Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 1 of 770
Found at i:7145 original size:46 final size:46
Alignment explanation
Indices: 7095--7223 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
7085 TGGTTGAGCA
*
7095 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
7141 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
7187 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7224 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:10215 original size:71 final size:71
Alignment explanation
Indices: 10093--10227 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
10083 TGTTTTCCAA
* * *
10093 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTA
10158 TGTTTC
66 TGTTTC
* * *
10164 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
10228 CTGCTTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTA
TGTTTC
Found at i:10267 original size:160 final size:160
Alignment explanation
Indices: 10003--10546 Score: 1007
Period size: 160 Copynumber: 3.4 Consensus size: 160
9993 TTGTTTTTTC
* *
10003 CAAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCTCAGGGTACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
10068 CTGCTTTTTAATTCATGTTTTCCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
10133 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
10163 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
10228 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
10293 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
10323 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
10388 CCGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
10453 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* * * * *
10483 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGGCACGTTGAGGAAATTTCAATT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
10547 CCTATTAAAT
Statistics
Matches: 375, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 375 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:10375 original size:71 final size:71
Alignment explanation
Indices: 10254--10387 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
10244 GTTTTCCAAG
* * *
10254 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
10319 GTTTCA
66 GTTTCA
* * *
10325 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
10388 CCGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:10530 original size:71 final size:71
Alignment explanation
Indices: 10414--10663 Score: 297
Period size: 71 Copynumber: 3.5 Consensus size: 71
10404 GTTTTCCAAG
* *
10414 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT-TA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTCTA
10478 TGTTTCA
66 T-TTTCA
* * ** *
10485 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGGCACGTTGAGGAAATTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATT-CT
* *
10550 ATTAAATCT
65 ATT--TTCA
* * * *
10559 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTACA-GCACGCTAAGGTATTTTCAAATTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AGGCACGTTGAGGTAATTTC-AATTC
10623 TATTTTCA
64 TATTTTCA
* *
10631 AAAGTCAATTCATATTGCGAGAGGTGAGTTGAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG
10664 TCTTTTTAAT
Statistics
Matches: 151, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
71 55 0.36
72 34 0.23
73 3 0.02
74 55 0.36
75 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTCTA
TTTTCA
Found at i:10687 original size:13 final size:13
Alignment explanation
Indices: 10666--10701 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
10656 GAGTTGAGTC
10666 TTTTTAATTTCTA
1 TTTTTAATTTCTA
* *
10679 TTTTCAATTTCTG
1 TTTTTAATTTCTA
10692 TTTTTAATTT
1 TTTTTAATTT
10702 TTCAAAGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTA
Found at i:10826 original size:13 final size:13
Alignment explanation
Indices: 10808--10832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10798 TGAGTTGAGC
10808 CTTTTAATTTCTG
1 CTTTTAATTTCTG
10821 CTTTTAATTTCT
1 CTTTTAATTTCT
10833 ATGTTTCAAA
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:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:10840 original size:68 final size:67
Alignment explanation
Indices: 10700--10876 Score: 207
Period size: 68 Copynumber: 2.6 Consensus size: 67
10690 TGTTTTTAAT
* *
10700 TTTTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTTAATTTCCGTTTTTCGAAATC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCCGCTTTTC-AAATC
10764 TAC
65 TAC
* * * * *
10767 TTTTCAAATTATTAACTCATGTTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGCTTTT-AATTT
1 TTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCCGCTTTTCAA-AT
10831 CTA-
64 CTAC
* **
10834 TGTTTCAAAAATCAACCCATATTGCGAGAAATGAGTTGAGCCT
1 T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
10877 CAGTTCACCT
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
67 39 0.41
68 41 0.44
69 14 0.15
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (67 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCCGCTTTTCAAATCT
AC
Found at i:12130 original size:21 final size:22
Alignment explanation
Indices: 12100--12140 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12090 ATTATATCTA
12100 AATATCTAAA-TAAATAAAAAC
1 AATATCTAAAGTAAATAAAAAC
* *
12121 AATATTTAAAGTATATAAAA
1 AATATCTAAAGTAAATAAAA
12141 TATAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
AATATCTAAAGTAAATAAAAAC
Found at i:13210 original size:2 final size:2
Alignment explanation
Indices: 13203--13230 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13193 TAGTTTCAAC
13203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13231 TATGTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13676 original size:35 final size:32
Alignment explanation
Indices: 13611--13693 Score: 89
Period size: 35 Copynumber: 2.5 Consensus size: 32
13601 CTAGATTTTA
* *
13611 TATTCTTA-TATGTATATTATTACATTTATTT
1 TATTCTTATTATATATATTATTACATGTATTT
13642 TATTCTTATTATATATATTATCAATACATGTATTT
1 TATTCTTATTATATATATTAT---TACATGTATTT
*
13677 TATT-ATATGTATATATA
1 TATTCTTAT-TATATATA
13694 CATTATGTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 8 0.18
32 11 0.25
34 3 0.07
35 22 0.50
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (32 bp):
TATTCTTATTATATATATTATTACATGTATTT
Found at i:13694 original size:26 final size:29
Alignment explanation
Indices: 13642--13696 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
13632 ACATTTATTT
13642 TATTCTTATTATATATATTATCAATACATG
1 TATTCTTATTATATATATTAT-AATACATG
*
13672 TATT-TTATTATATGTA-TAT-ATACAT
1 TATTCTTATTATATATATTATAATACAT
13697 TATGTGCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
28 3 0.12
29 11 0.46
30 4 0.17
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (29 bp):
TATTCTTATTATATATATTATAATACATG
Found at i:14758 original size:45 final size:45
Alignment explanation
Indices: 14708--14817 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
14698 ATGTGCCAAC
*
14708 TACTGTTACTGTTACTGTTACTGATTCAACACTTTATGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTATGTGTTGAA
* *
14753 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTATGTGTTGAA
* *
14798 TATTGTTATTGTTACTGTTA
1 TACTGTTACTGTTACTGTTA
14818 TTGTTACTGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAACACTTTATGTGTTGAA
Found at i:14818 original size:12 final size:12
Alignment explanation
Indices: 14801--14826 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14791 TGTTGAATAT
14801 TGTTATTGTTAC
1 TGTTATTGTTAC
14813 TGTTATTGTTAC
1 TGTTATTGTTAC
14825 TG
1 TG
14827 CTACCGCTAT
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:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (12 bp):
TGTTATTGTTAC
Found at i:15040 original size:2 final size:2
Alignment explanation
Indices: 15033--15065 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15023 ATAAGAATGG
15033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15066 TCAAATGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24122 original size:13 final size:13
Alignment explanation
Indices: 24104--24134 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
24094 CCTCTCTTTG
24104 AATATTTGTTGGA
1 AATATTTGTTGGA
24117 AATATTTGTTGGA
1 AATATTTGTTGGA
24130 AATAT
1 AATAT
24135 CCGGACGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (13 bp):
AATATTTGTTGGA
Found at i:25967 original size:19 final size:20
Alignment explanation
Indices: 25943--25986 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25933 AAAAATAAAA
*
25943 ATTTTG-AATTTTAAAAATT
1 ATTTTGAAAATTTAAAAATT
*
25962 ATTTTGAAAATTTGAAAATT
1 ATTTTGAAAATTTAAAAATT
25982 ATTTT
1 ATTTT
25987 ATTTCTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTTGAAAATTTAAAAATT
Found at i:29401 original size:18 final size:18
Alignment explanation
Indices: 29349--29401 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
29339 GGGTGATAAT
*
29349 GTAAATAACAATAATAAGG
1 GTAAATAATAATAA-AAGG
* *
29368 GCAAA-AATAAAAAAAAGG
1 GTAAATAAT-AATAAAAGG
29386 GTAAATAATAATAAAA
1 GTAAATAATAATAAAA
29402 TAATAAAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.66, C:0.04, G:0.13, T:0.17
Consensus pattern (18 bp):
GTAAATAATAATAAAAGG
Found at i:29563 original size:3 final size:3
Alignment explanation
Indices: 29545--29603 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
29535 TAGTTTTAAA
* * *
29545 AAT AAT ACT AATT AAT AAT GAT AAT AAT AAT AAT AAC AAT AAT ACA-
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
29591 AAT AAT AAAT AAT
1 AAT AAT -AAT AAT
29604 CTAAAGTTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 1 0.02
3 38 0.83
4 7 0.15
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:29902 original size:3 final size:3
Alignment explanation
Indices: 29765--29890 Score: 103
Period size: 3 Copynumber: 42.0 Consensus size: 3
29755 AAAAAAAATG
* * * *
29765 TAA TAA TAA CAA TAA TAG TAA TAA T-A CAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
29812 CAA AAA TAG TAA TAA TAA TAG TAA TAA AAA CAA TAA -AA GTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
** *
29857 TAA TGG TAA TAA TAA TAA TAG TAA TAA TACA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
29891 AATTGATAAT
Statistics
Matches: 95, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
2 3 0.03
3 87 0.92
4 5 0.05
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:30911 original size:19 final size:19
Alignment explanation
Indices: 30888--30931 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30878 TTTTTTATTG
30888 GGGTTTTGGGCTAGGGTTT
1 GGGTTTTGGGCTAGGGTTT
* * *
30907 TGGTTTTGGGTTTGGGTTT
1 GGGTTTTGGGCTAGGGTTT
30926 GGGTTT
1 GGGTTT
30932 GGGTTTGGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.02, C:0.02, G:0.45, T:0.50
Consensus pattern (19 bp):
GGGTTTTGGGCTAGGGTTT
Found at i:30913 original size:6 final size:6
Alignment explanation
Indices: 30905--30941 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
30895 GGGCTAGGGT
*
30905 TTTGGT TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG T
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG T
30942 GTAGTTGAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (6 bp):
TTTGGG
Found at i:31232 original size:45 final size:45
Alignment explanation
Indices: 31175--31733 Score: 213
Period size: 44 Copynumber: 12.6 Consensus size: 45
31165 TTCGATCCAT
*
31175 TCCACTGTAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
* * * * * *
31220 TCCACTACAACTTCAGGGATATGAGATTTGT-G-TTTTAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
* * * ** * ** *
31263 TCCACTGCAACTTCAGGGAGATAAGGCTTAT-GGCTTCAACCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
* * ** *
31307 TCTACTGTAACTTCAGAGAGATAAGGTTTGTAGTTTTTAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
* * * ** *
31352 TCCACT-CTAACTTTA-AGGAGATAAGACTTGTA-ATTTCAACCTAT
1 TCCACTGC-AACTTCAGA-GAGATAAGACTTGTAGTTTTTAGTCTAC
* ** * * * *
31396 TCCACTGCAATTTCAGTTAGATAAG-GTT-T-GTTTTGA-TTTTC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
* * * * *
31437 TCTACTGCAACTTCAAAGAGATAA-A-TCTGTAATTTATAGCTTCAATC
1 TCCACTGCAACTTCAGAGAGATAAGACT-TGTAGTTTTTAG--TCTA-C
* * * * * * *
31484 TGTTCCACTGCAACTTCAGGGAAATAATATTTGCTA-TCTTCAGTCTGC
1 ---TCCACTGCAACTTCAGAGAGATAAGACTTG-TAGTTTTTAGTCTAC
* * ** * **
31532 TCCACTGCAACTTCAGGGAGATAAAACTTGTA-ACTTCAACCTAC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
* * * ** * *
31576 TCCACTACAAATTCAGAGAGATAAG-CTTAGT-GGTCGTAATTTAC
1 TCCACTGCAACTTCAGAGAGATAAGACTT-GTAGTTTTTAGTCTAC
* * * * *
31620 TCTACTGCAACTTCAGGGAGATAAGATTTGCCA-TCTTTAGTCTAC
1 TCCACTGCAACTTCAGAGAGATAAGACTTG-TAGTTTTTAGTCTAC
* * ** * *
31665 TCCACTAG-AACTTCAAAGAGATAAGACTTGTAATTTCAACT-TGC
1 TCCACT-GCAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
31709 TCCACTGCAACTTCAG-GAAGATAAG
1 TCCACTGCAACTTCAGAG-AGATAAG
31734 GTATGCTATG
Statistics
Matches: 374, Mismatches: 110, Indels: 61
0.69 0.20 0.11
Matches are distributed among these distances:
40 1 0.00
41 21 0.06
42 6 0.02
43 47 0.13
44 142 0.38
45 121 0.32
46 2 0.01
47 1 0.00
48 1 0.00
49 2 0.01
50 20 0.05
51 7 0.02
52 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (45 bp):
TCCACTGCAACTTCAGAGAGATAAGACTTGTAGTTTTTAGTCTAC
Found at i:31390 original size:89 final size:89
Alignment explanation
Indices: 31216--31600 Score: 284
Period size: 89 Copynumber: 4.3 Consensus size: 89
31206 AGTTTTTAGT
* * * * * *
31216 CTACTCCACTACAACTTCAGGGATATGAGATTTGT-G-TTTTAGTCTGCTCCACTGCAACTTCAG
1 CTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTAGTTTTTAGTCTGCTCCACTGCAACTTCAA
* **
31279 GGAGATAAGGCTTATGGCTTCAAC
66 GGAGATAAGACTTATAACTTCAAC
* * * *
31303 CTGCTCTACTGTAACTTCAGAGAGATAAGGTTTGTAGTTTTTAGTCTGCTCCACT-CTAACTTTA
1 CTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTAGTTTTTAGTCTGCTCCACTGC-AACTTCA
* *
31367 AGGAGATAAGACTTGTAATTTCAAC
65 AGGAGATAAGACTTATAACTTCAAC
* * ** * * * *
31392 CTATTCCACTGCAATTTCAGTTAGATAAGG-TT-T-GTTTTGA-TTTTCTCTACTGCAACTTCAA
1 CTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTAGTTTTTAGTCTGCTCCACTGCAACTTCAA
* *
31453 AGAGATAA-ATCTGTAATTTATAGCTTCAAT
66 GGAGATAAGA-CT-T-A--TA-A-CTTCAAC
** * * ** * *
31483 CTGTTCCACTGCAACTTCAGGGAAATAATATTTGCTA-TCTTCAGTCTGCTCCACTGCAACTTCA
1 CTACTCCACTGCAACTTCAGAGAGATAAGGTTTG-TAGTTTTTAGTCTGCTCCACTGCAACTTCA
* * *
31547 GGGAGATAAAACTTGTAACTTCAAC
65 AGGAGATAAGACTTATAACTTCAAC
* *
31572 CTACTCCACTACAAATTCAGAGAGATAAG
1 CTACTCCACTGCAACTTCAGAGAGATAAG
31601 CTTAGTGGTC
Statistics
Matches: 227, Mismatches: 54, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
84 1 0.00
85 24 0.11
86 8 0.04
87 28 0.12
88 4 0.02
89 95 0.42
90 2 0.01
91 30 0.13
92 2 0.01
94 6 0.03
95 26 0.11
96 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (89 bp):
CTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTAGTTTTTAGTCTGCTCCACTGCAACTTCAA
GGAGATAAGACTTATAACTTCAAC
Found at i:31649 original size:133 final size:133
Alignment explanation
Indices: 31490--31733 Score: 339
Period size: 133 Copynumber: 1.8 Consensus size: 133
31480 AATCTGTTCC
* * * **
31490 ACTGCAACTTCAGGGAAATAATATTTGCTATCTTCAGTCTGCTCCACT-GCAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTACTCCACTAG-AACTTCAAAGAGAT
31554 AAAACTTGTAACTTCAACCTACTCCACTACAAATTCA-GAGAGATAAGCTTAGTGGTCGTAATTT
65 AAAACTTGTAACTTCAACCTACTCCACTACAAATTCAGGA-AGATAAGCTTAGTGGTCGTAATTT
31618 ACTCT
129 ACTCT
* *
31623 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTACTCCACTAGAACTTCAAAGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTACTCCACTAGAACTTCAAAGAGATA
* * * * * *
31688 AGACTTGTAATTTCAACTTGCTCCACTGCAACTTCAGGAAGATAAG
66 AAACTTGTAACTTCAACCTACTCCACTACAAATTCAGGAAGATAAG
31734 GTATGCTATG
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
133 93 0.97
134 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (133 bp):
ACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTACTCCACTAGAACTTCAAAGAGATA
AAACTTGTAACTTCAACCTACTCCACTACAAATTCAGGAAGATAAGCTTAGTGGTCGTAATTTAC
TCT
Found at i:31688 original size:313 final size:312
Alignment explanation
Indices: 31306--31881 Score: 832
Period size: 313 Copynumber: 1.8 Consensus size: 312
31296 CTTCAACCTG
* * * * * ** * *
31306 CTCTACTGTAACTTCAGAGAGATAAGGTTTGTAGTTTTTAGTCTGCTCCACTCTAACTTTAAGGA
1 CTCTACTGCAACTTCAGAGAGATAAGATTTGCAGTCTTTAGTCTACTCCACTAGAACTTCAAAGA
* * ** * * * **
31371 GATAAGACTTGTAATTTCAACCTATTCCACTGCAATTTCAGTTAGATAAGGTTTGTTTTGATTTT
66 GATAAGACTTGTAATTTCAACCTACTCCACTGCAACTTCAGGAAGATAAGGTATGCTATGATCCT
* *
31436 CTCTACTGCAACTTCAAAGAGATAA-ATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTT
131 CTCTACTACAACTTCAAAGAGATAAGATCTATAA-TTATAGCTTCAATCTGTTCCACTGCAACTT
* * * * *
31500 CAGGGAAATAATATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGTAA
195 CAAGGAAATAAGATTTGCTAACTTCAGTCTGCTCCACTGCAACTTCAGAGAGACAAAACTTGTAA
31565 CTTCAACCTACTCCACTACAAATTCAGAGAGATAAGCTTAGTGGTCGTAATTTA
260 -TTCAACCTACTCCACTACAAATTCAGAGAGATAAGCTTAGTGGTCGTAATTTA
*
31619 CTCTACTGCAACTTCAGGGAGATAAGATTTGCCA-TCTTTAGTCTACTCCACTAGAACTTCAAAG
1 CTCTACTGCAACTTCAGAGAGATAAGATTTG-CAGTCTTTAGTCTACTCCACTAGAACTTCAAAG
* *
31683 AGATAAGACTTGTAATTTCAACTTGCTCCACTGCAACTTCAGGAAGATAAGGTATGCTATGATCC
65 AGATAAGACTTGTAATTTCAACCTACTCCACTGCAACTTCAGGAAGATAAGGTATGCTATGATCC
*
31748 TCTCTACTACAACTTCAGAGAGATAAGATCTATAATTATAGCTTCAATCTGTTCCACTGCAACTT
130 TCTCTACTACAACTTCAAAGAGATAAGATCTATAATTATAGCTTCAATCTGTTCCACTGCAACTT
* *
31813 CAAGGAAATAAGATTTGCTAACTTCAGTCTGCTCCACTGCAACTTTAGAGAGACAAGACTTGTAA
195 CAAGGAAATAAGATTTGCTAACTTCAGTCTGCTCCACTGCAACTTCAGAGAGACAAAACTTGTAA
31878 TTCA
260 TTCA
31882 TCGATCTTGC
Statistics
Matches: 230, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
312 4 0.02
313 218 0.95
314 8 0.03
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (312 bp):
CTCTACTGCAACTTCAGAGAGATAAGATTTGCAGTCTTTAGTCTACTCCACTAGAACTTCAAAGA
GATAAGACTTGTAATTTCAACCTACTCCACTGCAACTTCAGGAAGATAAGGTATGCTATGATCCT
CTCTACTACAACTTCAAAGAGATAAGATCTATAATTATAGCTTCAATCTGTTCCACTGCAACTTC
AAGGAAATAAGATTTGCTAACTTCAGTCTGCTCCACTGCAACTTCAGAGAGACAAAACTTGTAAT
TCAACCTACTCCACTACAAATTCAGAGAGATAAGCTTAGTGGTCGTAATTTA
Found at i:31716 original size:89 final size:88
Alignment explanation
Indices: 31529--31733 Score: 216
Period size: 89 Copynumber: 2.3 Consensus size: 88
31519 ATCTTCAGTC
* * *
31529 TGCTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTACTCCACTACAAATTCAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAACTTCAACCTACTCCACTACAAATTCAAAG
** *
31594 AGATAAGCTTAGTGGTCGTAATT
66 AGATAAGCTTAGTAATCGTAACT
* * * * * ** * *
31617 TACTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTACTCCACTAGAACTTCAAA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CAACTTCAACCTACTCCACTACAAATTCAAA
*
31682 GAGATAAGACTT-GTAAT-TTCAACT
65 GAGATAAG-CTTAGTAATCGT-AACT
*
31706 TGCTCCACTGCAACTTCAGGAAGATAAG
1 TGCTCCACTGCAACTTCAGGGAGATAAG
31734 GTATGCTATG
Statistics
Matches: 95, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 30 0.32
89 62 0.65
90 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAACTTCAACCTACTCCACTACAAATTCAAAG
AGATAAGCTTAGTAATCGTAACT
Found at i:31853 original size:45 final size:45
Alignment explanation
Indices: 31476--31857 Score: 200
Period size: 45 Copynumber: 8.5 Consensus size: 45
31466 TAATTTATAG
* * * * *
31476 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAATATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTAA
* * * *
31521 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTTG-TAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTAA
* * * * * *
31565 CTTCAACCTACTCCACTACAAATTC-AGAGAGATAAGCTTAGTGGT--
1 CTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATT--TGCTAA
* * * * * * *
31610 CGT-AATTTACTCTACTGCAACTTCAGGGAGATAAGATTTGCCAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTAA
* * * * *
31654 CTTTAGTCTACTCCACTAG-AACTTCAAAGAGATAAGACTTG-TAA
1 CTTCAATCTGCTCCACT-GCAACTTCAAGGAGATAAGATTTGCTAA
* * *
31698 TTTCAA-CTTGCTCCACTGCAACTTC-AGGAAGATAAGGTATGCT-A
1 CTTCAATC-TGCTCCACTGCAACTTCAAGG-AGATAAGATTTGCTAA
* * * **
31742 --T-GATCCT-CTCTACTACAACTTC-AGAGAGATAAGATCTATAATTATA
1 CTTCAAT-CTGCTCCACTGCAACTTCAAG-GAGATAAGAT-T-T-GCTA-A
* *
31788 GCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTAA
1 -CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTAA
*
31834 CTTCAGTCTGCTCCACTGCAACTT
1 CTTCAATCTGCTCCACTGCAACTT
31858 TAGAGAGACA
Statistics
Matches: 252, Mismatches: 58, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
41 24 0.10
42 5 0.02
43 7 0.03
44 87 0.35
45 91 0.36
46 5 0.02
47 3 0.01
48 1 0.00
49 4 0.02
50 23 0.09
51 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTAA
Found at i:34794 original size:17 final size:18
Alignment explanation
Indices: 34762--34795 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34752 GCCATATATA
34762 TATTTGTTGGATTTGTTT
1 TATTTGTTGGATTTGTTT
*
34780 TATTT-TTGTATTTGTT
1 TATTTGTTGGATTTGTT
34796 ATGTCAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.00, G:0.18, T:0.71
Consensus pattern (18 bp):
TATTTGTTGGATTTGTTT
Found at i:52628 original size:29 final size:30
Alignment explanation
Indices: 52581--52648 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
52571 TGGCCCAAGA
* * *
52581 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
52611 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
52641 GAAAATAT
1 GTAAATAT
52649 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:52909 original size:29 final size:31
Alignment explanation
Indices: 52861--52924 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
52851 TTTATAGTTA
*
52861 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
52892 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
52921 TTTA
1 TTTA
52925 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:52913 original size:8 final size:8
Alignment explanation
Indices: 52902--52926 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52892 TTTAATAAGA
52902 TATTTTAT
1 TATTTTAT
52910 TATTTTAT
1 TATTTTAT
52918 TATTTTAT
1 TATTTTAT
52926 T
1 T
52927 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:57844 original size:3 final size:3
Alignment explanation
Indices: 57836--57900 Score: 105
Period size: 3 Copynumber: 21.3 Consensus size: 3
57826 AAGGTAGTTT
57836 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57884 TACA -AA TAA TAAA TAA T
1 TA-A TAA TAA T-AA TAA T
57901 CTAAAATTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.02
3 54 0.92
4 4 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:58068 original size:3 final size:3
Alignment explanation
Indices: 58062--58185 Score: 124
Period size: 3 Copynumber: 41.7 Consensus size: 3
58052 CAAAAAAATG
* * * *
58062 TAA TAA TAA AAA TAA TAG TAA TAA T-A CAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
58109 TAA CAA AAA TAG TAA TAA TAA TAG TAA TAA AAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** *
58157 TAA TGG TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
58186 TATTAAATTG
Statistics
Matches: 95, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
2 1 0.01
3 94 0.99
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:58773 original size:2 final size:2
Alignment explanation
Indices: 58768--58796 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
58758 TTTTTTTTGT
58768 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58797 CTGTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:58789 original size:13 final size:13
Alignment explanation
Indices: 58771--58796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58761 TTTTTGTTAT
58771 ATATATATATATA
1 ATATATATATATA
58784 ATATATATATATA
1 ATATATATATATA
58797 CTGTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:60504 original size:6 final size:6
Alignment explanation
Indices: 60493--60521 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
60483 ATTTCTAATT
60493 CCACAC CCACAC CCACAC CCACAC CCACA
1 CCACAC CCACAC CCACAC CCACAC CCACA
60522 TTTTCCCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (6 bp):
CCACAC
Found at i:76984 original size:2 final size:2
Alignment explanation
Indices: 76977--77001 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
76967 CTATTAATGC
76977 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
77002 CACACACGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80613 original size:41 final size:39
Alignment explanation
Indices: 80549--80688 Score: 140
Period size: 40 Copynumber: 3.6 Consensus size: 39
80539 CGACTTCAAG
* *
80549 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGAGTGCCAATTTA-TACTTCGGATT-AT
* * *
80590 TCGATGAGACATTGAGTGCCAA-TT-TACTTCGGTTTAG
1 TCGATGAGACACTGAGTGCCAATTTATACTTCGGATTAT
* * *
80627 CCGATGAGACACTGAGTGTCAATTTATTACTTCGAATTAT
1 TCGATGAGACACTGAGTGCCAATTTA-TACTTCGGATTAT
* * *
80667 TTGATGAGGCACTGGGTGCCAA
1 TCGATGAGACACTGAGTGCCAA
80689 ACTAGCGTGT
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
37 20 0.25
38 12 0.15
40 29 0.36
41 19 0.24
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTGAGTGCCAATTTATACTTCGGATTAT
Found at i:80643 original size:37 final size:38
Alignment explanation
Indices: 80550--80652 Score: 118
Period size: 37 Copynumber: 2.7 Consensus size: 38
80540 GACTTCAAGT
* **
80550 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGAGTGTCAA-TT--TACTTCGGATTAAGC
* * *
80591 CGATGAGACATTGAGTGCCAATTTACTTCGG-TTTAGC
1 CGATGAGACACTGAGTGTCAATTTACTTCGGATTAAGC
80628 CGATGAGACACTGAGTGTCAATTTA
1 CGATGAGACACTGAGTGTCAATTTA
80653 TTACTTCGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 26 0.48
38 8 0.15
40 2 0.04
41 18 0.33
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (38 bp):
CGATGAGACACTGAGTGTCAATTTACTTCGGATTAAGC
Found at i:80925 original size:16 final size:16
Alignment explanation
Indices: 80877--80925 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
80867 TGTACTCGTA
*
80877 AATTGAGTATGGTATG
1 AATTGAGTATTGTATG
*
80893 AAATGATGTATT-TATG
1 AATTGA-GTATTGTATG
*
80909 AATTGAGTATTGCATG
1 AATTGAGTATTGTATG
80925 A
1 A
80926 CTGATGCCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 5 0.19
16 18 0.67
17 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (16 bp):
AATTGAGTATTGTATG
Found at i:83424 original size:57 final size:57
Alignment explanation
Indices: 83352--83483 Score: 219
Period size: 57 Copynumber: 2.3 Consensus size: 57
83342 TGAGACCGTG
* * * *
83352 TTGAATGTCGCGACTTTGCTGCTGTTTGGGATCAACTTCCATCTTCAGGCTACTGGC
1 TTGAATGTTGTGACTTTGCTACTGTTTGGGATCAACTTCCATCTTCAAGCTACTGGC
*
83409 TTGAATGTTGTGACTTTGCTATTGTTTGGGATCAACTTCCATCTTCAAGCTACTGGC
1 TTGAATGTTGTGACTTTGCTACTGTTTGGGATCAACTTCCATCTTCAAGCTACTGGC
83466 TTGAATGTTGTGACTTTG
1 TTGAATGTTGTGACTTTG
83484 GTGAGCGGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 70 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (57 bp):
TTGAATGTTGTGACTTTGCTACTGTTTGGGATCAACTTCCATCTTCAAGCTACTGGC
Found at i:89441 original size:15 final size:17
Alignment explanation
Indices: 89400--89441 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
89390 CTCCTAGAAG
89400 AAGACAAGAAAAAGAAAA
1 AAGAC-AGAAAAAGAAAA
*
89418 AAGAGAGAAAAA-AAAA
1 AAGACAGAAAAAGAAAA
89434 AA-ACAGAA
1 AAGACAGAA
89442 TTGCAAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 6 0.27
17 7 0.32
18 4 0.18
ACGTcount: A:0.79, C:0.05, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGACAGAAAAAGAAAA
Found at i:94583 original size:45 final size:45
Alignment explanation
Indices: 94519--94610 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
94509 CACTAAGATT
*
94519 ATGCCACGTGGCAAAACTAGTATTTTCTATTTAAAATCATTAAAA
1 ATGCCACGTGGAAAAACTAGTATTTTCTATTTAAAATCATTAAAA
94564 ATGCCACGTGGAAAAACTAGTATTTTCTATTTAAAATCATTAAAA
1 ATGCCACGTGGAAAAACTAGTATTTTCTATTTAAAATCATTAAAA
94609 AT
1 AT
94611 CATAAAGATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (45 bp):
ATGCCACGTGGAAAAACTAGTATTTTCTATTTAAAATCATTAAAA
Found at i:94626 original size:18 final size:18
Alignment explanation
Indices: 94605--94639 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94595 TAAAATCATT
*
94605 AAAAATCATAAAGATATG
1 AAAAATCATAAAAATATG
*
94623 AAAAATTATAAAAATAT
1 AAAAATCATAAAAATAT
94640 TACGAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAAATCATAAAAATATG
Found at i:96976 original size:21 final size:20
Alignment explanation
Indices: 96952--96990 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
96942 TGTGAATTGA
96952 ATTAAATTGAGTATTAAATGG
1 ATTAAATTGA-TATTAAATGG
*
96973 ATTAAATTGATGTTAAAT
1 ATTAAATTGATATTAAAT
96991 TCATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTAAATTGATATTAAATGG
Found at i:97523 original size:25 final size:25
Alignment explanation
Indices: 97467--97523 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
97457 ACAAACACAG
* *
97467 CTCTTTATGAGCGTCCTGATATAGT
1 CTCTTTGTGAGCGTCCTGATATAGA
*
97492 CTCTTTGTGAGCTTCCTGATAT-GA
1 CTCTTTGTGAGCGTCCTGATATAGA
97516 CTCGTTTG
1 CTC-TTTG
97524 AACTTCCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (25 bp):
CTCTTTGTGAGCGTCCTGATATAGA
Found at i:106123 original size:15 final size:16
Alignment explanation
Indices: 106101--106138 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
106091 AATTGATAAT
106101 AAAATATA-ATTT-TA
1 AAAATATATATTTATA
106115 AAAACTATATATTTATA
1 AAAA-TATATATTTATA
106132 AAAATAT
1 AAAATAT
106139 TATAAGCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.19
15 4 0.19
16 7 0.33
17 6 0.29
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATATATATTTATA
Found at i:106636 original size:18 final size:19
Alignment explanation
Indices: 106605--106641 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
106595 TTTAGCATGT
*
106605 CAAATTACCAATTACTGAA
1 CAAATTACCAATTAATGAA
106624 CAAATTA-CAATTAATGAA
1 CAAATTACCAATTAATGAA
106642 TAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.27
Consensus pattern (19 bp):
CAAATTACCAATTAATGAA
Found at i:106647 original size:19 final size:19
Alignment explanation
Indices: 106606--106647 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
106596 TTAGCATGTC
* *
106606 AAATTACCAATTACTGAAC
1 AAATTACCAATTAATGAAA
106625 AAATTA-CAATTAATGAATA
1 AAATTACCAATTAATGAA-A
106644 AAAT
1 AAAT
106648 ATTTGTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.29
Consensus pattern (19 bp):
AAATTACCAATTAATGAAA
Found at i:106848 original size:82 final size:82
Alignment explanation
Indices: 106751--106916 Score: 289
Period size: 82 Copynumber: 2.0 Consensus size: 82
106741 TTCTTTCAGG
* *
106751 TTTGTTTTACCGTTTATATTTAAAGTTTATGGTTGTTTTTTTTAATAATATCAATT-TCAACCTT
1 TTTGTTTTACAGTTTATATTTAAAGTTTATGGTTGTTTTTCTTAATAATATCAATTCT-AACCTT
106815 TTAAATTTCGTCATTTCT
65 TTAAATTTCGTCATTTCT
106833 TTTGTTTTACAGTTTATATTTAAAGTTTATGGTTGTTTTTCTTAATAATATCAATTCTAACCTTT
1 TTTGTTTTACAGTTTATATTTAAAGTTTATGGTTGTTTTTCTTAATAATATCAATTCTAACCTTT
*
106898 TAAATTTCGTTATTTCT
66 TAAATTTCGTCATTTCT
106915 TT
1 TT
106917 AAAAGCGTAA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 79 0.99
83 1 0.01
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (82 bp):
TTTGTTTTACAGTTTATATTTAAAGTTTATGGTTGTTTTTCTTAATAATATCAATTCTAACCTTT
TAAATTTCGTCATTTCT
Found at i:111061 original size:19 final size:18
Alignment explanation
Indices: 111018--111062 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
111008 AAAATACTAG
* *
111018 TTTATAATATATTATTTT
1 TTTATATTATATAATTTT
111036 TTATATATTATATAATTTT
1 TT-TATATTATATAATTTT
111055 TATTATAT
1 T-TTATAT
111063 GAAACTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 20 0.87
20 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATATTATATAATTTT
Found at i:117443 original size:34 final size:33
Alignment explanation
Indices: 117400--117513 Score: 131
Period size: 34 Copynumber: 3.4 Consensus size: 33
117390 GAGCTGGTAA
* * *
117400 GGTGTAGTTACTGCTCGTCAGAGCAATTTAGTGT
1 GGTGTAGTTACTACTC-TCAGAGCAATCTGGTGT
*
117434 GGTGTAGTTATTACTCTAACA-AGCAATCTGGTGT
1 GGTGTAGTTACTACTCT--CAGAGCAATCTGGTGT
* *
117468 GGTGTAGTTACTACTCTAACGAGCAACCTGGTGT
1 GGTGTAGTTACTACTCTCA-GAGCAATCTGGTGT
117502 GGTGTAGTTACT
1 GGTGTAGTTACT
117514 CATATATCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
32 1 0.01
33 1 0.01
34 65 0.94
35 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (33 bp):
GGTGTAGTTACTACTCTCAGAGCAATCTGGTGT
Found at i:117707 original size:13 final size:13
Alignment explanation
Indices: 117689--117719 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
117679 TTGAATTACA
117689 ATATGATATGGTT
1 ATATGATATGGTT
117702 ATATGATATGGTT
1 ATATGATATGGTT
117715 ATATG
1 ATATG
117720 TTAAACTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (13 bp):
ATATGATATGGTT
Found at i:124435 original size:24 final size:24
Alignment explanation
Indices: 124389--124435 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
124379 GAGATTAAAA
* *
124389 TTAATGTATCAAACAGTTTTATAC
1 TTAATGTATCAAACAATTATATAC
124413 TTAATGTAAT-AAACAATTATATA
1 TTAATGT-ATCAAACAATTATATA
124436 ATATAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (24 bp):
TTAATGTATCAAACAATTATATAC
Found at i:124602 original size:2 final size:2
Alignment explanation
Indices: 124595--124646 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
124585 AATTTACAAT
124595 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
124637 TA TA TA TA TA
1 TA TA TA TA TA
124647 AAAGCAATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:144233 original size:7 final size:7
Alignment explanation
Indices: 144221--144332 Score: 116
Period size: 7 Copynumber: 15.7 Consensus size: 7
144211 TCTTTGGTAG
144221 AGGGTTT
1 AGGGTTT
144228 AGGGTTT
1 AGGGTTT
*
144235 ATGGTTT
1 AGGGTTT
*
144242 AGAGTTT
1 AGGGTTT
*
144249 ATGGTTT
1 AGGGTTT
*
144256 ATGGTTTT
1 A-GGGTTT
*
144264 AGTGTTT
1 AGGGTTT
*
144271 AGAGTTT
1 AGGGTTT
144278 AGGGTTTT
1 AGGG-TTT
144286 AGGGTTT
1 AGGGTTT
144293 AGGGTTT
1 AGGGTTT
*
144300 AGAGTTT
1 AGGGTTT
*
144307 ATGGTTT
1 AGGGTTT
**
144314 AGATTTT
1 AGGGTTT
144321 AGGGTTT
1 AGGGTTT
144328 AGGGT
1 AGGGT
144333 CTTCAATTGT
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
7 72 0.86
8 12 0.14
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (7 bp):
AGGGTTT
Found at i:144270 original size:22 final size:22
Alignment explanation
Indices: 144224--144300 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
144214 TTGGTAGAGG
144224 GTTTAGGGTTTATGG-TTTAGA
1 GTTTAGGGTTTATGGTTTTAGA
* *
144245 GTTTATGGTTTATGGTTTTAGT
1 GTTTAGGGTTTATGGTTTTAGA
* * *
144267 GTTTAGAGTTTAGGGTTTTAGG
1 GTTTAGGGTTTATGGTTTTAGA
144289 GTTTAGGGTTTA
1 GTTTAGGGTTTA
144301 GAGTTTATGG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 14 0.29
22 34 0.71
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (22 bp):
GTTTAGGGTTTATGGTTTTAGA
Found at i:144273 original size:29 final size:29
Alignment explanation
Indices: 144223--144329 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
144213 TTTGGTAGAG
* *
144223 GGTTTA-GGGTTTATGGTTTAGAGTTTAT
1 GGTTTATGGTTTTAGGGTTTAGAGTTTAT
* *
144251 GGTTTATGGTTTTAGTGTTTAGAGTTTAG
1 GGTTTATGGTTTTAGGGTTTAGAGTTTAT
*
144280 GGTTT-TAGGGTTTAGGGTTTAGAGTTTAT
1 GGTTTAT-GGTTTTAGGGTTTAGAGTTTAT
*
144309 GGTTTA-GATTTTAGGGTTTAG
1 GGTTTATGGTTTTAGGGTTTAG
144330 GGTCTTCAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.30
29 47 0.70
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.50
Consensus pattern (29 bp):
GGTTTATGGTTTTAGGGTTTAGAGTTTAT
Found at i:147482 original size:26 final size:26
Alignment explanation
Indices: 147446--147552 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
147436 GAAATGCCCT
*
147446 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
147472 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
147498 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
147524 TCATGGAACATTTACCTGACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
147550 TCA
1 TCA
147553 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:148305 original size:16 final size:16
Alignment explanation
Indices: 148284--148324 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
148274 GGTCATTAGC
148284 CATCATTTTGCTAAAA
1 CATCATTTTGCTAAAA
148300 CATCATTTTGCTAAAA
1 CATCATTTTGCTAAAA
*
148316 CACCATTTT
1 CATCATTTT
148325 AAGCTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (16 bp):
CATCATTTTGCTAAAA
Found at i:150278 original size:10 final size:10
Alignment explanation
Indices: 150263--150307 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
150253 CCAGTTCAAG
150263 TTTTTTATAA
1 TTTTTTATAA
*
150273 TTTTTTAAAA
1 TTTTTTATAA
150283 TTTTTTATAA
1 TTTTTTATAA
* *
150293 CTTTATATCAA
1 TTTTTTAT-AA
150304 TTTT
1 TTTT
150308 AATATTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 24 0.83
11 5 0.17
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:153064 original size:31 final size:32
Alignment explanation
Indices: 152998--153064 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
152988 TATAACTTCA
* * *
152998 TCAAAAGAATGAATATTTACTATTTTTTGAGT
1 TCAAAAGAAAGAATATTTACTATTTTTTCAAT
153030 TCAAAA-AAAGAATATTTACTATTTTTTCAAT
1 TCAAAAGAAAGAATATTTACTATTTTTTCAAT
153061 TCAA
1 TCAA
153065 TTGGGACCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (32 bp):
TCAAAAGAAAGAATATTTACTATTTTTTCAAT
Found at i:153104 original size:22 final size:22
Alignment explanation
Indices: 153079--153121 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
153069 GACCCAATTT
* * *
153079 TAAATAATTTATTTTTTAAATA
1 TAAAAAATTTATATATTAAATA
153101 TAAAAAATTTATATATTAAAT
1 TAAAAAATTTATATATTAAAT
153122 TATTATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAAAATTTATATATTAAATA
Found at i:157038 original size:6 final size:6
Alignment explanation
Indices: 157022--157065 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
157012 ACACTGTAGG
* *
157022 GTAACA ATAACA GTAACA ATAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
157066 CATATTCAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:158050 original size:22 final size:21
Alignment explanation
Indices: 158020--158072 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
158010 ATTATAATTA
*
158020 TATAATATAATATAATTTACTT
1 TATATTATAATATAATTTAC-T
* *
158042 TATATTATATTATTATTTACT
1 TATATTATAATATAATTTACT
*
158063 TATATAATAA
1 TATATTATAA
158073 GTGAATACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTATAATATAATTTACT
Found at i:159386 original size:26 final size:26
Alignment explanation
Indices: 159349--159458 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
159339 TGATACAAAT
*
159349 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
159375 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
159401 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
159427 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
159453 TGATAA
1 TGATAA
159459 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:160972 original size:26 final size:26
Alignment explanation
Indices: 160943--160996 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
160933 AATTACTGTT
160943 ATACCCCTAGGTGTAAAATT-ACCGAA
1 ATACCCCTAGG-GTAAAATTGACCGAA
* *
160969 ATACCCCTAGGGTTAAATTGACCTAA
1 ATACCCCTAGGGTAAAATTGACCGAA
160995 AT
1 AT
160997 GCATATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (26 bp):
ATACCCCTAGGGTAAAATTGACCGAA
Found at i:168325 original size:20 final size:18
Alignment explanation
Indices: 168290--168330 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
168280 CTTAAATTTT
168290 CCTTTTTCTTTTTCTTTC
1 CCTTTTTCTTTTTCTTTC
168308 CCTTTTTCCTTCTTTCTTTC
1 CCTTTTT-CTT-TTTCTTTC
168328 CCT
1 CCT
168331 GCTAGTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.33
19 3 0.14
20 11 0.52
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
CCTTTTTCTTTTTCTTTC
Found at i:168369 original size:8 final size:8
Alignment explanation
Indices: 168345--168377 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
168335 GTCTTTTTCT
168345 TTTCTTTA
1 TTTCTTTA
*
168353 TGT-TTTA
1 TTTCTTTA
168360 TTTCTTTA
1 TTTCTTTA
168368 TTTCTTTA
1 TTTCTTTA
168376 TT
1 TT
168378 CAGTCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTCTTTA
Found at i:168416 original size:18 final size:17
Alignment explanation
Indices: 168389--168425 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
168379 AGTCTTTATT
*
168389 TTATTAATATATTATAA
1 TTATTAATATAATATAA
168406 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
168424 TT
1 TT
168426 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:168890 original size:15 final size:15
Alignment explanation
Indices: 168870--168923 Score: 74
Period size: 14 Copynumber: 3.5 Consensus size: 15
168860 TTTAAAAATG
168870 TAAAAAATTAATATA
1 TAAAAAATTAATATA
*
168885 TAAAAAATTAAAATTTA
1 TAAAAAATT--AATATA
168902 TAAAAAA-TAATATA
1 TAAAAAATTAATATA
168916 TAAAAAAT
1 TAAAAAAT
168924 ATAAAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 12 0.35
15 9 0.26
16 1 0.03
17 12 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAAATTAATATA
Found at i:168896 original size:31 final size:31
Alignment explanation
Indices: 168841--168930 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 31
168831 ATTACATCTC
168841 AAAAAATT-AT-TA-AAAAAATTTTAAAAATGT
1 AAAAAATTAATATATAAAAAA--TTAAAAATGT
*
168871 AAAAAATTAATATATAAAAAATT-AAAATTT
1 AAAAAATTAATATATAAAAAATTAAAAATGT
*
168901 ATAAAAAATAATATATAAAAAATATAAAAA
1 A-AAAAATTAATATATAAAAAAT-TAAAAA
168931 AACTATAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.29
31 24 0.46
32 3 0.06
33 10 0.19
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (31 bp):
AAAAAATTAATATATAAAAAATTAAAAATGT
Found at i:172392 original size:15 final size:15
Alignment explanation
Indices: 172374--172403 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
172364 TCAAAAACTG
172374 GATTAGTAAAAATCA
1 GATTAGTAAAAATCA
*
172389 GATTAGTAGAAATCA
1 GATTAGTAAAAATCA
172404 CGTTTTGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.27
Consensus pattern (15 bp):
GATTAGTAAAAATCA
Found at i:173555 original size:29 final size:29
Alignment explanation
Indices: 173492--173555 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
173482 TGTGGTAAGC
*
173492 CGTGTGACAGACAATGCAGGTTAGATGAT
1 CGTGTGACAGACAATGCAGGTTACATGAT
* * * * *
173521 CATGTGCCAGACCATGTAGGTTACATGGT
1 CGTGTGACAGACAATGCAGGTTACATGAT
173550 CGTGTG
1 CGTGTG
173556 GGTTACACGG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (29 bp):
CGTGTGACAGACAATGCAGGTTACATGAT
Found at i:175186 original size:45 final size:45
Alignment explanation
Indices: 175135--175226 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
175125 ACTGCCAAAC
* *
175135 AAAAGAGCAATTGTTTCATATTTTGCTTTGTGAGCAATCTTCAGT
1 AAAAGAGCAATTGTTTCACATTATGCTTTGTGAGCAATCTTCAGT
*
175180 AAAAGAGCAATTGTTTTACATTATGCTTTGTGAGCAATCTTCAGT
1 AAAAGAGCAATTGTTTCACATTATGCTTTGTGAGCAATCTTCAGT
175225 AA
1 AA
175227 TCTTAAACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (45 bp):
AAAAGAGCAATTGTTTCACATTATGCTTTGTGAGCAATCTTCAGT
Found at i:176092 original size:20 final size:20
Alignment explanation
Indices: 176064--176102 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
176054 ATGGTTAGGC
176064 AGTTATTAAGTTTGTTTAGT
1 AGTTATTAAGTTTGTTTAGT
*
176084 AGTTCTTAAGTTTGTTTAG
1 AGTTATTAAGTTTGTTTAG
176103 CAAGCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.21, T:0.54
Consensus pattern (20 bp):
AGTTATTAAGTTTGTTTAGT
Found at i:177391 original size:20 final size:18
Alignment explanation
Indices: 177344--177392 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
177334 CAAGATAAAC
177344 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
177361 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
177381 ATTAAATTAATA
1 ATTAAATTAATA
177393 AAATACTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:179050 original size:16 final size:16
Alignment explanation
Indices: 179029--179059 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
179019 CTGTGCATGC
*
179029 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
179045 AAAATACAAAAGACA
1 AAAATACAAAAGACA
179060 TAATAGTGAA
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:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:185593 original size:20 final size:20
Alignment explanation
Indices: 185570--185632 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
185560 TAACCATAAT
185570 TTTTAATATTTTTTATAAAA
1 TTTTAATATTTTTTATAAAA
* * *
185590 TTTTAATTTTTTTTAT-GAT
1 TTTTAATATTTTTTATAAAA
*
185609 TTTTAATGATTTTTT-TATAA
1 TTTTAAT-ATTTTTTATAAAA
185629 TTTT
1 TTTT
185633 TTTTTAGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 9 0.26
20 26 0.74
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTAATATTTTTTATAAAA
Found at i:185611 original size:11 final size:11
Alignment explanation
Indices: 185597--185635 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
185587 AAATTTTAAT
185597 TTTTTTTATGA
1 TTTTTTTATGA
*
185608 -TTTTTAATGA
1 TTTTTTTATGA
*
185618 TTTTTTTATAA
1 TTTTTTTATGA
185629 TTTTTTT
1 TTTTTTT
185636 TTAGAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (11 bp):
TTTTTTTATGA
Found at i:186320 original size:23 final size:21
Alignment explanation
Indices: 186277--186321 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
186267 TTATTTACTT
*
186277 TATTTTTTAAAATTAATAATA
1 TATTTTTTAAAATTAAAAATA
*
186298 TATTTTTTATAATTTCAAAAATA
1 TATTTTTTA-AAATT-AAAAATA
186321 T
1 T
186322 TTGATTGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTTTTAAAATTAAAAATA
Found at i:186464 original size:24 final size:25
Alignment explanation
Indices: 186436--186526 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 25
186426 ATTTAATATT
*
186436 TTTTTATTTATGTAATTTTAATTAA
1 TTTTAATTTATGTAATTTTAATTAA
* **
186461 TTTTAATTT-TTTAATATTATTTAATATTT
1 TTTTAATTTATGT-A-A-T-TTTAAT-TAA
*
186490 TTTTCATTTATGTAATTTTAATTAA
1 TTTTAATTTATGTAATTTTAATTAA
*
186515 TTTGTATTTTAT
1 TTT-TAATTTAT
186527 AGTTTTCTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
24 2 0.04
25 13 0.27
26 13 0.27
27 2 0.04
28 7 0.14
29 10 0.20
30 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (25 bp):
TTTTAATTTATGTAATTTTAATTAA
Found at i:186500 original size:20 final size:21
Alignment explanation
Indices: 186467--186505 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
186457 TTAATTTTAA
*
186467 TTTTTTAATATTATTTAATAT
1 TTTTTTAATATTATGTAATAT
*
186488 TTTTTTCAT-TTATGTAAT
1 TTTTTTAATATTATGTAAT
186506 TTTAATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTTTTAATATTATGTAATAT
Found at i:187392 original size:7 final size:7
Alignment explanation
Indices: 187377--187408 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
187367 AGTCGTTTCA
187377 TATTTAG
1 TATTTAG
*
187384 TACTTAG
1 TATTTAG
187391 TATTTAG
1 TATTTAG
187398 TATTTAG
1 TATTTAG
187405 TATT
1 TATT
187409 ATGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (7 bp):
TATTTAG
Found at i:191752 original size:35 final size:30
Alignment explanation
Indices: 191712--191799 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 30
191702 TTTAAAAAAA
191712 CTAAACCCTAATTTAATTAATTTTAGCCCTAAACC
1 CTAAACCCTAATTTAATTAATTTTAG-----AACC
* *
191747 TTAAACCCTAATTTAATTTA-TTTAGAACC
1 CTAAACCCTAATTTAATTAATTTTAGAACC
191776 CTATAACCCTAATTTAATTAATTT
1 CTA-AACCCTAATTTAATTAATTT
191800 ATTTAAACAC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
29 6 0.13
30 16 0.34
31 2 0.04
34 5 0.11
35 18 0.38
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (30 bp):
CTAAACCCTAATTTAATTAATTTTAGAACC
Found at i:191797 original size:34 final size:34
Alignment explanation
Indices: 191759--191834 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
191749 AAACCCTAAT
191759 TTAATTTATTTAGAAC-CC-TATAACCCTAATTTAA
1 TTAATTTATTTA-AACACCATA-AACCCTAATTTAA
* *
191793 TTAATTTATTTAAACACCATAAATCCTAGTTTAA
1 TTAATTTATTTAAACACCATAAACCCTAATTTAA
*
191827 TTTATTTA
1 TTAATTTA
191835 AAACTCTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 3 0.08
34 32 0.86
35 2 0.05
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.45
Consensus pattern (34 bp):
TTAATTTATTTAAACACCATAAACCCTAATTTAA
Found at i:194971 original size:105 final size:104
Alignment explanation
Indices: 194842--195394 Score: 491
Period size: 105 Copynumber: 5.3 Consensus size: 104
194832 ATGATAAAAA
* * * *
194842 AAGGCAGTAAGCCTAATGTCGTCACATATAGTATATTGATCGATGCGCTTTGCAAGCAGGGAATG
1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAG-AGGGAATG
* * * * *
194907 ATATCCAAAGCCGAAGATATTGTTGGCATAATGACAAAGC
65 GTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC
* * * *
194947 AAGGCATTAAGCCTAATGTTGTCACATATAGCATATTGATCGATGCTCTTTGTAAGAAAGGAATG
1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAG-AGGGAATG
* * * * * *
195012 ATTTCTAAAGCCGAAAATATCGTCGGCACTATGACAAAGC
65 GTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC
* * * * *
195052 AAGGCATTAAGCTTGATGTTGTCACATATAGTATATTCATAGATACTCTTTGCAAGATGGGGGA-
1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAGA--GGGAAT
* * * * *
195116 GGTTTCTAAAGCCGAAGTTGTTGTTGACGCGATGAGAAAGC
64 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC
* * * * * * * *
195157 AAGGCATCGAA-CCTACTGTTGTCACGTATAGTACATTGATAGATTCGCTTTGCAAGAATGGTAT
1 AAGGCAT-TAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAG-AGGGAAT
* * ** *
195221 GGTTTCTGAAGCTGAATTTATTGTTGGCACGATGAGAAAGC
64 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC
** * * * * * ** *
195262 AAGGTGTTGAA-CCTAATGTTATCACGTATAATATATTGATGGATTCTCTTTGCAAGATTAGTAT
1 AAGGCATT-AAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAGA-GGGAAT
* * * *
195326 GGTTTCTGAAGCTGAAGATATTTTTGGCAGAATGAGAAAGC
64 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC
* *
195367 AAGGCATTGAGCCTGATGTTGTCACATA
1 AAGGCATTAAGCCTAATGTTGTCACATA
195395 CAACACTCTG
Statistics
Matches: 369, Mismatches: 71, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
104 6 0.02
105 357 0.97
106 6 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (104 bp):
AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATGCTCTTTGCAAGAGGGAATGG
TTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGC
Found at i:195129 original size:210 final size:210
Alignment explanation
Indices: 194842--195394 Score: 547
Period size: 210 Copynumber: 2.6 Consensus size: 210
194832 ATGATAAAAA
* * * * *
194842 AAGGCAGTAAGCCTAATGTCGTCACATATAGTATATTGATCGATGCGCTTTGCAAGCA-GGGAAT
1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATACTCTTTGCAAG-ATGGGAAT
* * * * *
194906 GATATCCAAAGCCGAAGATATTGTTGGCATAATGACAAAGCAAGGCATTAAGCCTAATGTTGTCA
65 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCA
* * * *
194971 CATATAGCATATTGATCGATGCTCTTTGTAAGAAAGGAATGATTTCTAAAGCCGAAAATATCGTC
130 CATATAGCACATTGATAGATGCGCTTTGCAAGAAAGGAATGATTTCTAAAGCCGAAAATATCGTC
*
195036 GGCACTATGACAAAGC
195 GGCACGATGACAAAGC
* * * *
195052 AAGGCATTAAGCTTGATGTTGTCACATATAGTATATTCATAGATACTCTTTGCAAGATGGGGGA-
1 AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATACTCTTTGCAAGAT-GGGAAT
* * * * * * *
195116 GGTTTCTAAAGCCGAAGTTGTTGTTGACGCGATGAGAAAGCAAGGCATCGAA-CCTACTGTTGTC
65 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGCAAGGCAT-TAAGCCTAATGTTGTC
* * * * * * * * ** *
195180 ACGTATAGTACATTGATAGATTCGCTTTGCAAGAATGGTATGGTTTCTGAAGCTGAATTTATTGT
129 ACATATAGCACATTGATAGATGCGCTTTGCAAGAAAGGAATGATTTCTAAAGCCGAAAATATCGT
* *
195245 TGGCACGATGAGAAAGC
194 CGGCACGATGACAAAGC
** * * * * * ** *
195262 AAGGTGTTGAA-CCTAATGTTATCACGTATAATATATTGATGGATTCTCTTTGCAAGATTAGTAT
1 AAGGCATT-AAGCCTAATGTTGTCACATATAGTATATTGATAGATACTCTTTGCAAGATGGGAAT
* * * * * *
195326 GGTTTCTGAAGCTGAAGATATTTTTGGCAGAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCA
65 GGTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCA
195391 CATA
130 CATA
195395 CAACACTCTG
Statistics
Matches: 271, Mismatches: 66, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
209 4 0.01
210 259 0.96
211 8 0.03
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (210 bp):
AAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATAGATACTCTTTGCAAGATGGGAATG
GTTTCTAAAGCCGAAGATATTGTTGGCACAATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCAC
ATATAGCACATTGATAGATGCGCTTTGCAAGAAAGGAATGATTTCTAAAGCCGAAAATATCGTCG
GCACGATGACAAAGC
Found at i:199850 original size:30 final size:30
Alignment explanation
Indices: 199814--199892 Score: 149
Period size: 30 Copynumber: 2.6 Consensus size: 30
199804 TTGGATCTTC
199814 CCACACGGGCTGGATACACACTCGTGTGAG
1 CCACACGGGCTGGATACACACTCGTGTGAG
199844 CCACACGGGCTGGATACACACTCGTGTGAG
1 CCACACGGGCTGGATACACACTCGTGTGAG
*
199874 CCACACGGGCTGGACACAC
1 CCACACGGGCTGGATACAC
199893 GGTCATGTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGATACACACTCGTGTGAG
Found at i:206075 original size:35 final size:34
Alignment explanation
Indices: 206029--206096 Score: 118
Period size: 35 Copynumber: 2.0 Consensus size: 34
206019 ACCCAAATTT
206029 TAAGACATTGCTTGCAAGTCAAGTTAAACAAAATC
1 TAAGACATTGCTTGCAAGTCAAGTTAAA-AAAATC
*
206064 TAAGAGATTGCTTGCAAGTCAAGTTAAAAAAAT
1 TAAGACATTGCTTGCAAGTCAAGTTAAAAAAAT
206097 ATATATTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 5 0.16
35 27 0.84
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (34 bp):
TAAGACATTGCTTGCAAGTCAAGTTAAAAAAATC
Found at i:207267 original size:18 final size:18
Alignment explanation
Indices: 207235--207279 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
207225 GTTTGGGCAA
*
207235 AAAACGA-GCCTGTTTAG
1 AAAACGAGGCCCGTTTAG
207252 AAAACGAGGCCCGTTTAG
1 AAAACGAGGCCCGTTTAG
207270 AAAAC-AGGCC
1 AAAACGAGGCC
207280 GGCTCGAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (18 bp):
AAAACGAGGCCCGTTTAG
Found at i:217460 original size:15 final size:16
Alignment explanation
Indices: 217440--217472 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
217430 ATATATATAT
217440 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
217455 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
217472 T
1 T
217473 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:217532 original size:35 final size:33
Alignment explanation
Indices: 217484--217548 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
217474 TAACCATTTT
*
217484 TTATTATATTATTAATTTGTGTA-TTGTTTTAAGAA
1 TTATTATAGTATT-ATTT-T-TATTTGTTTTAAGAA
*
217519 TTATTTTAGTATTATTTTTATTTGTTTTAA
1 TTATTATAGTATTATTTTTATTTGTTTTAA
217549 TATTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.07
33 10 0.37
34 4 0.15
35 11 0.41
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (33 bp):
TTATTATAGTATTATTTTTATTTGTTTTAAGAA
Found at i:217552 original size:21 final size:20
Alignment explanation
Indices: 217522--217569 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
217512 TTAAGAATTA
* *
217522 TTTTAGTATTATTTTTATTT
1 TTTTAATATTATTTTTATGT
*
217542 GTTTTAATATTTGTTTTTATGT
1 -TTTTAATA-TTATTTTTATGT
217564 TTTTAA
1 TTTTAA
217570 ATATATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (20 bp):
TTTTAATATTATTTTTATGT
Found at i:217642 original size:5 final size:5
Alignment explanation
Indices: 217632--217661 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
217622 AATTTAATAT
217632 GGGCC GGGCC GGGCC GGGCC GGGCTC GGGC
1 GGGCC GGGCC GGGCC GGGCC GGGC-C GGGC
217662 TTAGTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.37, G:0.60, T:0.03
Consensus pattern (5 bp):
GGGCC
Found at i:219845 original size:21 final size:21
Alignment explanation
Indices: 219804--219855 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
219794 CATTCATAAC
* *
219804 ATATTCAATTCTCATTTCTTG
1 ATATTCAAATCTCATTACTTG
*
219825 CTATTTCAAATCTCA-TACTTG
1 ATA-TTCAAATCTCATTACTTG
219846 ATATTCAAAT
1 ATATTCAAAT
219856 AGATTTTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (21 bp):
ATATTCAAATCTCATTACTTG
Found at i:220923 original size:13 final size:13
Alignment explanation
Indices: 220905--220930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
220895 CTAATTCTCC
220905 TTCTTTCTTTTCT
1 TTCTTTCTTTTCT
220918 TTCTTTCTTTTCT
1 TTCTTTCTTTTCT
220931 GTTTCGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTCTTTCTTTTCT
Found at i:227890 original size:2 final size:2
Alignment explanation
Indices: 227879--227921 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
227869 TAATATTTTG
*
227879 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
227919 AT A
1 AT A
227922 CCAAGATCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:228053 original size:2 final size:2
Alignment explanation
Indices: 228046--228092 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
228036 CACCTCAATT
228046 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
228088 TA TA T
1 TA TA T
228093 GCATTTGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:229721 original size:28 final size:27
Alignment explanation
Indices: 229658--229723 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
229648 TATAACACAA
*
229658 ATAAAGACATAATATTTAATAATAATCT
1 ATAAA-ACATAATATTTAATAATAATAT
**
229686 -T-AAA-ATAATATTTGCTATATAATAT
1 ATAAAACATAATATTTAATA-ATAATAT
229711 ATAAAACATAATA
1 ATAAAACATAATA
229724 ACAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 11 0.35
25 7 0.23
26 3 0.10
27 4 0.13
28 6 0.19
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (27 bp):
ATAAAACATAATATTTAATAATAATAT
Found at i:229848 original size:31 final size:32
Alignment explanation
Indices: 229808--229868 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
229798 ATGTAAAAGA
229808 ATTTATAAAATAACACATAATATAA-AAATATC
1 ATTTATAAAATAACACATAATA-AATAAATATC
*
229840 ATTT-TAAAATAATACATAATAAATAAATA
1 ATTTATAAAATAACACATAATAAATAAATA
229869 ATTAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (32 bp):
ATTTATAAAATAACACATAATAAATAAATATC
Found at i:230142 original size:30 final size:29
Alignment explanation
Indices: 230112--230197 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 29
230102 ATAATTAATA
230112 AATATATAATATAATAATAATATAAAAAT
1 AATATATAATATAATAATAATATAAAAAT
* * *
230141 AATGATGTAAAATAATAATAATTTGTGAAAAAT
1 AAT-ATATAATATAATAATAA--TAT-AAAAAT
230174 AATATATAATA-AATAATAATATAA
1 AATATATAATATAATAATAATATAA
230198 TAAAATCGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
28 2 0.04
29 5 0.11
30 15 0.32
31 8 0.17
32 8 0.17
33 9 0.19
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (29 bp):
AATATATAATATAATAATAATATAAAAAT
Found at i:230143 original size:14 final size:14
Alignment explanation
Indices: 230124--230197 Score: 60
Period size: 14 Copynumber: 4.9 Consensus size: 14
230114 TATATAATAT
230124 AATAATAATATAAA
1 AATAATAATATAAA
* *
230138 AATAATGATGTAAAA
1 AATAATAATAT-AAA
*
230153 TAATAATAATTTGTGAAA
1 -AATAATAA--TAT-AAA
230171 AATAAT-ATATAATA
1 AATAATAATATAA-A
230185 AATAATAATATAA
1 AATAATAATATAA
230198 TAAAATCGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.04
14 18 0.37
15 9 0.18
16 8 0.16
17 6 0.12
18 6 0.12
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (14 bp):
AATAATAATATAAA
Found at i:230200 original size:11 final size:11
Alignment explanation
Indices: 230096--230194 Score: 57
Period size: 11 Copynumber: 9.0 Consensus size: 11
230086 TAAGAACAAT
230096 ATATAAATAATTA
1 ATAT-AATAA-TA
230109 ATA-AATATATA
1 ATATAATA-ATA
230120 ATATAATAATA
1 ATATAATAATA
*
230131 ATATAAAAATA
1 ATATAATAATA
*
230142 ATGAT-GTAA-A
1 AT-ATAATAATA
230152 ATAATAATAAT-
1 AT-ATAATAATA
* * *
230163 TTGTGAAAAATA
1 ATAT-AATAATA
230175 ATAT-ATAATA
1 ATATAATAATA
230185 A-ATAATAATA
1 ATATAATAATA
230195 TAATAAAATC
Statistics
Matches: 67, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
9 2 0.03
10 18 0.27
11 35 0.52
12 9 0.13
13 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (11 bp):
ATATAATAATA
Found at i:232191 original size:198 final size:200
Alignment explanation
Indices: 231852--232331 Score: 732
Period size: 198 Copynumber: 2.4 Consensus size: 200
231842 TCGTTCTCTG
* ** * * *
231852 ACAATACAGAGATGACTCATCATCTTAGATTTGCTTCATCATAAGCACATGAAAGCCAAATCGGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
*
231917 TATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATA
66 TATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATA
*
231982 AACATCTGAAGTTT-GAATCTGCTATGTGTCTGCCCTCCATCGAAGTGGAGATGCCAGACTTCGA
131 AACATCTGAAGTTTAG-ATCTGCTATGTGTCTGCCCTCCATCGAAGTGGAGATGCCAGACTTCAA
232046 TTTG-C
195 TTTGTC
*
232051 -CAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
* * * *
232115 TATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATA
66 TATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATA
*
232180 AACATCTGAAGTTTAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCAGACTTCAAT
131 AACATCTGAAGTTTAGATCTGCTATGTGTCTGCCCTCCATCGAAGTGGAGATGCCAGACTTCAAT
232245 TTGTTCTC
196 TTG---TC
* * *
232253 TGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCATGTGAAAGCCAAATCA
1 --ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
232318 GCTATGTCTTCGAT
64 GCTATGTCTTCGAT
232332 CTGCTCTCCA
Statistics
Matches: 254, Mismatches: 19, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
198 181 0.71
199 1 0.00
202 1 0.00
205 71 0.28
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (200 bp):
ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
TATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATA
AACATCTGAAGTTTAGATCTGCTATGTGTCTGCCCTCCATCGAAGTGGAGATGCCAGACTTCAAT
TTGTC
Found at i:232375 original size:44 final size:44
Alignment explanation
Indices: 232309--232416 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 44
232299 GCATGTGAAA
*
232309 GCCAAATCAGCTATGTCTTCGATCTGCTCTC-CACTAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCTCAC-AATACAGAGAT
* * * * *
232355 GCCAAATCTGGTATCTTCGATCTGTTTTCTGACAGTACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTCACAATACAGAGAT
232399 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
232417 AACTTGTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 41 0.76
45 2 0.04
46 11 0.20
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTCACAATACAGAGAT
Found at i:232444 original size:44 final size:43
Alignment explanation
Indices: 232396--232803 Score: 240
Period size: 44 Copynumber: 9.3 Consensus size: 43
232386 ACAGTACAGA
* *
232396 GATGCCAAATCTGCTATCTTCAACTTGTTTCCTATAAACACAAG
1 GATGCCAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAAG
** * * * * *
232440 GATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCAC-AT
1 GATGCCAAAT-CTGCTATCTTCGAT-TG-TTCCCTATAAACACAAG
* * * *
232483 GAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGG
1 GA-TGCCAAATCTGCTATCTTCGAT-TGTTCCCTATAAACACAAG
* *
232528 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAAG
** * * * *
232572 GATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCAC-AG
1 GATGCCAAAT-CTGCTATCTTCGAT-TG-TTCCCTATAAACACAAG
* * *
232615 GAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
1 GA-TGCCAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAAG
**
232660 GATGCCAAATCTGCTATCTTTAACTTGTTCCCTATAAACACAAG
1 GATGCCAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAAG
*** * ** * * *
232704 GATGCC--ATGCTAAAATCTTCGATCTACTTTGCTGTAAGCA-TAG
1 GATGCCAAAT-CTGCTATCTTCGAT-T-GTTCCCTATAAACACAAG
* * * *
232747 GAGTGTCAGATCTGCTATCCTCGATTTGTTCCCTATAAACACAGG
1 GA-TGCCAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAAG
232792 GATGCCAAATCT
1 GATGCCAAATCT
232804 TGTTTCTTTG
Statistics
Matches: 271, Mismatches: 69, Indels: 48
0.70 0.18 0.12
Matches are distributed among these distances:
42 9 0.03
43 41 0.15
44 168 0.62
45 45 0.17
46 8 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
GATGCCAAATCTGCTATCTTCGATTGTTCCCTATAAACACAAG
Found at i:232812 original size:132 final size:132
Alignment explanation
Indices: 232391--232803 Score: 709
Period size: 132 Copynumber: 3.1 Consensus size: 132
232381 TTCTGACAGT
* *
232391 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTTCCTATAAACACAAGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAAT
* * *
232456 CCTCGATCTGCTTCGCTGTAAGCACATGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAA
232521 AC
131 AC
*
232523 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAAT
232588 CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAA
232653 AC
131 AC
* *
232655 ACAGGGATGCCAAATCTGCTATCTTTAACTTGTTCCCTATAAACACAAGGATGCCATGCTAAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAAT
* * * * *
232720 CTTCGATCTACTTTGCTGTAAGCATAGGAGTGTCAGATCTGCTATCCTCGATTTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAA
232785 AC
131 AC
232787 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
232804 TGTTTCTTTG
Statistics
Matches: 267, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 267 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAAT
CCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAA
AC
Found at i:236826 original size:40 final size:40
Alignment explanation
Indices: 236767--236908 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
236757 AAATTGAATG
* * *
236767 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
236807 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
236847 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
236887 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
236909 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:236909 original size:40 final size:39
Alignment explanation
Indices: 236806--236934 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
236796 TGCTGGAAAT
* * *
236806 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
236846 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
236886 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
236926 TATATCCGG
1 TATATCCGG
236935 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:247489 original size:33 final size:33
Alignment explanation
Indices: 247450--247525 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
247440 ACAAACATAC
*
247450 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
247483 AAAGTAATAATTAAATAATGCATGACATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
247516 AAGAGTAATA
1 AA-AGTAATA
247526 CAATATCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 34 0.83
34 7 0.17
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.25
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGACATACAAA
Found at i:247723 original size:28 final size:27
Alignment explanation
Indices: 247660--247725 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
247650 TACAACACAA
*
247660 ATAAAGACATAATATTTAATAATAATCT
1 ATAAA-ACATAATATTTAATAATAATAT
**
247688 -T-AAA-ATAATATTTGCTATATAATAT
1 ATAAAACATAATATTTAATA-ATAATAT
247713 ATAAAACATAATA
1 ATAAAACATAATA
247726 ACAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 11 0.35
25 7 0.23
26 3 0.10
27 4 0.13
28 6 0.19
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (27 bp):
ATAAAACATAATATTTAATAATAATAT
Found at i:248136 original size:11 final size:11
Alignment explanation
Indices: 248098--248205 Score: 59
Period size: 11 Copynumber: 9.8 Consensus size: 11
248088 TAAGAACAAT
248098 ATATAAATAATTA
1 ATAT-AATAA-TA
248111 ATA-AATATATA
1 ATATAATA-ATA
248122 ATATAATAATA
1 ATATAATAATA
*
248133 ATATAAAAATA
1 ATATAATAATA
*
248144 ATGAT-GTAA-A
1 AT-ATAATAATA
248154 ATAATAATAATA
1 AT-ATAATAATA
**
248166 AT-TTGTGAA-A
1 ATATAAT-AATA
248176 A-ATAATATATA
1 ATATAATA-ATA
*
248187 ATA-AATAGTA
1 ATATAATAATA
248197 ATATAATAA
1 ATATAATAA
248206 AATCGTATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
9 1 0.01
10 17 0.23
11 41 0.56
12 11 0.15
13 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (11 bp):
ATATAATAATA
Found at i:248144 original size:30 final size:30
Alignment explanation
Indices: 248110--248202 Score: 82
Period size: 33 Copynumber: 3.0 Consensus size: 30
248100 ATAAATAATT
248110 AATAAATATATAATATAATAATAATATAAA
1 AATAAATATATAATATAATAATAATATAAA
* * *
248140 AATAATGATGTAAAATAATAATAATAATTTGTGAAA
1 AATAA--ATATATAAT-ATAATAATAA--TAT-AAA
*
248176 AAT-AATATATAATA-AATAGTAATATAA
1 AATAAATATATAATATAATAATAATATAA
248203 TAAAATCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 5 0.10
31 7 0.14
32 8 0.16
33 17 0.34
35 3 0.06
36 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (30 bp):
AATAAATATATAATATAATAATAATATAAA
Found at i:248145 original size:14 final size:13
Alignment explanation
Indices: 248095--248162 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
248085 ATGTAAGAAC
248095 AATATATAAATAAT
1 AATATA-AAATAAT
*
248109 TA-AT-AAATATAT
1 AATATAAAATA-AT
248121 AATAT--AATAAT
1 AATATAAAATAAT
248132 AATATAAAAATAAT
1 AATAT-AAAATAAT
* *
248146 GATGTAAAATAAT
1 AATATAAAATAAT
248159 AATA
1 AATA
248163 ATAATTTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
11 12 0.28
12 7 0.16
13 14 0.33
14 10 0.23
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AATATAAAATAAT
Found at i:250996 original size:64 final size:64
Alignment explanation
Indices: 250892--251098 Score: 177
Period size: 67 Copynumber: 3.2 Consensus size: 64
250882 CATCATGTGT
* *
250892 ACAAGAGAGCTACAAGACATTATATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGT
1 ACAAGAGAGCTAC--GAGA-TATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
250957 AG
63 AG
* * * * * * *
250959 ACAAGAGAGCTACGGGCTATATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATG
251023 TAG
62 TAG
* * * * * * *
251026 ATAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
251088 TACAAGAGAGC
1 -ACAAGAGAGC
251099 CGAACTCTAT
Statistics
Matches: 111, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 25 0.23
65 5 0.05
66 19 0.17
67 43 0.39
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:255737 original size:63 final size:63
Alignment explanation
Indices: 255614--255840 Score: 228
Period size: 63 Copynumber: 3.6 Consensus size: 63
255604 ATATCCTGCC
* * * *
255614 ACACGGCCTGGCCACACAACC-GTGTGCCTTGGCCGTGTGGTTTTTA-AGCAC-AAACAGTGAGT
1 ACACGGCCTGGGCACAC-GCCTGTGT-CCCTGGCCGTGTGGTTTTTATA-CCCTAAACAGTGAGT
255676 T
63 T
* * * *
255677 ACGCGGCCTGGGCACACGCCTGTGTCCTTGACCGTGTGGTTTTTATACCCTAAATAGTGAGTT
1 ACACGGCCTGGGCACACGCCTGTGTCCCTGGCCGTGTGGTTTTTATACCCTAAACAGTGAGTT
* * ** * ** * *
255740 ACATGGCTTACGTACAC-ATTCGTGTCCCTGGTCATGTGGTTTTTATACCCTAAACAGTGAGTT
1 ACACGGCCTGGGCACACGCCT-GTGTCCCTGGCCGTGTGGTTTTTATACCCTAAACAGTGAGTT
*
255803 ACACGGCCTGGGCACACGCCCGTGTCCCTGGCCGTGTG
1 ACACGGCCTGGGCACACGCCTGTGTCCCTGGCCGTGTG
255841 AACCCTGCAT
Statistics
Matches: 130, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
62 24 0.18
63 106 0.82
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.27
Consensus pattern (63 bp):
ACACGGCCTGGGCACACGCCTGTGTCCCTGGCCGTGTGGTTTTTATACCCTAAACAGTGAGTT
Found at i:259427 original size:25 final size:25
Alignment explanation
Indices: 259382--259430 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
259372 CGAAACGGCA
* *
259382 AAGGAAAAGAATGAAGAAAGAAAGG
1 AAGGAAAAAAATAAAGAAAGAAAGG
259407 AAGGAAAAAAATAAA-AGAAGAAAG
1 AAGGAAAAAAATAAAGA-AAGAAAG
259431 AAAAACTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (25 bp):
AAGGAAAAAAATAAAGAAAGAAAGG
Found at i:264463 original size:13 final size:13
Alignment explanation
Indices: 264445--264469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
264435 ACTACTAGCT
264445 TAATAAATATTTC
1 TAATAAATATTTC
264458 TAATAAATATTT
1 TAATAAATATTT
264470 ACGAATTCAT
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATAAATATTTC
Done.