794795 T
1 T
17794796 TTGCCGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (19 bp):
TCAACCGGCATCGAAAAAT
Found at i:17796808 original size:24 final size:24
Alignment explanation
Indices: 17796781--17796834 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
17796771 CCACAATAAT
*
17796781 AAAAGGGCATATAGATATAACAAC
1 AAAAGAGCATATAGATATAACAAC
* *
17796805 AAAAGAGTATATAGATATAACAAT
1 AAAAGAGCATATAGATATAACAAC
17796829 AAAAGA
1 AAAAGA
17796835 ATAGTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.19
Consensus pattern (24 bp):
AAAAGAGCATATAGATATAACAAC
Found at i:17797866 original size:94 final size:94
Alignment explanation
Indices: 17797684--17797855 Score: 263
Period size: 94 Copynumber: 1.8 Consensus size: 94
17797674 TATTTGGTGC
* * * *
17797684 AACAGATTTGCATTGGATATAGATCAAAGAGGTAATTTGGTTTGGATGTGCTTGGGACCATTGGT
1 AACAGATTTGCATTGGATATAGATCAAAGAGATAATTTGGTTTGGATGTGCTTGCGACAATTAGT
17797749 GGAAATGCATAAGGGAGCATATAATACTA
66 GGAAATGCATAAGGGAGCATATAATACTA
* * * *
17797778 AACATATTTGTATTGGATATAGATTAAAGAGATAATTTGGTTTGGATGTGCTTTCGACAATTAGT
1 AACAGATTTGCATTGGATATAGATCAAAGAGATAATTTGGTTTGGATGTGCTTGCGACAATTAGT
*
17797843 GGAAATGGATAAG
66 GGAAATGCATAAG
17797856 AGGGTGTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.33
Consensus pattern (94 bp):
AACAGATTTGCATTGGATATAGATCAAAGAGATAATTTGGTTTGGATGTGCTTGCGACAATTAGT
GGAAATGCATAAGGGAGCATATAATACTA
Found at i:17801630 original size:135 final size:130
Alignment explanation
Indices: 17801454--17801716 Score: 429
Period size: 135 Copynumber: 2.0 Consensus size: 130
17801444 TCTGAATCCC
*
17801454 ACTTAGATAAAACCCCTGTTTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCGGGCTTCC
1 ACTTAGATAAAACCCCTGTTTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGCTTCC
17801519 CAGGTATGTCCACTTCTCCTTCTCCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTC
66 CAGGTATGTCCAC--CT-C--C-CCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTC
17801584 CCCCTA
125 CCCCTA
* * *
17801590 ACTTGGATAAAACTCCTG-TTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGTTTCC
1 ACTTAGATAAAACCCCTGTTTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGCTTCC
17801654 CAGGTATGTCCACCTCCCCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTCCCCC
66 CAGGTATGTCCACCTCCCCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTCCCCC
17801717 CAACGTTTTT
Statistics
Matches: 123, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
129 46 0.37
130 1 0.01
132 1 0.01
133 2 0.02
135 57 0.46
136 16 0.13
ACGTcount: A:0.19, C:0.33, G:0.11, T:0.37
Consensus pattern (130 bp):
ACTTAGATAAAACCCCTGTTTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGCTTCC
CAGGTATGTCCACCTCCCCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTCCCCCTA
Found at i:17808564 original size:15 final size:14
Alignment explanation
Indices: 17808546--17808582 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
17808536 TGATTATTAT
17808546 TTTTAAATTTATAAA
1 TTTTAAATTT-TAAA
17808561 TTTTAAATTTTAAA
1 TTTTAAATTTTAAA
17808575 TATTTAAA
1 T-TTTAAA
17808583 AATTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTAAATTTTAAA
Found at i:17808569 original size:7 final size:7
Alignment explanation
Indices: 17808546--17808582 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
17808536 TGATTATTAT
17808546 TTTTAAA
1 TTTTAAA
17808553 TTTATAAA
1 TTT-TAAA
17808561 TTTTAAA
1 TTTTAAA
17808568 TTTTAAA
1 TTTTAAA
17808575 TATTTAAA
1 T-TTTAAA
17808583 AATTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTTAAA
Found at i:17808592 original size:22 final size:22
Alignment explanation
Indices: 17808541--17808599 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
17808531 TATTTTGATT
*
17808541 ATTAT-TTTTAAATTTATAAAT
1 ATTATATTTTAAATTTATAAAA
* *
17808562 TTTAAATTTTAAATATT-TAAAA
1 ATTATATTTTAAAT-TTATAAAA
17808584 ATTATATTTTTAAATT
1 ATTATA-TTTTAAATT
17808600 GTAATTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 3 0.10
22 17 0.57
23 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATATTTTAAATTTATAAAA
Found at i:17808881 original size:17 final size:17
Alignment explanation
Indices: 17808859--17808892 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17808849 TCAAATAATT
*
17808859 TTTAAGTTATTTTATAA
1 TTTAAGTTATTCTATAA
17808876 TTTAAGTTATTCTATAA
1 TTTAAGTTATTCTATAA
17808893 AAAATCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTAAGTTATTCTATAA
Found at i:17818633 original size:14 final size:14
Alignment explanation
Indices: 17818614--17818642 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17818604 CACTGAACCG
17818614 TCAGAGTAAAATGT
1 TCAGAGTAAAATGT
17818628 TCAGAGTAAAATGT
1 TCAGAGTAAAATGT
17818642 T
1 T
17818643 AAGACCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (14 bp):
TCAGAGTAAAATGT
Found at i:17835107 original size:18 final size:17
Alignment explanation
Indices: 17835080--17835117 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
17835070 TATAATTTTT
17835080 TTGTTATTTTTTTATTAC
1 TTGTTATTTTTTT-TTAC
*
17835098 TTGTTTTTTTTTTTTAC
1 TTGTTATTTTTTTTTAC
17835115 TTG
1 TTG
17835118 CTAAGTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (17 bp):
TTGTTATTTTTTTTTAC
Found at i:17835108 original size:17 final size:18
Alignment explanation
Indices: 17835080--17835117 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
17835070 TATAATTTTT
17835080 TTGTTATTTTTTTATTAC
1 TTGTTATTTTTTTATTAC
*
17835098 TTGTT-TTTTTTTTTTAC
1 TTGTTATTTTTTTATTAC
17835115 TTG
1 TTG
17835118 CTAAGTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (18 bp):
TTGTTATTTTTTTATTAC
Found at i:17837225 original size:37 final size:37
Alignment explanation
Indices: 17837184--17837264 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
17837174 ATAATTTTTT
* *
17837184 GAATTTGTTATCAATTTA-AAGATTTTTGAAATTCTTG
1 GAATTTGATATCAATTTAGAA-ATTATTGAAATTCTTG
* *
17837221 GAATTTGATATCAGTTTAGAAATTATTGAGATTCTTG
1 GAATTTGATATCAATTTAGAAATTATTGAAATTCTTG
*
17837258 AAATTTG
1 GAATTTG
17837265 GTGCTAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (37 bp):
GAATTTGATATCAATTTAGAAATTATTGAAATTCTTG
Found at i:17841011 original size:60 final size:58
Alignment explanation
Indices: 17840933--17841357 Score: 401
Period size: 60 Copynumber: 7.2 Consensus size: 58
17840923 ATTTGGAGGT
* * * *
17840933 TTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAATATTTTCTTGATAAT
1 TTTTATTTTTAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGA-AAA
* * * *
17840993 TTTTATTTTTAAAGAAAATTGGTACTTCCAACTTTTTCTCAAAATATTTTTTTTTTGAAAA
1 TTTTATTTTT-AAGAAAATTGATACTTTCAACTTTTCCTCAAAA-A-TATTTTTTTGAAAA
* * * *
17841054 TTTTAATTTCAAGGAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTTAAAAAA
1 TTTTATTTTTAAGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTT-GAAAA
*** ** * * * *
17841113 AAATATTTTTAAGGAAAACGGTTA-TTTTAACCTTTCC-CAAAAATATTTTTTTAAAAAA
1 TTTTATTTTTAA-GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-GAAAA
* * * *
17841171 ATTTATTTTAAAGAAAAATTGATACTTTTAACTTTTCCTC-AAAATATTTTTTTAAAAA
1 TTTTATTTTTAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA
*
17841229 TTTTATTTTTAAGAAAAATTGATACTTTCAA-TTTTTCTCAAAAATATATTTTTTTTGAAAA
1 TTTTATTTTTAAG-AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATA-TTTTTTTGAAAA
* * * * *
17841290 TTATATTTTTAAGAAAATTGATACTTTCAACTTTTCTTTAAAAATATTATTCTTGAAAT
1 TTTTATTTTTAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTTGAAAA
17841349 TTTTATTTT
1 TTTTATTTT
17841358 ATATTTTATT
Statistics
Matches: 304, Mismatches: 45, Indels: 33
0.80 0.12 0.09
Matches are distributed among these distances:
57 8 0.03
58 80 0.26
59 70 0.23
60 95 0.31
61 42 0.14
62 9 0.03
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.48
Consensus pattern (58 bp):
TTTTATTTTTAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA
Found at i:17841155 original size:58 final size:59
Alignment explanation
Indices: 17841073--17841282 Score: 192
Period size: 58 Copynumber: 3.6 Consensus size: 59
17841063 CAAGGAAATT
* * * *
17841073 GATACTTTCAACTTTTCTCCAAAAATATTTTTTTAAAAAAAAATATTTTTAAGGAAAACG
1 GATACTTTTAACCTTTC-CCAAAAATATTTTTTTAAAAAAAAATATTTTAAAGAAAAACG
* ** **
17841133 GTTA-TTTTAACCTTTCCCAAAAATATTTTTTTAAAAAAATTTATTTTAAAGAAAAATT
1 GATACTTTTAACCTTTCCCAAAAATATTTTTTTAAAAAAAAATATTTTAAAGAAAAACG
* *** * **
17841191 GATACTTTTAACTTTTCCTC-AAAATATTTTTTT-AAAAATTTTATTTTTAAGAAAAATT
1 GATACTTTTAACCTTTCC-CAAAAATATTTTTTTAAAAAAAAATATTTTAAAGAAAAACG
* ** *
17841249 GATACTTTCAATTTTTCTCAAAAATATATTTTTT
1 GATACTTTTAACCTTTCCCAAAAATAT-TTTTTT
17841283 TTGAAAATTA
Statistics
Matches: 130, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.01
58 84 0.65
59 41 0.32
60 4 0.03
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (59 bp):
GATACTTTTAACCTTTCCCAAAAATATTTTTTTAAAAAAAAATATTTTAAAGAAAAACG
Found at i:17841892 original size:19 final size:19
Alignment explanation
Indices: 17841868--17841906 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17841858 GCCAGAAAGC
17841868 TCAACCGGCA-CTGAAAAAT
1 TCAACCGGCATC-GAAAAAT
17841887 TCAACCGGCATCGAAAAAT
1 TCAACCGGCATCGAAAAAT
17841906 T
1 T
17841907 TTGCCGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (19 bp):
TCAACCGGCATCGAAAAAT
Found at i:17842304 original size:4 final size:4
Alignment explanation
Indices: 17842285--17842347 Score: 56
Period size: 4 Copynumber: 14.5 Consensus size: 4
17842275 TTAATCTGAA
*
17842285 AAAT AAAAT AAAAT AAAT AAATCT AAA- AAAT AAAT AAAT AAAT ATAT
1 AAAT -AAAT -AAAT AAAT AAA--T AAAT AAAT AAAT AAAT AAAT AAAT
17842332 CAACAT AAAT AAAT AA
1 -AA-AT AAAT AAAT AA
17842348 TTAAGCCCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
3 3 0.06
4 30 0.59
5 12 0.24
6 6 0.12
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:17842319 original size:21 final size:22
Alignment explanation
Indices: 17842289--17842347 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
17842279 TCTGAAAAAT
*
17842289 AAAATAAAATAAATAAATCTA-A
1 AAAAT-AAATAAATAAATATATA
*
17842311 AAAATAAATAAATAAATATATC
1 AAAATAAATAAATAAATATATA
*
17842333 AACATAAATAAATAA
1 AAAATAAATAAATAA
17842348 TTAAGCCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 14 0.42
22 19 0.58
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATAAATAAATAAATATATA
Found at i:17842319 original size:26 final size:26
Alignment explanation
Indices: 17842272--17842347 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
17842262 TAATAACCAA
* *
17842272 AAATTAATCTGAAAAATAAAATAAAAT
1 AAATAAATCTAAAAAAT-AAATAAAAT
17842299 AAATAAATCTAAAAAATAAAT-AAAT
1 AAATAAATCTAAAAAATAAATAAAAT
*
17842324 AAATATATC-AACATAAATAAATAA
1 AAATAAATCTAA-A-AAATAAATAA
17842348 TTAAGCCCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
24 2 0.05
25 13 0.30
26 12 0.28
27 16 0.37
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.25
Consensus pattern (26 bp):
AAATAAATCTAAAAAATAAATAAAAT
Found at i:17843918 original size:24 final size:24
Alignment explanation
Indices: 17843891--17843944 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
17843881 CCACAATAAT
*
17843891 AAAAGGGCATATAGATATAACAAC
1 AAAAGAGCATATAGATATAACAAC
* *
17843915 AAAAGAGTATATAGATATAACAAT
1 AAAAGAGCATATAGATATAACAAC
17843939 AAAAGA
1 AAAAGA
17843945 ATAGTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.19
Consensus pattern (24 bp):
AAAAGAGCATATAGATATAACAAC
Found at i:17844983 original size:94 final size:94
Alignment explanation
Indices: 17844801--17844972 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 94
17844791 TATTTGGTGC
* * * *
17844801 AACAGATTTGCATCGGAAATAGATCAAAGAGGTAATTTGGTTTGGATGTGCTTGGGACCATTGGT
1 AACAGATTTGCATCGGAAATAGATCAAAGAGATAATTTGGTTTGGATGTGCTTGCGACAATTAGT
17844866 GGAAATGCATAAGGGAGCATATAATACTA
66 GGAAATGCATAAGGGAGCATATAATACTA
* * * * * *
17844895 AACATATTTGCATTGGATATAGATTAGAGAGATAATTTGGTTTGGATGTGCTTTCGACAATTAGT
1 AACAGATTTGCATCGGAAATAGATCAAAGAGATAATTTGGTTTGGATGTGCTTGCGACAATTAGT
*
17844960 GGAAATGGATAAG
66 GGAAATGCATAAG
17844973 AGGGTGTATA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 67 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.31
Consensus pattern (94 bp):
AACAGATTTGCATCGGAAATAGATCAAAGAGATAATTTGGTTTGGATGTGCTTGCGACAATTAGT
GGAAATGCATAAGGGAGCATATAATACTA
Found at i:17848736 original size:135 final size:130
Alignment explanation
Indices: 17848564--17848826 Score: 429
Period size: 135 Copynumber: 2.0 Consensus size: 130
17848554 TCTGAATCCC
17848564 ACTTAGATAAAACCCCTGTTTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGCTTCC
1 ACTTAGATAAAACCCCTGTTTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGCTTCC
17848629 CAGGTATGGCCACTTCTCCTTCTCCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTC
66 CAGGTATGGCCAC-T-T-C--C-CCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTC
17848694 CCCCTA
125 CCCCTA
* * *
17848700 ACTTGGATAAAACTCCTG-TTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGTTTCC
1 ACTTAGATAAAACCCCTGTTTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGCTTCC
*
17848764 CAGGTATGTCCACTTCCCCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTCCCCC
66 CAGGTATGGCCACTTCCCCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTCCCCC
17848827 CAACGTTTTT
Statistics
Matches: 123, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
129 46 0.37
130 1 0.01
132 1 0.01
133 1 0.01
134 1 0.01
135 57 0.46
136 16 0.13
ACGTcount: A:0.20, C:0.33, G:0.11, T:0.37
Consensus pattern (130 bp):
ACTTAGATAAAACCCCTGTTTTCAAGCATAATACAAGACTTGTCTCCACTTGCTTCCAGGCTTCC
CAGGTATGGCCACTTCCCCCTGCCTTTCCATTTTCTTGTCTCTTTAATCTACTTATCTCCCCCTA
Found at i:17855668 original size:15 final size:14
Alignment explanation
Indices: 17855650--17855686 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
17855640 TGATTATTAT
17855650 TTTTAAATTTATAAA
1 TTTTAAATTT-TAAA
17855665 TTTTAAATTTTAAA
1 TTTTAAATTTTAAA
17855679 TATTTAAA
1 T-TTTAAA
17855687 AATTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTAAATTTTAAA
Found at i:17855673 original size:7 final size:7
Alignment explanation
Indices: 17855650--17855686 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
17855640 TGATTATTAT
17855650 TTTTAAA
1 TTTTAAA
17855657 TTTATAAA
1 TTT-TAAA
17855665 TTTTAAA
1 TTTTAAA
17855672 TTTTAAA
1 TTTTAAA
17855679 TATTTAAA
1 T-TTTAAA
17855687 AATTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTTAAA
Found at i:17855696 original size:22 final size:22
Alignment explanation
Indices: 17855645--17855703 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
17855635 TATTTTGATT
*
17855645 ATTAT-TTTTAAATTTATAAAT
1 ATTATATTTTAAATTTATAAAA
* *
17855666 TTTAAATTTTAAATATT-TAAAA
1 ATTATATTTTAAAT-TTATAAAA
17855688 ATTATATTTTTAAATT
1 ATTATA-TTTTAAATT
17855704 GTAATTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 3 0.10
22 17 0.57
23 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATATTTTAAATTTATAAAA
Found at i:17855989 original size:17 final size:17
Alignment explanation
Indices: 17855967--17856000 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17855957 CAAATAATTT
*
17855967 TTTAAGTTATTTTATAA
1 TTTAAGTTATTCTATAA
17855984 TTTAAGTTATTCTATAA
1 TTTAAGTTATTCTATAA
17856001 AAAATCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTAAGTTATTCTATAA
Found at i:17865752 original size:14 final size:14
Alignment explanation
Indices: 17865733--17865761 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17865723 CACTGAACCG
17865733 TCAGAGTAAAATGT
1 TCAGAGTAAAATGT
17865747 TCAGAGTAAAATGT
1 TCAGAGTAAAATGT
17865761 T
1 T
17865762 AAGACCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (14 bp):
TCAGAGTAAAATGT
Found at i:17874835 original size:21 final size:20
Alignment explanation
Indices: 17874788--17874837 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
17874778 TTCTCATTCA
17874788 AAAATTTTATTAATTATTTT
1 AAAATTTTATTAATTATTTT
*
17874808 ATTAATTTTATTAATT-TTAATT
1 A-AAATTTTATTAATTATT--TT
17874830 AAAATTTT
1 AAAATTTT
17874838 GAAGAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.12
21 19 0.76
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AAAATTTTATTAATTATTTT
Found at i:17875050 original size:15 final size:15
Alignment explanation
Indices: 17874995--17875050 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
17874985 CTTTTCTTCT
17874995 TATTTTTA-TTACTTA
1 TATTTTTATTTA-TTA
17875010 TATTTTTATTTATTAA
1 TATTTTTATTTATT-A
17875026 TCAATTTTTATTTATTA
1 T--ATTTTTATTTATTA
*
17875043 TTTTTTTA
1 TATTTTTA
17875051 AAAAAGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 16 0.44
16 5 0.14
17 2 0.06
18 13 0.36
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTATTTATTA
Found at i:17875460 original size:5 final size:5
Alignment explanation
Indices: 17875452--17875541 Score: 56
Period size: 5 Copynumber: 19.6 Consensus size: 5
17875442 GTCAACTTAT
*
17875452 GGTTC GGTTC GG--C GGTTC GGTTC GG-TC TGGTT- GGTTC GGTCC GG--C
1 GGTTC GGTTC GGTTC GGTTC GGTTC GGTTC -GGTTC GGTTC GGTTC GGTTC
* * *
17875497 GGTTC AGTTC GG-TC TGGTT- GGTTT GGTCC GG--C GGTTC GGTTC GGT
1 GGTTC GGTTC GGTTC -GGTTC GGTTC GGTTC GGTTC GGTTC GGTTC GGT
17875542 CCAGTCAGAC
Statistics
Matches: 68, Mismatches: 5, Indels: 24
0.70 0.05 0.25
Matches are distributed among these distances:
3 9 0.13
4 12 0.18
5 45 0.66
6 2 0.03
ACGTcount: A:0.01, C:0.20, G:0.43, T:0.36
Consensus pattern (5 bp):
GGTTC
Found at i:17875470 original size:13 final size:15
Alignment explanation
Indices: 17875451--17875536 Score: 67
Period size: 13 Copynumber: 5.9 Consensus size: 15
17875441 GGTCAACTTA
17875451 TGGTTCGGTTCGG-C
1 TGGTTCGGTTCGGTC
17875465 -GGTTCGGTTCGGTC
1 TGGTTCGGTTCGGTC
17875479 TGGTT-GGTTCGGTCC
1 TGGTTCGGTTCGGT-C
* *
17875494 GGCGGTTCAGTTCGGTC
1 --TGGTTCGGTTCGGTC
*
17875511 TGGTT-GGTTTGGTC
1 TGGTTCGGTTCGGTC
*
17875525 CGG--CGGTTCGGT
1 TGGTTCGGTTCGGT
17875537 TCGGTCCAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
13 19 0.33
14 18 0.31
15 9 0.16
17 5 0.09
18 7 0.12
ACGTcount: A:0.01, C:0.20, G:0.43, T:0.36
Consensus pattern (15 bp):
TGGTTCGGTTCGGTC
Found at i:17875490 original size:32 final size:32
Alignment explanation
Indices: 17875451--17875542 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
17875441 GGTCAACTTA
*
17875451 TGGTTCGGTTCGGCGGTTCGGTTCGGTCTGGT
1 TGGTTCGGTCCGGCGGTTCGGTTCGGTCTGGT
*
17875483 TGGTTCGGTCCGGCGGTTCAGTTCGGTCTGGT
1 TGGTTCGGTCCGGCGGTTCGGTTCGGTCTGGT
*
17875515 TGGTTTGGTCCGGCGGTTCGGTTCGGTC
1 TGGTTCGGTCCGGCGGTTCGGTTCGGTC
17875543 CAGTCAGACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.01, C:0.21, G:0.42, T:0.36
Consensus pattern (32 bp):
TGGTTCGGTCCGGCGGTTCGGTTCGGTCTGGT
Found at i:17876386 original size:23 final size:23
Alignment explanation
Indices: 17876351--17876404 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
17876341 CCCCTTGACT
17876351 TTTGTCTTA-TTTTCGTTTCTTTTG
1 TTTGT-TTATTTTTCGTTT-TTTTG
*
17876375 TTTGTTTATTTTTTGTTTTTTTG
1 TTTGTTTATTTTTCGTTTTTTTG
17876398 TTTGTTT
1 TTTGTTT
17876405 TGTTAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.04, C:0.06, G:0.13, T:0.78
Consensus pattern (23 bp):
TTTGTTTATTTTTCGTTTTTTTG
Found at i:17887884 original size:37 final size:37
Alignment explanation
Indices: 17887843--17887923 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
17887833 AGAATTTTTT
* *
17887843 GAATTTGTTATCAATTTA-AAGATTTTTGAAATTCTTG
1 GAATTTGATATCAATTTAGAA-ATTATTGAAATTCTTG
* *
17887880 GAATTTGATATCAGTTTAGAAATTATTGAGATTCTTG
1 GAATTTGATATCAATTTAGAAATTATTGAAATTCTTG
*
17887917 AAATTTG
1 GAATTTG
17887924 GTGCTAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (37 bp):
GAATTTGATATCAATTTAGAAATTATTGAAATTCTTG
Found at i:17891615 original size:286 final size:286
Alignment explanation
Indices: 17891103--17891675 Score: 1092
Period size: 286 Copynumber: 2.0 Consensus size: 286
17891093 AATGTCTATA
*
17891103 AGGTGATAGTTGACAAACAAAAACCTCCAGCTAGTGGTTCTATGACAATTGCCAATCCCATAACT
1 AGGTGATAGTAGACAAACAAAAACCTCCAGCTAGTGGTTCTATGACAATTGCCAATCCCATAACT
17891168 AGTCATAGAGAAGAGACTGGTAAAACAACACCAACTAAAGCTCCTAACCATAACCTAATCACTAC
66 AGTCATAGAGAAGAGACTGGTAAAACAACACCAACTAAAGCTCCTAACCATAACCTAATCACTAC
17891233 CAAACTTCAAATCGAGCCTTTAATGCCATCACCTAATGGCTTGCCCAAATAGCTAACTAAAGATC
131 CAAACTTCAAATCGAGCCTTTAATGCCATCACCTAATGGCTTGCCCAAATAGCTAACTAAAGATC
*
17891298 TAGCCAAGCGAGGTCCAACCCCAGATAATCAGATGATTAACCTTCACAAAAAGACATTGTAACTA
196 TAGCCAAGCGAGGTCCAACCCCAGATAATCAGATGATTAACCTTCACAAAAAAACATTGTAACTA
*
17891363 CCACTCGACTAGAAGAGACTTCATGG
261 CCACTCGACTAGAAAAGACTTCATGG
*
17891389 AGGTGATAGTAGATAAACAAAAACCTCCAGCTAGTGGTTCTATGACAATTGCCAATCCCATAACT
1 AGGTGATAGTAGACAAACAAAAACCTCCAGCTAGTGGTTCTATGACAATTGCCAATCCCATAACT
*
17891454 AGTCATAGAGAAGAGACTGGTAAAACAACACCAACTAAAGCTCCTAGCCATAACCTAATCACTAC
66 AGTCATAGAGAAGAGACTGGTAAAACAACACCAACTAAAGCTCCTAACCATAACCTAATCACTAC
17891519 CAAACTTCAAATCGAGCCTTTAATGCCATCACCTAATGGCTTGCCCAAATAGCTAACTAAAGATC
131 CAAACTTCAAATCGAGCCTTTAATGCCATCACCTAATGGCTTGCCCAAATAGCTAACTAAAGATC
*
17891584 TAGCCAAGCGAGGTCCAACCTCAGATAATCAGATGATTAACCTTCACAAAAAAACATTGTAACTA
196 TAGCCAAGCGAGGTCCAACCCCAGATAATCAGATGATTAACCTTCACAAAAAAACATTGTAACTA
17891649 CCACTCGACTAGAAAAGACTTCATGG
261 CCACTCGACTAGAAAAGACTTCATGG
17891675 A
1 A
17891676 CGAGTGCATA
Statistics
Matches: 281, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
286 281 1.00
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (286 bp):
AGGTGATAGTAGACAAACAAAAACCTCCAGCTAGTGGTTCTATGACAATTGCCAATCCCATAACT
AGTCATAGAGAAGAGACTGGTAAAACAACACCAACTAAAGCTCCTAACCATAACCTAATCACTAC
CAAACTTCAAATCGAGCCTTTAATGCCATCACCTAATGGCTTGCCCAAATAGCTAACTAAAGATC
TAGCCAAGCGAGGTCCAACCCCAGATAATCAGATGATTAACCTTCACAAAAAAACATTGTAACTA
CCACTCGACTAGAAAAGACTTCATGG
Found at i:17902524 original size:24 final size:24
Alignment explanation
Indices: 17902490--17902546 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
17902480 GAAACACAGG
*
17902490 ATGCAACTTTGAATTATCCGGTAA
1 ATGCAATTTTGAATTATCCGGTAA
17902514 ATGCAATTTTGAATTATCCGGTAA
1 ATGCAATTTTGAATTATCCGGTAA
17902538 ATGCAATTT
1 ATGCAATTT
17902547 ATAGGCCACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (24 bp):
ATGCAATTTTGAATTATCCGGTAA
Found at i:17906686 original size:22 final size:19
Alignment explanation
Indices: 17906632--17906683 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 19
17906622 AAAATTTTAT
17906632 AAATTTATTATAAAATAAA
1 AAATTTATTATAAAATAAA
17906651 ATAATTATAATTATAATAATAAA
1 A-AATT-T-ATTATAA-AATAAA
17906674 AAATATTATT
1 AAAT-TTATT
17906684 TATTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.04
20 4 0.14
21 4 0.14
22 11 0.39
23 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTTATTATAAAATAAA
Found at i:17906688 original size:25 final size:23
Alignment explanation
Indices: 17906634--17906688 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
17906624 AATTTTATAA
*
17906634 ATTTATTATAAAATAAAATAATT
1 ATTTATTATAAAATAAAAAAATT
*
17906657 A-TAATTATAATAATAAAAAATATT
1 ATTTATTATAA-AATAAAAAA-ATT
17906681 ATTTATTA
1 ATTTATTA
17906689 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 8 0.31
23 9 0.35
24 4 0.15
25 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTATTATAAAATAAAAAAATT
Found at i:17912622 original size:24 final size:24
Alignment explanation
Indices: 17912588--17912644 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
17912578 GAAACACAGG
*
17912588 ATGCAACTTTGAATTATCCGGTAA
1 ATGCAATTTTGAATTATCCGGTAA
17912612 ATGCAATTTTGAATTATCCGGTAA
1 ATGCAATTTTGAATTATCCGGTAA
17912636 ATGCAATTT
1 ATGCAATTT
17912645 ATAGGCCACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (24 bp):
ATGCAATTTTGAATTATCCGGTAA
Found at i:17924397 original size:33 final size:33
Alignment explanation
Indices: 17924293--17924381 Score: 88
Period size: 36 Copynumber: 2.6 Consensus size: 33
17924283 ATCAAGGAAG
* * *
17924293 AAATCTTTATAGATTTGAGTTTTTCAACCAAAGA
1 AAATTTTTATAGA-TTGAGTATTTCAACCAAGGA
** *
17924327 TAAGAGGCTTTATAGATTGTGTATTTCAACCAAGGA
1 -AA-A-TTTTTATAGATTGAGTATTTCAACCAAGGA
17924363 AAATTTTTATAGATTGAGT
1 AAATTTTTATAGATTGAGT
17924382 TTTTGAACTG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
33 13 0.29
34 1 0.02
35 4 0.09
36 18 0.40
37 9 0.20
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (33 bp):
AAATTTTTATAGATTGAGTATTTCAACCAAGGA
Found at i:17924419 original size:68 final size:71
Alignment explanation
Indices: 17924250--17924566 Score: 220
Period size: 68 Copynumber: 4.6 Consensus size: 71
17924240 AGTATTTTGC
* * * * *
17924250 CCAAGGAAAGAAGC-TTATAAGTTCAGGATCTCAATCAAGGAAGAAATCTTTATAGATTTGAGTT
1 CCAAGGAAAGAAGCTTTATAAATTGAGTATTTCAACCAAGGAAGAAATCTTTATAGATTTGAGTT
17924314 TTTCAA
66 TTTCAA
* * * * *
17924320 CCAAAGATAAGAGGCTTTATAGATTGTGTATTTCAACCAAGG-A-AAATTTTTATAGA-TTGAGT
1 CCAAGGA-AAGAAGCTTTATAAATTGAGTATTTCAACCAAGGAAGAAATCTTTATAGATTTGAGT
*
17924382 TTTTGAA
65 TTTTCAA
** ** * * * * * * *
17924389 CTGAGGAAAGAAGCTTTATATCTTGAGTATTTCAACTAAGAAAGGAAGCTTTATAG-GTTGAATA
1 CCAAGGAAAGAAGCTTTATAAATTGAGTATTTCAACCAAGGAAGAAATCTTTATAGATTTGAGTT
*
17924453 TCTCAA
66 TTTCAA
* * ** * * *
17924459 CTAAGAAAAGAAGCTTTATAGGTTGAGCATTTCAA-C-AGGAAAGAAA-CTTTATAGGTTT-AAT
1 CCAAGGAAAGAAGCTTTATAAATTGAGTATTTCAACCAAGG-AAGAAATCTTTATAGATTTGAGT
*
17924520 ATTTCAA
65 TTTTCAA
* * * * * *
17924527 CCAAGGAAAAAAGTTTTACAAGTTGAGTGTCTCAACCAAG
1 CCAAGGAAAGAAGCTTTATAAATTGAGTATTTCAACCAAG
17924567 AAAAGAAGCT
Statistics
Matches: 192, Mismatches: 46, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
68 73 0.38
69 25 0.13
70 68 0.35
71 7 0.04
72 19 0.10
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (71 bp):
CCAAGGAAAGAAGCTTTATAAATTGAGTATTTCAACCAAGGAAGAAATCTTTATAGATTTGAGTT
TTTCAA
Found at i:17924501 original size:103 final size:103
Alignment explanation
Indices: 17924392--17924588 Score: 261
Period size: 103 Copynumber: 1.9 Consensus size: 103
17924382 TTTTGAACTG
* * * * * * *
17924392 AGGAAAGAAGCTTTATATCTTGAGTATTTCAACTAA-GAAAGGAAGCTTTATAGGTTGAATATCT
1 AGGAAAGAAACTTTATAGCTTGAATATTTCAACCAAGGAAA-AAAGCTTTACAAGTTGAATATCT
*
17924456 CAACTAAGAAAAGAAGCTTTATAGGTTGAGCATTTCAAC
65 CAACCAAGAAAAGAAGCTTTATAGGTTGAGCATTTCAAC
* * * * *
17924495 AGGAAAGAAACTTTATAGGTTTAATATTTCAACCAAGGAAAAAAGTTTTACAAGTTGAGTGTCTC
1 AGGAAAGAAACTTTATAGCTTGAATATTTCAACCAAGGAAAAAAGCTTTACAAGTTGAATATCTC
17924560 AACCAAGAAAAGAAGCTTTATAGGTTGAG
66 AACCAAGAAAAGAAGCTTTATAGGTTGAG
17924589 TATCCTAACA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
103 76 0.95
104 4 0.05
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (103 bp):
AGGAAAGAAACTTTATAGCTTGAATATTTCAACCAAGGAAAAAAGCTTTACAAGTTGAATATCTC
AACCAAGAAAAGAAGCTTTATAGGTTGAGCATTTCAAC
Found at i:17924509 original size:33 final size:34
Alignment explanation
Indices: 17924224--17924591 Score: 208
Period size: 35 Copynumber: 10.6 Consensus size: 34
17924214 ACCAAAGAAG
* * *
17924224 GAAGCTTCATAGGTTGAGTATTTTGC-CCAAGGAAA
1 GAAGCTTTATAGGTTGAGTA-TTT-CAACTAGGAAA
* * * * *
17924259 GAAGC-TTATAAGTTCAGGATCTCAATCAAGG-AA
1 GAAGCTTTATAGGTTGAGTATTTCAA-CTAGGAAA
* * * * *
17924292 GAAATCTTTATAGATTTGAGTTTTTCAACCAAAGATAA
1 G-AAGCTTTATAG-GTTGAGTATTTCAA-CTAGGA-AA
* * * *
17924330 GAGGCTTTATAGATTGTGTATTTCAACCAAGG-AA
1 GAAGCTTTATAGGTTGAGTATTTCAA-CTAGGAAA
** * * *
17924364 -AATTTTTATAGATTGAGTTTTTGAACTGAGGAAA
1 GAAGCTTTATAGGTTGAGTATTTCAACT-AGGAAA
** *
17924398 GAAGCTTTATATCTTGAGTATTTCAACTAAGAAA
1 GAAGCTTTATAGGTTGAGTATTTCAACTAGGAAA
* * *
17924432 GGAAGCTTTATAGGTTGAATATCTCAACTAAGAAAA
1 -GAAGCTTTATAGGTTGAGTATTTCAACT-AGGAAA
*
17924468 GAAGCTTTATAGGTTGAGCATTTCAAC-AGGAAA
1 GAAGCTTTATAGGTTGAGTATTTCAACTAGGAAA
* * * *
17924501 GAAACTTTATAGGTTTAATATTTCAACCAAGGAAA
1 GAAGCTTTATAGGTTGAGTATTTCAA-CTAGGAAA
* * * * * * * *
17924536 AAAGTTTTACAAGTTGAGTGTCTCAACCAAGAAAA
1 GAAGCTTTATAGGTTGAGTATTTCAA-CTAGGAAA
17924571 GAAGCTTTATAGGTTGAGTAT
1 GAAGCTTTATAGGTTGAGTAT
17924592 CCTAACACAG
Statistics
Matches: 255, Mismatches: 64, Indels: 28
0.73 0.18 0.08
Matches are distributed among these distances:
32 2 0.01
33 54 0.21
34 28 0.11
35 126 0.49
36 33 0.13
37 9 0.04
38 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (34 bp):
GAAGCTTTATAGGTTGAGTATTTCAACTAGGAAA
Found at i:17925156 original size:35 final size:34
Alignment explanation
Indices: 17925083--17925254 Score: 129
Period size: 35 Copynumber: 5.1 Consensus size: 34
17925073 AACATAGTCT
* * *
17925083 AACCTATAAAGCTTTCTTTATTGGTTG--ATACTC
1 AACCTATAAA-ATTTCTTTCTTGGTTGAAAAACTC
*
17925116 AACCTATAAAATTTCTTTCCTTGATTGAAAAACTC
1 AACCTATAAAATTTCTTT-CTTGGTTGAAAAACTC
* * **
17925151 AACCTATAAAA---CTTTCTCGGTTGAGATCCTC
1 AACCTATAAAATTTCTTTCTTGGTTGAAAAACTC
* * * * *
17925182 AAAACTATAAAGCTTTCTTTATTGGTTGAGATACTC
1 -AACCTATAAA-ATTTCTTTCTTGGTTGAAAAACTC
**
17925218 AACCTATAAAGCTTCTTTCCTTGGTTGAAAAACTC
1 AACCTATAAAATTTCTTT-CTTGGTTGAAAAACTC
17925253 AA
1 AA
17925255 TCGATAAAGC
Statistics
Matches: 110, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
31 11 0.10
32 20 0.18
33 16 0.15
34 6 0.05
35 40 0.36
36 17 0.15
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (34 bp):
AACCTATAAAATTTCTTTCTTGGTTGAAAAACTC
Found at i:17927359 original size:2 final size:2
Alignment explanation
Indices: 17927352--17927384 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17927342 CTAAGCAATA
17927352 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17927385 AACCCATTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17928854 original size:17 final size:17
Alignment explanation
Indices: 17928800--17928857 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
17928790 CGATTATCAA
17928800 ATTAATTTTAATTTATTT
1 ATTAATTTTAATTT-TTT
*** **
17928818 -TTAAAAATAATTTTGA
1 ATTAATTTTAATTTTTT
17928834 ATTAATTTTAATTTTTT
1 ATTAATTTTAATTTTTT
17928851 ATTAATT
1 ATTAATT
17928858 CAACTTTCGA
Statistics
Matches: 29, Mismatches: 10, Indels: 3
0.69 0.24 0.07
Matches are distributed among these distances:
16 1 0.03
17 28 0.97
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTAATTTTAATTTTTT
Found at i:17932771 original size:19 final size:18
Alignment explanation
Indices: 17932747--17932792 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
17932737 TTCTAAACAT
* *
17932747 TTTATATTAATTTTTATGG
1 TTTATATT-ATGTTTATGC
17932766 TTTATATT-TGTTTATGC
1 TTTATATTATGTTTATGC
17932783 TTTATATTAT
1 TTTATATTAT
17932793 AAACATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 15 0.62
18 1 0.04
19 8 0.33
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.65
Consensus pattern (18 bp):
TTTATATTATGTTTATGC
Found at i:17935196 original size:18 final size:16
Alignment explanation
Indices: 17935158--17935203 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 16
17935148 ATAAAAATAT
17935158 TAATA-CAACATCATC
1 TAATATCAACATCATC
17935173 -AATATCAACATCATAC
1 TAATATCAACATCAT-C
*
17935189 ATAATATCATCATCA
1 -TAATATCAACATCA
17935204 ATAACAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 1 0.04
18 12 0.46
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (16 bp):
TAATATCAACATCATC
Found at i:17935207 original size:15 final size:16
Alignment explanation
Indices: 17935158--17935207 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
17935148 ATAAAAATAT
17935158 TAATACAACATCATCAA
1 TAAT-CAACATCATCAA
17935175 T-ATCAACATCAT-ACA
1 TAATCAACATCATCA-A
*
17935190 TAAT-ATCATCATCAA
1 TAATCAACATCATCAA
17935205 TAA
1 TAA
17935208 CAATCAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 22 0.76
16 5 0.17
17 1 0.03
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (16 bp):
TAATCAACATCATCAA
Found at i:17935864 original size:33 final size:34
Alignment explanation
Indices: 17935793--17935870 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
17935783 TTAAAAATAG
17935793 ATTTTCAAGAAAACTTGAAGCCTCTTGAAAATGA
1 ATTTTCAAGAAAACTTGAAGCCTCTTGAAAATGA
* * * *
17935827 ATTTTGAAGAAGACTTGAGGCCTCTTG-GAATGA
1 ATTTTCAAGAAAACTTGAAGCCTCTTGAAAATGA
*
17935860 ATTTTCGAGAA
1 ATTTTCAAGAA
17935871 GGCTTCAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
33 14 0.37
34 24 0.63
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (34 bp):
ATTTTCAAGAAAACTTGAAGCCTCTTGAAAATGA
Found at i:17938893 original size:2 final size:2
Alignment explanation
Indices: 17938886--17938913 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17938876 ACCCCTGGAA
17938886 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
17938914 TAAATTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17939750 original size:15 final size:15
Alignment explanation
Indices: 17939730--17939762 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17939720 GCTGCAGGGA
*
17939730 TTCCTCATCTTCATC
1 TTCCTCATCCTCATC
17939745 TTCCTCATCCTCATC
1 TTCCTCATCCTCATC
17939760 TTC
1 TTC
17939763 ATTTTCTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.42, G:0.00, T:0.45
Consensus pattern (15 bp):
TTCCTCATCCTCATC
Found at i:17945332 original size:31 final size:31
Alignment explanation
Indices: 17945294--17945352 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
17945284 CGGTTGGATT
*
17945294 TTCCGGCCAACCTTGAAGTTTCCGGCGAACA
1 TTCCGGCCAACATTGAAGTTTCCGGCGAACA
17945325 TTCCGGCCAACATTGAAGTTTCCGGCGA
1 TTCCGGCCAACATTGAAGTTTCCGGCGA
17945353 CCTGCCCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (31 bp):
TTCCGGCCAACATTGAAGTTTCCGGCGAACA
Found at i:17945388 original size:20 final size:20
Alignment explanation
Indices: 17945365--17945405 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17945355 TGCCCAGTTT
17945365 CCGGCGAAAAATCCCAGAAA
1 CCGGCGAAAAATCCCAGAAA
*
17945385 CCGGCGAAGAATCCCAGAAA
1 CCGGCGAAAAATCCCAGAAA
17945405 C
1 C
17945406 TGGTGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.32, G:0.22, T:0.05
Consensus pattern (20 bp):
CCGGCGAAAAATCCCAGAAA
Found at i:17945774 original size:5 final size:5
Alignment explanation
Indices: 17945764--17945806 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
17945754 TTTCTTCCTT
*
17945764 GAGCC GAGCC GAGCC GAGCC GAGCC GCGCC GATAGCC GAGCC G
1 GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC G--AGCC GAGCC G
17945807 CTCCAGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 30 0.88
7 4 0.12
ACGTcount: A:0.19, C:0.40, G:0.40, T:0.02
Consensus pattern (5 bp):
GAGCC
Found at i:17945820 original size:1 final size:1
Alignment explanation
Indices: 17945814--17945838 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
17945804 CCGCTCCAGG
17945814 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
17945839 ATTTGACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17946281 original size:160 final size:159
Alignment explanation
Indices: 17945848--17946477 Score: 1006
Period size: 159 Copynumber: 4.0 Consensus size: 159
17945838 TATTTGACTT
* *
17945848 TGATTTTGATTTTTTTTTATTTATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTT
1 TGATTTTGATTTTTTTCT-TTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTT
*
17945913 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTG
65 TTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTG
***
17945978 AGAATAATTTTTGATAATTAATTACTTGGC
130 AGAATAATTTCCAATAATTAATTACTTGGC
17946008 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
1 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
17946073 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
66 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
*
17946138 GAATAATTTCCGATAATTAATTACTTGGC
131 GAATAATTTCCAATAATTAATTACTTGGC
* *
17946167 TGATTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTT
1 TGATTTTGA--TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTT
* *
17946231 TTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATT
64 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
*
17946296 GAGAATAATTTCCAATAATT-A--AC-TGGA
129 GAGAATAATTTCCAATAATTAATTACTTGGC
* * * *
17946323 TGATTTTGA--TTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGT-GAAACAGTAGTTTT
1 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
17946385 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
66 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
* * *
17946450 GAATCATTTCCAACAACTAATTACTTGG
131 GAATAATTTCCAATAATTAATTACTTGG
17946478 TAAAATTTTA
Statistics
Matches: 446, Mismatches: 18, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
152 129 0.29
153 1 0.00
155 2 0.00
156 15 0.03
157 2 0.00
159 147 0.33
160 110 0.25
161 40 0.09
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (159 bp):
TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
GAATAATTTCCAATAATTAATTACTTGGC
Found at i:17950104 original size:13 final size:13
Alignment explanation
Indices: 17950086--17950110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17950076 ATCAACAATG
17950086 GATGAAAAAAAAT
1 GATGAAAAAAAAT
17950099 GATGAAAAAAAA
1 GATGAAAAAAAA
17950111 AAAGAAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GATGAAAAAAAAT
Found at i:17950110 original size:15 final size:15
Alignment explanation
Indices: 17950090--17950139 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
17950080 ACAATGGATG
* *
17950090 AAAAAAAATGATGAA
1 AAAAAAAAAGAAGAA
17950105 AAAAAAAAAGAAGAA
1 AAAAAAAAAGAAGAA
17950120 AAAAGGAAAAA-AAGAA
1 AAAA--AAAAAGAAGAA
17950136 AAAA
1 AAAA
17950140 TGAGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 17 0.55
16 9 0.29
17 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAGAAGAA
Found at i:17950129 original size:16 final size:18
Alignment explanation
Indices: 17950109--17950153 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
17950099 GATGAAAAAA
17950109 AAAAAGAAGAAAAAA-G-G
1 AAAAA-AAGAAAAAATGAG
17950126 AAAAAAAGAAAAAATGAG
1 AAAAAAAGAAAAAATGAG
17950144 AAAAAAAGAA
1 AAAAAAAGAA
17950154 GGAAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
18 11 0.42
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAAAAAATGAG
Found at i:17950148 original size:37 final size:37
Alignment explanation
Indices: 17950107--17950181 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
17950097 ATGATGAAAA
17950107 AAAAAAAGAA-GAAAAAAGGAAAAAAAGAAAAAATGAG
1 AAAAAAAGAAGGAAAAAAGGAAAAAAAGAAAAAA-GAG
* * *
17950144 AAAAAAAGAAGGAAAAAATGAGAAAATGAAAAAAGAG
1 AAAAAAAGAAGGAAAAAAGGAAAAAAAGAAAAAAGAG
17950181 A
1 A
17950182 TCCAAATTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (37 bp):
AAAAAAAGAAGGAAAAAAGGAAAAAAAGAAAAAAGAG
Found at i:17950156 original size:30 final size:29
Alignment explanation
Indices: 17950113--17950177 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
17950103 AAAAAAAAAA
*
17950113 AGAAGAAAAAAGGAAAAAAAGAAAAAATG
1 AGAAAAAAAAAGGAAAAAAAGAAAAAATG
* *
17950142 AGAAAAAAAGAAGGAAAAAATGAGAAAATG
1 AGAAAAAAA-AAGGAAAAAAAGAAAAAATG
17950172 A-AAAAA
1 AGAAAAA
17950178 GAGATCCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (29 bp):
AGAAAAAAAAAGGAAAAAAAGAAAAAATG
Found at i:17950161 original size:22 final size:21
Alignment explanation
Indices: 17950107--17950169 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 21
17950097 ATGATGAAAA
17950107 AAAAAAAGAAGAAAAAA-G-G
1 AAAAAAAGAAGAAAAAATGAG
17950126 --AAAAA-AAGAAAAAATGAG
1 AAAAAAAGAAGAAAAAATGAG
17950144 AAAAAAAGAAGGAAAAAATGAG
1 AAAAAAAGAA-GAAAAAATGAG
17950166 AAAA
1 AAAA
17950170 TGAAAAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
16 9 0.24
17 6 0.16
18 1 0.03
20 5 0.13
21 2 0.05
22 15 0.39
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (21 bp):
AAAAAAAGAAGAAAAAATGAG
Found at i:17950168 original size:10 final size:9
Alignment explanation
Indices: 17950108--17950169 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 9
17950098 TGATGAAAAA
17950108 AAAAAAGAAG
1 AAAAAAG-AG
17950118 AAAAAAG-G
1 AAAAAAGAG
17950126 AAAAAA-AG
1 AAAAAAGAG
17950134 AAAAAATGAG
1 AAAAAA-GAG
17950144 AAAAAAAGAAGG
1 -AAAAAAG-A-G
17950156 AAAAAATGAG
1 AAAAAA-GAG
17950166 AAAA
1 AAAA
17950170 TGAAAAAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
8 14 0.31
10 15 0.33
11 14 0.31
12 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:17950225 original size:1 final size:1
Alignment explanation
Indices: 17950219--17950243 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
17950209 TTTGGTACCC
17950219 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
17950244 TCCAGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17951489 original size:82 final size:82
Alignment explanation
Indices: 17951365--17952233 Score: 1395
Period size: 82 Copynumber: 10.6 Consensus size: 82
17951355 ATGATCGTCT
17951365 AGGAG-AATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
17951427 TCCGTTGCCTCTGTTTAG
65 TCCGTTGCCTCTGTTTAG
17951445 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT
17951510 CCGTTGCCTCTGTTTAG
66 CCGTTGCCTCTGTTTAG
17951527 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAG
*
17951592 TTCTGTTGCCTCTGTTTAG
64 TTCCGTTGCCTCTGTTTAG
17951611 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAG
17951676 -T-CGTGGTGCCTCTGTTTAG
64 TTCCGT--TGCCTCTGTTTAG
17951695 AGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAA-TTATTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
17951757 TCCGTTGCCTCTGTTTAG
65 TCCGTTGCCTCTGTTTAG
17951775 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCAAAGT
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
17951839 TCCGTTGCCTCTGTTTAG
65 TCCGTTGCCTCTGTTTAG
17951857 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG-T
17951922 TCCGTTGCCTCTGTTTAG
65 TCCGTTGCCTCTGTTTAG
* * * *
17951940 AGGAGCAATTTATTTTTCCAAAGTCGTGTTGCCTCTGTTTAGA-GAGCAATTTACTTTCCAAAG-
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
17952003 TCCGTTGCCTCTGTTTAG
65 TCCGTTGCCTCTGTTTAG
17952021 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAG
17952086 TTCCGTTGCCTCTGTTTAG
64 TTCCGTTGCCTCTGTTTAG
* * * * *
17952105 AGGAGCAATTTATTTTTTCCAAGTCGTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-
1 AGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
17952169 TCCGTTGCCTCTGTTTAG
65 TCCGTTGCCTCTGTTTAG
* * *
17952187 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
17952234 TTCGGCCAAA
Statistics
Matches: 745, Mismatches: 21, Indels: 45
0.92 0.03 0.06
Matches are distributed among these distances:
80 54 0.07
81 145 0.19
82 214 0.29
83 117 0.16
84 210 0.28
85 5 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT
CCGTTGCCTCTGTTTAG
Found at i:17951563 original size:42 final size:39
Alignment explanation
Indices: 17951365--17952233 Score: 1145
Period size: 42 Copynumber: 21.2 Consensus size: 39
17951355 ATGATCGTCT
17951365 AGGAG-AATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAG
*
17951404 AGGAGCAATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTTGCCTCTGTTTAG
17951445 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAG
*
17951486 AGGAGCAATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTTGCCTCTGTTTAG
17951527 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGT--TGCCTCTGTTTAG
*
17951569 AGGAGCAATTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAG-TC-GTTGCCTCTGTTTAG
17951611 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGT--TGCCTCTGTTTAG
*
17951653 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAG
17951695 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAG
*
17951735 AGGAGCAA-TTATTTTTCAAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTTGCCTCTGTTTAG
17951775 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGT--TGCCTCTGTTTAG
17951817 AGGAGCAATTTA-TTTTCAAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTTGCCTCTGTTTAG
17951857 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAG
*
17951898 AGGAGCAATTTATTTTTCAAAGTTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG--T-CGTTGCCTCTGTTTAG
*
17951940 AGGAGCAATTTATTTTTCCAAAGTCGTGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTC--GTTGCCTCTGTTTAG
*
17951982 A-GAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTTAG
17952021 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGT--TGCCTCTGTTTAG
*
17952063 AGGAGCAATTTATTTTTTCAAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTTCAAAG-T-CGTTGCCTCTGTTTAG
* *
17952105 AGGAGCAATTTATTTTTTCCAAGTCGTGTTGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTTCAAAGTC--GTTGCCTCTGTTTAG
*
17952147 AGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTTAG
*
17952187 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTT--GCCTCTGTTTAG
17952228 AGGAGC
1 AGGAGC
17952234 TTCGGCCAAA
Statistics
Matches: 762, Mismatches: 21, Indels: 92
0.87 0.02 0.11
Matches are distributed among these distances:
39 48 0.06
40 160 0.21
41 214 0.28
42 313 0.41
43 19 0.02
44 8 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (39 bp):
AGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAG
Found at i:17952082 original size:330 final size:330
Alignment explanation
Indices: 17951365--17952233 Score: 1463
Period size: 330 Copynumber: 2.6 Consensus size: 330
17951355 ATGATCGTCT
17951365 AGGAG-AATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTC
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTC
17951429 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
*
17951494 TTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
131 TTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
*
17951559 CTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTAGAGGAGCAATTTAC
196 CTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
*
17951624 TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCT
261 TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGT-GTGCCTCT
17951689 GTTTAG
325 GTTTAG
17951695 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAA-TTATTTTTCAAAGTTC
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTC
17951759 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
17951824 ATTTA-TTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTG
130 ATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTG
17951887 CCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAGTTTCCGTTGCCTCTGTTTAGAGGAGCAATTT
195 CCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-TTCCGTTGCCTCTGTTTAGAGGAGCAATTT
* * *
17951951 ATTTTTCCAAAGTCGTGTTGCCTCTGTTTAGA-GAGCAATTTA-CTTTCCAAAGTCCGT-TGCCT
259 ACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGT-CGTGTGCCT
17952013 CTGTTTAG
323 CTGTTTAG
17952021 AGGAGCAATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAA
1 AGGAGCAATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAA
* * *
17952085 GTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCCAAGTCGTGTTGCCTCTGTTTAGAGG
62 GTTCCGTTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
*
17952150 AGCAATTTACTTTCCAAAG-TCCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGT
126 AGCAATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGT
* * *
17952213 TGAGTCTCTGTTTAGAGGAGC
191 GGTGCCTCTGTTTAGAGGAGC
17952234 TTCGGCCAAA
Statistics
Matches: 515, Mismatches: 12, Indels: 24
0.93 0.02 0.04
Matches are distributed among these distances:
326 35 0.07
327 14 0.03
328 39 0.08
329 105 0.20
330 232 0.45
331 90 0.17
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (330 bp):
AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTC
CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
TTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGTGCCTCTG
TTTAG
Found at i:17952259 original size:13 final size:13
Alignment explanation
Indices: 17952241--17952347 Score: 92
Period size: 13 Copynumber: 7.6 Consensus size: 13
17952231 AGCTTCGGCC
17952241 AAAAAAAAAACAA
1 AAAAAAAAAACAA
17952254 AAAAAAAAAACAA
1 AAAAAAAAAACAA
*
17952267 AAAAACAAAACAA
1 AAAAAAAAAACAA
17952280 AAAAATCAAAAA-AA
1 AAAAA--AAAAACAA
17952294 AAAAATCAAAAA-AA
1 AAAAA--AAAAACAA
*
17952308 TTAAAAAAAAATAAAA
1 --AAAAAAAAA-ACAA
17952324 TAAAAAAAAAATCAA
1 -AAAAAAAAAA-CAA
17952339 AAATAAAAA
1 AAA-AAAAA
17952348 TGTTGAGTTG
Statistics
Matches: 83, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
13 30 0.36
14 24 0.29
15 22 0.27
16 7 0.08
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:17952292 original size:36 final size:34
Alignment explanation
Indices: 17952241--17952347 Score: 119
Period size: 36 Copynumber: 3.1 Consensus size: 34
17952231 AGCTTCGGCC
17952241 AAAAAAAAAA-C-AAAAAAAAAAAACAAAAAAACA
1 AAAAAAAAAATCAAAAAAAAAAAAACAAAAAAA-A
* *
17952274 AAACAAAAAAATCAAAAAAAAAAAATCAAAAAAAT
1 AAA-AAAAAAATCAAAAAAAAAAAAACAAAAAAAA
* * *
17952309 TAAAAAAAAATAAAATAAAAAAAAAATCAAAAATAA
1 AAAAAAAAAATCAAA-AAAAAAAAAA-CAAAAAAAA
17952345 AAA
1 AAA
17952348 TGTTGAGTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
33 3 0.05
34 18 0.30
35 12 0.20
36 28 0.46
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (34 bp):
AAAAAAAAAATCAAAAAAAAAAAAACAAAAAAAA
Found at i:17952347 original size:1 final size:1
Alignment explanation
Indices: 17952241--17952334 Score: 80
Period size: 1 Copynumber: 94.0 Consensus size: 1
17952231 AGCTTCGGCC
* * * * ** **
17952241 AAAAAAAAAACAAAAAAAAAAAACAAAAAAACAAAACAAAAAAATCAAAAAAAAAAAATCAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
17952306 AATTAAAAAAAAATAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17952335 TCAAAAATAA
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.87, C:0.06, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:17952348 original size:13 final size:12
Alignment explanation
Indices: 17952240--17952348 Score: 88
Period size: 12 Copynumber: 9.0 Consensus size: 12
17952230 GAGCTTCGGC
17952240 CAAAAAAAAAA-
1 CAAAAAAAAAAT
17952251 CAAAAAAAAAA-
1 CAAAAAAAAAAT
*
17952262 -AACAAAAAAA-
1 CAAAAAAAAAAT
17952272 CAAAACAAAAAAAT
1 C-AAA-AAAAAAAT
17952286 CAAAAAAAAAAAAT
1 C--AAAAAAAAAAT
17952300 CAAAAAAATTAAA-
1 CAAAAAAA--AAAT
17952313 -AAAAAATAAAAT
1 CAAAAAA-AAAAT
17952325 -AAAAAAAAAAT
1 CAAAAAAAAAAT
17952336 CAAAAATAAAAAT
1 CAAAAA-AAAAAT
17952349 GTTGAGTTGA
Statistics
Matches: 85, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
10 9 0.11
11 19 0.22
12 26 0.31
13 14 0.16
14 13 0.15
15 4 0.05
ACGTcount: A:0.84, C:0.07, G:0.00, T:0.08
Consensus pattern (12 bp):
CAAAAAAAAAAT
Found at i:17952471 original size:20 final size:20
Alignment explanation
Indices: 17952448--17952512 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
17952438 ATCAGGTCCG
*
17952448 GGCCCGGATCAATTGGTCCT
1 GGCCCGGATCAATTGGGCCT
17952468 GGCCCGGATCAATTGGGCCT
1 GGCCCGGATCAATTGGGCCT
* * *
17952488 GACCCAGATCATTTGGGCCT
1 GGCCCGGATCAATTGGGCCT
17952508 GGCCC
1 GGCCC
17952513 AAATGGGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.15, C:0.32, G:0.31, T:0.22
Consensus pattern (20 bp):
GGCCCGGATCAATTGGGCCT
Found at i:17952684 original size:3 final size:3
Alignment explanation
Indices: 17952676--17952704 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17952666 AGTTATATAT
17952676 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17952705 TTTGTAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17953349 original size:19 final size:19
Alignment explanation
Indices: 17953325--17953371 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
17953315 TTCCGGCCAT
17953325 ATTCCGGCAAAATTTCCAG
1 ATTCCGGCAAAATTTCCAG
* *
17953344 ATTCCGGCGACATTTCCAG
1 ATTCCGGCAAAATTTCCAG
*
17953363 AATCCGGCA
1 ATTCCGGCA
17953372 CCGGTGTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (19 bp):
ATTCCGGCAAAATTTCCAG
Found at i:17955928 original size:15 final size:14
Alignment explanation
Indices: 17955908--17955937 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
17955898 CAGAAATGCT
17955908 AGAGAAGGCTAGAAG
1 AGAGAAGGCTA-AAG
17955923 AGAGAAGGCTAAAG
1 AGAGAAGGCTAAAG
17955937 A
1 A
17955938 AGGAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.07, G:0.37, T:0.07
Consensus pattern (14 bp):
AGAGAAGGCTAAAG
Found at i:17956258 original size:41 final size:40
Alignment explanation
Indices: 17956134--17956363 Score: 322
Period size: 41 Copynumber: 5.6 Consensus size: 40
17956124 AAACGACACC
*
17956134 AAGTTCGTTGCCTCTGTTTAGAGGAGCAGTTTACTTTTTC-
1 AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCA
*
17956174 AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCA
1 AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCA
17956215 AAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCA
1 AAGTT-CGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCA
* *
17956256 AAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCA
1 AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCA
17956297 AAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCA
1 AAGTT-CGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCA
*
17956338 AAG-TCGTTGAGTCTCTGTTTAGAGGA
1 AAGTTCGTT--GCCTCTGTTTAGAGGA
17956364 ACTTCGGCAA
Statistics
Matches: 174, Mismatches: 8, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
39 7 0.04
40 40 0.23
41 95 0.55
42 29 0.17
43 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (40 bp):
AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCA
Found at i:17956300 original size:82 final size:82
Alignment explanation
Indices: 17956134--17956363 Score: 362
Period size: 82 Copynumber: 2.8 Consensus size: 82
17956124 AAACGACACC
* *
17956134 AAGTT-CGTTGCCTCTGTTTAGAGGAGCAGTTTACTTTTTC-AAGTTCGTTG-CCTCTGTTTAGA
1 AAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAG-TCGTGGTCCTCTGTTTAGA
17956196 GGAGCAATTTACTTTTCCA
64 GGAGCAATTTACTTTTCCA
17956215 AAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTACCTCTGTTTAGAG
1 AAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGT-CCTCTGTTTAGAG
17956280 GAGCAATTTACTTTT-CA
65 GAGCAATTTACTTTTCCA
17956297 AAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAGT-CTCTGTTTAGA
1 AAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCG-TG-GTCCTCTGTTTAGA
17956361 GGA
64 GGA
17956364 ACTTCGGCAA
Statistics
Matches: 141, Mismatches: 2, Indels: 11
0.92 0.01 0.07
Matches are distributed among these distances:
81 16 0.11
82 93 0.66
83 30 0.21
84 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (82 bp):
AAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTCCTCTGTTTAGAGG
AGCAATTTACTTTTCCA
Found at i:17956378 original size:1 final size:1
Alignment explanation
Indices: 17956372--17956481 Score: 94
Period size: 1 Copynumber: 110.0 Consensus size: 1
17956362 GAACTTCGGC
* * * * * * * *
17956372 AAAAAAAAAAAAAAAACAAAACAAAAAAACAAAAAATAAGAAAAAAACAAAAAATAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *** * *
17956437 CAAAAAAAAATTGAAAAAAAAAACAAAAAAACAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17956482 GTTGCCTCTA
Statistics
Matches: 84, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.87, C:0.06, G:0.03, T:0.04
Consensus pattern (1 bp):
A
Found at i:17956646 original size:110 final size:111
Alignment explanation
Indices: 17956450--17956665 Score: 337
Period size: 110 Copynumber: 2.0 Consensus size: 111
17956440 AAAAAAATTG
*
17956450 AAAAAAAAAACAAAAAAACAAAAAAAAAAAAAGTTGCCTCTATTTAGAGGAGCTTTGTTTATGTT
1 AAAAAAAAAACAAAAAAACAAAAAAAAAAAAAGTTGCCTATATTTAGAGGAGCTTTGTTTATGTT
* *
17956515 TCTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCTTTGATCATTTTA
66 TCTCAAAATCATTGAACCTCTGCTTAGAGGAGCTTTGATCATTTTA
* *
17956561 AAAAAAAAAAGC-AAAAAA-AATAACAAAAAAAGTTGCCTATATTTAGAGGAGCTTTGTTTATGT
1 AAAAAAAAAA-CAAAAAAACAAAAAAAAAAAAAGTTGCCTATATTTAGAGGAGCTTTGTTTATGT
* * *
17956624 TTTTCAAAATCATTGAATCTCTGTTTAGAGGAGCTTTGATCA
65 TTCTCAAAATCATTGAACCTCTGCTTAGAGGAGCTTTGATCA
17956666 AGATTTTTTT
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
110 79 0.82
111 16 0.17
112 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (111 bp):
AAAAAAAAAACAAAAAAACAAAAAAAAAAAAAGTTGCCTATATTTAGAGGAGCTTTGTTTATGTT
TCTCAAAATCATTGAACCTCTGCTTAGAGGAGCTTTGATCATTTTA
Found at i:17957168 original size:15 final size:15
Alignment explanation
Indices: 17957131--17957169 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
17957121 GGAGAAATCT
*
17957131 GAATAAGAGGAGTCC
1 GAATAGGAGGAGTCC
* *
17957146 TAAGAGGAGGAGTCC
1 GAATAGGAGGAGTCC
17957161 GAATAGGAG
1 GAATAGGAG
17957170 AGAAAGAAGA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.38, T:0.13
Consensus pattern (15 bp):
GAATAGGAGGAGTCC
Found at i:17958622 original size:41 final size:41
Alignment explanation
Indices: 17958577--17958837 Score: 366
Period size: 41 Copynumber: 6.3 Consensus size: 41
17958567 AGCTTGGCGA
* *
17958577 CTGTTTAGAGGAGCAGTTTACTTTTCAAAGTCGTGGTGCCT
1 CTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCT
*
17958618 CTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCT
1 CTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCT
17958660 CTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCT
1 CTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCT
*
17958701 CTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCT
1 CTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCT
* *
17958743 CTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGT--TACCT
1 CTGTTGAGAGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCT
* * * *
17958783 CTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCT
1 CTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCT
*
17958824 CTGTTTAGAGGAGC
1 CTGTTGAGAGGAGC
17958838 TTCGGCCAAA
Statistics
Matches: 201, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
39 6 0.03
40 29 0.14
41 84 0.42
42 82 0.41
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
CTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCT
Found at i:17958680 original size:83 final size:83
Alignment explanation
Indices: 17958577--17958837 Score: 393
Period size: 83 Copynumber: 3.2 Consensus size: 83
17958567 AGCTTGGCGA
* *
17958577 CTGTTTAGAGGAGCAGTTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTT
1 CTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTT
17958642 TCCAAAGTCGTGGTGCCT
66 TCCAAAGTCGTGGTGCCT
17958660 CTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTT
1 CTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTT
17958725 TCCAAAGTCGTGGTGCCT
66 TCCAAAGTCGTGGTGCCT
* * * *
17958743 CTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGT--TACCTCTGTTTAGAGGAGCAATTTA-CT
1 CTGTTGAGAGGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTGAGAGGAGCAATTTATTT
* * * *
17958805 TTCAAAAGTCGTTGAGTCT
65 TTCCAAAGTCGTGGTGCCT
*
17958824 CTGTTTAGAGGAGC
1 CTGTTGAGAGGAGC
17958838 TTCGGCCAAA
Statistics
Matches: 166, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
81 29 0.17
82 23 0.14
83 111 0.67
84 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (83 bp):
CTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTT
TCCAAAGTCGTGGTGCCT
Found at i:17958860 original size:9 final size:9
Alignment explanation
Indices: 17958846--17958957 Score: 106
Period size: 9 Copynumber: 12.6 Consensus size: 9
17958836 GCTTCGGCCA
17958846 AAAAAAAAC
1 AAAAAAAAC
17958855 AAAAAAAA-
1 AAAAAAAAC
*
17958863 AAAAACAAAA
1 AAAAA-AAAC
17958873 AAACAAAAAC
1 AAA-AAAAAC
*
17958883 AAAAAAATC
1 AAAAAAAAC
*
17958892 AAAAAAATC
1 AAAAAAAAC
*
17958901 AAAAAAATC
1 AAAAAAAAC
*
17958910 AAAAAAATC
1 AAAAAAAAC
17958919 -AAAAAAA-
1 AAAAAAAAC
*
17958926 AATAAAAAC
1 AAAAAAAAC
17958935 AAAAATAAA-
1 AAAAA-AAAC
*
17958944 AAAAAAATC
1 AAAAAAAAC
17958953 AAAAA
1 AAAAA
17958958 TAAAAATGTT
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
8 19 0.21
9 57 0.63
10 12 0.13
11 2 0.02
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:17958963 original size:1 final size:1
Alignment explanation
Indices: 17958845--17958950 Score: 77
Period size: 1 Copynumber: 106.0 Consensus size: 1
17958835 AGCTTCGGCC
* * * * ** ** **
17958845 AAAAAAAAACAAAAAAAAAAAAACAAAAAAACAAAAACAAAAAAATCAAAAAAATCAAAAAAATC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * *
17958910 AAAAAAATCAAAAAAAAATAAAAACAAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17958951 TCAAAAATAA
Statistics
Matches: 79, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:17959154 original size:14 final size:14
Alignment explanation
Indices: 17959137--17959178 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
17959127 TCTTCTTTTG
17959137 TATT-TTATGTATTC
1 TATTATTAT-TATTC
*
17959151 TATTATTATTATTAT
1 TATTATTATTATT-C
17959166 TATTATTATTATT
1 TATTATTATTATT
17959179 ATGTATATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTATTATTATTC
Found at i:17959159 original size:3 final size:3
Alignment explanation
Indices: 17959151--17959180 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17959141 TTATGTATTC
17959151 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17959181 GTATATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17959812 original size:31 final size:31
Alignment explanation
Indices: 17959774--17959832 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
17959764 CGGTTGGATT
*
17959774 TTCCGGCCAACCTTGAAGTTTCCGGCGAACA
1 TTCCGGCCAACATTGAAGTTTCCGGCGAACA
17959805 TTCCGGCCAACATTGAAGTTTCCGGCGA
1 TTCCGGCCAACATTGAAGTTTCCGGCGA
17959833 CCTGCCCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (31 bp):
TTCCGGCCAACATTGAAGTTTCCGGCGAACA
Found at i:17959871 original size:21 final size:21
Alignment explanation
Indices: 17959846--17959885 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17959836 GCCCAGTTTT
17959846 CGGCGAAA-AATCCCAGAAAAC
1 CGGCGAAAGAAT-CCAGAAAAC
17959867 CGGCGAAAGAATCCAGAAA
1 CGGCGAAAGAATCCAGAAA
17959886 CTGGTGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.47, C:0.25, G:0.23, T:0.05
Consensus pattern (21 bp):
CGGCGAAAGAATCCAGAAAAC
Found at i:17960251 original size:5 final size:5
Alignment explanation
Indices: 17960241--17960283 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
17960231 TTTCTTCCTT
*
17960241 GAGCC GAGCC GAGCC GAGCC GAGCC GCGCC GATAGCC GAGCC G
1 GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC G--AGCC GAGCC G
17960284 CTCCAGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 30 0.88
7 4 0.12
ACGTcount: A:0.19, C:0.40, G:0.40, T:0.02
Consensus pattern (5 bp):
GAGCC
Found at i:17960504 original size:159 final size:158
Alignment explanation
Indices: 17960317--17960949 Score: 981
Period size: 159 Copynumber: 4.0 Consensus size: 158
17960307 TATTTGACTT
*
17960317 TGATTTTGATTTTTTTTTTTATTTATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGT
1 TGATTTTGATTTTTTTCTTTA---ATTAATCCGACGACGGAGCCTCTACAAGT-AAAACAGTAGT
*
17960382 TTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAAT
62 TTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAAT
*
17960447 TGAGAATAATTTTTGATAATTAATTACTTGGC
127 TGAGAATAATTTTCGATAATTAATTACTTGGC
17960479 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTT
1 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGT-AAAACAGTAGTTTT
17960544 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
65 TCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGA
*
17960609 GAATAATTTCCGATAATTAATTACTTGGC
130 GAATAATTTTCGATAATTAATTACTTGGC
* *
17960638 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGA---TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTT
* *
17960703 TTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATT
63 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* *
17960768 GAGAATAATTTTCAATAATT-A--AC-TGGA
128 GAGAATAATTTTCGATAATTAATTACTTGGC
* * * *
17960795 TGATTTTGA--TTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTT
1 TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTT
17960858 CTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAG
66 CTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAG
* * * * *
17960923 AATCATTTCCAACAACTAATTACTTGG
131 AATAATTTTCGATAATTAATTACTTGG
17960950 TAAAATTTTA
Statistics
Matches: 445, Mismatches: 19, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
152 128 0.29
153 1 0.00
155 2 0.00
156 3 0.01
157 12 0.03
158 2 0.00
159 144 0.32
160 1 0.00
161 92 0.21
162 60 0.13
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (158 bp):
TGATTTTGATTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTT
CTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAG
AATAATTTTCGATAATTAATTACTTGGC
Found at i:17962032 original size:19 final size:18
Alignment explanation
Indices: 17962002--17962042 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
17961992 TTATTTAATT
17962002 AAAA-AAATATT-ATATGA
1 AAAATAAATATTAATAT-A
17962019 AAAATAAATAATTAATATA
1 AAAATAAAT-ATTAATATA
17962038 AAAAT
1 AAAAT
17962043 TTATGTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 9 0.43
20 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATAAATATTAATATA
Found at i:17972980 original size:74 final size:73
Alignment explanation
Indices: 17972883--17973025 Score: 189
Period size: 74 Copynumber: 1.9 Consensus size: 73
17972873 TTTAAAATTA
* * * * *
17972883 ATTTATATCCAAATAATATGACACGAA-ATGATACGATTAATACAATTATATACAAATAACATAA
1 ATTTATATCCAAATAATACGACAC-AATACGACACGATTAACACAATTATATACAAATAACACAA
17972947 TTAGACATG
65 TTAGACATG
* * *
17972956 ATTTATTATCTAAATAATACGACACAATACGACACGGTTAACACGATTATATACAAATAACACAA
1 ATTTA-TATCCAAATAATACGACACAATACGACACGATTAACACAATTATATACAAATAACACAA
17973021 TTAGA
65 TTAGA
17973026 TACGATTAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
73 7 0.12
74 53 0.88
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (73 bp):
ATTTATATCCAAATAATACGACACAATACGACACGATTAACACAATTATATACAAATAACACAAT
TAGACATG
Found at i:17980672 original size:11 final size:11
Alignment explanation
Indices: 17980643--17980672 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17980633 TAGAAAGACT
17980643 AAAAAAAG-AA
1 AAAAAAAGTAA
17980653 AAAAAAAGTAA
1 AAAAAAAGTAA
17980664 AAAAAAAGT
1 AAAAAAAGT
17980673 GAAATGAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAAAAAGTAA
Found at i:17980722 original size:2 final size:2
Alignment explanation
Indices: 17980715--17980778 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
17980705 TAGAAGTAAA
17980715 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
17980757 AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG
17980779 CCTAAGTGTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.