Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 19 of 316
Found at i:5760485 original size:54 final size:54
Alignment explanation
Indices: 5760426--5760561 Score: 175
Period size: 54 Copynumber: 2.5 Consensus size: 54
5760416 TGGTTGCCAA
*
5760426 AACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCACCAG
* * *
5760480 AACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAG
1 AACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACCAG
* * * * *
5760534 ATCATATATTTGTGGCATAGCCACCAGA
1 AACAGATATATGTGACAGAGCCACCAGA
5760562 ACGCTTCCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 55 0.75
55 18 0.25
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
AACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACCAG
Found at i:5762317 original size:26 final size:26
Alignment explanation
Indices: 5762182--5762316 Score: 225
Period size: 26 Copynumber: 5.2 Consensus size: 26
5762172 ATGAAATTCA
* *
5762182 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCTAT
5762208 TATCATGGAACATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACCTAT
* *
5762234 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCTAT
5762260 TATCATGGAACATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACCTAT
*
5762286 TATCAAGGAACATTTACCTAACCTAT
1 TATCATGGAACATTTACCTAACCTAT
5762312 TATCA
1 TATCA
5762317 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCTAT
Found at i:5766005 original size:27 final size:28
Alignment explanation
Indices: 5765969--5766108 Score: 193
Period size: 27 Copynumber: 5.2 Consensus size: 28
5765959 AGCATGGCTG
* *
5765969 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
5765995 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
5766023 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
5766050 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
5766077 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
5766104 CCAGA
1 CCAGA
5766109 ACGCTTCCTC
Statistics
Matches: 107, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 85 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:5767861 original size:78 final size:78
Alignment explanation
Indices: 5767728--5767889 Score: 279
Period size: 78 Copynumber: 2.1 Consensus size: 78
5767718 CATGAAATTC
*
5767728 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
5767793 TTTACCTAACCTA
66 TTTACCTAACCTA
* * * *
5767806 TTATCATTAAACATTTACCTAACCCATTATTATGGAACATTTACCTAACCTATTATCAAGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
5767871 TTTACCTAACCTA
66 TTTACCTAACCTA
5767884 TTATCA
1 TTATCA
5767890 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
TTTACCTAACCTA
Found at i:5767890 original size:26 final size:26
Alignment explanation
Indices: 5767728--5767889 Score: 243
Period size: 26 Copynumber: 6.2 Consensus size: 26
5767718 CATGAAATTC
5767728 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5767754 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5767780 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
5767806 TTATCATTAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
5767832 TTATTATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
5767858 TTATCAAGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5767884 TTATCA
1 TTATCA
5767890 ATTTGTATCA
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5769022 original size:32 final size:33
Alignment explanation
Indices: 5768970--5769046 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 33
5768960 AAATCTAATA
*
5768970 AATTCAATTAATCAATGAGTTA-TCAAATTAAATT
1 AATT-AATTAATCAATGAGTTACT-AAATTAAAGT
* *
5769004 AATTAATTTATC-ATGAGTTACTAAATTCAAGT
1 AATTAATTAATCAATGAGTTACTAAATTAAAGT
5769036 AATTAATTAAT
1 AATTAATTAAT
5769047 ATGTTTATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 26 0.68
33 8 0.21
34 4 0.11
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (33 bp):
AATTAATTAATCAATGAGTTACTAAATTAAAGT
Found at i:5769840 original size:11 final size:10
Alignment explanation
Indices: 5769820--5769886 Score: 66
Period size: 11 Copynumber: 6.4 Consensus size: 10
5769810 TAACCCTTTT
5769820 AAATT-TTAA
1 AAATTATTAA
5769829 AAATTATTTAA
1 AAATTA-TTAA
5769840 AAATTA-TAA
1 AAATTATTAA
*
5769849 AAATTATAAA
1 AAATTATTAA
5769859 CAAGATTTATTTAA
1 -AA-A-TTA-TTAA
5769873 AAATTATTAA
1 AAATTATTAA
5769883 AAAT
1 AAAT
5769887 AAAAATACCA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
9 14 0.29
10 10 0.20
11 15 0.31
12 2 0.04
13 5 0.10
14 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (10 bp):
AAATTATTAA
Found at i:5769849 original size:9 final size:9
Alignment explanation
Indices: 5769820--5769858 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
5769810 TAACCCTTTT
*
5769820 AAATTTTAA
1 AAATTATAA
5769829 AAATTATTTAA
1 AAATTA--TAA
5769840 AAATTATAA
1 AAATTATAA
5769849 AAATTATAA
1 AAATTATAA
5769858 A
1 A
5769859 CAAGATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AAATTATAA
Found at i:5770830 original size:14 final size:14
Alignment explanation
Indices: 5770811--5770847 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5770801 TAAAATTGTG
5770811 AAAAAATAACAACA
1 AAAAAATAACAACA
*
5770825 AAAAAATAATAACA
1 AAAAAATAACAACA
*
5770839 AAACAATAA
1 AAAAAATAA
5770848 ATAAAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAATAACAACA
Found at i:5774343 original size:21 final size:21
Alignment explanation
Indices: 5774319--5774361 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5774309 TTTTTAATCT
5774319 ATTTATAC-TCGTAATTATTTG
1 ATTT-TACTTCGTAATTATTTG
*
5774340 ATTTTACTTTGTAATTATTTG
1 ATTTTACTTCGTAATTATTTG
5774361 A
1 A
5774362 AAAAATTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (21 bp):
ATTTTACTTCGTAATTATTTG
Found at i:5785211 original size:14 final size:15
Alignment explanation
Indices: 5785192--5785220 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5785182 AAAAATAGTA
5785192 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
5785206 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
5785221 GAGATACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:5786473 original size:16 final size:16
Alignment explanation
Indices: 5786422--5786479 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
5786412 AGTTTAGTGG
* *
5786422 AATGGAATAGGACTTT
1 AATGAAATAGGACTGT
5786438 AAT-AGAATAGGACTGT
1 AATGA-AATAGGACTGT
* *
5786454 AATGCAATAGGGCTGT
1 AATGAAATAGGACTGT
5786470 AATGAAATAG
1 AATGAAATAG
5786480 AGTTGTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (16 bp):
AATGAAATAGGACTGT
Found at i:5786486 original size:16 final size:16
Alignment explanation
Indices: 5786450--5786488 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5786440 TAGAATAGGA
* *
5786450 CTGTAATGCAATAGGG
1 CTGTAATGAAATAGAG
5786466 CTGTAATGAAATAGAG
1 CTGTAATGAAATAGAG
*
5786482 TTGTAAT
1 CTGTAAT
5786489 TAGTAATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:5787475 original size:16 final size:16
Alignment explanation
Indices: 5787442--5787475 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5787432 GCCTAGTGTT
* *
5787442 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
5787458 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
5787474 AA
1 AA
5787476 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:5790296 original size:21 final size:21
Alignment explanation
Indices: 5790270--5790311 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5790260 CAGACGAGCA
* *
5790270 ATACTCCACAGCAGGTGGAGT
1 ATACTCCAAAACAGGTGGAGT
5790291 ATACTCCAAAACAGGTGGAGT
1 ATACTCCAAAACAGGTGGAGT
5790312 TTGAGCAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (21 bp):
ATACTCCAAAACAGGTGGAGT
Found at i:5792247 original size:16 final size:16
Alignment explanation
Indices: 5792214--5792247 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5792204 GGAGATTGTT
* *
5792214 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
5792230 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
5792246 AA
1 AA
5792248 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:5797550 original size:30 final size:31
Alignment explanation
Indices: 5797490--5797553 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
5797480 TCTTCATTGT
*
5797490 TAATTATATTACTAAATTAACATTAGAATAA
1 TAATTATATTACTAAATTAACATGAGAATAA
* *
5797521 TAATT-TATTACTATTATT-ACATGATAATAA
1 TAATTATATTACTA-AATTAACATGAGAATAA
5797551 TAA
1 TAA
5797554 AAGAACGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (31 bp):
TAATTATATTACTAAATTAACATGAGAATAA
Found at i:5808192 original size:25 final size:24
Alignment explanation
Indices: 5808158--5808205 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
5808148 TTATGTATTT
*
5808158 TAAATTATAT-AATGTATATATAAAA
1 TAAATAATATGAA-GTA-ATATAAAA
5808183 TAAATAATATGAAGTAATATAAA
1 TAAATAATATGAAGTAATATAAA
5808206 CTTAAAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 12 0.57
26 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (24 bp):
TAAATAATATGAAGTAATATAAAA
Found at i:5808211 original size:25 final size:25
Alignment explanation
Indices: 5808157--5808211 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
5808147 TTTATGTATT
*
5808157 TTAAATTATATAATGTATATATAAA
1 TTAAATAATATAATGTATATATAAA
*
5808182 ATAAATAATATGAA-GTA-ATATAAA
1 TTAAATAATAT-AATGTATATATAAA
5808206 CTTAAA
1 -TTAAA
5808212 ACGGGTGGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 7 0.28
25 16 0.64
26 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.36
Consensus pattern (25 bp):
TTAAATAATATAATGTATATATAAA
Found at i:5808999 original size:16 final size:18
Alignment explanation
Indices: 5808960--5809004 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
5808950 TAATCTTTTT
5808960 ATTTTTATAAAAATTGAA
1 ATTTTTATAAAAATTGAA
*
5808978 ATTTTTATAAATATTG-A
1 ATTTTTATAAAAATTGAA
5808995 ATTTTATATA
1 ATTTT-TATA
5809005 TTTTTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
ATTTTTATAAAAATTGAA
Found at i:5813511 original size:20 final size:21
Alignment explanation
Indices: 5813476--5813530 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
5813466 AATCCTTCAT
* *
5813476 ATTAAATCCCAAAACCCAACAC
1 ATTAAA-CTCAAAACCCAACAA
5813498 ATTAAACT-AAAACCCAACAA
1 ATTAAACTCAAAACCCAACAA
5813518 ATTAAACTCAAAA
1 ATTAAACTCAAAA
5813531 TTTTACCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 19 0.63
21 5 0.17
22 6 0.20
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.16
Consensus pattern (21 bp):
ATTAAACTCAAAACCCAACAA
Found at i:5814866 original size:22 final size:22
Alignment explanation
Indices: 5814824--5814905 Score: 60
Period size: 22 Copynumber: 3.6 Consensus size: 22
5814814 AATACTAGTG
*
5814824 TATATTTTATTATGTATGTATA
1 TATATTTTATTATATATGTATA
*
5814846 TATATTCTTTTTATATA-GTAT-
1 TATATT-TTATTATATATGTATA
* *
5814867 TATCGTTTCTATTATTATATCTATA
1 TAT-ATTT-TATTA-TATATGTATA
*
5814892 TTTATGTTTATTAT
1 TATAT-TTTATTAT
5814906 TTTCACTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
21 4 0.09
22 16 0.35
23 13 0.28
24 9 0.20
25 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.61
Consensus pattern (22 bp):
TATATTTTATTATATATGTATA
Found at i:5815129 original size:22 final size:21
Alignment explanation
Indices: 5815076--5815135 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
5815066 TTTTAAATAT
*
5815076 TATATTTTCTATATATTATGTA
1 TATATTTT-TATATATTACGTA
*
5815098 TACATTTTTTATATATTACGTA
1 TATA-TTTTTATATATTACGTA
5815120 TATATCTTTTA-ATATT
1 TATAT-TTTTATATATT
5815136 GTACTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 6 0.18
22 23 0.70
23 4 0.12
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (21 bp):
TATATTTTTATATATTACGTA
Found at i:5815157 original size:60 final size:63
Alignment explanation
Indices: 5815046--5815165 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 63
5815036 TAAATACTCT
* * *
5815046 TATATTATGTATATTATTCTTTTTAAATATTATATTTTCTATATATTATGTATACATTTTTTA
1 TATATTACGTATATTATTCTTTTTAAATATTATATTTTATATATATCATGTATACATTTTTTA
* *
5815109 TATATTACGTATA-TA-TC-TTTT-AATATTGTACTTTTATATATATCATGTATATATTTT
1 TATATTACGTATATTATTCTTTTTAAATATTATA-TTTTATATATATCATGTATACATTTT
5815166 GAATACTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 8 0.16
60 27 0.53
61 2 0.04
62 2 0.04
63 12 0.24
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (63 bp):
TATATTACGTATATTATTCTTTTTAAATATTATATTTTATATATATCATGTATACATTTTTTA
Found at i:5815234 original size:16 final size:16
Alignment explanation
Indices: 5815213--5815243 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5815203 TATATTATGC
*
5815213 TTTTTAATACTATATT
1 TTTTTAATACCATATT
5815229 TTTTTAATACCATAT
1 TTTTTAATACCATAT
5815244 ATATTGTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAATACCATATT
Found at i:5815578 original size:27 final size:28
Alignment explanation
Indices: 5815539--5815613 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
5815529 TTTCTAATAC
*
5815539 TATATTATGTTTTCATATATATAT-TATG
1 TATATAAT-TTTTCATATATATATATATG
5815567 TATATACATTTTTCA-ATAT-TATATATG
1 TATATA-ATTTTTCATATATATATATATG
5815594 TATAT-ATTTTTCATATATAT
1 TATATAATTTTTCATATATAT
5815614 GCGTATATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
25 8 0.19
26 7 0.17
27 14 0.33
28 11 0.26
29 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (28 bp):
TATATAATTTTTCATATATATATATATG
Found at i:5815619 original size:23 final size:25
Alignment explanation
Indices: 5815569--5815625 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
5815559 ATATTATGTA
* *
5815569 TATACATTTTTCAATATTATATATG
1 TATATATTTTTCAATATTATATACG
*
5815594 TATATATTTTTC-ATA-TATATGCG
1 TATATATTTTTCAATATTATATACG
5815617 TATATATTT
1 TATATATTT
5815626 ATGTAGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.52
24 3 0.10
25 11 0.38
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATATTTTTCAATATTATATACG
Found at i:5815937 original size:11 final size:9
Alignment explanation
Indices: 5815909--5815934 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5815899 TCTAATATAG
5815909 GTATATATT
1 GTATATATT
5815918 GTATATATT
1 GTATATATT
5815927 GTATATAT
1 GTATATAT
5815935 ATTATGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (9 bp):
GTATATATT
Found at i:5822407 original size:52 final size:47
Alignment explanation
Indices: 5822328--5822534 Score: 173
Period size: 47 Copynumber: 4.3 Consensus size: 47
5822318 CCATGACAGC
* * * * *
5822328 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGACAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCAT----C-A
*
5822381 ATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCA
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCA
* * *
5822428 GTGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCA
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCA
* * * * ** * * *
5822475 GTGTGATACGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGGT
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC--A
5822523 ATGTGATATGTG
1 ATGTGATATGTG
5822535 ACTATGTGCA
Statistics
Matches: 130, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
46 25 0.19
47 55 0.42
48 11 0.08
52 28 0.22
53 11 0.08
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (47 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCA
Found at i:5822451 original size:47 final size:47
Alignment explanation
Indices: 5822382--5822502 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
5822372 TTCGGACAAA
*
5822382 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* *
5822429 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* * *
5822476 TGTGATACGTGAT-CCGTGTAAGACCAT
1 TGTGATATGTGCTACCGTATAAGACCAT
5822503 GGCTGGGCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
46 12 0.18
47 55 0.82
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
Found at i:5831952 original size:73 final size:73
Alignment explanation
Indices: 5831833--5831970 Score: 242
Period size: 73 Copynumber: 1.9 Consensus size: 73
5831823 TTGGTTTCAA
*
5831833 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT-CAATTT
1 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGT-ATTTCCAATTT
5831897 CTGCTTGCC
65 CTGCTTGCC
*
5831906 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTCCAATTTC
1 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTCCAATTTC
5831971 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
72 4 0.06
73 58 0.94
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (73 bp):
AAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTCCAATTTC
TGCTTGCC
Found at i:5832035 original size:87 final size:87
Alignment explanation
Indices: 5831888--5832067 Score: 297
Period size: 87 Copynumber: 2.1 Consensus size: 87
5831878 GCTGAGGTAA
*
5831888 TTTCAATTTCTGCTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGC
1 TTTCAATTTATGCTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGC
5831953 TGAGGTATTTCCAATTTCCGTT
66 TGAGGTATTTCCAATTTCCGTT
** * *
5831975 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGC
1 TTTCAATTTATGCTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGC
* *
5832040 TGAGGTATTTTCAATTTCTGTT
66 TGAGGTATTTCCAATTTCCGTT
5832062 TTTCAA
1 TTTCAA
5832068 AAATCAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (87 bp):
TTTCAATTTATGCTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGC
TGAGGTATTTCCAATTTCCGTT
Found at i:5832134 original size:54 final size:55
Alignment explanation
Indices: 5832047--5832154 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 55
5832037 CGCTGAGGTA
**
5832047 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
*
5832102 TTTT-AATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
5832155 TCAGGATCAC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
54 46 0.92
55 4 0.08
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (55 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
Found at i:5832608 original size:22 final size:22
Alignment explanation
Indices: 5832573--5832619 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
5832563 CAATTTTGGC
* * *
5832573 CCCTTTATATTAAACTCCAAAA
1 CCCTTCATACTAAACCCCAAAA
5832595 CCCTTCATACTAAACCCCAAAA
1 CCCTTCATACTAAACCCCAAAA
5832617 CCC
1 CCC
5832620 AACACATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (22 bp):
CCCTTCATACTAAACCCCAAAA
Found at i:5832630 original size:22 final size:21
Alignment explanation
Indices: 5832581--5832643 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
5832571 GCCCCTTTAT
** *
5832581 ATTAAACTCCAAAACCCTTCAT
1 ATTAAAC-CCAAAACCCAACAC
*
5832603 ACTAAACCCCAAAACCCAACAC
1 ATTAAA-CCCAAAACCCAACAC
*
5832625 ATTAAA-CTAAAACCCAACA
1 ATTAAACCCAAAACCCAACA
5832644 AATAGATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.35
22 21 0.62
23 1 0.03
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (21 bp):
ATTAAACCCAAAACCCAACAC
Found at i:5832883 original size:22 final size:21
Alignment explanation
Indices: 5832830--5832921 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 21
5832820 TTTTAAATAT
*
5832830 TATATTTTCTATATATTATGTA
1 TATATTTT-TATATATTACGTA
*
5832852 TACATTTTTTATATATTACGTA
1 TATA-TTTTTATATATTACGTA
5832874 TATATCTTTTA-ATATT--GTA
1 TATAT-TTTTATATATTACGTA
* * * *
5832893 -CT-TTTATATATATCATGTA
1 TATATTTTTATATATTACGTA
5832912 TATATTTTTA
1 TATATTTTTA
5832922 ATACTATATT
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
16 4 0.07
17 5 0.09
18 1 0.02
19 6 0.11
20 1 0.02
21 11 0.20
22 23 0.42
23 4 0.07
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (21 bp):
TATATTTTTATATATTACGTA
Found at i:5832911 original size:60 final size:63
Alignment explanation
Indices: 5832800--5832920 Score: 160
Period size: 60 Copynumber: 2.0 Consensus size: 63
5832790 TAAATAGTCT
* * *
5832800 TATATTATGTATATTATTCTTTTTAAATATTATATTTTCTATATATTATGTATACATTTTTTA
1 TATATTACGTATATTATTCTTTTTAAATATTATATTTTATATATATCATGTATACATTTTTTA
* *
5832863 TATATTACGTATA-TA-TC-TTTT-AATATTGTACTTTTATATATATCATGTATATATTTTT
1 TATATTACGTATATTATTCTTTTTAAATATTATA-TTTTATATATATCATGTATACATTTTT
5832921 AATACTATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 8 0.15
60 28 0.54
61 2 0.04
62 2 0.04
63 12 0.23
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (63 bp):
TATATTACGTATATTATTCTTTTTAAATATTATATTTTATATATATCATGTATACATTTTTTA
Found at i:5832988 original size:16 final size:16
Alignment explanation
Indices: 5832967--5832997 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5832957 TATATTATGC
*
5832967 TTTTTAATACTATATT
1 TTTTTAATACCATATT
5832983 TTTTTAATACCATAT
1 TTTTTAATACCATAT
5832998 ATATTGTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAATACCATATT
Found at i:5833370 original size:23 final size:25
Alignment explanation
Indices: 5833320--5833376 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
5833310 ACATTATGTA
* *
5833320 TATACATTTTTCAATATTATATATG
1 TATATATTTTTCAATATTATATACG
*
5833345 TATATATTTTTC-ATA-TATATGCG
1 TATATATTTTTCAATATTATATACG
5833368 TATATATTT
1 TATATATTT
5833377 ATGTAGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.52
24 3 0.10
25 11 0.38
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATATTTTTCAATATTATATACG
Found at i:5833480 original size:19 final size:18
Alignment explanation
Indices: 5833446--5833481 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
5833436 ATTATGTATG
5833446 TATATATATATACATTTA
1 TATATATATATACATTTA
*
5833464 TATATATTATGTACATTT
1 TATATA-TATATACATTT
5833482 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TATATATATATACATTTA
Found at i:5844980 original size:3 final size:3
Alignment explanation
Indices: 5844969--5845003 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
5844959 TCTTGTTTTT
5844969 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5845004 GATATGTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5845133 original size:12 final size:12
Alignment explanation
Indices: 5845116--5845145 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5845106 TTTCAATAAT
5845116 ATTATTATTATC
1 ATTATTATTATC
5845128 ATTATTATTATC
1 ATTATTATTATC
*
5845140 AATATT
1 ATTATT
5845146 TGTATATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:5851394 original size:22 final size:22
Alignment explanation
Indices: 5851366--5851415 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
5851356 CCCTTGTTGG
5851366 CCACCCACATTGGCCACCTAAA
1 CCACCCACATTGGCCACCTAAA
*
5851388 CCACCCACCTTGGCCACCTAAA
1 CCACCCACATTGGCCACCTAAA
5851410 CCACCC
1 CCACCC
5851416 CAACCACTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.52, G:0.08, T:0.12
Consensus pattern (22 bp):
CCACCCACATTGGCCACCTAAA
Found at i:5851518 original size:20 final size:21
Alignment explanation
Indices: 5851493--5851532 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5851483 GTTAGAGAGA
5851493 GAGG-TTTTTTTTGTTTTTTG
1 GAGGTTTTTTTTTGTTTTTTG
5851513 GAGGTTTTTTTTTGTTTTTT
1 GAGGTTTTTTTTTGTTTTTT
5851533 TGGAAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.05, C:0.00, G:0.23, T:0.72
Consensus pattern (21 bp):
GAGGTTTTTTTTTGTTTTTTG
Found at i:5851881 original size:12 final size:13
Alignment explanation
Indices: 5851864--5851918 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
5851854 GAGAGCTTTG
5851864 TTTTATTTT-TTA
1 TTTTATTTTATTA
5851876 TTTTATTTTATTA
1 TTTTATTTTATTA
**
5851889 TTTT-TACTATTA
1 TTTTATTTTATTA
5851901 TTTATATTATTATTA
1 TTT-TATT-TTATTA
5851916 TTT
1 TTT
5851919 CTCATGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 18 0.51
13 8 0.23
14 1 0.03
15 8 0.23
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:5851902 original size:3 final size:3
Alignment explanation
Indices: 5851873--5851957 Score: 56
Period size: 3 Copynumber: 28.3 Consensus size: 3
5851863 GTTTTATTTT
* *
5851873 TTA TT- TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
5851916 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
5851958 ATATGCCCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
2 9 0.14
3 48 0.73
4 7 0.11
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5851944 original size:12 final size:12
Alignment explanation
Indices: 5851877--5851957 Score: 78
Period size: 12 Copynumber: 6.8 Consensus size: 12
5851867 TATTTTTTAT
*
5851877 TTTATTTTATTA
1 TTTATATTATTA
* *
5851889 TTTTTACTATTA
1 TTTATATTATTA
5851901 TTTATATTATTA
1 TTTATATTATTA
* *
5851913 -TTAT-TTCTCA
1 TTTATATTATTA
5851923 TGTATATATTATTA
1 T-T-TATATTATTA
5851937 TTTATATTATTA
1 TTTATATTATTA
5851949 -TTATATTAT
1 TTTATATTAT
5851958 ATATGCCCTC
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.23
12 30 0.54
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:5854829 original size:19 final size:19
Alignment explanation
Indices: 5854805--5854851 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
5854795 TCTTCTTTTT
*
5854805 TTTGCATT-CATTCCATACA
1 TTTGCATTACATT-CAAACA
*
5854824 TTTGCATTACATTGAAACA
1 TTTGCATTACATTCAAACA
5854843 TTTGCATTA
1 TTTGCATTA
5854852 AACTTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCAAACA
Found at i:5867374 original size:8 final size:8
Alignment explanation
Indices: 5867361--5867397 Score: 53
Period size: 7 Copynumber: 5.0 Consensus size: 8
5867351 CATCTTTTAA
5867361 AAAAAGAG
1 AAAAAGAG
5867369 AAAAAGA-
1 AAAAAGAG
5867376 AAAAAGA-
1 AAAAAGAG
5867383 AAAAA-AG
1 AAAAAGAG
5867390 AAAAAGAG
1 AAAAAGAG
5867398 GGATCAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 17 0.63
8 9 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAGAG
Found at i:5867378 original size:15 final size:15
Alignment explanation
Indices: 5867360--5867394 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
5867350 ACATCTTTTA
*
5867360 AAAAAAGAGAAAAAG
1 AAAAAAGAAAAAAAG
5867375 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
5867390 AAAAA
1 AAAAA
5867395 GAGGGATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:5867379 original size:7 final size:7
Alignment explanation
Indices: 5867360--5867394 Score: 52
Period size: 8 Copynumber: 4.7 Consensus size: 7
5867350 ACATCTTTTA
5867360 AAAAAAG
1 AAAAAAG
5867367 AGAAAAAG
1 A-AAAAAG
5867375 AAAAAAG
1 AAAAAAG
5867382 AAAAAAAG
1 -AAAAAAG
5867390 AAAAA
1 AAAAA
5867395 GAGGGATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 12 0.46
8 14 0.54
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:5868667 original size:141 final size:142
Alignment explanation
Indices: 5868326--5868736 Score: 752
Period size: 142 Copynumber: 2.9 Consensus size: 142
5868316 TATACTTTCC
5868326 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
*
5868391 TGTTTTCAGTTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
66 TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
5868456 TTCTGTTTTTTT
131 TTCTGTTTTTTT
* * *
5868468 TAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAACTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
5868533 TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
66 TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
5868598 TTCTG-TTTTTT
131 TTCTGTTTTTTT
5868609 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
* * *
5868674 TATTTTCAGTTTCTGTTTTTCATAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTTTTTA
66 TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTA
5868737 TGTAACGCCC
Statistics
Matches: 259, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
141 128 0.49
142 131 0.51
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (142 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
TGTTTTCAGTTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
TTCTGTTTTTTT
Found at i:5869092 original size:26 final size:26
Alignment explanation
Indices: 5869063--5869170 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
5869053 TGGTACAAAT
5869063 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5869089 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5869115 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5869141 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5869167 TGAT
1 TGAT
5869171 GGGCATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5870709 original size:26 final size:26
Alignment explanation
Indices: 5870657--5870709 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5870647 TTTACAGTTT
*
5870657 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
5870683 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
5870709 T
1 T
5870710 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:5872084 original size:56 final size:56
Alignment explanation
Indices: 5872015--5872128 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
5872005 TCATGTTTTC
*
5872015 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
5872071 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
5872127 AA
1 AA
5872129 TCTACTTTTC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (56 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
Found at i:5872534 original size:44 final size:44
Alignment explanation
Indices: 5872485--5872590 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
5872475 GTGATAGAAG
** * *
5872485 AGCAGATTGAAGCTGTAAATCTTATCTT-TATGAAGTTACAATGA
1 AGCAGATTGAAGCTACAAATCTCATATTCT-TGAAGTTACAATGA
** * *
5872529 AGCAGATCAAAGCCACAAATCTCATATTCTTGAAGTTACATTGA
1 AGCAGATTGAAGCTACAAATCTCATATTCTTGAAGTTACAATGA
*
5872573 AGTAGATTGAAGCTACAA
1 AGCAGATTGAAGCTACAA
5872591 GGCATATATC
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 48 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (44 bp):
AGCAGATTGAAGCTACAAATCTCATATTCTTGAAGTTACAATGA
Found at i:5874162 original size:12 final size:12
Alignment explanation
Indices: 5874145--5874174 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5874135 TTTCAATATT
5874145 ATTATTATTATC
1 ATTATTATTATC
5874157 ATTATTATTATC
1 ATTATTATTATC
*
5874169 AATATT
1 ATTATT
5874175 TGTATATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:5876456 original size:16 final size:18
Alignment explanation
Indices: 5876424--5876459 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5876414 TATAATACTT
5876424 TATATTATGTTATATTTA
1 TATATTATGTTATATTTA
5876442 TATATTATG-TA-ATTTA
1 TATATTATGTTATATTTA
5876458 TA
1 TA
5876460 ACACATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TATATTATGTTATATTTA
Found at i:5876650 original size:200 final size:200
Alignment explanation
Indices: 5876307--5876700 Score: 752
Period size: 200 Copynumber: 2.0 Consensus size: 200
5876297 AAGGCCCGCC
5876307 TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
1 TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
5876372 GAACATTCAAGGCCCGATCCTAGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
66 GAACATTCAAGGCCCGATCCTAGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
* *
5876437 ATTTATATATTATGTAATTTATAACACATTAAAAAAATAAAACTATACTACATATATAATGCTAT
131 ATTTATATATTATGTAATTCATAACACATTAAAAAAATAAAACTATACTAAATATATAATGCTAT
5876502 ATTTA
196 ATTTA
5876507 TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
1 TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
* *
5876572 GAACATTCAAGGCCCGATTCTGGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
66 GAACATTCAAGGCCCGATCCTAGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
5876637 ATTTATATATTATGTAATTCATAACACATTAAAAAAATAAAACTATACTAAATATATAATGCTA
131 ATTTATATATTATGTAATTCATAACACATTAAAAAAATAAAACTATACTAAATATATAATGCTA
5876701 CTCCAATGCA
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 190 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (200 bp):
TGAATTTTAGGAGGGTTTGGGTAAAAATATTACGCCCGTTTAAAATATGAGTTAGGCTCAAGCTT
GAACATTCAAGGCCCGATCCTAGCCTGACCCATTTTTAAGTTTATAATACTTTATATTATGTTAT
ATTTATATATTATGTAATTCATAACACATTAAAAAAATAAAACTATACTAAATATATAATGCTAT
ATTTA
Found at i:5882062 original size:21 final size:20
Alignment explanation
Indices: 5882028--5882067 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5882018 ATTTTTTTAT
*
5882028 CATTTTAATAATTATTAATA
1 CATTTTAATAATTAATAATA
*
5882048 CATTTATAATTATTAATAAT
1 CATTT-TAATAATTAATAAT
5882068 GTTTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
CATTTTAATAATTAATAATA
Found at i:5887039 original size:18 final size:17
Alignment explanation
Indices: 5886980--5887041 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
5886970 AACTTTCAAC
*
5886980 ATTTAAAAATATGTAAAA
1 ATTTAAAAA-ATTTAAAA
* *
5886998 ATTCATTAAAATGTATAAAA
1 ATTTA-AAAAAT-T-TAAAA
5887018 ATTTAAAAAATTTAAAA
1 ATTTAAAAAATTTAAAA
5887035 CATTTAA
1 -ATTTAA
5887042 CATTTATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.14
18 13 0.37
19 8 0.23
20 9 0.26
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATTTAAAAAATTTAAAA
Found at i:5887368 original size:20 final size:19
Alignment explanation
Indices: 5887344--5887392 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
5887334 TTTATTTTTA
5887344 TAAAATTTCAAATAGTT-TT
1 TAAAATTTCAAATA-TTATT
*
5887363 TCAAAATTTAAAATATTATT
1 T-AAAATTTCAAATATTATT
5887383 TAAAATTTCA
1 TAAAATTTCA
5887393 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (19 bp):
TAAAATTTCAAATATTATT
Found at i:5891472 original size:14 final size:14
Alignment explanation
Indices: 5891453--5891481 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5891443 TCCTTTGCAG
5891453 ATATATATATATAA
1 ATATATATATATAA
5891467 ATATATATATATAA
1 ATATATATATATAA
5891481 A
1 A
5891482 CCTTAATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATATATAA
Found at i:5896327 original size:31 final size:31
Alignment explanation
Indices: 5896267--5896327 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
5896257 CTCTTGTATT
* * * **
5896267 TGGCAATTTTTCTCATATTGGGGTTTAAACC
1 TGGCAATTATTCTCACATTGAGGCCTAAACC
5896298 TGGCAATTATTCTCACATTGAGGCCTAAAC
1 TGGCAATTATTCTCACATTGAGGCCTAAAC
5896328 TTTATAGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (31 bp):
TGGCAATTATTCTCACATTGAGGCCTAAACC
Found at i:5896480 original size:61 final size:60
Alignment explanation
Indices: 5896366--5896493 Score: 150
Period size: 61 Copynumber: 2.1 Consensus size: 60
5896356 CTAACTTGGG
** * *
5896366 AAAAAAAAGTTCAAGCCCCAATATGGGAACAATTTCCAAGTTTAGGACTTAACTTGGATAA
1 AAAAAAAAGTTCAAGCCCCAATATAAGAACAATTTCCAAGTTAAGGACCTAACTTGGA-AA
* * * * *
5896427 AAAAAAAAGTTCATGCCCCATTATAAGAACAATTTTCAAGTTCAATG-CCTAACTTGGAAC
1 AAAAAAAAGTTCAAGCCCCAATATAAGAACAATTTCCAAGTT-AAGGACCTAACTTGGAAA
5896487 AAAAAAA
1 AAAAAAA
5896494 GTTTAAACCC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 8 0.14
61 47 0.82
62 2 0.04
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.24
Consensus pattern (60 bp):
AAAAAAAAGTTCAAGCCCCAATATAAGAACAATTTCCAAGTTAAGGACCTAACTTGGAAA
Found at i:5896784 original size:16 final size:18
Alignment explanation
Indices: 5896752--5896787 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5896742 TATAATACTT
5896752 TATATTATGTTATATTTA
1 TATATTATGTTATATTTA
5896770 TATATTATG-TA-ATTTA
1 TATATTATGTTATATTTA
5896786 TA
1 TA
5896788 ACATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TATATTATGTTATATTTA
Found at i:5903230 original size:46 final size:46
Alignment explanation
Indices: 5903087--5903230 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 46
5903077 CCCGCCTATA
*
5903087 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
5903136 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
5903179 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
5903226 AGTGA
1 AGTGA
5903231 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 34 0.44
47 29 0.37
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:5906374 original size:17 final size:18
Alignment explanation
Indices: 5906327--5906374 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
5906317 GTTTACTTAA
*
5906327 TTTTTTTTAT-TATTTCG
1 TTTTTTTTATATAATTCG
*
5906344 TTTTCTTTATTATAATT-G
1 TTTTTTTTA-TATAATTCG
5906362 TTTTTTTTATATA
1 TTTTTTTTATATA
5906375 TTTTCTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 12 0.46
18 10 0.38
19 4 0.15
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTTTTTATATAATTCG
Found at i:5909289 original size:59 final size:59
Alignment explanation
Indices: 5909217--5909334 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
5909207 CTCTCAGGTC
5909217 AATGGACAACATGAATGAAAATAATAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
1 AATGGACAACATGAATGAAAATAATAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
*
5909276 AATGGACAACATGAATGAAAATAGTAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
1 AATGGACAACATGAATGAAAATAATAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
5909335 TATAATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.27
Consensus pattern (59 bp):
AATGGACAACATGAATGAAAATAATAAAGTAAGAAGGTTTTGAAATTAAAAATTATAAT
Found at i:5917060 original size:17 final size:16
Alignment explanation
Indices: 5917033--5917079 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
5917023 AAATTTTAAT
*
5917033 AAATAAAAAATATATA
1 AAATAATAAATATATA
*
5917049 AATTTAATAAATAT-TA
1 AA-ATAATAAATATATA
5917065 AAATAATATAATATA
1 AAATAATA-AATATA
5917080 AATATATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAATAAATATATA
Found at i:5917062 original size:15 final size:16
Alignment explanation
Indices: 5917031--5917085 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
5917021 AAAAATTTTA
* *
5917031 ATAAATAAAAAAT-AT
1 ATAAATATAATATAAT
*
5917046 ATAAATTTAATA-AAT
1 ATAAATATAATATAAT
5917061 ATTAAA-ATAATATAAT
1 A-TAAATATAATATAAT
5917077 ATAAATATA
1 ATAAATATA
5917086 TATTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 21 0.66
16 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATATAATATAAT
Found at i:5917067 original size:25 final size:25
Alignment explanation
Indices: 5917017--5917075 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
5917007 TCAAATTATT
*
5917017 ATATAAAAATTTTAATAAATAAAAA
1 ATATATAAATTTTAATAAATAAAAA
*
5917042 ATATATAAA-TTTAATAAATATTAAA
1 ATATATAAATTTTAATAAATA-AAAA
5917067 ATAATATAA
1 AT-ATATAA
5917076 TATAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 11 0.37
25 13 0.43
26 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATATAAATTTTAATAAATAAAAA
Found at i:5917072 original size:39 final size:39
Alignment explanation
Indices: 5917029--5917112 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
5917019 ATAAAAATTT
5917029 TAATA-AATAAAAAATATATAAATTTAATAAATATT-AAAA
1 TAATATAAT-AAAAATATATAAATTTAA-AAATATTAAAAA
* ** *
5917068 TAATATAATATAAATATATATTTTTAAAAATTTTAAAAA
1 TAATATAATAAAAATATATAAATTTAAAAATATTAAAAA
5917107 TAATAT
1 TAATAT
5917113 TAACGGGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 6 0.15
39 30 0.77
40 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (39 bp):
TAATATAATAAAAATATATAAATTTAAAAATATTAAAAA
Found at i:5917083 original size:26 final size:25
Alignment explanation
Indices: 5917030--5917089 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
5917020 TAAAAATTTT
* *
5917030 AATAAATA-AAAAATATATAAATTT
1 AATAAATATTAAAATATATAAATTA
5917054 AATAAATATTAAAATA-ATATAATATA
1 AATAAATATTAAAATATATA-AAT-TA
*
5917080 AATATATATT
1 AATAAATATT
5917090 TTTAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.37
25 9 0.30
26 10 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAAATATTAAAATATATAAATTA
Found at i:5928146 original size:42 final size:43
Alignment explanation
Indices: 5928034--5928146 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 43
5928024 AAGCGCCGCA
* * *
5928034 AAAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTC
1 AAAAACGCCGCTAAAAACTATGACCTTTAGCGACACTTTTCTC
* * * * *
5928077 AAAAATGCCACTAAAAACTATAACCTTTAGCGGCACTTTT-TT
1 AAAAACGCCGCTAAAAACTATGACCTTTAGCGACACTTTTCTC
* *
5928119 ATAAACGCCGCTAAAAATTATGACCTTT
1 AAAAACGCCGCTAAAAACTATGACCTTT
5928147 TAAAAAAATT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAACTATGACCTTTAGCGACACTTTTCTC
Found at i:5931234 original size:18 final size:21
Alignment explanation
Indices: 5931211--5931249 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5931201 CTGACCTGGT
5931211 TCTTCC-C-TTTTCTT-TTTG
1 TCTTCCTCATTTTCTTCTTTG
5931229 TCTTCCTCATTTTCTTCTTTG
1 TCTTCCTCATTTTCTTCTTTG
5931250 CCTTTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 1 0.06
20 7 0.39
21 4 0.22
ACGTcount: A:0.03, C:0.28, G:0.05, T:0.64
Consensus pattern (21 bp):
TCTTCCTCATTTTCTTCTTTG
Found at i:5931293 original size:14 final size:15
Alignment explanation
Indices: 5931268--5931296 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5931258 ATCCAATCTC
5931268 TTCTTCTTTCTTCTT
1 TTCTTCTTTCTTCTT
5931283 TTCTT-TTTCTTCTT
1 TTCTTCTTTCTTCTT
5931297 CGCGCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTCTTTCTTCTT
Found at i:5934243 original size:17 final size:18
Alignment explanation
Indices: 5934209--5934245 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5934199 TTCTCTCTTA
5934209 AATAATTTAAACTATATT
1 AATAATTTAAACTATATT
*
5934227 AATAATTTTAA-TATATT
1 AATAATTTAAACTATATT
5934244 AA
1 AA
5934246 AACAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAATTTAAACTATATT
Found at i:5935129 original size:22 final size:21
Alignment explanation
Indices: 5935055--5935133 Score: 52
Period size: 22 Copynumber: 3.7 Consensus size: 21
5935045 CTAGACCCCT
* *
5935055 AACCCTTAAACCATAATCCCTA
1 AACCCTT-AACCATAAACCTTA
* *
5935077 AACCCATAATTCATAAA-CTTA
1 AACCCTTAA-CCATAAACCTTA
****
5935098 AAATAGTAACTCATAAACCTTA
1 AACCCTTAAC-CATAAACCTTA
5935120 AACCCTTAACCATA
1 AACCCTTAACCATA
5935134 TGCCCTAAAT
Statistics
Matches: 41, Mismatches: 13, Indels: 7
0.67 0.21 0.11
Matches are distributed among these distances:
21 20 0.49
22 21 0.51
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTTAACCATAAACCTTA
Found at i:5935351 original size:22 final size:22
Alignment explanation
Indices: 5935306--5935353 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
5935296 GGTTTAAGAT
*
5935306 TTTTAAGGTTTAAGAGTTTAGTG
1 TTTTAAGGATTAAGAG-TTAGTG
5935329 TTTTAAGGATTATAGA-TTAGTG
1 TTTTAAGGATTA-AGAGTTAGTG
5935351 TTT
1 TTT
5935354 ATGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 11 0.48
24 3 0.13
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAAGAGTTAGTG
Found at i:5935451 original size:41 final size:41
Alignment explanation
Indices: 5935394--5935717 Score: 438
Period size: 41 Copynumber: 7.9 Consensus size: 41
5935384 GTTATATGAC
* * * * *
5935394 TTTTAACGGCATTTTACCGAAAGCGCCGCTAATGCTTTGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
5935435 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
5935476 TTTTAG-GTGCGTTTTACCAAAAGCGCCGCGAATGCTCTGGT
1 TTTTAGCG-GCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
5935517 TTTTAGCGGCGTTTTACCAAAAGCGCCGCGAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
5935558 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
**
5935599 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * *
5935639 TTTTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
5935680 TTTTTGTGGCGTTTTACCAAAAACGCCACTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT
5935718 ATGTTTTACA
Statistics
Matches: 262, Mismatches: 18, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
40 40 0.15
41 221 0.84
42 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:5935763 original size:12 final size:12
Alignment explanation
Indices: 5935748--5935773 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5935738 CGTTTTTGAT
5935748 AAAACGCCGCTA
1 AAAACGCCGCTA
5935760 AAAACGCCGCTA
1 AAAACGCCGCTA
5935772 AA
1 AA
5935774 GCCCTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:5936613 original size:90 final size:86
Alignment explanation
Indices: 5936519--5936807 Score: 253
Period size: 84 Copynumber: 3.3 Consensus size: 86
5936509 GTCCTCAATT
* ** * *
5936519 TTTTTTTAAAGAAAGTAATTAAGTTCCTGTTTTATTTTAAAACTCAATTGGATATTTGAACTGTC
1 TTTTTTTAAA-AAA-CAATTAAGCCCCTG-TTT-TTTT-AAACTCAATTGGATACTTGAACTATC
* *
5936584 AAAATGTATCAAAAAGACCCTCAAAT
61 AAAATGCATCAAAAAGACCCTCAAAC
** * *
5936610 TTTTTATTAAAAAACAATTAAGCCCCTGTTTTTTTCCACTCAATTGGGTACTTGAATTATCAAAA
1 TTTTT-TTAAAAAACAATTAAGCCCCTGTTTTTTTAAACTCAATTGGATACTTGAACTATCAAAA
5936675 TGCATCAAAAAGACCCTCAAAC
65 TGCATCAAAAAGACCCTCAAAC
* * ** * * * *
5936697 TTTTTATAAAAAAAACAACTAAG---CT-TTTTTTTTCACTCAACTGGGTACTTGAATTGTCAAA
1 TTTTT-T-TAAAAAACAATTAAGCCCCTGTTTTTTTAAACTCAATTGGATACTTGAACTATCAAA
* * *
5936758 ATGCATAAAAAAGATCCTCAAAA
64 ATGCATCAAAAAGACCCTCAAAC
**
5936781 TTTTTCAAAAAAACCAATTAAGCCCCT
1 TTTTTTTAAAAAA-CAATTAAGCCCCT
5936808 ACTTTTTCTT
Statistics
Matches: 171, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
82 7 0.04
83 7 0.04
84 58 0.34
85 2 0.01
86 2 0.01
87 51 0.30
88 17 0.10
89 3 0.02
90 11 0.06
91 8 0.05
92 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (86 bp):
TTTTTTTAAAAAACAATTAAGCCCCTGTTTTTTTAAACTCAATTGGATACTTGAACTATCAAAAT
GCATCAAAAAGACCCTCAAAC
Found at i:5936682 original size:87 final size:85
Alignment explanation
Indices: 5936560--5936827 Score: 319
Period size: 84 Copynumber: 3.1 Consensus size: 85
5936550 TTATTTTAAA
* * * *
5936560 ACTCAATTGGATATTTGAACTGTCAAAATGTATCAAAAAGACCCTCAAATTTTTTATTAAAAAAC
1 ACTCAATTGGGTACTTGAATTGTCAAAATGCATCAAAAAGACCCTCAAATTTTTTA-TAAAAAAC
*
5936625 AATTAAGCCCCTGTTTTTTTCC
65 AATTAAGCCCCT-TTTTTTTTC
* *
5936647 ACTCAATTGGGTACTTGAATTATCAAAATGCATCAAAAAGACCCTCAAACTTTTTATAAAAAAAA
1 ACTCAATTGGGTACTTGAATTGTCAAAATGCATCAAAAAGACCCTCAAA-TTTTT-TATAAAAAA
*
5936712 CAACTAAG---CTTTTTTTTTC
64 CAATTAAGCCCCTTTTTTTTTC
* * * *
5936731 ACTCAACTGGGTACTTGAATTGTCAAAATGCATAAAAAAGATCCTCAAAATTTTTCA-AAAAAAC
1 ACTCAATTGGGTACTTGAATTGTCAAAATGCATCAAAAAGACCCTC-AAATTTTTTATAAAAAA-
5936795 CAATTAAGCCCCTACTTTTTCTTTC
64 CAATTAAGCCCCT--TTTTT-TTTC
5936820 ACTCAATT
1 ACTCAATT
5936828 ACCAAAATAC
Statistics
Matches: 156, Mismatches: 15, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
82 6 0.04
83 8 0.05
84 55 0.35
85 5 0.03
86 2 0.01
87 44 0.28
88 23 0.15
89 13 0.08
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (85 bp):
ACTCAATTGGGTACTTGAATTGTCAAAATGCATCAAAAAGACCCTCAAATTTTTTATAAAAAACA
ATTAAGCCCCTTTTTTTTTC
Found at i:5937156 original size:87 final size:87
Alignment explanation
Indices: 5937036--5937266 Score: 293
Period size: 87 Copynumber: 2.6 Consensus size: 87
5937026 TGCATTTTGG
* * **
5937036 CAATTGAGTGA-AAAAAAAAAAGAGAGCTTAATTGCTTTTTTTTTAAAGTTTGAAGGCATTTTTT
1 CAATTGAGT-ACAAAAAAAAAAG-GGGCTTAATTGCTTTTTCTGAAAAGTTTGAAGGCATTTTTT
*
5937100 ATACATTTTGATAGTTCAAGTACT
64 ATACATTTTGATAGTTCAAGTACC
* * *
5937124 CAATTGAGTACAAAAAAAACAGGGGCTTAATTGCTTTTTCTGAAAAGTTTGAGGGTATTTTTTAT
1 CAATTGAGTACAAAAAAAAAAGGGGCTTAATTGCTTTTTCTGAAAAGTTTGAAGGCATTTTTTAT
*
5937189 GCATTTTGATAGTTCAAGTACC
66 ACATTTTGATAGTTCAAGTACC
* * **
5937211 CAATTAAGTGCAAAAAAAATGGGGGAGCTTAATTGCTTTTTCTGCAAAAGTTTGAA
1 CAATTGAGTACAAAAAAAA-AAGGG-GCTTAATTGCTTTTTCTG-AAAAGTTTGAA
5937267 AACTTTTTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
87 75 0.60
88 22 0.18
89 18 0.14
90 10 0.08
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (87 bp):
CAATTGAGTACAAAAAAAAAAGGGGCTTAATTGCTTTTTCTGAAAAGTTTGAAGGCATTTTTTAT
ACATTTTGATAGTTCAAGTACC
Found at i:5937315 original size:89 final size:88
Alignment explanation
Indices: 5937059--5937318 Score: 258
Period size: 87 Copynumber: 2.9 Consensus size: 88
5937049 AAAAAAAAGA
* ** * * * *
5937059 GAGCTTAATTGCTTTTTTTTTAAAGTTTGAAGGC-ATTTTTTATACATTTTGATAGTTCAAGTAC
1 GAGCTTAATTGCTTTTTCTGAAAAGTTTGAA-ACTATTTTTTATGCATTTTAAAAGTTCAAGTAC
* * * **
5937123 TCAATTGAGTACAAAAAAAA-CAGG
65 CCAATTAAAT-CAAAAAAAATGGGG
*** * *
5937147 G-GCTTAATTGCTTTTTCTGAAAAGTTTGAGGGTATTTTTTATGCATTTTGATAGTTCAAGTACC
1 GAGCTTAATTGCTTTTTCTGAAAAGTTTGAAACTATTTTTTATGCATTTTAAAAGTTCAAGTACC
*
5937211 CAATTAAGTGCAAAAAAAATGGGG
66 CAATTAAAT-CAAAAAAAATGGGG
* *
5937235 GAGCTTAATTGCTTTTTCTGCAAAAGTTTGAAAACTTTTTTTTATGCATTTTAAAAGTTTAAGTA
1 GAGCTTAATTGCTTTTTCTG-AAAAGTTTG-AAACTATTTTTTATGCATTTTAAAAGTTCAAGTA
*
5937300 TCCAATTAAAT-AAAAAAAA
64 CCCAATTAAATCAAAAAAAA
5937319 CAGAAATTCA
Statistics
Matches: 147, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
86 1 0.01
87 71 0.48
88 4 0.03
89 26 0.18
90 9 0.06
91 36 0.24
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (88 bp):
GAGCTTAATTGCTTTTTCTGAAAAGTTTGAAACTATTTTTTATGCATTTTAAAAGTTCAAGTACC
CAATTAAATCAAAAAAAATGGGG
Found at i:5939127 original size:26 final size:28
Alignment explanation
Indices: 5939098--5939155 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
5939088 ATGAATATTG
* *
5939098 AAAACGTATGTACATAATAT-ATATG-A
1 AAAACATATATACATAATATAATATGTA
* *
5939124 AAAATATATATACATGATATAATATGTA
1 AAAACATATATACATAATATAATATGTA
5939152 AAAA
1 AAAA
5939156 TGTAATATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 16 0.62
27 5 0.19
28 5 0.19
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (28 bp):
AAAACATATATACATAATATAATATGTA
Found at i:5939701 original size:12 final size:12
Alignment explanation
Indices: 5939681--5939710 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5939671 ACCATATACA
*
5939681 AATATTGATAAT
1 AATAATGATAAT
5939693 AATAATGATAAT
1 AATAATGATAAT
5939705 AATAAT
1 AATAAT
5939711 AACATTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AATAATGATAAT
Found at i:5939830 original size:3 final size:3
Alignment explanation
Indices: 5939822--5939860 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
5939812 CTAACATATC
5939822 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5939861 GTATATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5941826 original size:57 final size:57
Alignment explanation
Indices: 5941744--5941858 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
5941734 GAAAAGTAGA
5941744 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
1 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
*
5941801 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
5941858 T
1 T
5941859 GAAAACATGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (57 bp):
TTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
Found at i:5942158 original size:13 final size:13
Alignment explanation
Indices: 5942140--5942169 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5942130 GATTTTTTGA
5942140 AAAACAGAAACTG
1 AAAACAGAAACTG
*
5942153 AAAACAGAAATTG
1 AAAACAGAAACTG
5942166 AAAA
1 AAAA
5942170 TACCTCAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAACAGAAACTG
Found at i:5942276 original size:284 final size:285
Alignment explanation
Indices: 5941765--5942574 Score: 1143
Period size: 284 Copynumber: 2.8 Consensus size: 285
5941755 AGAAATTAAA
* * * *
5941765 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTAAAAGGCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTAAAAAACAGAAATTAAAAGGTTCAA
* * *
5941830 CTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAACATG-AA-TTAAAACTGAAATTGGAAATA
63 CTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-GAAACTGAAAACAGAAATTGAAAATA
* * * * * ** *
5941891 CTTCAGCATG-GCCAAGACTCAACTCACCTCTCGCAATATGAATTGATTTT--TGAAAAACAGAA
127 CTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAAAAGAA
*
5941953 ATTAAAAGGTTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAAC
192 ATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAAC
* * *
5942018 AGGAATTGAAAATACCTTAGCATG-GCCT
257 AGAAATTGAAAATACCTCAGCATGCGCCG
* * *
5942046 TGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAAAACAGAAATTAAAATGTTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
* *
5942111 ACCTCTCGCAATATTAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
*
5942176 AGCGTGCCCCGAGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTAAAAAAAAAAAGAAATTA
131 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAAAAGAAATTA
* *
5942241 AAAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAACTGAAAATAGAA
196 AAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAACAGAA
* *
5942305 ATTGAAAATACCTCAGCGTGCTCCG
261 ATTGAAAATACCTCAGCATGCGCCG
5942330 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
5942395 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
5942460 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAGTATAAATTAAA
131 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT----A--A-AAA--AAA
* *
5942525 AACAGAAATTAAAAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
186 AA-AGAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
5942575 AAAAACATGA
Statistics
Matches: 472, Mismatches: 37, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
278 49 0.10
279 7 0.01
280 8 0.02
281 55 0.12
282 35 0.07
283 45 0.10
284 215 0.46
285 4 0.01
289 1 0.00
291 1 0.00
292 3 0.01
294 5 0.01
295 40 0.08
296 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (285 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAAAAGAAATTA
AAAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAACAGAA
ATTGAAAATACCTCAGCATGCGCCG
Found at i:5942278 original size:143 final size:141
Alignment explanation
Indices: 5941765--5942507 Score: 1102
Period size: 141 Copynumber: 5.3 Consensus size: 141
5941755 AGAAATTAAA
* * * *
5941765 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTAAAAGGCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTAAAAAACAGAAATTAAAAGGTTCAA
* * *
5941830 CTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAACATG-AA-TTAAAACTGAAATTGGAAATA
63 CTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA-GAAACTGAAAACAGAAATTGAAAATA
* * * *
5941891 CTTCAGCATG-GCCA
127 CCTCAGCGTGCCCCG
* * * *
5941905 AGACTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
* *
5941970 ACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAACTGAAAACAGGAATTGAAAATACCT
66 ACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCT
* * * *
5942035 TAGCATG-GCCT
130 CAGCGTGCCCCG
* * *
5942046 TGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAAAACAGAAATTAAAATGTTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
*
5942111 ACCTCTCGCAATATTAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
5942176 AGCGTGCCCCG
131 AGCGTGCCCCG
* * *
5942187 AGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTAAAAAAAAAAAGAAATTAAAAGGTTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TAAAAAACAGAAATTAAAAGGTTCAAC
*
5942252 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAATAGAAATTGAAAATACC
64 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACC
*
5942317 TCAGCGTGCTCCG
129 TCAGCGTGCCCCG
5942330 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
*
5942395 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACTTC
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
5942460 AGCGTGCCCCG
131 AGCGTGCCCCG
5942471 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
5942508 GGAAAGTATA
Statistics
Matches: 553, Mismatches: 42, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
137 51 0.09
139 6 0.01
140 83 0.15
141 279 0.50
143 134 0.24
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (141 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAGGTTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAACTGAAAACAGAAATTGAAAATACCTC
AGCGTGCCCCG
Found at i:5942442 original size:13 final size:13
Alignment explanation
Indices: 5942424--5942453 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5942414 GATTTTTTGA
5942424 AAAACAGAAACTG
1 AAAACAGAAACTG
*
5942437 AAAACAGAAATTG
1 AAAACAGAAACTG
5942450 AAAA
1 AAAA
5942454 TACTTCAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAACAGAAACTG
Found at i:5943450 original size:8 final size:8
Alignment explanation
Indices: 5943437--5943472 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
5943427 CTTGACCCCC
5943437 TTTTTCTT
1 TTTTTCTT
5943445 TTTTTC-T
1 TTTTTCTT
5943452 TTTTTCTT
1 TTTTTCTT
*
5943460 TTTCTCTT
1 TTTTTCTT
5943468 TTTTT
1 TTTTT
5943473 TAAAGATGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:5943454 original size:7 final size:7
Alignment explanation
Indices: 5943437--5943471 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
5943427 CTTGACCCCC
5943437 TTTTTCTT
1 TTTTTC-T
5943445 TTTTTCT
1 TTTTTCT
5943452 TTTTTCT
1 TTTTTCT
5943459 TTTTCTCT
1 TTTT-TCT
5943467 TTTTT
1 TTTTT
5943472 TTAAAGATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:5943457 original size:15 final size:15
Alignment explanation
Indices: 5943437--5943471 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
5943427 CTTGACCCCC
*
5943437 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTCTCT
5943452 TTTTTCTTTTTCTCT
1 TTTTTCTTTTTCTCT
5943467 TTTTT
1 TTTTT
5943472 TTAAAGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTCTCT
Found at i:5954809 original size:26 final size:28
Alignment explanation
Indices: 5954780--5954837 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
5954770 ATGAATATTG
* *
5954780 AAAACGTATGTACATAATAT-ATATG-A
1 AAAACATATATACATAATATAATATGTA
* *
5954806 AAAATATATATACATGATATAATATGTA
1 AAAACATATATACATAATATAATATGTA
5954834 AAAA
1 AAAA
5954838 TGTAATATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 16 0.62
27 5 0.19
28 5 0.19
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (28 bp):
AAAACATATATACATAATATAATATGTA
Found at i:5955499 original size:3 final size:3
Alignment explanation
Indices: 5955491--5955517 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5955481 CTAACATATC
5955491 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
5955518 GTATATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5958599 original size:14 final size:15
Alignment explanation
Indices: 5958582--5958618 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
5958572 TATGTCCTTA
5958582 ATTTTATTTATAT-T
1 ATTTTATTTATATAT
*
5958596 ATTTTATATATATAT
1 ATTTTATTTATATAT
5958611 ATTTTATT
1 ATTTTATT
5958619 ACAAATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTATTTATATAT
Found at i:5965408 original size:50 final size:49
Alignment explanation
Indices: 5965333--5965509 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 49
5965323 CCATGGCAAT
5965333 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAATGA
*
5965383 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAA-TGA
*
5965433 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAATGA
* * *
5965483 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
5965510 CTGATCAGTG
Statistics
Matches: 118, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
49 3 0.03
50 89 0.75
51 26 0.22
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (49 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAATGA
Found at i:5965602 original size:31 final size:31
Alignment explanation
Indices: 5965485--5965594 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
5965475 ACAAATGACA
* *
5965485 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
5965516 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
5965547 AGCGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
5965578 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
5965595 TTGGCTACAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:5965682 original size:47 final size:46
Alignment explanation
Indices: 5965627--5965750 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 46
5965617 AAGTGATTTC
* * *
5965627 CGTATAAGACCATATTTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATATGGGATATGGCATCGGTGAGATATATGATA
* * *
5965673 CTGTATAAGACCATATATGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATATGGGATATGGCATCGGTGAGATATATGATA
* ** *
5965720 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATATGGGATATGGCATCG
5965751 ATATATGAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATATGGGATATGGCATCGGTGAGATATATGATA
Found at i:5965828 original size:42 final size:42
Alignment explanation
Indices: 5965721--5965835 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
5965711 TATGTGATTC
* *
5965721 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
* *
5965763 GTGTAAGACCATAACT-AGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCGA-TATATGAAGAT
* *
5965805 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGAGCTATGGCATCGA
5965836 GAAAACGAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 59 0.95
43 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
Found at i:5973193 original size:47 final size:46
Alignment explanation
Indices: 5973135--5973252 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 46
5973125 TGAAGAAGCC
*
5973135 ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTGTAGTA-GGAT
1 ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTG-AATATGG-T
* * * * * *
5973182 ACAAATACTATATCCCTGAGCTACAGTGGGATGAATTGAATATGGT
1 ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTGAATATGGT
*
5973228 ACAAATCCTATACCCCTGAGTTGCA
1 ACAAATCCTATACCCCTGAGCTGCA
5973253 GTGGGATGGA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 25 0.42
47 34 0.58
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTGAATATGGT
Found at i:5973245 original size:46 final size:46
Alignment explanation
Indices: 5973135--5973269 Score: 155
Period size: 46 Copynumber: 2.9 Consensus size: 46
5973125 TGAAGAAGCC
* * * *
5973135 ACAAATCCTATACCCCTGAGCTGCACTAGAATGAATTGTAGTAGGAT
1 ACAAATCCTATACCCCTGAGCTGCAGTGGGATGAATTG-AATAGGAT
* * *
5973182 ACAAATACTATATCCCTGAGCTACAGTGGGATGAATTGAATATGG-T
1 ACAAATCCTATACCCCTGAGCTGCAGTGGGATGAATTGAATA-GGAT
* * *
5973228 ACAAATCCTATACCCCTGAGTTGCAGTGGGATGGATGGAATA
1 ACAAATCCTATACCCCTGAGCTGCAGTGGGATGAATTGAATA
5973270 AACCATAAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
46 40 0.54
47 34 0.46
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGCTGCAGTGGGATGAATTGAATAGGAT
Found at i:5973700 original size:45 final size:44
Alignment explanation
Indices: 5973651--5974015 Score: 131
Period size: 44 Copynumber: 8.2 Consensus size: 44
5973641 GTAGTGGAGC
**
5973651 AGATTGAAGTTATAGATCTTATCTCCTTGAAGTTTGCAGTGGAAT
1 AGATTGAAGCCATAGATCTTATCTCCTTGAAG-TTGCAGTGGAAT
* * *
5973696 AGATTGAA--AATGGTGAATCTTATCTTCTTGAAGTTGCAGTGGAGA-
1 AGATTGAAGCCAT--AG-ATCTTATCTCCTTGAAGTTGCAGTGGA-AT
* * * * * **
5973741 AAATTGAAGCCACCAG-CCTTATCTCCCTGAAGTTGCAGCGGAGC
1 AGATTGAAGCCA-TAGATCTTATCTCCTTGAAGTTGCAGTGGAAT
* * * *
5973785 AGATTGAAGACAGT-GATTCTTATCTCCTTGAAGTTTCAATGGAGT
1 AGATTGAAGCCA-TAGA-TCTTATCTCCTTGAAGTTGCAGTGGAAT
* * * * * * *
5973830 AGATTGAAGCTACAAATC-TATTCTCCTTGAAATTACATTGGAGT
1 AGATTGAAGCCATAGATCTTA-TCTCCTTGAAGTTGCAGTGGAAT
* * * * * * * *
5973874 AGATCGAAG-CACCA-ACCTTATCT-TTCTGATGTTGTAGTGAAAC
1 AGATTGAAGCCA-TAGATCTTATCTCCT-TGAAGTTGCAGTGGAAT
* * ** * *
5973917 AGATTGAAGCCATCAG-CCTTATCTCCCTGAAGTTATAGCGGAGT
1 AGATTGAAGCCAT-AGATCTTATCTCCTTGAAGTTGCAGTGGAAT
* * * * * *
5973961 AGACTGAAGACAGTA-ATTCTTATCTTCTTGAAGTTTCGGTGGAGT
1 AGATTGAAGCCA-TAGA-TCTTATCTCCTTGAAGTTGCAGTGGAAT
*
5974006 AGATCGAAGC
1 AGATTGAAGC
5974016 TACAAATTTC
Statistics
Matches: 235, Mismatches: 63, Indels: 44
0.69 0.18 0.13
Matches are distributed among these distances:
42 1 0.00
43 28 0.12
44 99 0.42
45 88 0.37
46 18 0.08
47 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
AGATTGAAGCCATAGATCTTATCTCCTTGAAGTTGCAGTGGAAT
Found at i:5973776 original size:44 final size:44
Alignment explanation
Indices: 5973714--5973950 Score: 147
Period size: 44 Copynumber: 5.4 Consensus size: 44
5973704 AATGGTGAAT
* * * *
5973714 CTTATCTTCTTGAAGTTGCAGTGGAGAAAATTGAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCACCAAC
* * * ** **
5973758 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGACAGTGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCA-CCAAC
* * * * * * *
5973803 CTTATCTCCTTGAAGTTTCAATGGAGTAGATTGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCACCAAC
* * * * * *
5973847 C-TATTCTCCTTGAAATTACATTGGAGTAGATCGAAG-CACCAAC
1 CTTA-TCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCACCAAC
** * * * * *
5973890 CTTATCTTTCTGATGTTGTAGT-GAAACAGATTGAAGCCATCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGA-AGATTGAAGCCACCAAC
5973934 CTTATCTCCCTGAAGTT
1 CTTATCTCCCTGAAGTT
5973951 ATAGCGGAGT
Statistics
Matches: 145, Mismatches: 43, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
42 2 0.01
43 25 0.17
44 85 0.59
45 33 0.23
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCACCAAC
Found at i:5973818 original size:89 final size:89
Alignment explanation
Indices: 5973668--5974004 Score: 265
Period size: 89 Copynumber: 3.8 Consensus size: 89
5973658 AGTTATAGAT
* * * * * **
5973668 CTTATCTCCTTGAAGTTTGCAGTGGAATAGATTGAAAATGGTGAATCTTATCTTCTTGAAGTTGC
1 CTTATCTCCCTGAAG-TTACAGCGGAGTAGATTGAAGACAGTGAATCTTATCTTCTTGAAGTTGC
5973733 AGTGGAGAAAATTGAAGCCACCAGC
65 AGTGGAGAAAATTGAAGCCACCAGC
* * * * *
5973758 CTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGACAGTGATTCTTATCTCCTTGAAGTTTCA
1 CTTATCTCCCTGAAGTTACAGCGGAGTAGATTGAAGACAGTGAATCTTATCTTCTTGAAGTTGCA
* * * * * **
5973823 ATGGAGTAGATTGAAGCTACAAAT
66 GTGGAGAAAATTGAAGCCACCAGC
* * ** * ** * *
5973847 C-TATTCTCCTTGAAATTACATTGGAGTAGATCGAAG-CA-CCAACCTTATCTT-TCTGATGTTG
1 CTTA-TCTCCCTGAAGTTACAGCGGAGTAGATTGAAGACAGTGAATCTTATCTTCT-TGAAGTTG
* *
5973908 TAGT-GA-AACAGATTGAAGCCATCAGC
64 CAGTGGAGAA-A-ATTGAAGCCACCAGC
* * *
5973934 CTTATCTCCCTGAAGTTATAGCGGAGTAGACTGAAGACAGT-AATTCTTATCTTCTTGAAGTTTC
1 CTTATCTCCCTGAAGTTACAGCGGAGTAGATTGAAGACAGTGAA-TCTTATCTTCTTGAAGTTGC
*
5973998 GGTGGAG
65 AGTGGAG
5974005 TAGATCGAAG
Statistics
Matches: 183, Mismatches: 53, Indels: 21
0.71 0.21 0.08
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 52 0.28
88 10 0.05
89 100 0.55
90 17 0.09
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTACAGCGGAGTAGATTGAAGACAGTGAATCTTATCTTCTTGAAGTTGCA
GTGGAGAAAATTGAAGCCACCAGC
Found at i:5973948 original size:176 final size:176
Alignment explanation
Indices: 5973743--5974072 Score: 480
Period size: 176 Copynumber: 1.9 Consensus size: 176
5973733 AGTGGAGAAA
* * *
5973743 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGACAGTGATTCTTAT
1 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGTAATTCTTAT
* *
5973808 CTCCTTGAAGTTTCAATGGAGTAGATTGAAGCTACAAATCTATTCTCCTTGAAATTACATTGGAG
66 CTCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAAATCTATTCTCCTTAAAATTACATTGGAG
* *
5973873 TAGATCGAAGCACCAACCTTATCTTTCTGATGTTGTAGTGAAACAG
131 CAGATCGAAACACCAACCTTATCTTTCTGATGTTGTAGTGAAACAG
* * *
5973919 ATTGAAGCCATCAGCCTTATCTCCCTGAAGTTATAGCGGAGTAGACTGAAGACAGTAATTCTTAT
1 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGTAATTCTTAT
* ** * * * *
5973984 CTTCTTGAAGTTTCGGTGGAGTAGATCGAAGCTACAAATTTCTTCTCTTTAAAATTATATTGGAG
66 CTCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAAATCTATTCTCCTTAAAATTACATTGGAG
* * *
5974049 CGGATCGAAACACTAGCCTTATCT
131 CAGATCGAAACACCAACCTTATCT
5974073 CCCTGAAGTT
Statistics
Matches: 134, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
176 134 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (176 bp):
ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACAGCGGAGCAGACTGAAGACAGTAATTCTTAT
CTCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAAATCTATTCTCCTTAAAATTACATTGGAG
CAGATCGAAACACCAACCTTATCTTTCTGATGTTGTAGTGAAACAG
Found at i:5974335 original size:44 final size:44
Alignment explanation
Indices: 5974273--5974409 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 44
5974263 CCTGACGTCG
* * *
5974273 CAGTGGAACAAATCAAAGCTACAAGTCTAATCTCCCTGTAGTTA
1 CAGTGGAGCAAATTAAAGCTACAAGTCTAATCTCCCTGAAGTTA
* * *
5974317 CAGTAGG-GCAAATTAAAGCTACGAA-TCTTATTTCCCTGAAGTTG
1 CAGT-GGAGCAAATTAAAGCTAC-AAGTCTAATCTCCCTGAAGTTA
* * * * *
5974361 CAATGGAGCAGATTAAAGCTATAAGTCTAGTCTCTCTGAAGTTA
1 CAGTGGAGCAAATTAAAGCTACAAGTCTAATCTCCCTGAAGTTA
5974405 CAGTG
1 CAGTG
5974410 AAGTAGATTG
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
43 4 0.05
44 66 0.89
45 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
CAGTGGAGCAAATTAAAGCTACAAGTCTAATCTCCCTGAAGTTA
Found at i:5974647 original size:13 final size:12
Alignment explanation
Indices: 5974618--5974652 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
5974608 TCATTTTAAA
5974618 CAAAAATAAAAC
1 CAAAAATAAAAC
5974630 CAAAAATAAAAC
1 CAAAAATAAAAC
5974642 CAAAAAATAAA
1 C-AAAAATAAA
5974653 GTCCAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.77, C:0.14, G:0.00, T:0.09
Consensus pattern (12 bp):
CAAAAATAAAAC
Found at i:5976129 original size:16 final size:15
Alignment explanation
Indices: 5976119--5976148 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5976109 CTATTATTAC
5976119 TATATAT-TATTTTA
1 TATATATATATTTTA
5976133 TATATATATATTTTA
1 TATATATATATTTTA
5976148 T
1 T
5976149 TACAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATATATATTTTA
Found at i:5976927 original size:42 final size:42
Alignment explanation
Indices: 5976878--5976962 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
5976868 AATCAACATT
5976878 AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
1 AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
5976920 AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
1 AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
5976962 A
1 A
5976963 CTTTCGACGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (42 bp):
AAAAAAGAGAGGATCGTATTTTAAATTCTTTTCGAGCTTTCA
Found at i:5982110 original size:19 final size:19
Alignment explanation
Indices: 5982075--5982112 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5982065 TCAAATTAAG
*
5982075 ATATTTTATATTTATATTT
1 ATATTTTATATTCATATTT
5982094 ATATTTTAT-TTACATATTT
1 ATATTTTATATT-CATATTT
5982113 TCAGGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
ATATTTTATATTCATATTT
Found at i:5983764 original size:8 final size:8
Alignment explanation
Indices: 5983751--5983785 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
5983741 TCCTTAGGGC
5983751 GGCGCGTG
1 GGCGCGTG
5983759 GGCGCGTG
1 GGCGCGTG
5983767 GGCGCGTG
1 GGCGCGTG
5983775 GGCGCGTG
1 GGCGCGTG
5983783 GGC
1 GGC
5983786 CAAAACCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.63, T:0.11
Consensus pattern (8 bp):
GGCGCGTG
Found at i:5984359 original size:15 final size:17
Alignment explanation
Indices: 5984314--5984367 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 17
5984304 TATATTATAC
5984314 ATTATAA-GATTA-TTTT
1 ATTATAATG-TTATTTTT
5984330 ATTATAAATGTTATTTTT
1 ATTAT-AATGTTATTTTT
*
5984348 ATTAT-ATG-TATTATT
1 ATTATAATGTTATTTTT
5984363 ATTAT
1 ATTAT
5984368 TTATTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 11 0.32
16 8 0.24
17 5 0.15
18 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTATAATGTTATTTTT
Found at i:5984361 original size:18 final size:18
Alignment explanation
Indices: 5984322--5984368 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
5984312 ACATTATAAG
5984322 ATTA-TTTTATTATAAAT
1 ATTATTTTTATTATAAAT
* **
5984339 GTTATTTTTATTATATGT
1 ATTATTTTTATTATAAAT
*
5984357 ATTATTATTATT
1 ATTATTTTTATT
5984369 TATTATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
ATTATTTTTATTATAAAT
Found at i:5984405 original size:17 final size:18
Alignment explanation
Indices: 5984366--5984417 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
5984356 TATTATTATT
*
5984366 ATTTATTATTTT-TCTCA
1 ATTTATTATTTTATATCA
*
5984383 AATTATTATTTTATATC-
1 ATTTATTATTTTATATCA
5984400 ATTTATATATTGTTATAT
1 ATTTAT-TATT-TTATAT
5984418 TTTCACATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 16 0.55
18 7 0.24
19 6 0.21
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTATTATTTTATATCA
Found at i:5984415 original size:27 final size:26
Alignment explanation
Indices: 5984384--5984488 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 26
5984374 TTTTTCTCAA
5984384 ATTATTATTTTATATCAT-TTATATATT
1 ATTATTATTTTATAT-ATATTATAT-TT
* *
5984411 GTTA-TATTTTCACATATATTATATTT
1 ATTATTATTTT-ATATATATTATATTT
*
5984437 ATTATTA-TTTATATATATTATTTTAT
1 ATTATTATTTTATATATATTATATT-T
5984463 ATTTATTA-TTTATATATATTAT-TTT
1 A-TTATTATTTTATATATATTATATTT
5984488 A
1 A
5984489 CATATAAACT
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
25 14 0.21
26 20 0.29
27 34 0.50
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (26 bp):
ATTATTATTTTATATATATTATATTT
Done.