Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 69 of 211
Found at i:18277329 original size:120 final size:118
Alignment explanation
Indices: 18275732--18277296 Score: 2255
Period size: 120 Copynumber: 13.1 Consensus size: 118
18275722 TATTTTAACA
* *
18275732 TAATTATTATTAAATATAATTTAGTAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
1 TAATTATTATT-TATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
* *
18275797 TTATATGAATTTTCTAAAATCATAA-ATATAATACTA-AAAATATAATTTAAAA
65 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
* *
18275849 TAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATATTAAATATT
1 TAATTATTATT-TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATT
* * *
18275914 ATTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAA
64 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
*
18275969 TAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATT
1 TAATTATTATT-TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATT
* *
18276034 CTTATATGAATTTTCTAAAATCATAATATATAATACTA-AAAATATAATTTAAAA
64 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
* *
18276088 TAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATT
1 TAATTATTATT-TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATT
* * *
18276153 ATTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAA
64 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
* * *
18276208 TAATTATTATTAAATATAATTTAATAAAAATAAATAATTTAATAAAATTTTTAATATTAAATATT
1 TAATTATTATT-TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATT
*
18276273 CTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
64 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT-AAAT
*** *
18276329 AATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 --TAATTATTATTTATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATAT
18276394 TC-T-TA-GAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
63 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
18276447 TAATTATT-TTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 TAATTATTATTT--ATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
18276511 TCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAA
63 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
* *
18276567 TAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATA
1 TAATTATTATT---TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATA
*
18276632 TTC-T-TA-GAATTTACTAAAAACATAATATATAATACTATAAAATATAATTTAAAT
62 TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
*
18276686 TAATTATT-TTAAATATAA-TTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATT
1 TAATTATTATT-TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATT
* * * * *
18276749 CTTAAATGAATTTGCTAAAATCATAATATATAACACTATAAAATAAAATTTAAAA
64 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
* *
18276804 TAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATA
1 TAATTATTATT---TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATA
18276869 TTC-T-TA-GAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
62 TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
18276923 TAATTATT-TTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 TAATTATTATTT--ATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATAT
*
18276987 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAA
63 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
* * *
18277043 TAATTATTATTAAATATAATTT-TTAAAAATAAATAATTTAATAAAATTCTTAATATTAAATATT
1 TAATTATTATT-TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATT
* * *
18277107 CTTATATGAATTTACTATAATCATAATATATAATACTATAAAATATAATCTAAAA
64 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
* *
18277162 TAATTATTATTAAATATAATGTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATT
1 TAATTATTATT-TATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATT
18277227 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTATAAT
64 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA-AAT
*
18277283 CTACTTTATTATTT
1 -TA-ATTATTATTT
18277297 TTAAACTGCA
Statistics
Matches: 1348, Mismatches: 66, Indels: 63
0.91 0.04 0.04
Matches are distributed among these distances:
115 45 0.03
116 17 0.01
117 129 0.10
118 122 0.09
119 395 0.29
120 453 0.34
121 20 0.01
122 150 0.11
123 17 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (118 bp):
TAATTATTATTTATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAT
Found at i:18278736 original size:49 final size:49
Alignment explanation
Indices: 18278664--18278767 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
18278654 GAAAAAAAAC
* * * *
18278664 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
18278713 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
18278762 AAATTA
1 AAATTA
18278768 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
Found at i:18281096 original size:16 final size:16
Alignment explanation
Indices: 18281077--18281116 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
18281067 TAATAAATTG
18281077 AAATATTAAAAATAAA
1 AAATATTAAAAATAAA
18281093 AAATATTAAAAATAAA
1 AAATATTAAAAATAAA
18281109 AAA-ATTAA
1 AAATATTAA
18281117 TTTAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATATTAAAAATAAA
Found at i:18281181 original size:114 final size:115
Alignment explanation
Indices: 18281049--18281472 Score: 363
Period size: 115 Copynumber: 3.5 Consensus size: 115
18281039 TAAATATATA
* *
18281049 ATTTAATTAATTTTATTTTAATAAATTGAAATA-TTAA-AAATAAAAAATATTAAAAA-TAAAAA
1 ATTTAATT-ATTTTATTTTAACAAA-TGAAATATTTAATAAAT-AAAAATATTAAAAACAAAAAA
*
18281111 AAT-TAAT-TTAATTTAATTAATTTGTTAACACATAATTTAATTAGTTTTATGC
63 AATATAATATT-ATTTAATTAATTTGTAAACACATAATTTAATTAGTTTTATGC
* * ***
18281163 ATTTAATTATTTTTATTTTAACAAATGCATTATTTAATAAATTGGAATATTAAAAACAAAAAAAA
1 ATTTAATTA-TTTTATTTTAACAAATGAAATATTTAATAAATAAAAATATTAAAAACAAAAAAAA
* *
18281228 TATAATATTATTTAATTAATTTGTAAATATATAATTTAATTAGTTTTATGC
65 TATAATATTATTTAATTAATTTGTAAACACATAATTTAATTAGTTTTATGC
* * * *** *
18281279 ATTTAATTATTTTATTTTAACAGATGCATTATTTAATAAATTGGAATATTAAAAATAAAAAATAT
1 ATTTAATTATTTTATTTTAACAAATGAAATATTTAATAAATAAAAATATT---AA-AAACAA-A-
* * * *
18281344 TAAAAATAAATAAAATTTAATTTAATTTAATTAATTTGTAAATATATAATTTAATTATTTTTATG
60 -AAAAAT--ATAATA-TT-ATTT-----AATTAATTTGTAAACACATAATTTAATTAGTTTTATG
18281409 C
115 C
* * * *** *
18281410 ATTTAATTATTTTTATTTTAACAGATGCATTATTTAATAAATTGGAATATTAAAAATAAAAAA
1 ATTTAATTA-TTTTATTTTAACAAATGAAATATTTAATAAATAAAAATATTAAAAACAAAAAA
18281473 TATTCAAACT
Statistics
Matches: 272, Mismatches: 15, Indels: 35
0.84 0.05 0.11
Matches are distributed among these distances:
113 6 0.02
114 37 0.14
115 52 0.19
116 52 0.19
117 2 0.01
118 2 0.01
119 5 0.02
120 1 0.00
122 6 0.02
124 5 0.02
125 5 0.02
126 4 0.01
127 1 0.00
128 5 0.02
129 2 0.01
131 46 0.17
132 41 0.15
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.45
Consensus pattern (115 bp):
ATTTAATTATTTTATTTTAACAAATGAAATATTTAATAAATAAAAATATTAAAAACAAAAAAAAT
ATAATATTATTTAATTAATTTGTAAACACATAATTTAATTAGTTTTATGC
Found at i:18281342 original size:16 final size:16
Alignment explanation
Indices: 18281323--18281353 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18281313 AATAAATTGG
18281323 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
18281339 AATATTAAAAATAAA
1 AATATTAAAAATAAA
18281354 TAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATATTAAAAATAAAA
Found at i:18281348 original size:131 final size:132
Alignment explanation
Indices: 18281208--18281476 Score: 479
Period size: 131 Copynumber: 2.0 Consensus size: 132
18281198 AATAAATTGG
18281208 AATATTAAAAACAAAAAAAATATAATATT-ATTTAATTAATTTGTAAATATATAATTTAATTAGT
1 AATATTAAAAACAAAAAAAATATAAT-TTAATTTAATTAATTTGTAAATATATAATTTAATTAGT
18281272 TTTATGCATTTAATTA-TTTTATTTTAACAGATGCATTATTTAATAAATTGGAATATTAAAAATA
65 TTTATGCATTTAATTATTTTTATTTTAACAGATGCATTATTTAATAAATTGGAATATTAAAAATA
18281336 AAA
130 AAA
* * * *
18281339 AATATTAAAAATAAATAAAATTTAATTTAATTTAATTAATTTGTAAATATATAATTTAATTATTT
1 AATATTAAAAACAAAAAAAATATAATTTAATTTAATTAATTTGTAAATATATAATTTAATTAGTT
18281404 TTATGCATTTAATTATTTTTATTTTAACAGATGCATTATTTAATAAATTGGAATATTAAAAATAA
66 TTATGCATTTAATTATTTTTATTTTAACAGATGCATTATTTAATAAATTGGAATATTAAAAATAA
18281469 AA
131 AA
18281471 AATATT
1 AATATT
18281477 CAAACTTTAC
Statistics
Matches: 132, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
130 2 0.02
131 73 0.55
132 57 0.43
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.45
Consensus pattern (132 bp):
AATATTAAAAACAAAAAAAATATAATTTAATTTAATTAATTTGTAAATATATAATTTAATTAGTT
TTATGCATTTAATTATTTTTATTTTAACAGATGCATTATTTAATAAATTGGAATATTAAAAATAA
AA
Found at i:18282335 original size:12 final size:12
Alignment explanation
Indices: 18282320--18282346 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18282310 ACTTAACAGA
18282320 AACCAAAACATG
1 AACCAAAACATG
18282332 AACCAAAACATG
1 AACCAAAACATG
18282344 AAC
1 AAC
18282347 TTAACAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.26, G:0.07, T:0.07
Consensus pattern (12 bp):
AACCAAAACATG
Found at i:18282352 original size:23 final size:22
Alignment explanation
Indices: 18282326--18282437 Score: 102
Period size: 23 Copynumber: 4.9 Consensus size: 22
18282316 CAGAAACCAA
18282326 AACATGAACCAAAACATGAACTT
1 AACA-GAACCAAAACATGAACTT
* * * *
18282349 AACAGAAACATGAACAT-TA-TA
1 AACAGAACCA-AAACATGAACTT
*
18282370 ACACATAAACCAAAACATGAACTT
1 A-ACA-GAACCAAAACATGAACTT
*
18282394 AATAGAAACCAAAACATGAACTT
1 AACAG-AACCAAAACATGAACTT
18282417 AACAGAAACCAAAACATGAAC
1 AACAG-AACCAAAACATGAAC
18282438 ATTATAACAC
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
21 2 0.03
22 14 0.20
23 53 0.75
24 2 0.03
ACGTcount: A:0.56, C:0.21, G:0.08, T:0.15
Consensus pattern (22 bp):
AACAGAACCAAAACATGAACTT
Found at i:18282359 original size:17 final size:17
Alignment explanation
Indices: 18282302--18282363 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
18282292 TAATATAGAA
*
18282302 AAACATCAACTTAACAG
1 AAACATGAACTTAACAG
* *
18282319 AAACCA-AAACATGAACCA-
1 AAA-CATGAAC-TTAA-CAG
18282337 AAACATGAACTTAACAG
1 AAACATGAACTTAACAG
18282354 AAACATGAAC
1 AAACATGAAC
18282364 ATTATAACAC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
16 2 0.06
17 21 0.58
18 11 0.31
19 2 0.06
ACGTcount: A:0.56, C:0.23, G:0.08, T:0.13
Consensus pattern (17 bp):
AAACATGAACTTAACAG
Found at i:18282385 original size:80 final size:74
Alignment explanation
Indices: 18282301--18282449 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 74
18282291 TTAATATAGA
18282301 AAAACATCAACTTAACAGAAACCAAAACATGAACCAAAACATGAACTTAACAGAAACATGAACAT
1 AAAACATCAACTTAACAGAAACCAAAACATGAA-CAAAACA-GAA---AACA-AAACATGAACAT
18282366 TATAACACATAAACC
60 TATAACACATAAACC
* * ** *
18282381 AAAACATGAACTTAATAGAAACCAAAACATGAACTTAACAGAAACCAAAACATGAACATTATAAC
1 AAAACATCAACTTAACAGAAACCAAAACATGAACAAAACAGAAAACAAAACATGAACATTATAAC
18282446 ACAT
66 ACAT
18282450 GACCTTCTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
74 22 0.34
75 3 0.05
78 3 0.05
79 5 0.08
80 31 0.48
ACGTcount: A:0.56, C:0.21, G:0.07, T:0.16
Consensus pattern (74 bp):
AAAACATCAACTTAACAGAAACCAAAACATGAACAAAACAGAAAACAAAACATGAACATTATAAC
ACATAAACC
Found at i:18282410 original size:45 final size:46
Alignment explanation
Indices: 18282325--18282437 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 46
18282315 ACAGAAACCA
* * *
18282325 AAACATGAACCAAAACATGAACTTAACAGAAACATGAACAT-TA-T
1 AAACATAAACCAAAACATGAACTTAACAGAAACATAAACATGAACT
*
18282369 AACACATAAACCAAAACATGAACTTAATAGAAACCA-AAACATGAACT
1 AA-ACATAAACCAAAACATGAACTTAACAGAAA-CATAAACATGAACT
* *
18282416 TAACAGAAACCAAAACATGAAC
1 AAACATAAACCAAAACATGAAC
18282438 ATTATAACAC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
44 2 0.03
45 33 0.56
46 22 0.37
47 2 0.03
ACGTcount: A:0.57, C:0.20, G:0.08, T:0.15
Consensus pattern (46 bp):
AAACATAAACCAAAACATGAACTTAACAGAAACATAAACATGAACT
Found at i:18283704 original size:18 final size:17
Alignment explanation
Indices: 18283683--18283718 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18283673 TCCAGATTTG
18283683 AGCAAAAGCAAAAGCAAA
1 AGCAAAA-CAAAAGCAAA
*
18283701 AGCAAAACAAAATCAAA
1 AGCAAAACAAAAGCAAA
18283718 A
1 A
18283719 TCGATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.69, C:0.17, G:0.11, T:0.03
Consensus pattern (17 bp):
AGCAAAACAAAAGCAAA
Found at i:18283720 original size:6 final size:6
Alignment explanation
Indices: 18283683--18283718 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
18283673 TCCAGATTTG
*
18283683 AGCAAA AGCAAA AGCAAA AGCAAA A-CAAA ATCAAA A
1 AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA A
18283719 TCGATTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.69, C:0.17, G:0.11, T:0.03
Consensus pattern (6 bp):
AGCAAA
Found at i:18284549 original size:22 final size:22
Alignment explanation
Indices: 18284524--18284574 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
18284514 TAATTAATCC
18284524 ATATTTTAAAAGTTCAATAAAA
1 ATATTTTAAAAGTTCAATAAAA
* * *
18284546 ATATTTT-GAAGTTTAATAATA
1 ATATTTTAAAAGTTCAATAAAA
18284567 A-ATTTTAA
1 ATATTTTAA
18284575 TTTTTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.21
21 12 0.50
22 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (22 bp):
ATATTTTAAAAGTTCAATAAAA
Found at i:18284563 original size:21 final size:23
Alignment explanation
Indices: 18284524--18284569 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
18284514 TAATTAATCC
18284524 ATATTTTAAAAGTTCAATAA-AA
1 ATATTTTAAAAGTTCAATAATAA
* *
18284546 ATATTTT-GAAGTTTAATAATAA
1 ATATTTTAAAAGTTCAATAATAA
18284568 AT
1 AT
18284570 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
ATATTTTAAAAGTTCAATAATAA
Found at i:18285037 original size:33 final size:34
Alignment explanation
Indices: 18284999--18285097 Score: 91
Period size: 35 Copynumber: 2.9 Consensus size: 34
18284989 GTTTATATGG
* *
18284999 TATTATACTATATATTTAAAT-TTATGTAATATAA
1 TATTATA-TATATATTTAAATATAATATAATATAA
*
18285033 -ATTATATA-ATATATAAATATAATATAATATAA
1 TATTATATATATATTTAAATATAATATAATATAA
*
18285065 TATAATATAATATATATTATAA-A-AATATAATAT
1 TATTATAT-ATATAT-TTA-AATATAATATAATAT
18285098 GGATCAAAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
31 9 0.17
32 13 0.24
33 12 0.22
34 1 0.02
35 14 0.26
36 3 0.06
37 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
TATTATATATATATTTAAATATAATATAATATAA
Found at i:18285053 original size:15 final size:15
Alignment explanation
Indices: 18285027--18285080 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 15
18285017 AATTTATGTA
18285027 ATATAAATTATATAAT
1 ATATAAA-TATATAAT
18285043 ATATAAATATA-ATAT
1 ATATAAATATATA-AT
18285058 AATATAATATAATATAAT
1 -ATATAA-AT-ATATAAT
18285076 ATATA
1 ATATA
18285081 TTATAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.03
15 6 0.18
16 13 0.39
17 7 0.21
18 5 0.15
19 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAAATATATAAT
Found at i:18285056 original size:5 final size:5
Alignment explanation
Indices: 18285025--18285097 Score: 84
Period size: 5 Copynumber: 15.2 Consensus size: 5
18285015 TAAATTTATG
*
18285025 TAATA TAA-A TTATA TAATA T-ATA -AATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
18285072 TAATA TATATTA TAA-A -AATA TAATA T
1 TAATA TA-A-TA TAATA TAATA TAATA T
18285098 GGATCAAAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
3 2 0.03
4 11 0.19
5 40 0.68
6 2 0.03
7 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:18285433 original size:31 final size:31
Alignment explanation
Indices: 18285397--18285457 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
18285387 TTTTATATTT
* *
18285397 TAAATTTATCAATTTTTATT-TATGTACTTTA
1 TAAATTGATCAATTTTAATTCT-TGTACTTTA
*
18285428 TAAATTGGTCAATTTTAATTCTTGTACTTT
1 TAAATTGATCAATTTTAATTCTTGTACTTT
18285458 TCAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.56
Consensus pattern (31 bp):
TAAATTGATCAATTTTAATTCTTGTACTTTA
Found at i:18286247 original size:18 final size:19
Alignment explanation
Indices: 18286212--18286252 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
18286202 GAAAATTTGC
*
18286212 ATTTTTTGTCCCTTTCATAT
1 ATTTTTGGTCCC-TTCATAT
18286232 ATTTTTGGTCCC-TCATAT
1 ATTTTTGGTCCCTTCATAT
18286250 ATT
1 ATT
18286253 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTTTGGTCCCTTCATAT
Found at i:18286559 original size:2 final size:2
Alignment explanation
Indices: 18286549--18286596 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
18286539 ACACACACAC
* *
18286549 AG AG GG AG AG AG GG 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
18286591 AG AG AG
1 AG AG AG
18286597 TATAAATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18295449 original size:26 final size:26
Alignment explanation
Indices: 18295420--18295472 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
18295410 TTTCTAGTTA
*
18295420 TTTTATTTTATTT-TATTGTGAGACAT
1 TTTTATGTTATTTCTATTGTGA-ACAT
*
18295446 TTTTATGTTATTTCTATTTTGAACAT
1 TTTTATGTTATTTCTATTGTGAACAT
18295472 T
1 T
18295473 GCTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.62
Consensus pattern (26 bp):
TTTTATGTTATTTCTATTGTGAACAT
Found at i:18301129 original size:22 final size:22
Alignment explanation
Indices: 18301099--18301143 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
18301089 TAGAGATAAA
*
18301099 ATCATGTGCTTTATTTATATCT
1 ATCACGTGCTTTATTTATATCT
18301121 ATCACGTGCTTTATTTATATCT
1 ATCACGTGCTTTATTTATATCT
18301143 A
1 A
18301144 GAATGTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (22 bp):
ATCACGTGCTTTATTTATATCT
Found at i:18305402 original size:18 final size:18
Alignment explanation
Indices: 18305379--18305425 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
18305369 TTATTATTAA
18305379 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
18305397 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
18305415 AT-TAATATTAA
1 ATATAAT-TTAA
18305426 ATATTCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:18305490 original size:121 final size:122
Alignment explanation
Indices: 18305357--18305590 Score: 443
Period size: 121 Copynumber: 1.9 Consensus size: 122
18305347 ATTTAATCAT
18305357 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATA
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATA
*
18305422 TTAAATATTC-TTATATGAATTTATTAAAATCATAATATATAATACTATAAAATATA
66 TTAAATATTCTTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
18305478 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATA
18305543 TTAAATATTCTTTATATGAATTTACTAAAATCATAATATATAATACTA
66 TTAAATATTCTTTATATGAATTTACTAAAATCATAATATATAATACTA
18305591 CAATACCAAA
Statistics
Matches: 110, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
121 74 0.67
122 36 0.33
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (122 bp):
ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATA
TTAAATATTCTTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:18305681 original size:17 final size:18
Alignment explanation
Indices: 18305648--18305681 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18305638 AAATTAACCT
*
18305648 TCAATTTTACATATTATA
1 TCAATTTAACATATTATA
18305666 TCAATTTAACAT-TTAT
1 TCAATTTAACATATTAT
18305682 TCTTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (18 bp):
TCAATTTAACATATTATA
Found at i:18307476 original size:49 final size:49
Alignment explanation
Indices: 18307385--18307488 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
18307375 AGAAAAAAAC
* ** * *
18307385 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGGGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACGCAACACTGTATA
*
18307434 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACGCAACACTGTATA
18307483 AAATTA
1 AAATTA
18307489 TAACACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.30
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAACGCAACACTGTATA
Found at i:18310194 original size:9 final size:9
Alignment explanation
Indices: 18310170--18310222 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
18310160 GAATGCAAGC
18310170 TTTATTATATA
1 TTTATTA-A-A
18310181 TTTATTAAA
1 TTTATTAAA
18310190 TTTATTAAA
1 TTTATTAAA
18310199 TTTATT-AA
1 TTTATTAAA
* *
18310207 TATATTATA
1 TTTATTAAA
18310216 TTTATTA
1 TTTATTA
18310223 TGTATGTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 7 0.18
9 23 0.61
10 1 0.03
11 7 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTATTAAA
Found at i:18310212 original size:17 final size:17
Alignment explanation
Indices: 18310180--18310235 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
18310170 TTTATTATAT
*
18310180 ATTTATTAAATTTATTAA
1 ATTTATT-AATATATTAA
*
18310198 ATTTATTAATATATTAT
1 ATTTATTAATATATTAA
*
18310215 ATTTATT-ATGTATGTAA
1 ATTTATTAATATAT-TAA
18310232 ATTT
1 ATTT
18310236 CGAATCAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 5 0.15
17 21 0.64
18 7 0.21
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTTATTAATATATTAA
Found at i:18310979 original size:12 final size:13
Alignment explanation
Indices: 18310950--18310987 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
18310940 ATGTACATTT
18310950 TTCAATTATAACA
1 TTCAATTATAACA
18310963 TTCAATT-TAAC-
1 TTCAATTATAACA
18310974 TATCAATTATAACA
1 T-TCAATTATAACA
18310988 AGTCTTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.05
12 10 0.45
13 11 0.50
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (13 bp):
TTCAATTATAACA
Found at i:18311651 original size:22 final size:20
Alignment explanation
Indices: 18311609--18311651 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
18311599 CCAGTATTAC
*
18311609 AATTGAAAAAAATAAGGTAA
1 AATTGAAAAAAATAAGCTAA
18311629 AATTGAAAAAACATGAAGCTAA
1 AATTGAAAAAA-AT-AAGCTAA
18311651 A
1 A
18311652 GATCTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.63, C:0.05, G:0.14, T:0.19
Consensus pattern (20 bp):
AATTGAAAAAAATAAGCTAA
Found at i:18313807 original size:20 final size:20
Alignment explanation
Indices: 18313761--18313812 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
18313751 TTAATTTAGC
* *
18313761 CATTTTATATTTTAATTTTTT
1 CATTTT-TAATTTAATTTTTA
**
18313782 TGTTTTTAATTTAATTTTTA
1 CATTTTTAATTTAATTTTTA
18313802 CA-TTTTAATTT
1 CATTTTTAATTT
18313813 TTCTTTTGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 9 0.36
20 12 0.48
21 4 0.16
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
CATTTTTAATTTAATTTTTA
Found at i:18316781 original size:21 final size:21
Alignment explanation
Indices: 18316757--18316802 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
18316747 AAAACATGGC
* * *
18316757 CGTGTGGCCATTCCACATGCT
1 CGTGTGGCCACTACACACGCT
18316778 CGTGTGGCCACTACACACGCT
1 CGTGTGGCCACTACACACGCT
18316799 CGTG
1 CGTG
18316803 CCCCTAGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (21 bp):
CGTGTGGCCACTACACACGCT
Found at i:18320280 original size:21 final size:21
Alignment explanation
Indices: 18320224--18320373 Score: 72
Period size: 21 Copynumber: 7.1 Consensus size: 21
18320214 CGAAGGCTGC
* * * *
18320224 ACAGAAGCACATAAGTGCTAA
1 ACAGAAACTCATAAGAGTTAA
* * *
18320245 ACAGAAAC-CTGTAAGGGTTGA
1 ACAGAAACTC-ATAAGAGTTAA
* *
18320266 ACAGAAGCTCATAAGAACTT-A
1 ACAGAAACTCATAAG-AGTTAA
* * * *
18320287 ACAAAAACCCATAAGGGTTGA
1 ACAGAAACTCATAAGAGTTAA
* * *
18320308 ATAGAAGCTCA-ATAGAGCTAA
1 ACAGAAACTCATA-AGAGTTAA
* * *
18320329 ACGGAAACCCATAAGGGTTAA
1 ACAGAAACTCATAAGAGTTAA
*
18320350 ACAGAAACTCATATGAGTTAA
1 ACAGAAACTCATAAGAGTTAA
18320371 ACA
1 ACA
18320374 AAAGCTCGTG
Statistics
Matches: 92, Mismatches: 31, Indels: 12
0.68 0.23 0.09
Matches are distributed among these distances:
20 4 0.04
21 84 0.91
22 4 0.04
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
ACAGAAACTCATAAGAGTTAA
Found at i:18320295 original size:42 final size:42
Alignment explanation
Indices: 18320224--18320373 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 42
18320214 CGAAGGCTGC
* * **
18320224 ACAGAAGCACATAAGTGCTAAACAGAAACCTGTAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTGA
* * *
18320266 ACAGAAGCTCATAAGAACTTAACAAAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTGA
* * *
18320308 ATAGAAGCTCA-ATAGAGCTAAACGGAAACCCATAAGGGTTAA
1 ACAGAAGCTCATA-AGAGCTAAACAGAAACCCATAAGGGTTGA
* * *
18320350 ACAGAAACTCATATGAGTTAAACA
1 ACAGAAGCTCATAAGAGCTAAACA
18320374 AAAGCTCGTG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 86 0.98
43 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.17
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTGA
Found at i:18320485 original size:24 final size:24
Alignment explanation
Indices: 18320453--18320517 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
18320443 GGGTAATTTG
18320453 CCGTCAATTCATCCTTTACATATA
1 CCGTCAATTCATCCTTTACATATA
* *
18320477 CCGTCAATTCATCCTTTGCATTTA
1 CCGTCAATTCATCCTTTACATATA
*
18320501 CTGTCAATTCATCCTTT
1 CCGTCAATTCATCCTTT
18320518 TCCATAGAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (24 bp):
CCGTCAATTCATCCTTTACATATA
Found at i:18329143 original size:30 final size:29
Alignment explanation
Indices: 18329101--18329165 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
18329091 ATTATCAAAA
18329101 ATAAATTTTAAATATAATATAAT-ATAATATT
1 ATAAATTTTAAATA-AAT-TAATCATAATA-T
18329132 ATAAA-TTTAAATAAATTAATCCATAATAT
1 ATAAATTTTAAATAAATTAAT-CATAATAT
18329161 ATAAA
1 ATAAA
18329166 ACCATAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
28 4 0.12
29 9 0.28
30 14 0.44
31 5 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (29 bp):
ATAAATTTTAAATAAATTAATCATAATAT
Found at i:18338361 original size:28 final size:29
Alignment explanation
Indices: 18338328--18338398 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
18338318 ATAAATTTAG
18338328 ATACCAAATT-GAACCAAAAAAAAATTAA
1 ATACCAAATTAGAACCAAAAAAAAATTAA
* * * *
18338356 ATACCAAATTAGACCCAAAATAGATTTAA
1 ATACCAAATTAGAACCAAAAAAAAATTAA
*
18338385 ATACCAATTTAGAA
1 ATACCAAATTAGAA
18338399 AAAAGTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 10 0.28
29 26 0.72
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.23
Consensus pattern (29 bp):
ATACCAAATTAGAACCAAAAAAAAATTAA
Found at i:18341463 original size:27 final size:26
Alignment explanation
Indices: 18341417--18341470 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
18341407 TTGTTAAAGG
* *
18341417 TGATTTTTTTAGTTTCTTTCTTTTTC
1 TGATTTTGTTAGTTTCTTTCATTTTC
*
18341443 TGATTTTGTTATTATTCTTTCATTTTC
1 TGATTTTGTTAGT-TTCTTTCATTTTC
18341470 T
1 T
18341471 TCTTGCGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.70
Consensus pattern (26 bp):
TGATTTTGTTAGTTTCTTTCATTTTC
Found at i:18342356 original size:25 final size:22
Alignment explanation
Indices: 18342302--18342356 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
18342292 TATTATTTTA
* *
18342302 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
*
18342324 TGTGTATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
18342348 TCGTATATA
1 T-GTATATA
18342357 GTTTGGCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.42
24 9 0.35
25 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:18354625 original size:44 final size:44
Alignment explanation
Indices: 18354500--18355056 Score: 411
Period size: 44 Copynumber: 12.7 Consensus size: 44
18354490 ATAGGTCCTA
* * *
18354500 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
18354543 TCTTCCCATATTGGTGGCGAAGTATATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
18354588 TCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTG
* *
18354632 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
18354675 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * * *
18354720 TCTTCATGTATTAGCGTGAAGTAGATCAAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTG
* *
18354764 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
18354807 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
18354852 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTA
1 TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTG
** * * *
18354896 TCTTCCTATATTGATAG-GAAGTGGATCCAAGATA-CATATCTTG
1 TCTTCCTATATTG-GCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
18354939 TCTTCCCATACTAGTG-GTGAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATA-TTG-GCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
18354984 ---TCCTGTATTGGCAGTGGAA-TAGATTGAGGATTGCAGATCTTG
1 TCTTCCTATATTGGC-GT-GAAGTAGATCGAAGATAGCAGATCTTG
* * * *
18355026 CCTTCCTGTATTTGGCAGCGAAGCAGATCGA
1 TCTTCCTATA-TTGGC-GTGAAGTAGATCGA
18355057 CGATGGCGGA
Statistics
Matches: 402, Mismatches: 92, Indels: 37
0.76 0.17 0.07
Matches are distributed among these distances:
40 1 0.00
41 2 0.00
42 26 0.06
43 79 0.20
44 198 0.49
45 83 0.21
46 13 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
TCTTCCTATATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:18354737 original size:132 final size:132
Alignment explanation
Indices: 18354495--18354985 Score: 847
Period size: 132 Copynumber: 3.7 Consensus size: 132
18354485 CGTAAATAGG
*
18354495 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
18354560 CGAAGTATATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
18354625 GA
131 GA
18354627 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * *
18354692 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGGTAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
18354757 GA
131 GA
18354759 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
18354824 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
*
18354889 GG
131 GA
* * * * * *
18354891 TCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACATATCTTGTCTTCCCATACTAGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
18354956 TGAAGTAGATCGAAGAAAGCAGATCTTGTC
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTC
18354986 CTGTATTGGC
Statistics
Matches: 342, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 342 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
GA
Found at i:18355976 original size:27 final size:26
Alignment explanation
Indices: 18355930--18355983 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
18355920 TTGTTAAAGG
* *
18355930 TGATTTTTTTAGTTTCTTTCTTTTTC
1 TGATTTTGTTAGTTTCTTTCATTTTC
*
18355956 TGATTTTGTTATTATTCTTTCATTTTC
1 TGATTTTGTTAGT-TTCTTTCATTTTC
18355983 T
1 T
18355984 TCTTGCGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.70
Consensus pattern (26 bp):
TGATTTTGTTAGTTTCTTTCATTTTC
Found at i:18356869 original size:25 final size:22
Alignment explanation
Indices: 18356815--18356869 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
18356805 TATTATTTTA
* *
18356815 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
*
18356837 TGTGTATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
18356861 TCGTATATA
1 T-GTATATA
18356870 GTTGGCTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.42
24 9 0.35
25 6 0.23
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:18360825 original size:16 final size:15
Alignment explanation
Indices: 18360794--18360851 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
18360784 TAATTAATTA
**
18360794 ATTTTTAAAAAATAT
1 ATTTTTAAAATTTAT
18360809 ATTTTTACAAATTTAT
1 ATTTTTA-AAATTTAT
* *
18360825 ACTTTTAATAATTTTT
1 ATTTTTAA-AATTTAT
18360841 AATTTTTAAAA
1 -ATTTTTAAAA
18360852 ATATTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.23
16 20 0.57
17 7 0.20
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTAAAATTTAT
Found at i:18362582 original size:16 final size:17
Alignment explanation
Indices: 18362552--18362585 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18362542 TAACATACAA
18362552 ATATGAATATCATAGAT
1 ATATGAATATCATAGAT
*
18362569 ATAT-AATATGATAGAT
1 ATATGAATATCATAGAT
18362585 A
1 A
18362586 GTCATTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (17 bp):
ATATGAATATCATAGAT
Found at i:18365019 original size:19 final size:19
Alignment explanation
Indices: 18364995--18365035 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18364985 ACTTAAATGG
*
18364995 TTAATTAACATAATTAACC
1 TTAATTAACATAATAAACC
* *
18365014 TTAATTTACTTAATAAACC
1 TTAATTAACATAATAAACC
18365033 TTA
1 TTA
18365036 TTATTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAATTAACATAATAAACC
Found at i:18366466 original size:58 final size:57
Alignment explanation
Indices: 18366404--18366517 Score: 142
Period size: 57 Copynumber: 2.0 Consensus size: 57
18366394 GAAAATGGCC
* *
18366404 GAGAAATGAGAAATA-TTGGAAATGAAATATGGAT-TTCTCCAATATGAAAATGAAAAAG
1 GAGAAATG-GAAACATTTGGAAATG-AATATGG-TCTTCTCCAAAATGAAAATGAAAAAG
* * *
18366462 GAGAAATGGAAACATTTGTAAATGAATGTGGTCTTTTCCAAAATGAAAATGAAAAA
1 GAGAAATGGAAACATTTGGAAATGAATATGGTCTTCTCCAAAATGAAAATGAAAAA
18366518 TGACCTGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
56 1 0.02
57 32 0.65
58 16 0.33
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.25
Consensus pattern (57 bp):
GAGAAATGGAAACATTTGGAAATGAATATGGTCTTCTCCAAAATGAAAATGAAAAAG
Found at i:18368761 original size:18 final size:19
Alignment explanation
Indices: 18368723--18368772 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
18368713 TGTAATTCAG
**
18368723 AATATTATAAAAATTGTAA
1 AATATTATAAAAATTACAA
18368742 AATATTAT-AAAATTACAA
1 AATATTATAAAAATTACAA
*
18368760 AATAATA-AAAAAT
1 AATATTATAAAAAT
18368773 ACTAAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AATATTATAAAAATTACAA
Found at i:18368779 original size:18 final size:19
Alignment explanation
Indices: 18368723--18368779 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
18368713 TGTAATTCAG
* **
18368723 AATATTATAAAAATTGTAA
1 AATAATATAAAAATACTAA
* *
18368742 AATATTATAAAATTAC-AA
1 AATAATATAAAAATACTAA
18368760 AATAATA-AAAAATACTAA
1 AATAATATAAAAATACTAA
18368778 AA
1 AA
18368780 AACTAGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 7 0.22
18 12 0.38
19 13 0.41
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
AATAATATAAAAATACTAA
Found at i:18374695 original size:14 final size:14
Alignment explanation
Indices: 18374676--18374719 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
18374666 TGGGAAGTCC
18374676 CTGTATTGTAAGGA
1 CTGTATTGTAAGGA
*
18374690 CTGTA-T-CAA--A
1 CTGTATTGTAAGGA
18374700 CTGTATTGTAAGGA
1 CTGTATTGTAAGGA
18374714 CTGTAT
1 CTGTAT
18374720 CAAATTAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 6 0.25
11 1 0.04
12 4 0.17
13 1 0.04
14 12 0.50
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (14 bp):
CTGTATTGTAAGGA
Found at i:18374703 original size:24 final size:24
Alignment explanation
Indices: 18374676--18374723 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18374666 TGGGAAGTCC
18374676 CTGTATTGTAAGGACTGTATCAAA
1 CTGTATTGTAAGGACTGTATCAAA
18374700 CTGTATTGTAAGGACTGTATCAAA
1 CTGTATTGTAAGGACTGTATCAAA
18374724 TTAGTCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (24 bp):
CTGTATTGTAAGGACTGTATCAAA
Found at i:18378545 original size:11 final size:11
Alignment explanation
Indices: 18378514--18378558 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
18378504 TTTCATTTTT
*
18378514 TTATA-TATTT
1 TTATACTATTA
*
18378524 TTTTACTATTA
1 TTATACTATTA
18378535 TTATACTATTA
1 TTATACTATTA
18378546 -T-TACTATTA
1 TTATACTATTA
18378555 TTAT
1 TTAT
18378559 GTTACATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 8 0.28
10 6 0.21
11 15 0.52
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATACTATTA
Found at i:18380909 original size:26 final size:28
Alignment explanation
Indices: 18380875--18380926 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
18380865 ATACTTTTAT
*
18380875 AAAAATATATGAAA-ATTTT-TAATTCC
1 AAAAATATATAAAATATTTTCTAATTCC
*
18380901 AAAATTATATAAAATATTTTCTAATT
1 AAAAATATATAAAATATTTTCTAATT
18380927 TTAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 5 0.23
28 5 0.23
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (28 bp):
AAAAATATATAAAATATTTTCTAATTCC
Found at i:18380932 original size:28 final size:26
Alignment explanation
Indices: 18380874--18380933 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
18380864 AATACTTTTA
* *
18380874 TAAAAATATATGAAAATTTTTAATTC
1 TAAAATTATATAAAAATTTTTAATTC
* *
18380900 CAAAATTATATAAAATATTTTCTAATTT
1 TAAAATTATATAAAA-ATTTT-TAATTC
18380928 TAAAAT
1 TAAAAT
18380934 ATTTTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 12 0.44
27 5 0.19
28 10 0.37
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAAATTATATAAAAATTTTTAATTC
Found at i:18381227 original size:18 final size:18
Alignment explanation
Indices: 18381204--18381249 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
18381194 TTATATATGT
18381204 TTTTTA-AATATTAATATA
1 TTTTTATAATATTAATA-A
* *
18381222 TTTTTATAATTTTTATAA
1 TTTTTATAATATTAATAA
18381240 TTTTTATAAT
1 TTTTTATAAT
18381250 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTATAATATTAATAA
Found at i:18381235 original size:9 final size:9
Alignment explanation
Indices: 18381221--18381272 Score: 74
Period size: 9 Copynumber: 6.0 Consensus size: 9
18381211 ATATTAATAT
18381221 ATTTTTATA
1 ATTTTTATA
18381230 ATTTTTATA
1 ATTTTTATA
18381239 ATTTTTATA
1 ATTTTTATA
18381248 ATTTTTA-A
1 ATTTTTATA
18381256 A-TTTTAT-
1 ATTTTTATA
18381263 ATTTCTTATA
1 ATTT-TTATA
18381273 TATTCACTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.15
8 4 0.10
9 29 0.74
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:18382975 original size:18 final size:17
Alignment explanation
Indices: 18382952--18382986 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
18382942 TTTCTAGACT
18382952 TTTAACTAACCCATATAA
1 TTTAACTAACCCA-ATAA
18382970 TTTAACTAACCCAATAA
1 TTTAACTAACCCAATAA
18382987 ACAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (17 bp):
TTTAACTAACCCAATAA
Found at i:18384320 original size:54 final size:54
Alignment explanation
Indices: 18384262--18384426 Score: 205
Period size: 53 Copynumber: 3.1 Consensus size: 54
18384252 ACCCTATGGA
* *
18384262 GGTATTTTAGTAATTTTA-CCATTCAGGGGTATTTTGATAATTTTACCATTCGAG
1 GGTATTTCAGTAATTTTACCCATTC-GGGGTATTTCGATAATTTTACCATTCGAG
*
18384316 GGTATTTCGGTAATTTTACCCATT-GGGGTATTTCGATAATTTTACCCA-TCGAG
1 GGTATTTCAGTAATTTTACCCATTCGGGGTATTTCGATAATTTTA-CCATTCGAG
* * *
18384369 GGTATTTCAGTCATTTTACCCA-TCGAGGGTATTTCGGTTATTTTACACATT-GAG
1 GGTATTTCAGTAATTTTACCCATTCG-GGGTATTTCGATAATTTTAC-CATTCGAG
18384423 GGTA
1 GGTA
18384427 CTTCGATCAT
Statistics
Matches: 98, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
52 1 0.01
53 46 0.47
54 45 0.46
55 6 0.06
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACCCATTCGGGGTATTTCGATAATTTTACCATTCGAG
Found at i:18384372 original size:80 final size:81
Alignment explanation
Indices: 18384247--18384455 Score: 225
Period size: 80 Copynumber: 2.6 Consensus size: 81
18384237 TATAACAGTT
* *
18384247 ATTTTACCC-TATGGAGGTATTT-TAGTAATTTTA-CCATTC-AGGGGTATTTTGA-TAATTTTA
1 ATTTTACCCAT-TGG-GGTATTTCGA-TAATTTTACCCA-TCGA-GGGTATTTTCAGTAATTTTA
18384307 -CCATTCGAGGGTATTTCGGTA
61 CCCA-TCGAGGGTATTTCGGTA
*
18384328 ATTTTACCCATTGGGGTATTTCGATAATTTTACCCATCGAGGGTA-TTTCAGTCATTTTACCCAT
1 ATTTTACCCATTGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTCAGTAATTTTACCCAT
*
18384392 CGAGGGTATTTCGGTT
66 CGAGGGTATTTCGGTA
* * * * *
18384408 ATTTTACACATTGAGGGTACTTCGATCATTTTACGCATAGAGGGTATT
1 ATTTTACCCATTG-GGGTATTTCGATAATTTTACCCATCGAGGGTATT
18384456 ACTGTCATTT
Statistics
Matches: 111, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
79 4 0.04
80 57 0.51
81 48 0.43
82 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (81 bp):
ATTTTACCCATTGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTCAGTAATTTTACCCAT
CGAGGGTATTTCGGTA
Found at i:18384431 original size:27 final size:27
Alignment explanation
Indices: 18384247--18384455 Score: 201
Period size: 27 Copynumber: 7.8 Consensus size: 27
18384237 TATAACAGTT
* **
18384247 ATTTTACCCTATGGA-GGTATTTTAGTA
1 ATTTTACCC-ATTGAGGGTATTTCGGTA
* * *
18384274 ATTTTA-CCATTCAGGGGTATTTTGATA
1 ATTTTACCCATTGA-GGGTATTTCGGTA
18384301 ATTTTA-CCATTCGAGGGTATTTCGGTA
1 ATTTTACCCATT-GAGGGTATTTCGGTA
*
18384328 ATTTTACCCATTG-GGGTATTTCGATA
1 ATTTTACCCATTGAGGGTATTTCGGTA
* * *
18384354 ATTTTACCCATCGAGGGTATTTCAGTC
1 ATTTTACCCATTGAGGGTATTTCGGTA
* *
18384381 ATTTTACCCATCGAGGGTATTTCGGTT
1 ATTTTACCCATTGAGGGTATTTCGGTA
* * * *
18384408 ATTTTACACATTGAGGGTACTTCGATC
1 ATTTTACCCATTGAGGGTATTTCGGTA
* *
18384435 ATTTTACGCATAGAGGGTATT
1 ATTTTACCCATTGAGGGTATT
18384456 ACTGTCATTT
Statistics
Matches: 155, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
25 3 0.02
26 26 0.17
27 120 0.77
28 6 0.04
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCATTGAGGGTATTTCGGTA
Found at i:18388727 original size:37 final size:37
Alignment explanation
Indices: 18388675--18388758 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
18388665 CATGACCATA
* * * *
18388675 GCATAATCTAGGGAGGTCCACCAGATTTGCCTATATG
1 GCATAATCCAGGGAGGTCCACCAAATTCGCCTACATG
* **
18388712 GGATAATCCAGGGAGGTCTGCCAAATTCGCCTACATG
1 GCATAATCCAGGGAGGTCCACCAAATTCGCCTACATG
18388749 GCATAATCCA
1 GCATAATCCA
18388759 ACGGAGGCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (37 bp):
GCATAATCCAGGGAGGTCCACCAAATTCGCCTACATG
Found at i:18395250 original size:4 final size:4
Alignment explanation
Indices: 18395241--18395322 Score: 89
Period size: 4 Copynumber: 19.8 Consensus size: 4
18395231 CAACCCAATT
18395241 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTTA TTTA -TTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA
18395290 TTTTA TTT- TATTA TTTA -TTA CTTTA TTTTA TTT
1 -TTTA TTTA T-TTA TTTA TTTA -TTTA -TTTA TTT
18395323 TAATAAATTT
Statistics
Matches: 69, Mismatches: 2, Indels: 14
0.81 0.02 0.16
Matches are distributed among these distances:
3 7 0.10
4 43 0.62
5 19 0.28
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:18395309 original size:25 final size:25
Alignment explanation
Indices: 18395240--18395324 Score: 113
Period size: 25 Copynumber: 3.4 Consensus size: 25
18395230 GCAACCCAAT
18395240 TTTTA-TTTATTTATTTATTTA-TTTA
1 TTTTATTTTA-TTATTTA-TTACTTTA
*
18395265 -TTTATTTATTTTATTTATTACTTTA
1 TTTTATTT-TATTATTTATTACTTTA
18395290 TTTTATTTTATTATTTATTACTTTA
1 TTTTATTTTATTATTTATTACTTTA
18395315 TTTTATTTTA
1 TTTTATTTTA
18395325 ATAAATTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.13
25 39 0.72
26 8 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTATTTTATTATTTATTACTTTA
Found at i:18397019 original size:13 final size:13
Alignment explanation
Indices: 18397003--18397027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18396993 TATTAAAGAT
18397003 GATTTAATTTTAG
1 GATTTAATTTTAG
18397016 GATTTAATTTTA
1 GATTTAATTTTA
18397028 TTTATCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
GATTTAATTTTAG
Found at i:18405869 original size:46 final size:46
Alignment explanation
Indices: 18405817--18405911 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
18405807 AAAAAGATAG
* *
18405817 AAACCAAAATATTATCTCCTAAACTTTAGTATCTAATCTCGTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCATAATT
18405863 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCATAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCATAATT
18405909 AAA
1 AAA
18405912 AGAAAATAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCATAATT
Found at i:18409302 original size:33 final size:34
Alignment explanation
Indices: 18409221--18409335 Score: 144
Period size: 34 Copynumber: 3.4 Consensus size: 34
18409211 GGTTAACCAG
*
18409221 CCAGCACACCAAATGCTCATATGAGCCAGCCCAT
1 CCAGCACACCAAATGCTCATATGAGCCAACCCAT
*
18409255 CCAGCACACCAAATGCTCATATGAGCCAATCCAT
1 CCAGCACACCAAATGCTCATATGAGCCAACCCAT
* * * *
18409289 -CAGTACACCAAATGCTCGTATGA-CAAAATCCAT
1 CCAGCACACCAAATGCTCATATGAGC-CAACCCAT
*
18409322 CCATCACACCAAAT
1 CCAGCACACCAAAT
18409336 AACATTGTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
32 1 0.01
33 28 0.39
34 43 0.60
ACGTcount: A:0.37, C:0.35, G:0.11, T:0.17
Consensus pattern (34 bp):
CCAGCACACCAAATGCTCATATGAGCCAACCCAT
Found at i:18410194 original size:16 final size:16
Alignment explanation
Indices: 18410173--18410204 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18410163 GGAAATACTC
*
18410173 AAATTCATCAATGGCA
1 AAATTCATCAAAGGCA
18410189 AAATTCATCAAAGGCA
1 AAATTCATCAAAGGCA
18410205 TAATCCATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (16 bp):
AAATTCATCAAAGGCA
Found at i:18413691 original size:79 final size:81
Alignment explanation
Indices: 18413555--18413739 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
18413545 TTGAATGATG
* *
18413555 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
18413619 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
18413634 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
18413696 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
18413714 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18413740 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:18413753 original size:40 final size:40
Alignment explanation
Indices: 18413556--18413739 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
18413546 TGAATGATGT
* * * *
18413556 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
18413596 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
18413636 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
18413674 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
18413715 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18413740 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:18413761 original size:79 final size:79
Alignment explanation
Indices: 18413608--18413772 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
18413598 GGACTAAGAT
* * **
18413608 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18413673 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18413687 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
18413750 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18413766 CCGAAGG
1 CCGAAGG
18413773 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18421571 original size:38 final size:40
Alignment explanation
Indices: 18421463--18421662 Score: 173
Period size: 38 Copynumber: 5.1 Consensus size: 40
18421453 TTGAATGATG
* * ** * *
18421463 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGGGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGATACTAAA
* *
18421504 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
18421543 TCCGGGCTAAG-CCCGAAGGC-TTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
18421581 TCCGGGTTAAGTCCCGAAGGCAATT-TGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AA
* ** *
18421621 -CC-GGCTATGTCCCGAAGGCATTTGAACGAG-TACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
18421658 TCCGG
1 TCCGG
18421663 TTAAATTCCG
Statistics
Matches: 131, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
37 1 0.01
38 51 0.39
39 44 0.34
40 31 0.24
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:18447504 original size:25 final size:25
Alignment explanation
Indices: 18447472--18447527 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
18447462 ATCAACATCA
18447472 AAAT-GCTAAGCC-ACAAGCCAAAAC
1 AAATGGCTAAGCCAACAA-CCAAAAC
**
18447496 AAATGGCTATTCCAACAACCAAAAC
1 AAATGGCTAAGCCAACAACCAAAAC
*
18447521 ACATGGC
1 AAATGGC
18447528 CGACATTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 19 0.70
26 4 0.15
ACGTcount: A:0.46, C:0.29, G:0.12, T:0.12
Consensus pattern (25 bp):
AAATGGCTAAGCCAACAACCAAAAC
Found at i:18447988 original size:30 final size:29
Alignment explanation
Indices: 18447925--18448203 Score: 136
Period size: 30 Copynumber: 9.4 Consensus size: 29
18447915 TGGTTGACCC
* * * * *
18447925 ATCCCTTTTCGTAATTCGATAATTGAAATT
1 ATCCCTTTTCATAGTTCGATAGTCG-AACT
*
18447955 ATCCCTTTTCATAGTTCGACAGTCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGTCGAA-CT
* * * * *
18447985 ATCCTTTTTCATAATTTGATAGTGGTCACT
1 ATCCCTTTTCATAGTTCGATAGTCG-AACT
* ** * * * *
18448015 ATCCCTTTTCATTGTTTAATGGTTGTCACC
1 ATCCCTTTTCATAGTTCGATAGTCG-AACT
* * * *
18448045 ATCCCTTTTCATAATTGGATAGCCGAAGCC
1 ATCCCTTTTCATAGTTCGATAGTCGAA-CT
* *
18448075 ATCCCTTTTCATAGTTCGATGGTC-ATCACC
1 ATCCCTTTTCATAGTTCGATAGTCGA--ACT
* * *
18448105 ATCCCTTTTCATTGTT-GATGGTC-ATCACC
1 ATCCCTTTTCATAGTTCGATAGTCGA--ACT
* *
18448134 ATCCCTTTTCATAATT-GACAGTCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGTCGAA-CT
* * *
18448163 ATCCCCTTTCTTA-TTCGATAGTCAAAGCT
1 ATCCCTTTTCATAGTTCGATAGTCGAA-CT
18448192 ATCCCTTTTCAT
1 ATCCCTTTTCAT
18448204 TTGTTGATGA
Statistics
Matches: 198, Mismatches: 43, Indels: 17
0.77 0.17 0.07
Matches are distributed among these distances:
28 3 0.02
29 69 0.35
30 124 0.63
31 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTCGATAGTCGAACT
Found at i:18448084 original size:90 final size:88
Alignment explanation
Indices: 18447955--18448204 Score: 288
Period size: 90 Copynumber: 2.8 Consensus size: 88
18447945 AATTGAAATT
* * * ** *
18447955 ATCCCTTTTCATAGTTCGACAGTCGAAGCTATCCTTTTTCATAATTTGATAGTGGTCACTATCCC
1 ATCCCTTTTCATAATT-GACAGTCGAAGCTATCCCTTTTCATAATTCGATAGTCATCACCATCCC
**
18448020 TTTTCATTGTTTAATGGTTGTCACC
65 TTTTCATTG-TTAATGGTCATCACC
* * * * *
18448045 ATCCCTTTTCATAATTGGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCATCACCATCCC
1 ATCCCTTTTCATAATT-GACAGTCGAAGCTATCCCTTTTCATAATTCGATAGTCATCACCATCCC
*
18448110 TTTTCATTGTTGATGGTCATCACC
65 TTTTCATTGTTAATGGTCATCACC
* * * *
18448134 ATCCCTTTTCATAATTGACAGTCGAAGCTATCCCCTTTC-TTATTCGATAGTCA-AAGCTATCCC
1 ATCCCTTTTCATAATTGACAGTCGAAGCTATCCCTTTTCATAATTCGATAGTCATCA-CCATCCC
18448197 TTTTCATT
65 TTTTCATT
18448205 TGTTGATGAT
Statistics
Matches: 135, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
86 1 0.01
87 25 0.19
88 19 0.14
89 28 0.21
90 62 0.46
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (88 bp):
ATCCCTTTTCATAATTGACAGTCGAAGCTATCCCTTTTCATAATTCGATAGTCATCACCATCCCT
TTTCATTGTTAATGGTCATCACC
Found at i:18448166 original size:29 final size:30
Alignment explanation
Indices: 18448134--18448203 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
18448124 GGTCATCACC
*
18448134 ATCCCTTTTCATAATT-GACAGTCGAAGCT
1 ATCCCTTTTCATAATTCGACAGTCAAAGCT
* * *
18448163 ATCCCCTTTC-TTATTCGATAGTCAAAGCT
1 ATCCCTTTTCATAATTCGACAGTCAAAGCT
18448192 ATCCCTTTTCAT
1 ATCCCTTTTCAT
18448204 TTGTTGATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 4 0.12
29 29 0.85
30 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAGTCAAAGCT
Found at i:18451290 original size:23 final size:23
Alignment explanation
Indices: 18451256--18451299 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
18451246 GTCAATTATT
18451256 ATTTTAATAATATTTTATTTAAA
1 ATTTTAATAATATTTTATTTAAA
18451279 ATTTT-ATGAATATTTTATTTA
1 ATTTTAAT-AATATTTTATTTA
18451300 TTTAAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTAATAATATTTTATTTAAA
Found at i:18459088 original size:16 final size:17
Alignment explanation
Indices: 18459067--18459099 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18459057 AAGTAGTTGA
18459067 TTGAAT-GATGTTTTGG
1 TTGAATCGATGTTTTGG
*
18459083 TTGAATCTATGTTTTGG
1 TTGAATCGATGTTTTGG
18459100 AGTACTCGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.18, C:0.03, G:0.27, T:0.52
Consensus pattern (17 bp):
TTGAATCGATGTTTTGG
Found at i:18465184 original size:13 final size:12
Alignment explanation
Indices: 18465154--18465209 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
18465144 ATGTGAAACA
*
18465154 AAAAAGAAATTG
1 AAAAAGAAGTTG
18465166 AAAAAGAAGTTG
1 AAAAAGAAGTTG
*
18465178 AAGAAAGAAG-AG
1 AA-AAAGAAGTTG
*
18465190 AAAATG-AGTTAG
1 AAAAAGAAGTT-G
18465202 AAAAAGAA
1 AAAAAGAA
18465210 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 22 0.63
13 8 0.23
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.12
Consensus pattern (12 bp):
AAAAAGAAGTTG
Found at i:18466693 original size:432 final size:432
Alignment explanation
Indices: 18465890--18466756 Score: 1725
Period size: 432 Copynumber: 2.0 Consensus size: 432
18465880 GATCGTGTTG
18465890 ATGAACACTTAGATCGAAACGTGCTTGACTGTCCTATTTTATTTATTGATGATCTATCTGTTTTG
1 ATGAACACTTAGATCGAAACGTGCTTGACTGTCCTATTTTATTTATTGATGATCTATCTGTTTTG
18465955 ATGGTTGATAAAAAGATTCTTGTTTTTGATAATGCATGTGTGAGTGAATCTATAGACCGTCGATT
66 ATGGTTGATAAAAAGATTCTTGTTTTTGATAATGCATGTGTGAGTGAATCTATAGACCGTCGATT
18466020 AATGCATGGTATGATTATGCAACTCTGTGAACCATGTGAATCTTTTCAAATACCTACTTGTGACG
131 AATGCATGGTATGATTATGCAACTCTGTGAACCATGTGAATCTTTTCAAATACCTACTTGTGACG
18466085 ATTATGTTTACCATTTGATTTATTACTCGCAATTTATTCATGGTTTGTGGGAACAATGTGAGACG
196 ATTATGTTTACCATTTGATTTATTACTCGCAATTTATTCATGGTTTGTGGGAACAATGTGAGACG
18466150 ACTGAATGCCTTAAAACATGTCCATCTTTGTTTCAAATATTTGACGAGGCAGTGGTGAGTAAATT
261 ACTGAATGCCTTAAAACATGTCCATCTTTGTTTCAAATATTTGACGAGGCAGTGGTGAGTAAATT
18466215 AGATTGTTTGCATGGTAATCTGAATCTGTCCATTCACATGCGTTATACCTGTTCTGTTATGCTTA
326 AGATTGTTTGCATGGTAATCTGAATCTGTCCATTCACATGCGTTATACCTGTTCTGTTATGCTTA
18466280 TGATTGGACTACAAGCTTGTTTCCGTTGCTATTTACTATCTC
391 TGATTGGACTACAAGCTTGTTTCCGTTGCTATTTACTATCTC
18466322 ATGAACACTTAGATCGAAACGTGCTTGACTGTCCTATTTTATTTATTGATGATCTATCTGTTTTG
1 ATGAACACTTAGATCGAAACGTGCTTGACTGTCCTATTTTATTTATTGATGATCTATCTGTTTTG
18466387 ATGGTTGATAAAAAGATTCTTGTTTTTGATAATGCATGTGTGAGTGAATCTATAGACCGTCGATT
66 ATGGTTGATAAAAAGATTCTTGTTTTTGATAATGCATGTGTGAGTGAATCTATAGACCGTCGATT
18466452 AATGCATGGTATGATTATGCAACTCTGTGAACCATGTGAATCTTTTCAAATACCTACTTGTGACG
131 AATGCATGGTATGATTATGCAACTCTGTGAACCATGTGAATCTTTTCAAATACCTACTTGTGACG
*
18466517 ATTATGTTTACCATTTGATTTATTACTTGCAATTTATTCATGGTTTGTGGGAACAATGTGAGACG
196 ATTATGTTTACCATTTGATTTATTACTCGCAATTTATTCATGGTTTGTGGGAACAATGTGAGACG
18466582 ACTGAATGCCTTAAAACATGTCCATCTTTGTTTCAAATATTTGACGAGGCAGTGGTGAGTAAATT
261 ACTGAATGCCTTAAAACATGTCCATCTTTGTTTCAAATATTTGACGAGGCAGTGGTGAGTAAATT
18466647 AGATTGTTTGCATGGTAATCTGAATCTGTCCATTCACATGCGTTATACCTGTTCTGTTATGCTTA
326 AGATTGTTTGCATGGTAATCTGAATCTGTCCATTCACATGCGTTATACCTGTTCTGTTATGCTTA
18466712 TGATTGGACTACAAGCTTGTTTCCGTTGCTATTTACTATCTC
391 TGATTGGACTACAAGCTTGTTTCCGTTGCTATTTACTATCTC
18466754 ATG
1 ATG
18466757 GCTATTCTTC
Statistics
Matches: 434, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
432 434 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (432 bp):
ATGAACACTTAGATCGAAACGTGCTTGACTGTCCTATTTTATTTATTGATGATCTATCTGTTTTG
ATGGTTGATAAAAAGATTCTTGTTTTTGATAATGCATGTGTGAGTGAATCTATAGACCGTCGATT
AATGCATGGTATGATTATGCAACTCTGTGAACCATGTGAATCTTTTCAAATACCTACTTGTGACG
ATTATGTTTACCATTTGATTTATTACTCGCAATTTATTCATGGTTTGTGGGAACAATGTGAGACG
ACTGAATGCCTTAAAACATGTCCATCTTTGTTTCAAATATTTGACGAGGCAGTGGTGAGTAAATT
AGATTGTTTGCATGGTAATCTGAATCTGTCCATTCACATGCGTTATACCTGTTCTGTTATGCTTA
TGATTGGACTACAAGCTTGTTTCCGTTGCTATTTACTATCTC
Found at i:18471895 original size:22 final size:23
Alignment explanation
Indices: 18471870--18471929 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
18471860 TGGACTGAAT
18471870 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
18471892 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
18471914 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
18471930 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:18471897 original size:4 final size:4
Alignment explanation
Indices: 18471879--18471912 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
18471869 TATAAAAATT
18471879 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
18471913 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:18478362 original size:22 final size:23
Alignment explanation
Indices: 18478337--18478396 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
18478327 TGGACTGAAT
18478337 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
18478359 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
18478381 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
18478397 TGAGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:18478364 original size:4 final size:4
Alignment explanation
Indices: 18478346--18478379 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
18478336 TATAAAAATT
18478346 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
18478380 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:18482224 original size:2 final size:2
Alignment explanation
Indices: 18482217--18482259 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18482207 GAATGCGATG
18482217 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18482259 T
1 T
18482260 TTGGTAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18486157 original size:23 final size:22
Alignment explanation
Indices: 18486117--18486160 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
18486107 AAATTATAAA
*
18486117 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
18486139 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
18486161 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:18486931 original size:21 final size:21
Alignment explanation
Indices: 18486894--18486948 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
18486884 AATCATATCT
18486894 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
*
18486913 TTTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
18486934 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
18486949 CCTTGAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.31
21 22 0.69
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:18487487 original size:44 final size:45
Alignment explanation
Indices: 18487388--18487490 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 45
18487378 ACTACACCGC
* *
18487388 CAGGGA-AGTAAGATTTGCTATTCTCAGTCTGCCTCACTACAACTT
1 CAGGGAGA-TAAGACTTGCTATTCTCAGTCTGCCTCACTACAACCT
* * * *
18487433 TAGGGGGATAAGACTTGCT-TTCTCAGTCTG-CTCCGCTGCAACCT
1 CAGGGAGATAAGACTTGCTATTCTCAGTCTGCCT-CACTACAACCT
18487477 CAGGGAGATAAGAC
1 CAGGGAGATAAGAC
18487491 CTGATACGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.04
44 31 0.65
45 14 0.29
46 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (45 bp):
CAGGGAGATAAGACTTGCTATTCTCAGTCTGCCTCACTACAACCT
Found at i:18487728 original size:88 final size:88
Alignment explanation
Indices: 18487636--18487924 Score: 275
Period size: 88 Copynumber: 3.3 Consensus size: 88
18487626 TTTTAACCTA
* * *
18487636 CTCCACTGCAACTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGA
1 CTCCACTACTACTCAGGGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
18487701 TAAGATTCGCCGTCTTCAATCTG
66 TAAGATTCGCCGTCTTCAATCTG
* * *** * * * *
18487724 CTCCACTACTACTTACGGAGATAAGATCT-GTAATTTTCAACCTAC-TCCACTGCT-GCTTAGGG
1 CTCCACTACTACTCAGGGAGATAAGA-CTAGT-GGCTTAAATCTACTTCC-CTACTACCTT-GGG
* * ** *
18487786 -AGATAAG-GTCTACAATCTTCAACCT-
62 AAGATAAGATTC-GCCGTCTTCAATCTG
* * * *
18487811 CTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
1 CTCCACTACTACTCAGGGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
*
18487876 TAAGATTCGCCGTCTTCGATCTG
66 TAAGATTCGCCGTCTTCAATCTG
* *
18487899 CTCCACTACTGCTTAGGGAGATAAGA
1 CTCCACTACTACTCAGGGAGATAAGA
18487925 TCTGTAATTT
Statistics
Matches: 151, Mismatches: 39, Indels: 22
0.71 0.18 0.10
Matches are distributed among these distances:
86 17 0.11
87 47 0.31
88 71 0.47
89 16 0.11
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (88 bp):
CTCCACTACTACTCAGGGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
TAAGATTCGCCGTCTTCAATCTG
Found at i:18487746 original size:44 final size:44
Alignment explanation
Indices: 18487582--18488025 Score: 149
Period size: 44 Copynumber: 10.1 Consensus size: 44
18487572 GGATTATTGG
* * * * *
18487582 CTTCAATTTGCTCCACTACAACTTAGGGAGATAATA-TCTGTAAT
1 CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTC-GCAGT
* * * * * * * * * * *
18487626 TTTTAACCTACTCCACTGCAACTCAGGGAGATAAGACTAG-TGG
1 CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTCGCAGT
* *
18487669 CTTAAATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTCGCCGT
1 CTTCAATCTGC-TCCACTACTA-CTTAGGG-AGATAAGATTCGCAGT
* * *
18487714 CTTCAATCTGCTCCACTACTACTTACGGAGATAAGA-TCTGTAAT
1 CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTC-GCAGT
* * * * * * * *
18487758 TTTCAACCTACTCCACTGCTGCTTAGGGAGATAAG-GTCTACAAT
1 CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTC-GCAGT
* * * * * ** * * *
18487802 CTTCAACCT-CTCCACTGCTGCTCAAGGAGATAAGGCTAG-TGG
1 CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTCGCAGT
* * *
18487844 CTTAAATCTACTTCC-CTACTACCTT-GGGAAGATAAGATTCGCCGT
1 CTTCAATCTGC-TCCACTACTA-CTTAGGG-AGATAAGATTCGCAGT
* * * *
18487889 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTGTAAT
1 CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTC-GCAGT
* * * * * * *
18487933 -TTCAATCTACTCCACTGCTGCTCAGGGAGATAGGATTCACAAT
1 CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTCGCAGT
* ** * * * * *
18487976 CTTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAAT
1 CTTCAATCTGCTCCACTACT-ACTTAGGGAGATAAGATTCGCAGT
18488020 CTTCAA
1 CTTCAA
18488026 CCTATTCCAC
Statistics
Matches: 306, Mismatches: 73, Indels: 42
0.73 0.17 0.10
Matches are distributed among these distances:
42 7 0.02
43 81 0.26
44 180 0.59
45 38 0.12
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTCGCAGT
Found at i:18487831 original size:43 final size:44
Alignment explanation
Indices: 18487713--18488338 Score: 168
Period size: 44 Copynumber: 14.5 Consensus size: 44
18487703 AGATTCGCCG
* * * * * * **
18487713 TCTTCAATCTGCTCCACTACTACTTACGGAGATAAGATCTGTAA
1 TCTTCAACCTACTCCACTGCTGCTTAAGGAGATAAGGTCTACAA
* *
18487757 TTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGTCTACAA
1 TCTTCAACCTACTCCACTGCTGCTTAAGGAGATAAGGTCTACAA
* ***
18487801 TCTTCAACCT-CTCCACTGCTGCTCAAGGAGATAAGG-CTAGTG
1 TCTTCAACCTACTCCACTGCTGCTTAAGGAGATAAGGTCTACAA
* * * * * * * * **
18487843 GCTTAAATCTACTTCC-CTACTACCTT-GGGAAGATAAGAT-TCGCCG
1 TCTTCAACCTAC-TCCACTGCT-GCTTAAGG-AGATAAGGTCT-ACAA
* * * * * * **
18487888 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAACCTACTCCACTGCTGCTTAAGGAGATAAGGTCTACAA
* * *
18487932 T-TTCAATCTACTCCACTGCTGCTCAGGGAGAT-AGGAT-TCACAA
1 TCTTCAACCTACTCCACTGCTGCTTAAGGAGATAAGG-TCT-ACAA
* * *
18487975 TCTTCAACCTATTCCACTGCTGAC-CAGGGAGAT-AGGAT-TCACAA
1 TCTTCAACCTACTCCACTGCTG-CTTAAGGAGATAAGG-TCT-ACAA
* * * * *
18488019 TCTTCAACCTATTCCACTGTTGACCT-GGGAGAT-AGGACTCACAA
1 TCTTCAACCTACTCCACTGCTG-CTTAAGGAGATAAGGTCT-ACAA
* * *
18488063 TCTTCAACCTATTCCACTACTGAC-TAGGGAGAT-AGG------A
1 TCTTCAACCTACTCCACTGCTG-CTTAAGGAGATAAGGTCTACAA
* * * * *
18488100 --TTC-ACCTATTCCACTGCTGAC-CAGGGGGAT-AGGACTTACAA
1 TCTTCAACCTACTCCACTGCTG-CTTAAGGAGATAAGGTC-TACAA
* * * **
18488141 TCTTCAACCTATTCCACTGCTGAC-CAGGGAGAT-AGAACTCACAA
1 TCTTCAACCTACTCCACTGCTG-CTTAAGGAGATAAGGTCT-ACAA
* * * * *
18488185 TCTTCAACCTATTCCACTGTTGAC-CAGGGAGAT-AGGACTCACAA
1 TCTTCAACCTACTCCACTGCTG-CTTAAGGAGATAAGGTCT-ACAA
* * * * *
18488229 TCTTCAACCTATTCCACTCCTGAC-CAGGGAGAT-AGGACTTACAA
1 TCTTCAACCTACTCCACTGCTG-CTTAAGGAGATAAGGTC-TACAA
* * * * *
18488273 TCTTCAACCTATTTCACTGCTGAC-CAGGGAGAT-AGGACTCACAA
1 TCTTCAACCTACTCCACTGCTG-CTTAAGGAGATAAGGTCT-ACAA
*
18488317 TCTTCAACCTATTCCACTGCTG
1 TCTTCAACCTACTCCACTGCTG
18488339 ACCAGAGAGA
Statistics
Matches: 493, Mismatches: 60, Indels: 58
0.81 0.10 0.09
Matches are distributed among these distances:
34 27 0.05
35 3 0.01
37 1 0.00
41 1 0.00
42 13 0.03
43 68 0.14
44 360 0.73
45 20 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
TCTTCAACCTACTCCACTGCTGCTTAAGGAGATAAGGTCTACAA
Found at i:18488008 original size:175 final size:177
Alignment explanation
Indices: 18487630--18488008 Score: 601
Period size: 175 Copynumber: 2.2 Consensus size: 177
18487620 TGTAATTTTT
* *
18487630 AACCTACTCCACTGC-AACTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTT
1 AACCTACTCCACTGCTGACTCAGGGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTT
18487694 GGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTACTTACGGAGATAAGATCTGTAATT
66 GGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTACTTACGGAGATAAGATCTGTAATT
*
18487759 TTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGTCTACAATCTTC
131 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTC
* *
18487806 AACCT-CTCCACTGCTG-CTCAAGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTT
1 AACCTACTCCACTGCTGACTCAGGGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTT
* * *
18487869 GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-T
66 GGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTACTTACGGAGATAAGATCTGTAATT
*
18487933 TTCAATCTACTCCACTGCTGCTCAGGGAGAT-AGGAT-TCACAATCTTC
131 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG-TCT-ACAATCTTC
*
18487980 AACCTATTCCACTGCTGAC-CAGGGAGATA
1 AACCTACTCCACTGCTGACTCAGGGAGATA
18488009 GGATTCACAA
Statistics
Matches: 187, Mismatches: 11, Indels: 11
0.89 0.05 0.05
Matches are distributed among these distances:
173 4 0.02
174 45 0.24
175 132 0.71
176 6 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (177 bp):
AACCTACTCCACTGCTGACTCAGGGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTT
GGGAAGATAAGATTCGCCGTCTTCAATCTGCTCCACTACTACTTACGGAGATAAGATCTGTAATT
TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTC
Found at i:18488026 original size:44 final size:44
Alignment explanation
Indices: 18487933--18488394 Score: 653
Period size: 44 Copynumber: 10.7 Consensus size: 44
18487923 GATCTGTAAT
* *
18487933 TTCAATCTACTCCACTGCTG-CTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
18487977 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * *
18488021 TTCAACCTATTCCACTGTTGACCTGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
18488065 TTCAACCTATTCCACTACTGACTAGGGAGATAGG-------A--
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
18488100 TTC-ACCTATTCCACTGCTGACCAGGGGGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
* *
18488143 TTCAACCTATTCCACTGCTGACCAGGGAGATAGAACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
18488187 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
18488231 TTCAACCTATTCCACTCCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
* *
18488275 TTCAACCTATTTCACTGCTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
18488319 TTCAACCTATTCCACTGCTGACCAGAGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
18488363 TTCAACCTATTCCATTGCTGACCAGGGAGATA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA
18488395 AAGCTTTGTG
Statistics
Matches: 376, Mismatches: 28, Indels: 28
0.87 0.06 0.06
Matches are distributed among these distances:
34 27 0.07
35 3 0.01
37 1 0.00
41 1 0.00
43 5 0.01
44 337 0.90
45 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:18488112 original size:34 final size:34
Alignment explanation
Indices: 18488069--18488133 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
18488059 ACAATCTTCA
*
18488069 ACCTATTCCACTACTGACTAGGGAGATAGGATTC
1 ACCTATTCCACTACTGACCAGGGAGATAGGATTC
* *
18488103 ACCTATTCCACTGCTGACCAGGGGGATAGGA
1 ACCTATTCCACTACTGACCAGGGAGATAGGA
18488134 CTTACAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (34 bp):
ACCTATTCCACTACTGACCAGGGAGATAGGATTC
Found at i:18489730 original size:21 final size:20
Alignment explanation
Indices: 18489706--18489750 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
18489696 TGATTTTTTC
18489706 TTTTTTT-GGTTTTTTGTGTGT
1 TTTTTTTAGGTTTTTT-TGT-T
18489727 TTTTTTTAGGTTTTTTTGTT
1 TTTTTTTAGGTTTTTTTGTT
18489747 TTTT
1 TTTT
18489751 GAATTGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.02, C:0.00, G:0.18, T:0.80
Consensus pattern (20 bp):
TTTTTTTAGGTTTTTTTGTT
Found at i:18494946 original size:23 final size:22
Alignment explanation
Indices: 18494906--18494949 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
18494896 AAATTATAAA
*
18494906 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
18494928 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
18494950 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:18495685 original size:23 final size:22
Alignment explanation
Indices: 18495642--18495699 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
18495632 AAAGGGTATC
* *
18495642 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
18495663 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
18495686 TGCATATCATATCT
1 TACAAATCATATCT
18495700 AATATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:18502206 original size:23 final size:24
Alignment explanation
Indices: 18502179--18502226 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
18502169 GTGGACACTT
18502179 AGAA-GTTAGGTAGAACTCTTAGG
1 AGAATGTTAGGTAGAACTCTTAGG
*
18502202 AGAAGTTGTTAGGTAGGACTCTTAG
1 AGAA--TGTTAGGTAGAACTCTTAG
18502227 AATAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
26 17 0.81
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (24 bp):
AGAATGTTAGGTAGAACTCTTAGG
Found at i:18508136 original size:28 final size:28
Alignment explanation
Indices: 18508104--18508159 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
18508094 ATTTTGAGTA
18508104 AGATTAAGATAAGGATGATAAATTTTAT
1 AGATTAAGATAAGGATGATAAATTTTAT
*
18508132 AGATTAAGATAATGATGATAAATTTTAT
1 AGATTAAGATAAGGATGATAAATTTTAT
18508160 TGTAGGACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (28 bp):
AGATTAAGATAAGGATGATAAATTTTAT
Found at i:18509944 original size:21 final size:21
Alignment explanation
Indices: 18509918--18509965 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 21
18509908 GATTGGGTCG
18509918 GGTAAGGGGTGTTACAATGTT
1 GGTAAGGGGTGTTACAATGTT
18509939 GGTAAGGGGTGTTACAATGTT
1 GGTAAGGGGTGTTACAATGTT
18509960 GTGTAA
1 G-GTAA
18509966 CAAGCTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.25, C:0.04, G:0.38, T:0.33
Consensus pattern (21 bp):
GGTAAGGGGTGTTACAATGTT
Found at i:18524036 original size:132 final size:132
Alignment explanation
Indices: 18523887--18524940 Score: 1535
Period size: 132 Copynumber: 8.0 Consensus size: 132
18523877 CAACTTCAGG
* *
18523887 GAGATA-AGATTAGTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTT
1 GAGATAGA-ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTT
* * * * * * *
18523951 CAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATTCTTCAATCTATTCCACTACTCCCC
65 CGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTCCCC
18524016 AGA
130 AGA
* * *
18524019 GAGATAGAATTATTGGCTTCAATGTACTCCACTGTAATCACAGAGAGGTAAAATCCGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTC
*
18524084 GATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGC-CAACC
66 GATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTC-CCC
18524148 AGA
130 AGA
*
18524151 AAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTC
* * * * *
18524216 GATATACTCCACTACTACTTAGGGAGGTAAGATTTGAAATCTTCAATCTATTCAACTGCTGCTCA
66 GATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTCCCCA
*
18524281 GG
131 GA
* * *
18524283 GA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCATAGGGAGGTAAAATCTGCCATCTT
1 GAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTT
* * *
18524347 CGATCTACTCCACTACTACTTAGAGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCC
65 CGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTCCCC
*
18524412 AGG
130 AGA
* * *
18524415 GA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATATT
1 GAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTT
* ** *
18524479 CGATCTACTCCACTACTACTTAGGGAGGCAAGATCTGCTATCTTCAATCTATTCCACTACTCCCC
65 CGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTCCCC
18524544 AGA
130 AGA
* * * * *
18524547 AAGATAGAATTATTGGCTTCAATGTACTCCACTATAATCACAGAGAGGTAAAATCCGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTC
*
18524612 GATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGC-CAACC
66 GATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTC-CCC
18524676 AGA
130 AGA
*
18524679 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACAACAGGGAGGTAAAATCCGCCATCTTC
1 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTC
* * * * * *
18524744 GATATACTCCACTACTACTTAGGGAGGTAAGATTTGAAATCTTCAATTTATTCAACTGCTGCTCA
66 GATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTCCCCA
*
18524809 GG
131 GA
* *
18524811 GA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCTT
1 GAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTT
* * *
18524875 CGATCTACTCCACTACTACTTAGAGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTACCC
65 CGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTCCCC
18524940 A
130 A
18524941 TCAATGTACT
Statistics
Matches: 835, Mismatches: 79, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
131 4 0.00
132 829 0.99
133 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (132 bp):
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTC
GATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTCCCCA
GA
Found at i:18525016 original size:44 final size:46
Alignment explanation
Indices: 18524964--18525078 Score: 117
Period size: 55 Copynumber: 2.3 Consensus size: 46
18524954 CTGTAATCAC
18524964 AGGGAGGTAAAATCTGC-C-ATATTCGATCTACTCCACTACTACTT
1 AGGGAGGTAAAATCTGCACTATATTCGATCTACTCCACTACTACTT
*
18525008 AGGGAGGTAAGATCTGAAATCTTCAATCTATATTCGATCTACTCCACTACTACTT
1 AGGGAGGT---A----AAATCTGC-A-CTATATTCGATCTACTCCACTACTACTT
*
18525063 AGGGAGGTAAGATCTG
1 AGGGAGGTAAAATCTG
18525079 AAATCTTCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
44 8 0.14
47 1 0.02
48 5 0.09
51 7 0.12
52 1 0.02
54 1 0.02
55 34 0.60
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (46 bp):
AGGGAGGTAAAATCTGCACTATATTCGATCTACTCCACTACTACTT
Found at i:18525028 original size:112 final size:112
Alignment explanation
Indices: 18524829--18525038 Score: 393
Period size: 112 Copynumber: 1.9 Consensus size: 112
18524819 ATTACTGGCT
*
18524829 TCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTAC
1 TCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTAC
18524894 TTAGAGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTACCCA
66 TTAGAGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTACCCA
18524941 TCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTAC
1 TCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTAC
* *
18525006 TTAGGGAGGTAAGATCTGAAATCTTCAATCTAT
66 TTAGAGAGGTAAGATCTAAAATCTTCAATCTAT
18525039 ATTCGATCTA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 95 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (112 bp):
TCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTAC
TTAGAGAGGTAAGATCTAAAATCTTCAATCTATTCCACTGCTACCCA
Found at i:18525043 original size:55 final size:55
Alignment explanation
Indices: 18524982--18525093 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
18524972 AAAATCTGCC
18524982 ATATTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCT
1 ATATTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCT
18525037 ATATTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCT
1 ATATTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCT
18525092 AT
1 AT
18525094 TCCACTGTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (55 bp):
ATATTCGATCTACTCCACTACTACTTAGGGAGGTAAGATCTGAAATCTTCAATCT
Found at i:18526520 original size:8 final size:8
Alignment explanation
Indices: 18526509--18526559 Score: 56
Period size: 7 Copynumber: 6.8 Consensus size: 8
18526499 CCCTTTTTAC
18526509 TTTTTCAT
1 TTTTTCAT
18526517 TTTTTCA-
1 TTTTTCAT
18526524 TTTTTCA-
1 TTTTTCAT
18526531 -TTTTCAT
1 TTTTTCAT
*
18526538 TTTTTC-C
1 TTTTTCAT
18526545 TTTTTCAT
1 TTTTTCAT
18526553 ATTTTTC
1 -TTTTTC
18526560 CGACTTAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 6 0.16
7 13 0.35
8 12 0.32
9 6 0.16
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTCAT
Found at i:18526527 original size:15 final size:15
Alignment explanation
Indices: 18526509--18526559 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
18526499 CCCTTTTTAC
18526509 TTTTTCATTTTTTCA-
1 TTTTTCA-TTTTTCAT
18526524 TTTTTCA-TTTTCAT
1 TTTTTCATTTTTCAT
*
18526538 TTTTTCCTTTTTCAT
1 TTTTTCATTTTTCAT
18526553 ATTTTTC
1 -TTTTTC
18526560 CGACTTAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
15 14 0.44
16 6 0.19
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATTTTTCAT
Found at i:18526534 original size:21 final size:21
Alignment explanation
Indices: 18526510--18526552 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18526500 CCTTTTTACT
18526510 TTTTCATTTTTTCATTTTTCA
1 TTTTCATTTTTTCATTTTTCA
*
18526531 TTTTCATTTTTTCCTTTTTCA
1 TTTTCATTTTTTCATTTTTCA
18526552 T
1 T
18526553 ATTTTTCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCATTTTTTCATTTTTCA
Found at i:18527424 original size:9 final size:9
Alignment explanation
Indices: 18527410--18527488 Score: 56
Period size: 9 Copynumber: 8.4 Consensus size: 9
18527400 GCCTCTCCTT
18527410 TTTTTTTTC
1 TTTTTTTTC
18527419 TTTTTTTT-
1 TTTTTTTTC
18527427 TTTTTTATT-
1 TTTTTT-TTC
18527436 TTTTATTTT-
1 TTTT-TTTTC
*
18527445 TTTCTTTTGAC
1 TTT-TTTT-TC
18527456 TTTGATTTTTC
1 TTT--TTTTTC
*
18527467 TTTTTCTTC
1 TTTTTTTTC
*
18527476 TTTTTCTTC
1 TTTTTTTTC
18527485 TTTT
1 TTTT
18527489 GATTTTGATT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
8 6 0.10
9 40 0.67
10 3 0.05
11 7 0.12
12 4 0.07
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:18527428 original size:15 final size:15
Alignment explanation
Indices: 18527408--18527452 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
18527398 TGGCCTCTCC
18527408 TTTTTTTTTTCTTTT
1 TTTTTTTTTTCTTTT
*
18527423 TTTTTTTTTTATTTT
1 TTTTTTTTTTCTTTT
*
18527438 TTATTTTTTTCTTTT
1 TTTTTTTTTTCTTTT
18527453 GACTTTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.04, C:0.04, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTTTTTCTTTT
Found at i:18527471 original size:1 final size:1
Alignment explanation
Indices: 18527408--18527452 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
18527398 TGGCCTCTCC
* * * *
18527408 TTTTTTTTTTCTTTTTTTTTTTTTTATTTTTTATTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18527453 GACTTTGATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.04, C:0.04, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:18532697 original size:3 final size:3
Alignment explanation
Indices: 18532689--18532720 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18532679 ATAAATTAAA
18532689 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18532721 AAGGGTTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18537655 original size:3 final size:3
Alignment explanation
Indices: 18537647--18537671 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18537637 TGCTTACTAT
18537647 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
18537672 TATGTGCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:18548416 original size:21 final size:23
Alignment explanation
Indices: 18548390--18548431 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18548380 AATGCATTCA
18548390 TATCA-TAA-AACACAATAATCT
1 TATCATTAAGAACACAATAATCT
*
18548411 TATCATTAAGCACACAATAAT
1 TATCATTAAGAACACAATAAT
18548432 GATATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (23 bp):
TATCATTAAGAACACAATAATCT
Found at i:18551149 original size:18 final size:18
Alignment explanation
Indices: 18551126--18551160 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18551116 TATAAACTTT
18551126 AAAATTATATA-TTTTTTA
1 AAAATTA-ATACTTTTTTA
18551144 AAAATTAATACTTTTTT
1 AAAATTAATACTTTTTT
18551161 TCTTTTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
AAAATTAATACTTTTTTA
Found at i:18555569 original size:26 final size:26
Alignment explanation
Indices: 18555505--18555571 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
18555495 TGTCGATTCT
18555505 CTGAAGCTAGTGTTAGCAACATCGAA
1 CTGAAGCTAGTGTTAGCAACATCGAA
* *
18555531 CT-AAGCTAGTGTTAGCAAC-CCTGAT
1 CTGAAGCTAGTGTTAGCAACATC-GAA
*
18555556 TTGAAGCTAGTGTTAG
1 CTGAAGCTAGTGTTAG
18555572 TAGCTCGGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 20 0.56
26 15 0.42
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (26 bp):
CTGAAGCTAGTGTTAGCAACATCGAA
Found at i:18561857 original size:14 final size:14
Alignment explanation
Indices: 18561824--18561866 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
18561814 TCAAATCAAA
*
18561824 TCGAGTGAAATGAGAT
1 TCGAGTGAAAT--TAT
18561840 TCGAGTGAAATTAT
1 TCGAGTGAAATTAT
*
18561854 TCGAGTTAAATTA
1 TCGAGTGAAATTA
18561867 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 14 0.56
16 11 0.44
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
TCGAGTGAAATTAT
Found at i:18562103 original size:29 final size:28
Alignment explanation
Indices: 18562039--18562107 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
18562029 TTTTAGAAAA
18562039 TTTTAGAATTTTAACTTTCTTATCAAAT
1 TTTTAGAATTTTAACTTTCTTATCAAAT
* ** *
18562067 TTGTAGAATTTTAACTTTCTTTATTTATT
1 TTTTAGAATTTTAACTTTC-TTATCAAAT
18562096 TTTTAGAATTTT
1 TTTTAGAATTTT
18562108 TAAAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 18 0.51
29 17 0.49
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (28 bp):
TTTTAGAATTTTAACTTTCTTATCAAAT
Found at i:18562115 original size:19 final size:18
Alignment explanation
Indices: 18562093--18562192 Score: 57
Period size: 19 Copynumber: 5.4 Consensus size: 18
18562083 TTCTTTATTT
18562093 ATTTTTTAGAATTTTTAAA
1 ATTTTTT-GAATTTTTAAA
* *
18562112 ATTTTTTAAAATATTT---
1 ATTTTTT-GAATTTTTAAA
18562128 -TTTTTTGAAATTTTTATAA
1 ATTTTTTG-AATTTTTA-AA
*
18562147 ATATTTTGAA-TTTTAAA
1 ATTTTTTGAATTTTTAAA
*
18562164 ATTTATTTTGAATTATTTTATA
1 A-TT-TTTTGAA-T-TTTTAAA
18562186 ATTTTTT
1 ATTTTTT
18562193 TTAGAGAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 21
0.69 0.08 0.23
Matches are distributed among these distances:
15 12 0.19
17 3 0.05
18 6 0.10
19 23 0.37
20 10 0.16
21 2 0.03
22 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
ATTTTTTGAATTTTTAAA
Found at i:18562138 original size:25 final size:25
Alignment explanation
Indices: 18562104--18562167 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
18562094 TTTTTTAGAA
18562104 TTTTTAAAATTTTT-TAAAATATTTT
1 TTTTTAAAATTTTTAT-AAATATTTT
*
18562129 TTTTTGAAATTTTTATAAATATTTT
1 TTTTTAAAATTTTTATAAATATTTT
*
18562154 GAATTTTAAAATTT
1 --TTTTTAAAATTT
18562168 ATTTTGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 22 0.67
26 1 0.03
27 10 0.30
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (25 bp):
TTTTTAAAATTTTTATAAATATTTT
Found at i:18579260 original size:15 final size:15
Alignment explanation
Indices: 18579225--18579276 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
18579215 TTAAGAATTT
*
18579225 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18579239 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18579253 TATTTAATAATAAT-
1 TATTTAATTATAATA
18579267 TATGTTAATT
1 TAT-TTAATT
18579277 TAAATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Done.